1
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Jung M, Boucher TM, Wood SA, Folberth C, Wironen M, Thornton P, Bossio D, Obersteiner M. A global clustering of terrestrial food production systems. PLoS One 2024; 19:e0296846. [PMID: 38354163 PMCID: PMC10866528 DOI: 10.1371/journal.pone.0296846] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2023] [Accepted: 12/23/2023] [Indexed: 02/16/2024] Open
Abstract
Food production is at the heart of global sustainability challenges, with unsustainable practices being a major driver of biodiversity loss, emissions and land degradation. The concept of foodscapes, defined as the characteristics of food production along biophysical and socio-economic gradients, could be a way addressing those challenges. By identifying homologues foodscapes classes possible interventions and leverage points for more sustainable agriculture could be identified. Here we provide a globally consistent approximation of the world's foodscape classes. We integrate global data on biophysical and socio-economic factors to identify a minimum set of emergent clusters and evaluate their characteristics, vulnerabilities and risks with regards to global change factors. Overall, we find food production globally to be highly concentrated in a few areas. Worryingly, we find particularly intensively cultivated or irrigated foodscape classes to be under considerable climatic and degradation risks. Our work can serve as baseline for global-scale zoning and gap analyses, while also revealing homologous areas for possible agricultural interventions.
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Affiliation(s)
- Martin Jung
- International Institute for Applied Systems Analysis (IIASA), Laxenburg, Austria
| | | | - Stephen A. Wood
- The Nature Conservancy, Arlington, Virginia, United States of America
- Yale School of the Environment, New Haven, United States of America
| | - Christian Folberth
- International Institute for Applied Systems Analysis (IIASA), Laxenburg, Austria
| | - Michael Wironen
- The Nature Conservancy, Arlington, Virginia, United States of America
| | - Philip Thornton
- Clim-Eat, c/o Netherlands Food Partnership, Utrecht, The Netherlands
| | - Deborah Bossio
- The Nature Conservancy, Arlington, Virginia, United States of America
| | - Michael Obersteiner
- International Institute for Applied Systems Analysis (IIASA), Laxenburg, Austria
- Environmental Change Institute, University of Oxford, Oxford, United Kingdom
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2
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Hosen MHA, Sykes AM, Wood SA, Leusch FDL, Whitworth DJ, Bengtson Nash SM. Novel Use of Cell Profiling Technology to Visualize Mitochondrial Responses of Humpback Whale Fibroblasts to Chemical Exposure. Environ Sci Technol 2023. [PMID: 37272882 DOI: 10.1021/acs.est.2c07159] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Cetaceans are at elevated risk of accumulating persistent and lipophilic environmental contaminants due to their longevity and high proportion of body fat. Despite this, there is a paucity of taxa-specific chemical effect data, in part due to the ethical and logistical constraints in working with highly mobile aquatic species. Advances in cetacean cell culture have opened the door to the application of mainstream in vitro toxicological effect assessment approaches. Image-based cell profiling is a high-throughput, microscopy-based system commonly applied in drug development. It permits the analysis of the xenobiotic effect on multiple cell organelles simultaneously, hereby flagging its potential utility in the evaluation of chemical toxicodynamics. Here we exposed immortalized humpback whale skin fibroblasts (HuWaTERT) to six priority environmental contaminants known to accumulate in the Southern Ocean food web, in order to explore their subcellular organelle responses. Results revealed chemical-dependent modulation of mitochondrial texture, with the lowest observed effect concentrations for chlorpyrifos, dieldrin, trifluralin, and p,p'-dichlorodiphenyldichloroethane of 0.3, 4.1, 9.3, and 19.8 nM, respectively. By contrast, no significant changes were observed upon exposure to endosulfan and lindane. This study contributes the first fixed mitochondrial images of HuWaTERT and constitutes novel, taxa-specific chemical effect data in support of evidence-based conservation policy and management.
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Affiliation(s)
- Md Hafiz All Hosen
- Southern Ocean Persistent Organic Pollutant Program, Centre for Planetary Health and Food Security, Griffith School of Environment, Griffith University, 170 Kessels Road, Nathan, QLD 4111, Australia
| | - Alex M Sykes
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Frederic D L Leusch
- Australian Rivers Institute, School of Environment and Science, Griffith University, Gold Coast, QLD 4222, Australia
| | - Deanne J Whitworth
- The School of Veterinary Science, The University of Queensland, Gatton, QLD 4343, Australia
| | - Susan M Bengtson Nash
- Southern Ocean Persistent Organic Pollutant Program, Centre for Planetary Health and Food Security, Griffith School of Environment, Griffith University, 170 Kessels Road, Nathan, QLD 4111, Australia
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Miao WG, Nguyen T, Iqbal J, Pierens GK, Ma L, Richardson DR, Wood SA, Mellick GD, Quinn RJ, Feng Y. Meeting the Challenge 2: Identification of Potential Chemical Probes for Parkinson's Disease from Ligusticum chuanxiong Hort Using Cytological Profiling. ACS Chem Neurosci 2022; 13:2565-2578. [PMID: 36018577 DOI: 10.1021/acschemneuro.1c00820] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023] Open
Abstract
Traditional Chinese medicine (TCM) has been around for thousands of years and is increasingly gaining popularity in the Western world to treat various complex disorders including the incurable neurodegenerative condition, Parkinson's Disease (PD). One of the many directions in recent studies of PD is utilizing the phenotypic assay, or cytological profiling, to evaluate the phenotypic changes of PD-implicated cellular components in patient-derived olfactory neuroepithelial (hONS) cells, upon treating the cells with extracts or pure compounds. To obtain small molecules for studies utilizing PD phenotyping assays, Ligusticum chuanxiong Hort was selected for analysis as it is a popular Chinese herbal medicine used for treating PD-like symptoms. Fifty-three secondary metabolites, including six new compounds, were isolated from the ethanolic extract of L. chuanxiong; their structures were elucidated based on several spectroscopic techniques such as NMR, MS, Fourier transform infrared (FTIR), UV, and theoretical density functional theory (DFT) calculations. Cytological profiling of the afforded natural products against PD hONS cells revealed 34 compounds strongly perturbated the staining of several cellular organelles. In fact, greaterthan 1.5-fold change was observed compared to the control (dimethyl sulfoxide; DMSO), with early endosome, lysosome, and autophagosome (LC3b) being particularly affected. Given these biological compartments are closely related to PD pathogenesis, the results helped rationalize the traditional medicinal use of L. chuanxiong in PD treatment. Further, the hit compounds can serve as chemical probes to map the molecular pathways underlying PD, potentially leading to new therapeutic targets for PD.
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Affiliation(s)
- William Gang Miao
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia
| | - Thanh Nguyen
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia
| | - Jamila Iqbal
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia
| | - Gregory K Pierens
- Centre for Advanced Imaging, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Linlin Ma
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia
| | - Des R Richardson
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia
| | - George D Mellick
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia.,School of Environment and Science, Griffith University, Nathan, QLD 4111, Australia
| | - Ronald J Quinn
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia
| | - Yunjiang Feng
- Griffith Institute for Drug Discovery, Griffith University, 46 Don Young Road, Nathan, QLD 4111, Australia
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Wood SA, Hains PG, Muller A, Hill M, Premarathne S, Murtaza M, Robinson PJ, Mellick GD, Sykes AM. Proteomic profiling of idiopathic Parkinson's disease primary patient cells by SWATH-MS. Proteomics Clin Appl 2022; 16:e2200015. [PMID: 35579911 PMCID: PMC9787017 DOI: 10.1002/prca.202200015] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Revised: 04/12/2022] [Accepted: 05/13/2022] [Indexed: 12/30/2022]
Abstract
PURPOSE Parkinson's disease (PD) is the second most prevalent neurodegenerative disease. It is generally diagnosed clinically after the irreversible loss of dopaminergic neurons and no general biomarkers currently exist. To gain insight into the underlying cellular causes of PD we aimed to quantify the proteomic differences between healthy control and PD patient cells. EXPERIMENTAL DESIGN Sequential Window Acquisition of all THeoretical Mass Spectra was performed on primary cells from healthy controls and PD patients. RESULTS In total, 1948 proteins were quantified and 228 proteins were significantly differentially expressed in PD patient cells. In PD patient cells, we identified seven significantly increased proteins involved in the unfolded protein response (UPR) and focused on cells with high and low amounts of PDIA6 and HYOU1. We discovered that PD patients with high amounts of PDIA6 and HYOU1 proteins were more sensitive to endoplasmic reticulum stress, in particular to tunicamycin. Data is available via ProteomeXchange with identifier PXD030723. CONCLUSIONS AND CLINICAL RELEVANCE This data from primary patient cells has uncovered a critical role of the UPR in patients with PD and may provide insight to the underlying cellular dysfunctions in these patients.
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Affiliation(s)
- Stephen A. Wood
- Griffith Institute for Drug DiscoveryGriffith UniversityNathanQueenslandAustralia
| | - Peter G. Hains
- Cell Signalling UnitChildren's Medical Research InstituteThe University of SydneyWestmeadNSWAustralia
| | | | - Melissa Hill
- Griffith Institute for Drug DiscoveryGriffith UniversityNathanQueenslandAustralia
| | - Susitha Premarathne
- Griffith Institute for Drug DiscoveryGriffith UniversityNathanQueenslandAustralia
| | - Mariyam Murtaza
- Griffith Institute for Drug DiscoveryGriffith UniversityNathanQueenslandAustralia
| | - Phillip J. Robinson
- Cell Signalling UnitChildren's Medical Research InstituteThe University of SydneyWestmeadNSWAustralia
| | - George D. Mellick
- Griffith Institute for Drug DiscoveryGriffith UniversityNathanQueenslandAustralia
| | - Alex M. Sykes
- Griffith Institute for Drug DiscoveryGriffith UniversityNathanQueenslandAustralia
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Hill MA, Bentley SR, Walker TL, Mellick GD, Wood SA, Sykes AM. Does a rare mutation in PTPRA contribute to the development of Parkinson’s disease in an Australian multi-incident family? PLoS One 2022; 17:e0271499. [PMID: 35900966 PMCID: PMC9333306 DOI: 10.1371/journal.pone.0271499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Accepted: 07/04/2022] [Indexed: 11/23/2022] Open
Abstract
The genetic study of multi-incident families is a powerful tool to investigate genetic contributions to the development of Parkinson’s disease. In this study, we identified the rare PTPRA p.R223W variant as one of three putative genetic factors potentially contributing to disease in an Australian family with incomplete penetrance. Whole exome sequencing identified these mutations in three affected cousins. The rare PTPRA missense variant was predicted to be damaging and was absent from 3,842 alleles from PD cases. Overexpression of the wild-type RPTPα and R223W mutant in HEK293T cells identified that the R223W mutation did not impair RPTPα expression levels or alter its trafficking to the plasma membrane. The R223W mutation did alter proteolytic processing of RPTPα, resulting in the accumulation of a cleavage product. The mutation also resulted in decreased activation of Src family kinases. The functional consequences of this variant, either alone or in concert with the other identified genetic variants, highlights that even minor changes in normal cellular function may increase the risk of developing PD.
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Affiliation(s)
- Melissa A. Hill
- Griffith Institute for Drug Discovery, Griffith University, Nathan, Australia
| | - Steven R. Bentley
- Griffith Institute for Drug Discovery, Griffith University, Nathan, Australia
| | - Tara L. Walker
- Queensland Brain Institute, University of Queensland, St Lucia, Australia
| | - George D. Mellick
- Griffith Institute for Drug Discovery, Griffith University, Nathan, Australia
| | - Stephen A. Wood
- Griffith Institute for Drug Discovery, Griffith University, Nathan, Australia
| | - Alex M. Sykes
- Griffith Institute for Drug Discovery, Griffith University, Nathan, Australia
- * E-mail:
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Androić D, Armstrong DS, Bartlett K, Beminiwattha RS, Benesch J, Benmokhtar F, Birchall J, Carlini RD, Cornejo JC, Covrig Dusa S, Dalton MM, Davis CA, Deconinck W, Dowd JF, Dunne JA, Dutta D, Duvall WS, Elaasar M, Falk WR, Finn JM, Forest T, Gal C, Gaskell D, Gericke MTW, Gray VM, Grimm K, Guo F, Hoskins JR, Jones DC, Jones MK, Kargiantoulakis M, King PM, Korkmaz E, Kowalski S, Leacock J, Leckey J, Lee AR, Lee JH, Lee L, MacEwan S, Mack D, Magee JA, Mahurin R, Mammei J, Martin JW, McHugh MJ, Meekins D, Mesick KE, Michaels R, Micherdzinska A, Mkrtchyan A, Mkrtchyan H, Narayan A, Ndukum LZ, Nelyubin V, van Oers WTH, Owen VF, Page SA, Pan J, Paschke KD, Phillips SK, Pitt ML, Radloff RW, Rajotte JF, Ramsay WD, Roche J, Sawatzky B, Seva T, Shabestari MH, Silwal R, Simicevic N, Smith GR, Solvignon P, Spayde DT, Subedi A, Suleiman R, Tadevosyan V, Tobias WA, Tvaskis V, Waidyawansa B, Wang P, Wells SP, Wood SA, Yang S, Zang P, Zhamkochyan S, Christy ME, Horowitz CJ, Fattoyev FJ, Lin Z. Determination of the ^{27}Al Neutron Distribution Radius from a Parity-Violating Electron Scattering Measurement. Phys Rev Lett 2022; 128:132501. [PMID: 35426696 DOI: 10.1103/physrevlett.128.132501] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2021] [Accepted: 03/02/2022] [Indexed: 06/14/2023]
Abstract
We report the first measurement of the parity-violating elastic electron scattering asymmetry on ^{27}Al. The ^{27}Al elastic asymmetry is A_{PV}=2.16±0.11(stat)±0.16(syst) ppm, and was measured at ⟨Q^{2}⟩=0.02357±0.00010 GeV^{2}, ⟨θ_{lab}⟩=7.61°±0.02°, and ⟨E_{lab}⟩=1.157 GeV with the Q_{weak} apparatus at Jefferson Lab. Predictions using a simple Born approximation as well as more sophisticated distorted-wave calculations are in good agreement with this result. From this asymmetry the ^{27}Al neutron radius R_{n}=2.89±0.12 fm was determined using a many-models correlation technique. The corresponding neutron skin thickness R_{n}-R_{p}=-0.04±0.12 fm is small, as expected for a light nucleus with a neutron excess of only 1. This result thus serves as a successful benchmark for electroweak determinations of neutron radii on heavier nuclei. A tree-level approach was used to extract the ^{27}Al weak radius R_{w}=3.00±0.15 fm, and the weak skin thickness R_{wk}-R_{ch}=-0.04±0.15 fm. The weak form factor at this Q^{2} is F_{wk}=0.39±0.04.
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Affiliation(s)
- D Androić
- University of Zagreb, Zagreb, HR 10002, Croatia
| | | | - K Bartlett
- William & Mary, Williamsburg, Virginia 23185, USA
| | | | - J Benesch
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - F Benmokhtar
- Christopher Newport University, Newport News, Virginia 23606, USA
| | - J Birchall
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - R D Carlini
- William & Mary, Williamsburg, Virginia 23185, USA
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - J C Cornejo
- William & Mary, Williamsburg, Virginia 23185, USA
| | - S Covrig Dusa
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M M Dalton
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - C A Davis
- TRIUMF, Vancouver, British Columbia V6T2A3, Canada
| | - W Deconinck
- William & Mary, Williamsburg, Virginia 23185, USA
| | - J F Dowd
- William & Mary, Williamsburg, Virginia 23185, USA
| | - J A Dunne
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - D Dutta
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - W S Duvall
- Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
| | - M Elaasar
- Southern University at New Orleans, New Orleans, Louisiana 70126, USA
| | - W R Falk
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - J M Finn
- William & Mary, Williamsburg, Virginia 23185, USA
| | - T Forest
- Idaho State University, Pocatello, Idaho 83209, USA
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - C Gal
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - D Gaskell
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M T W Gericke
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - V M Gray
- William & Mary, Williamsburg, Virginia 23185, USA
| | - K Grimm
- William & Mary, Williamsburg, Virginia 23185, USA
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - F Guo
- Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - J R Hoskins
- William & Mary, Williamsburg, Virginia 23185, USA
| | - D C Jones
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - M K Jones
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | | | - P M King
- Ohio University, Athens, Ohio 45701, USA
| | - E Korkmaz
- University of Northern British Columbia, Prince George, British Columbia V2N4Z9, Canada
| | - S Kowalski
- Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - J Leacock
- Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
| | - J Leckey
- William & Mary, Williamsburg, Virginia 23185, USA
| | - A R Lee
- Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
| | - J H Lee
- William & Mary, Williamsburg, Virginia 23185, USA
- Ohio University, Athens, Ohio 45701, USA
| | - L Lee
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- TRIUMF, Vancouver, British Columbia V6T2A3, Canada
| | - S MacEwan
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - D Mack
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - J A Magee
- William & Mary, Williamsburg, Virginia 23185, USA
| | - R Mahurin
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - J Mammei
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
| | - J W Martin
- University of Winnipeg, Winnipeg, Manitoba R3B2E9, Canada
| | - M J McHugh
- George Washington University, Washington, DC 20052, USA
| | - D Meekins
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - K E Mesick
- George Washington University, Washington, DC 20052, USA
- Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, USA
| | - R Michaels
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | | | - A Mkrtchyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - H Mkrtchyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - A Narayan
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - L Z Ndukum
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - V Nelyubin
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - W T H van Oers
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- TRIUMF, Vancouver, British Columbia V6T2A3, Canada
| | - V F Owen
- William & Mary, Williamsburg, Virginia 23185, USA
| | - S A Page
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - J Pan
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - K D Paschke
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - S K Phillips
- University of New Hampshire, Durham, New Hampshire 03824, USA
| | - M L Pitt
- Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
| | | | - J F Rajotte
- Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - W D Ramsay
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- TRIUMF, Vancouver, British Columbia V6T2A3, Canada
| | - J Roche
- Ohio University, Athens, Ohio 45701, USA
| | - B Sawatzky
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - T Seva
- University of Zagreb, Zagreb, HR 10002, Croatia
| | - M H Shabestari
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - R Silwal
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - N Simicevic
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - G R Smith
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - P Solvignon
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - D T Spayde
- Hendrix College, Conway, Arkansas 72032, USA
| | - A Subedi
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - R Suleiman
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - V Tadevosyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - W A Tobias
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - V Tvaskis
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- University of Winnipeg, Winnipeg, Manitoba R3B2E9, Canada
| | | | - P Wang
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - S P Wells
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - S A Wood
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - S Yang
- William & Mary, Williamsburg, Virginia 23185, USA
| | - P Zang
- Syracuse University, Syracuse, New York 13244, USA
| | - S Zhamkochyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - M E Christy
- Hampton University, Hampton, Virginia 23668, USA
| | - C J Horowitz
- Indiana University, Bloomington, Indiana 47405, USA
| | - F J Fattoyev
- Indiana University, Bloomington, Indiana 47405, USA
| | - Z Lin
- Indiana University, Bloomington, Indiana 47405, USA
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Durán-Vinet B, Araya-Castro K, Chao TC, Wood SA, Gallardo V, Godoy K, Abanto M. Potential applications of CRISPR/Cas for next-generation biomonitoring of harmful algae blooms: A review. Harmful Algae 2021; 103:102027. [PMID: 33980455 DOI: 10.1016/j.hal.2021.102027] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2020] [Revised: 03/01/2021] [Accepted: 03/21/2021] [Indexed: 06/12/2023]
Abstract
Research on harmful algal and cyanobacterial blooms (HABs and CHABs) has risen dramatically due to their increasing global distribution, frequency, and intensity. These blooms jeopardize public health, ecosystem function, sustainability and can have negative economic impacts. Numerous monitoring programs have been established using light microscopy, liquid chromatography coupled to mass spectrometry (LC-MS), ELISA, and spectrophotometry to monitor HABs/CHABs outbreaks. Recently, DNA/RNA-based molecular methods have been integrated into these programs to replace or complement traditional methods through analyzing environmental DNA and RNA (eDNA/eRNA) with techniques such as quantitative polymerase chain reaction (qPCR), fluorescent in situ hybridization (FISH), sandwich hybridization assay (SHA), isothermal amplification methods, and microarrays. These have enabled the detection of rare or cryptic species, enhanced sample throughput, and reduced costs and the need for visual taxonomic expertise. However, these methods have limitations, such as the need for high capital investment in equipment or detection uncertainties, including determining whether organisms are viable. In this review, we discuss the potential of newly developed molecular diagnosis technology based on Clustered Regularly Interspaced Short Palindromic Repeats/Cas proteins (CRISPR/Cas), which utilizes the prokaryotic adaptative immune systems of bacteria and archaea. Cas12 and Cas13-based platforms can detect both DNA and RNA with attomolar sensitivity within an hour. CRISPR/Cas diagnostic is a rapid, inexpensive, specific, and ultrasensitive technology that, with some further development, will provide many new platforms that can be used for HABs/CHABs biomonitoring and research.
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Affiliation(s)
- B Durán-Vinet
- Scientific and Technological Bioresource Nucleus (BIOREN-UFRO), Genomics and Bioinformatics Unit, Universidad de La Frontera, Av. Francisco Salazar, 1145 Temuco, Chile; Bachelor of Biotechnology (Honours) Program, Faculty of Agricultural and Forestry Sciences, Universidad de La Frontera, Av. Francisco Salazar, 1145 Temuco, Chile.
| | - K Araya-Castro
- Doctoral Program in Science of Natural Resources, Universidad de La Frontera, Av. Francisco Salazar, 1145 Temuco, Chile
| | - T C Chao
- Institute of Environmental Change & Society, Department of Biology, University of Regina, Wascana Parkway, 3737 Regina, Canada
| | - S A Wood
- Coastal and Freshwater Group, Cawthron Institute, 98 Halifax Street East, Nelson 7010, New Zealand
| | - V Gallardo
- Scientific and Technological Bioresource Nucleus (BIOREN-UFRO), Genomics and Bioinformatics Unit, Universidad de La Frontera, Av. Francisco Salazar, 1145 Temuco, Chile; Bachelor of Biotechnology (Honours) Program, Faculty of Agricultural and Forestry Sciences, Universidad de La Frontera, Av. Francisco Salazar, 1145 Temuco, Chile
| | - K Godoy
- Scientific and Technological Bioresource Nucleus (BIOREN-UFRO), Microscopy and Flow Cytometry Unit, Universidad de La Frontera, Av. Francisco Salazar, 1145 Temuco, Chile
| | - M Abanto
- Scientific and Technological Bioresource Nucleus (BIOREN-UFRO), Genomics and Bioinformatics Unit, Universidad de La Frontera, Av. Francisco Salazar, 1145 Temuco, Chile
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8
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Bhetuwal D, Matter J, Szumila-Vance H, Kabir ML, Dutta D, Ent R, Abrams D, Ahmed Z, Aljawrneh B, Alsalmi S, Ambrose R, Androic D, Armstrong W, Asaturyan A, Assumin-Gyimah K, Ayerbe Gayoso C, Bandari A, Basnet S, Berdnikov V, Bhatt H, Biswas D, Boeglin WU, Bosted P, Brash E, Bukhari MHS, Chen H, Chen JP, Chen M, Christy EM, Covrig S, Craycraft K, Danagoulian S, Day D, Diefenthaler M, Dlamini M, Dunne J, Duran B, Evans R, Fenker H, Fomin N, Fuchey E, Gaskell D, Gautam TN, Gonzalez FA, Hansen JO, Hauenstein F, Hernandez AV, Horn T, Huber GM, Jones MK, Joosten S, Karki A, Keppel C, Khanal A, King PM, Kinney E, Ko HS, Kohl M, Lashley-Colthirst N, Li S, Li WB, Liyanage AH, Mack D, Malace S, Markowitz P, Meekins D, Michaels R, Mkrtchyan A, Mkrtchyan H, Nazeer SJ, Nanda S, Niculescu G, Niculescu I, Nguyen D, Pandey B, Park S, Pooser E, Puckett A, Rehfuss M, Reinhold J, Santiesteban N, Sawatzky B, Smith GR, Sun A, Tadevosyan V, Trotta R, Wood SA, Yero C, Zhang J. Ruling out Color Transparency in Quasielastic ^{12}C(e,e^{'}p) up to Q^{2} of 14.2 (GeV/c)^{2}. Phys Rev Lett 2021; 126:082301. [PMID: 33709760 DOI: 10.1103/physrevlett.126.082301] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2020] [Revised: 12/15/2020] [Accepted: 01/14/2021] [Indexed: 06/12/2023]
Abstract
Quasielastic ^{12}C(e,e^{'}p) scattering was measured at spacelike 4-momentum transfer squared Q^{2}=8, 9.4, 11.4, and 14.2 (GeV/c)^{2}, the highest ever achieved to date. Nuclear transparency for this reaction was extracted by comparing the measured yield to that expected from a plane-wave impulse approximation calculation without any final state interactions. The measured transparency was consistent with no Q^{2} dependence, up to proton momenta of 8.5 GeV/c, ruling out the quantum chromodynamics effect of color transparency at the measured Q^{2} scales in exclusive (e,e^{'}p) reactions. These results impose strict constraints on models of color transparency for protons.
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Affiliation(s)
- D Bhetuwal
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - J Matter
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - H Szumila-Vance
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M L Kabir
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - D Dutta
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - R Ent
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - D Abrams
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - Z Ahmed
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - B Aljawrneh
- North Carolina A & T State University, Greensboro, North Carolina 27411, USA
| | - S Alsalmi
- Kent State University, Kent, Ohio 44240, USA
| | - R Ambrose
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - D Androic
- University of Zagreb, Zagreb, Croatia
| | - W Armstrong
- Temple University, Philadelphia, Pennsylvania 19122, USA
| | - A Asaturyan
- A.I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - K Assumin-Gyimah
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - C Ayerbe Gayoso
- Mississippi State University, Mississippi State, Mississippi 39762, USA
- The College of William & Mary, Williamsburg, Virginia 23185, USA
| | - A Bandari
- The College of William & Mary, Williamsburg, Virginia 23185, USA
| | - S Basnet
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - V Berdnikov
- Catholic University of America, Washington, DC 20064, USA
| | - H Bhatt
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - D Biswas
- Hampton University, Hampton, Virginia 23669, USA
| | - W U Boeglin
- Florida International University, University Park, Florida 33199, USA
| | - P Bosted
- The College of William & Mary, Williamsburg, Virginia 23185, USA
| | - E Brash
- Christopher Newport University, Newport News, Virginia 23606, USA
| | | | - H Chen
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - J P Chen
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M Chen
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - E M Christy
- Hampton University, Hampton, Virginia 23669, USA
| | - S Covrig
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - K Craycraft
- University of Tennessee, Knoxville, Tennessee 37996, USA
| | - S Danagoulian
- North Carolina A & T State University, Greensboro, North Carolina 27411, USA
| | - D Day
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - M Diefenthaler
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M Dlamini
- Ohio University, Athens, Ohio 45701, USA
| | - J Dunne
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - B Duran
- Temple University, Philadelphia, Pennsylvania 19122, USA
| | - R Evans
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - H Fenker
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - N Fomin
- University of Tennessee, Knoxville, Tennessee 37996, USA
| | - E Fuchey
- University of Connecticut, Storrs, Connecticut 06269, USA
| | - D Gaskell
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - T N Gautam
- Hampton University, Hampton, Virginia 23669, USA
| | - F A Gonzalez
- Stony Brook University, Stony Brook, New York 11794, USA
| | - J O Hansen
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - F Hauenstein
- Old Dominion University, Norfolk, Virginia 23529, USA
| | - A V Hernandez
- Catholic University of America, Washington, DC 20064, USA
| | - T Horn
- Catholic University of America, Washington, DC 20064, USA
| | - G M Huber
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - M K Jones
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - S Joosten
- Argonne National Laboratory, Lemont, Illinois 60439, USA
| | - A Karki
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - C Keppel
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - A Khanal
- Florida International University, University Park, Florida 33199, USA
| | - P M King
- Ohio University, Athens, Ohio 45701, USA
| | - E Kinney
- University of Colorado Boulder, Boulder, Colorado 80309, USA
| | - H S Ko
- Institut de Physique Nucleaire, Orsay, France
| | - M Kohl
- Hampton University, Hampton, Virginia 23669, USA
| | | | - S Li
- University of New Hampshire, Durham, New Hampshire 03824, USA
| | - W B Li
- The College of William & Mary, Williamsburg, Virginia 23185, USA
| | - A H Liyanage
- Hampton University, Hampton, Virginia 23669, USA
| | - D Mack
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - S Malace
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - P Markowitz
- Florida International University, University Park, Florida 33199, USA
| | - D Meekins
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - R Michaels
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - A Mkrtchyan
- A.I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - H Mkrtchyan
- A.I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - S J Nazeer
- Hampton University, Hampton, Virginia 23669, USA
| | - S Nanda
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - G Niculescu
- James Madison University, Harrisonburg, Virginia 22807, USA
| | - I Niculescu
- James Madison University, Harrisonburg, Virginia 22807, USA
| | - D Nguyen
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - B Pandey
- Hampton University, Hampton, Virginia 23669, USA
| | - S Park
- Stony Brook University, Stony Brook, New York 11794, USA
| | - E Pooser
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - A Puckett
- University of Connecticut, Storrs, Connecticut 06269, USA
| | - M Rehfuss
- Temple University, Philadelphia, Pennsylvania 19122, USA
| | - J Reinhold
- Florida International University, University Park, Florida 33199, USA
| | - N Santiesteban
- University of New Hampshire, Durham, New Hampshire 03824, USA
| | - B Sawatzky
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - G R Smith
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - A Sun
- Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
| | - V Tadevosyan
- A.I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - R Trotta
- Catholic University of America, Washington, DC 20064, USA
| | - S A Wood
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - C Yero
- Florida International University, University Park, Florida 33199, USA
| | - J Zhang
- Stony Brook University, Stony Brook, New York 11794, USA
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9
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Kasherman MA, Currey L, Kurniawan ND, Zalucki O, Vega MS, Jolly LA, Burne THJ, Wood SA, Piper M. Abnormal Behavior and Cortical Connectivity Deficits in Mice Lacking Usp9x. Cereb Cortex 2021; 31:1763-1775. [PMID: 33188399 DOI: 10.1093/cercor/bhaa324] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2020] [Revised: 10/08/2020] [Accepted: 10/08/2020] [Indexed: 12/14/2022] Open
Abstract
Genetic association studies have identified many factors associated with neurodevelopmental disorders such as autism spectrum disorder (ASD). However, the way these genes shape neuroanatomical structure and connectivity is poorly understood. Recent research has focused on proteins that act as points of convergence for multiple factors, as these may provide greater insight into understanding the biology of neurodevelopmental disorders. USP9X, a deubiquitylating enzyme that regulates the stability of many ASD-related proteins, is one such point of convergence. Loss of function variants in human USP9X lead to brain malformations, which manifest as a neurodevelopmental syndrome that frequently includes ASD, but the underlying structural and connectomic abnormalities giving rise to patient symptoms is unknown. Here, we analyzed forebrain-specific Usp9x knockout mice (Usp9x-/y) to address this knowledge gap. Usp9x-/y mice displayed abnormal communication and social interaction behaviors. Moreover, the absence of Usp9x culminated in reductions to the size of multiple brain regions. Diffusion tensor magnetic resonance imaging revealed deficits in all three major forebrain commissures, as well as long-range hypoconnectivity between cortical and subcortical regions. These data identify USP9X as a key regulator of brain formation and function, and provide insights into the neurodevelopmental syndrome arising as a consequence of USP9X mutations in patients.
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Affiliation(s)
- Maria A Kasherman
- School of Biomedical Sciences, The University of Queensland, Brisbane 4072, Australia.,Griffith Institute for Drug Discovery, Griffith University, Brisbane 4111, Australia
| | - Laura Currey
- School of Biomedical Sciences, The University of Queensland, Brisbane 4072, Australia.,Griffith Institute for Drug Discovery, Griffith University, Brisbane 4111, Australia
| | - Nyoman D Kurniawan
- Centre for Advanced Imaging, The University of Queensland, Brisbane 4072, Australia
| | - Oressia Zalucki
- School of Biomedical Sciences, The University of Queensland, Brisbane 4072, Australia
| | | | - Lachlan A Jolly
- University of Adelaide and Robinson Research Institute, Adelaide 5005, Australia
| | - Thomas H J Burne
- Queensland Brain Institute, The University of Queensland, Brisbane 4072, Australia.,Queensland Centre for Mental Health Research, The Park Centre for Mental Health, Wacol, Brisbane 4076, Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane 4111, Australia
| | - Michael Piper
- School of Biomedical Sciences, The University of Queensland, Brisbane 4072, Australia.,Queensland Brain Institute, The University of Queensland, Brisbane 4072, Australia
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10
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Wood SA, Bowman M. Large-scale farmer-led experiment demonstrates positive impact of cover crops on multiple soil health indicators. Nat Food 2021; 2:97-103. [PMID: 37117404 DOI: 10.1038/s43016-021-00222-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2020] [Accepted: 01/12/2021] [Indexed: 04/30/2023]
Abstract
Cover crops are touted for their potential agronomic and environmental benefits, and are currently incentivized through state, federal and private investment in the USA. There is a need to quantify the impact of on-farm use of cover crops at spatial (2-5 years) and temporal (regional-to-national) scales aligned with such investment programmes. Here we report soil health data from a farmer-led trial of cover crops on 1,522 strip-years, from 78 farms across 9 US states over 5 years. We found that up to 5 years of cover crop use had small but increasing impacts on four of six selected soil health indicators, with active carbon concentration responding the most rapidly. Soil texture, the length of time a field was in the trial and a farm-level random effect were also strongly related to soil health properties. Our results fit with evidence from controlled trials and suggest that the use of cover crops can begin to influence soil health within several years after adoption.
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Affiliation(s)
- Stephen A Wood
- The Nature Conservancy, Arlington, VA, USA.
- Yale School of the Environment, New Haven, CT, USA.
| | - Maria Bowman
- Soil Health Partnership, National Corn Growers Association, Chesterfield, MO, USA
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11
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Herrero M, Thornton PK, Mason-D'Croz D, Palmer J, Bodirsky BL, Pradhan P, Barrett CB, Benton TG, Hall A, Pikaar I, Bogard JR, Bonnett GD, Bryan BA, Campbell BM, Christensen S, Clark M, Fanzo J, Godde CM, Jarvis A, Loboguerrero AM, Mathys A, McIntyre CL, Naylor RL, Nelson R, Obersteiner M, Parodi A, Popp A, Ricketts K, Smith P, Valin H, Vermeulen SJ, Vervoort J, van Wijk M, van Zanten HH, West PC, Wood SA, Rockström J. Articulating the effect of food systems innovation on the Sustainable Development Goals. Lancet Planet Health 2021; 5:e50-e62. [PMID: 33306994 DOI: 10.1016/s2542-5196(20)30277-1] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Revised: 11/18/2020] [Accepted: 11/18/2020] [Indexed: 05/15/2023]
Abstract
Food system innovations will be instrumental to achieving multiple Sustainable Development Goals (SDGs). However, major innovation breakthroughs can trigger profound and disruptive changes, leading to simultaneous and interlinked reconfigurations of multiple parts of the global food system. The emergence of new technologies or social solutions, therefore, have very different impact profiles, with favourable consequences for some SDGs and unintended adverse side-effects for others. Stand-alone innovations seldom achieve positive outcomes over multiple sustainability dimensions. Instead, they should be embedded as part of systemic changes that facilitate the implementation of the SDGs. Emerging trade-offs need to be intentionally addressed to achieve true sustainability, particularly those involving social aspects like inequality in its many forms, social justice, and strong institutions, which remain challenging. Trade-offs with undesirable consequences are manageable through the development of well planned transition pathways, careful monitoring of key indicators, and through the implementation of transparent science targets at the local level.
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Affiliation(s)
- Mario Herrero
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Brisbane, QLD, Australia.
| | - Philip K Thornton
- CGIAR Research Programme on Climate Change, Agriculture and Food Security, International Livestock Research Institute, Nairobi, Kenya
| | - Daniel Mason-D'Croz
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Brisbane, QLD, Australia
| | - Jeda Palmer
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Brisbane, QLD, Australia
| | | | - Prajal Pradhan
- Potsdam Institute for Climate Impact Research (PIK), Potsdam, Germany
| | - Christopher B Barrett
- Dyson School of Applied Economics and Management, Cornell University, New York, NY, USA
| | - Tim G Benton
- The Royal Institute for International Affairs, Chatham House, London, UK
| | - Andrew Hall
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Black Mountain, ACT, Australia
| | - Ilje Pikaar
- The University of Queensland, St Lucia, QLD, Australia
| | - Jessica R Bogard
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Brisbane, QLD, Australia
| | - Graham D Bonnett
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Brisbane, QLD, Australia
| | - Brett A Bryan
- Centre for Integrative Ecology, School of Life and Environmental Sciences, Deakin University, Burwood, VIC, Australia
| | - Bruce M Campbell
- CGIAR Research Program on Climate Change, Agriculture and Food Security and International Center for Tropical Agriculture, Valle del Cauca, Colombia; Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Svend Christensen
- Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Michael Clark
- Nuffield Department of Population Health, University of Oxford, Oxford, UK; Oxford Martin School, University of Oxford, Oxford, UK
| | - Jessica Fanzo
- School of Advanced International Studies, Berman Institute of Bioethics, Johns Hopkins University, Washington, DC, USA; Bloomberg School of Public Health, Johns Hopkins University, Washington, DC, USA
| | - Cecile M Godde
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Brisbane, QLD, Australia
| | - Andy Jarvis
- CGIAR Research Program on Climate Change, Agriculture and Food Security and International Center for Tropical Agriculture, Valle del Cauca, Colombia
| | - Ana Maria Loboguerrero
- CGIAR Research Program on Climate Change, Agriculture and Food Security and International Center for Tropical Agriculture, Valle del Cauca, Colombia
| | - Alexander Mathys
- Sustainable Food Processing Laboratory, Institute of Food, Nutrition and Health, ETH Zurich, Zurich, Switzerland
| | - C Lynne McIntyre
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Brisbane, QLD, Australia
| | - Rosamond L Naylor
- Center on Food Security and the Environment, Stanford University, Stanford, CA, USA
| | - Rebecca Nelson
- Dyson School of Applied Economics and Management, Cornell University, New York, NY, USA
| | - Michael Obersteiner
- International Institute for Applied Systems Analysis (IIASA), Laxenburg, Austria; Environmental Change Institute, University of Oxford, Oxford, UK
| | - Alejandro Parodi
- Animal Production Systems group, Wageningen University & Research, Wageningen, Netherlands
| | - Alexander Popp
- Potsdam Institute for Climate Impact Research (PIK), Potsdam, Germany
| | - Katie Ricketts
- Commonwealth Scientific and Industrial Research Organisation (CSIRO), Black Mountain, ACT, Australia
| | - Pete Smith
- Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, UK
| | - Hugo Valin
- International Institute for Applied Systems Analysis (IIASA), Laxenburg, Austria
| | | | - Joost Vervoort
- Copernicus Institute of Sustainable Development, Utrecht University, Utrecht, Netherlands
| | - Mark van Wijk
- International Livestock Research Institute, Nairobi, Kenya
| | - Hannah He van Zanten
- Farming Systems Ecology Group, Wageningen University & Research, Wageningen, Netherlands
| | - Paul C West
- Institute on the Environment, University of Minnesota, Minneapolis, MN, USA
| | - Stephen A Wood
- The Nature Conservancy, Arlington, VA, USA; Yale School of the Environment, New Haven, CT, USA
| | - Johan Rockström
- Potsdam Institute for Climate Impact Research (PIK), Potsdam, Germany; Institute of Environmental Science and Geography, Universität Potsdam, Potsdam-Golm, Germany
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12
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Yero C, Abrams D, Ahmed Z, Ahmidouch A, Aljawrneh B, Alsalmi S, Ambrose R, Armstrong W, Asaturyan A, Assumin-Gyimah K, Ayerbe Gayoso C, Bandari A, Bane J, Basnet S, Berdnikov VV, Bericic J, Bhatt H, Bhetuwal D, Biswas D, Boeglin WU, Bosted P, Brash E, Bukhari MHS, Chen H, Chen JP, Chen M, Christy ME, Covrig S, Craycraft K, Danagoulian S, Day D, Diefenthaler M, Dlamini M, Dunne J, Duran B, Dutta D, Ent R, Evans R, Fenker H, Fomin N, Fuchey E, Gaskell D, Gautam TN, Gonzalez FA, Hansen JO, Hauenstein F, Hernandez AV, Horn T, Huber GM, Jones MK, Joosten S, Kabir ML, Karki A, Keppel CE, Khanal A, King P, Kinney E, Lashley-Colthirst N, Li S, Li WB, Liyanage AH, Mack DJ, Malace SP, Matter J, Meekins D, Michaels R, Mkrtchyan A, Mkrtchyan H, Nazeer SJ, Nanda S, Niculescu G, Niculescu M, Nguyen D, Nuruzzaman N, Pandey B, Park S, Perdrisat CF, Pooser E, Rehfuss M, Reinhold J, Sawatzky B, Smith GR, Sun A, Szumila-Vance H, Tadevosyan V, Wood SA, Zhang J. Probing the Deuteron at Very Large Internal Momenta. Phys Rev Lett 2020; 125:262501. [PMID: 33449750 DOI: 10.1103/physrevlett.125.262501] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2020] [Revised: 10/27/2020] [Accepted: 12/02/2020] [Indexed: 06/12/2023]
Abstract
We measure ^{2}H(e,e^{'}p)n cross sections at 4-momentum transfers of Q^{2}=4.5±0.5 (GeV/c)^{2} over a range of neutron recoil momenta p_{r}, reaching up to ∼1.0 GeV/c. We obtain data at fixed neutron recoil angles θ_{nq}=35°, 45°, and 75° with respect to the 3-momentum transfer q[over →]. The new data agree well with previous data, which reached p_{r}∼500 MeV/c. At θ_{nq}=35° and 45°, final state interactions, meson exchange currents, and isobar currents are suppressed and the plane wave impulse approximation provides the dominant cross section contribution. We compare the new data to recent theoretical calculations, where we observe a significant discrepancy for recoil momenta p_{r}>700 MeV/c.
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Affiliation(s)
- C Yero
- Florida International University, University Park, Florida 33199, USA
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - D Abrams
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - Z Ahmed
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - A Ahmidouch
- North Carolina Agricultural and Technical State University, Greensboro, North Carolina 27411, USA
| | - B Aljawrneh
- North Carolina Agricultural and Technical State University, Greensboro, North Carolina 27411, USA
| | - S Alsalmi
- Kent State University, Kent, Ohio 44240, USA
| | - R Ambrose
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - W Armstrong
- Argonne National Laboratory, Lemont, Illinois 60439, USA
| | - A Asaturyan
- A.I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), 2 Alikhanian Brothers Street, 0036, Yerevan, Armenia
| | - K Assumin-Gyimah
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - C Ayerbe Gayoso
- College of William & Mary, Williamsburg, Virginia 23185, USA
| | - A Bandari
- College of William & Mary, Williamsburg, Virginia 23185, USA
| | - J Bane
- University of Tennessee, Knoxville, Tennessee 37996, USA
| | - S Basnet
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - V V Berdnikov
- Catholic University of America, Washington, D.C. 20064, USA
| | - J Bericic
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - H Bhatt
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - D Bhetuwal
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - D Biswas
- Hampton University, Hampton, Virginia 23669, USA
| | - W U Boeglin
- Florida International University, University Park, Florida 33199, USA
| | - P Bosted
- College of William & Mary, Williamsburg, Virginia 23185, USA
| | - E Brash
- Christopher Newport University, Newport News, Virginia 23606, USA
| | | | - H Chen
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - J P Chen
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M Chen
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - M E Christy
- Hampton University, Hampton, Virginia 23669, USA
| | - S Covrig
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - K Craycraft
- University of Tennessee, Knoxville, Tennessee 37996, USA
| | - S Danagoulian
- North Carolina Agricultural and Technical State University, Greensboro, North Carolina 27411, USA
| | - D Day
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - M Diefenthaler
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M Dlamini
- Ohio University, Athens, Ohio 45701, USA
| | - J Dunne
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - B Duran
- Temple University, Philadelphia, Pennsylvania 19122, USA
| | - D Dutta
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - R Ent
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - R Evans
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - H Fenker
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - N Fomin
- University of Tennessee, Knoxville, Tennessee 37996, USA
| | - E Fuchey
- University of Connecticut, Storrs, Connecticut 06269, USA
| | - D Gaskell
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - T N Gautam
- Hampton University, Hampton, Virginia 23669, USA
| | - F A Gonzalez
- Stony Brook University, Stony Brook, New York 11794, USA
| | - J O Hansen
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - F Hauenstein
- Old Dominion University, Norfolk, Virginia 23529, USA
| | - A V Hernandez
- Catholic University of America, Washington, D.C. 20064, USA
| | - T Horn
- Catholic University of America, Washington, D.C. 20064, USA
| | - G M Huber
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - M K Jones
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - S Joosten
- Argonne National Laboratory, Lemont, Illinois 60439, USA
| | - M L Kabir
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - A Karki
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - C E Keppel
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - A Khanal
- Florida International University, University Park, Florida 33199, USA
| | - P King
- Ohio University, Athens, Ohio 45701, USA
| | - E Kinney
- University of Colorado Boulder, Boulder, Colorado 80309, USA
| | | | - S Li
- University of New Hampshire, Durham, New Hampshire 03824, USA
| | - W B Li
- College of William & Mary, Williamsburg, Virginia 23185, USA
| | - A H Liyanage
- Hampton University, Hampton, Virginia 23669, USA
| | - D J Mack
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - S P Malace
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - J Matter
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - D Meekins
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - R Michaels
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - A Mkrtchyan
- A.I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), 2 Alikhanian Brothers Street, 0036, Yerevan, Armenia
| | - H Mkrtchyan
- A.I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), 2 Alikhanian Brothers Street, 0036, Yerevan, Armenia
| | - S J Nazeer
- Hampton University, Hampton, Virginia 23669, USA
| | - S Nanda
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - G Niculescu
- James Madison University, Harrisonburg, Virginia 22807, USA
| | - M Niculescu
- James Madison University, Harrisonburg, Virginia 22807, USA
| | - D Nguyen
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - N Nuruzzaman
- Rutgers University, New Brunswick, New Jersey 08854, USA
| | - B Pandey
- Hampton University, Hampton, Virginia 23669, USA
| | - S Park
- Stony Brook University, Stony Brook, New York 11794, USA
| | - C F Perdrisat
- College of William & Mary, Williamsburg, Virginia 23185, USA
| | - E Pooser
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M Rehfuss
- Temple University, Philadelphia, Pennsylvania 19122, USA
| | - J Reinhold
- Florida International University, University Park, Florida 33199, USA
| | - B Sawatzky
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - G R Smith
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - A Sun
- Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
| | - H Szumila-Vance
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - V Tadevosyan
- A.I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), 2 Alikhanian Brothers Street, 0036, Yerevan, Armenia
| | - S A Wood
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - J Zhang
- Stony Brook University, Stony Brook, New York 11794, USA
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13
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Jolly LA, Parnell E, Gardner AE, Corbett MA, Pérez-Jurado LA, Shaw M, Lesca G, Keegan C, Schneider MC, Griffin E, Maier F, Kiss C, Guerin A, Crosby K, Rosenbaum K, Tanpaiboon P, Whalen S, Keren B, McCarrier J, Basel D, Sadedin S, White SM, Delatycki MB, Kleefstra T, Küry S, Brusco A, Sukarova-Angelovska E, Trajkova S, Yoon S, Wood SA, Piper M, Penzes P, Gecz J. Missense variant contribution to USP9X-female syndrome. NPJ Genom Med 2020; 5:53. [PMID: 33298948 PMCID: PMC7725775 DOI: 10.1038/s41525-020-00162-9] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2020] [Accepted: 10/29/2020] [Indexed: 02/06/2023] Open
Abstract
USP9X is an X-chromosome gene that escapes X-inactivation. Loss or compromised function of USP9X leads to neurodevelopmental disorders in males and females. While males are impacted primarily by hemizygous partial loss-of-function missense variants, in females de novo heterozygous complete loss-of-function mutations predominate, and give rise to the clinically recognisable USP9X-female syndrome. Here we provide evidence of the contribution of USP9X missense and small in-frame deletion variants in USP9X-female syndrome also. We scrutinise the pathogenicity of eleven such variants, ten of which were novel. Combined application of variant prediction algorithms, protein structure modelling, and assessment under clinically relevant guidelines universally support their pathogenicity. The core phenotype of this cohort overlapped with previous descriptions of USP9X-female syndrome, but exposed heightened variability. Aggregate phenotypic information of 35 currently known females with predicted pathogenic variation in USP9X reaffirms the clinically recognisable USP9X-female syndrome, and highlights major differences when compared to USP9X-male associated neurodevelopmental disorders.
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Affiliation(s)
- Lachlan A Jolly
- University of Adelaide and Robinson Research Institute, Adelaide, SA, 5005, Australia.
| | - Euan Parnell
- Department of Physiology, Northwestern University Feinberg School of Medicine, Chicago, Il, USA
| | - Alison E Gardner
- University of Adelaide and Robinson Research Institute, Adelaide, SA, 5005, Australia
| | - Mark A Corbett
- University of Adelaide and Robinson Research Institute, Adelaide, SA, 5005, Australia
| | - Luis A Pérez-Jurado
- University of Adelaide and Robinson Research Institute, Adelaide, SA, 5005, Australia
- Women's and Children's Hospital, Adelaide, SA, 5006, Australia
- South Australian Health and Medical Research Institute, Adelaide, SA, 5000, Australia
- Hospital del Mar Research Institute (IMIM), Network Research Centre for Rare Diseases (CIBERER) and Universitat Pompeu Fabra, Barcelona, 08003, Spain
| | - Marie Shaw
- University of Adelaide and Robinson Research Institute, Adelaide, SA, 5005, Australia
| | - Gaetan Lesca
- Institut Neuromyogène, métabolisme énergétique et développement durable, CNRS UMR 5310, INSERM U1217, Université de Lyon, Université Claude Bernard Lyon 1, Lyon, France
- Service de Génétique, Hospices Civils de Lyon, Lyon, France
| | - Catherine Keegan
- Division of Genetics, Department of Pediatrics, University of Michigan, Ann Arbor, MI, USA
| | - Michael C Schneider
- Section of Neurology, Department of Pediatrics, St. Christopher's Hospital for Children, Drexel University College of Medicine, Philadelphia, PA, USA
| | - Emily Griffin
- Division of Clinical Genetics, Department of Pediatrics, Columbia University Irving Medical Center, New York, NY, USA
| | - Felicitas Maier
- Dr. von Hauner Children's Hospital, LMU - Ludwig-Maximilians-Universität Munich, University of Munich Medical Center, Munich, Germany
| | - Courtney Kiss
- Kingston Health Sciences Centre, Kingston, ON, K7L 2V7, Canada
| | - Andrea Guerin
- Division of Medical Genetics, Department of Pediatrics, Kingston General Hospital, Kingston, ON, Canada
| | - Kathleen Crosby
- Division of Genetics and Metabolism, Children's National Hospital, Washington, DC, USA
| | - Kenneth Rosenbaum
- Division of Genetics and Metabolism, Children's National Hospital, Washington, DC, USA
| | - Pranoot Tanpaiboon
- Division of Genetics and Metabolism, Children's National Hospital, Washington, DC, USA
| | - Sandra Whalen
- Unité Fonctionnelle de génétique clinique, Hôpital Armand Trousseau, Assistance publique-Hôpitaux de Paris, Centre de Référence Maladies Rares des anomalies du développement et syndromes malformatifs, Paris, France
| | - Boris Keren
- Hôpital de la Pitié-Salpêtrière, Département de Génétique, Paris, France
| | - Julie McCarrier
- Division of Genetics, Department of Pediatrics, Medical College of Wisconsin, Milwaukee, WI, USA
| | - Donald Basel
- Division of Genetics, Department of Pediatrics, Medical College of Wisconsin, Milwaukee, WI, USA
| | - Simon Sadedin
- Victorian Clinical Genetics Service, Melbourne, VIC, Australia
- Department of Paediatrics, University of Melbourne, Melbourne, VIC, Australia
- Murdoch Children's Research Institute, Melbourne, VIC, Australia
| | - Susan M White
- Victorian Clinical Genetics Service, Melbourne, VIC, Australia
- Department of Paediatrics, University of Melbourne, Melbourne, VIC, Australia
- Murdoch Children's Research Institute, Melbourne, VIC, Australia
| | - Martin B Delatycki
- Victorian Clinical Genetics Service, Melbourne, VIC, Australia
- Department of Paediatrics, University of Melbourne, Melbourne, VIC, Australia
- Murdoch Children's Research Institute, Melbourne, VIC, Australia
| | - Tjitske Kleefstra
- Department of Human Genetics, Donders Institute for Brain, Cognition and Behaviour, Radboud University Medical Center, Nijmegen, 6500, HB, the Netherlands
| | - Sébastien Küry
- Service de Génétique Médicale, CHU Nantes, 44093, Nantes, France
- l'Institut du Thorax, INSERM, CNRS, UNIV Nantes, 44007, Nantes, France
| | - Alfredo Brusco
- Department of Medical Sciences, University of Turin, Torino, Italy
- Medical Genetics Unit, Città della Salute e della Scienza University Hospital, Torino, Italy
| | - Elena Sukarova-Angelovska
- Department of Endocronology and Genetics, University Clinic for Children's Diseases, Medical Faculty, University Sv. Kiril i Metodij, Skopje, Republic of Macedonia
| | - Slavica Trajkova
- Department of Medical Sciences, University of Turin, Torino, Italy
| | - Sehoun Yoon
- Department of Physiology, Northwestern University Feinberg School of Medicine, Chicago, Il, USA
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD, Australia
| | - Michael Piper
- School of Biomedical Sciences, University of Queensland, Brisbane, QLD, 4072, Australia
- Queensland Brain Institute, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Peter Penzes
- Department of Physiology, Northwestern University Feinberg School of Medicine, Chicago, Il, USA
| | - Jozef Gecz
- University of Adelaide and Robinson Research Institute, Adelaide, SA, 5005, Australia.
- South Australian Health and Medical Research Institute, Adelaide, SA, 5000, Australia.
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14
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Hess JJ, Ranadive N, Boyer C, Aleksandrowicz L, Anenberg SC, Aunan K, Belesova K, Bell ML, Bickersteth S, Bowen K, Burden M, Campbell-Lendrum D, Carlton E, Cissé G, Cohen F, Dai H, Dangour AD, Dasgupta P, Frumkin H, Gong P, Gould RJ, Haines A, Hales S, Hamilton I, Hasegawa T, Hashizume M, Honda Y, Horton DE, Karambelas A, Kim H, Kim SE, Kinney PL, Kone I, Knowlton K, Lelieveld J, Limaye VS, Liu Q, Madaniyazi L, Martinez ME, Mauzerall DL, Milner J, Neville T, Nieuwenhuijsen M, Pachauri S, Perera F, Pineo H, Remais JV, Saari RK, Sampedro J, Scheelbeek P, Schwartz J, Shindell D, Shyamsundar P, Taylor TJ, Tonne C, Van Vuuren D, Wang C, Watts N, West JJ, Wilkinson P, Wood SA, Woodcock J, Woodward A, Xie Y, Zhang Y, Ebi KL. Guidelines for Modeling and Reporting Health Effects of Climate Change Mitigation Actions. Environ Health Perspect 2020; 128:115001. [PMID: 33170741 PMCID: PMC7654632 DOI: 10.1289/ehp6745] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Revised: 09/08/2020] [Accepted: 10/13/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND Modeling suggests that climate change mitigation actions can have substantial human health benefits that accrue quickly and locally. Documenting the benefits can help drive more ambitious and health-protective climate change mitigation actions; however, documenting the adverse health effects can help to avoid them. Estimating the health effects of mitigation (HEM) actions can help policy makers prioritize investments based not only on mitigation potential but also on expected health benefits. To date, however, the wide range of incompatible approaches taken to developing and reporting HEM estimates has limited their comparability and usefulness to policymakers. OBJECTIVE The objective of this effort was to generate guidance for modeling studies on scoping, estimating, and reporting population health effects from climate change mitigation actions. METHODS An expert panel of HEM researchers was recruited to participate in developing guidance for conducting HEM studies. The primary literature and a synthesis of HEM studies were provided to the panel. Panel members then participated in a modified Delphi exercise to identify areas of consensus regarding HEM estimation. Finally, the panel met to review and discuss consensus findings, resolve remaining differences, and generate guidance regarding conducting HEM studies. RESULTS The panel generated a checklist of recommendations regarding stakeholder engagement: HEM modeling, including model structure, scope and scale, demographics, time horizons, counterfactuals, health response functions, and metrics; parameterization and reporting; approaches to uncertainty and sensitivity analysis; accounting for policy uptake; and discounting. DISCUSSION This checklist provides guidance for conducting and reporting HEM estimates to make them more comparable and useful for policymakers. Harmonization of HEM estimates has the potential to lead to advances in and improved synthesis of policy-relevant research that can inform evidence-based decision making and practice. https://doi.org/10.1289/EHP6745.
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Affiliation(s)
- Jeremy J. Hess
- Center for Health and the Global Environment, University of Washington, Seattle, Washington, USA
| | | | - Chris Boyer
- Center for Health and the Global Environment, University of Washington, Seattle, Washington, USA
| | | | - Susan C. Anenberg
- Milken Institute School of Public Health, George Washington University, Washington, District of Columbia, USA
| | - Kristin Aunan
- CICERO Center for International Climate Research, Oslo, Norway
| | - Kristine Belesova
- Department of Public Health, Environments, and Society, London School of Hygiene & Tropical Medicine, London, UK
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
| | - Michelle L. Bell
- School of Forestry and Environmental Studies, Yale University, New Haven, Connecticut, USA
| | - Sam Bickersteth
- Rockefeller Foundation Economic Council on Planetary Health, Oxford, UK
| | | | - Marci Burden
- Center for Health and the Global Environment, University of Washington, Seattle, Washington, USA
| | - Diarmid Campbell-Lendrum
- Department of Environment Climate Change and Health, World Health Organization, Geneva, Switzerland
| | - Elizabeth Carlton
- Department of Environmental and Occupational Health, Colorado School of Public Health, University of Colorado, Aurora, Colorado, USA
| | - Guéladio Cissé
- Department of Epidemiology and Public Health, Swiss Tropical and Public Health Institute, Basel, Switzerland
- University of Basel, Basel, Switzerland
| | - Francois Cohen
- Smith School for Enterprise and the Environment and Institute for New Economic Thinking at the Oxford Martin School, University of Oxford, Oxford, UK
| | - Hancheng Dai
- Laboratory of Energy & Environmental Economics and Policy (LEEEP), College of Environmental Sciences and Engineering, Peking University, Beijing, China
- College of Environmental Sciences and Engineering, Peking University, Beijing, China
| | - Alan David Dangour
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
| | - Purnamita Dasgupta
- Environmental and Resource Economics Unit, Institute of Economic Growth, Delhi, India
| | | | - Peng Gong
- Department of Earth System Science, Tsinghua University, Beijing, China
| | - Robert J. Gould
- Center for Climate Change Communication, George Mason University, Fairfax, Virginia, USA
| | - Andy Haines
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
| | - Simon Hales
- Department of Public Health, University of Otago, Wellington, New Zealand
| | - Ian Hamilton
- UCL Energy Institute, University College London, London, UK
| | - Tomoko Hasegawa
- National Institute for Environmental Studies, Tsukuba, Japan
| | - Masahiro Hashizume
- Institute of Tropical Medicine, Nagasaki University, Nagasaki, Japan
- School of Tropical Medicine and Global Health, Nagasaki University, Nagasaki, Japan
| | - Yasushi Honda
- Faculty of Health and Sport Sciences, University of Tsukuba, Tsukuba, Japan
| | - Daniel E. Horton
- Department of Earth and Planetary Sciences, Northwestern University, Evanston, Illinois, USA
| | | | - Ho Kim
- Department of Epidemiology and Biostatistics, School of Public Health, Seoul National University, Seoul, South Korea
| | - Satbyul Estella Kim
- Center for Climate Change Adaptation, National Institute for Environmental Studies, Tsukuba, Japan
| | - Patrick L. Kinney
- Department of Environmental Health, Boston University School of Public Health, Boston, USA
| | - Inza Kone
- Centre Suisse de Recherches Scientifiques en Côte d’Ivoire, Abidjan, Côte d’Ivoire
- Université Félix Houphouet-Boigny, Abidjan, Côte d’Ivoire
| | - Kim Knowlton
- Natural Resources Defense Council, New York, New York, USA
| | - Jos Lelieveld
- Max Planck Institute for Chemistry, Dept. of Atmospheric Chemistry, Mainz, Germany
| | | | - Qiyong Liu
- National Institute for Communicable Disease Control and Prevention, Beijing, China
| | - Lina Madaniyazi
- School of Tropical Medicine and Global Health, Nagasaki University, Nagasaki, Japan
- Department of Paediatric Diseases, Institute of Tropical Medicine, Nagasaki, Japan
| | - Micaela Elvira Martinez
- Department of Environmental Health Sciences, Mailman School of Public Health, Columbia University, New York, New York, USA
- Faculty of Health and Medical Sciences, University of Surrey, Guildford, UK
| | - Denise L. Mauzerall
- Woodrow Wilson School of Public and International Affairs and the Department of Civil and Environmental Engineering, Princeton University, Princeton, New Jersey, USA
| | - James Milner
- Department of Public Health, Environments, and Society, London School of Hygiene & Tropical Medicine, London, UK
| | | | - Mark Nieuwenhuijsen
- ISGlobal, Centre for Research in Environmental Epidemiology (CREAL), Barcelona, Spain
- Universitat Pompeu Fabra (UPF), Barcelona, Spain
- CIBER Epidemiologia y Salud Publica (CIBERESP), Barcelona, Spain
| | | | - Frederica Perera
- Department of Environmental Health Sciences, Mailman School of Public Health, Columbia University, New York, New York, USA
| | - Helen Pineo
- Bartlett Faculty of the Built Environment, University College London, London, UK
| | - Justin V. Remais
- Division of Environmental Health Sciences, University of California, Berkeley, Berkeley, California, USA
| | - Rebecca K. Saari
- Civil and Environmental Engineering, University of Waterloo, Ontario, Canada
| | - Jon Sampedro
- Basque Centre for Climate Change (BC3), Leioa, Spain
| | - Pauline Scheelbeek
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
- Department of Epidemiology & Population Health, London School of Hygiene & Tropical Medicine, London, UK
| | - Joel Schwartz
- Department of Environmental Health, Harvard T.H. Chan School of Public Heath, Boston, Massachusetts, USA
| | - Drew Shindell
- Nicholas School of the Environment, Duke University, Durham, North Carolina, USA
| | | | - Timothy J. Taylor
- European Centre for Environment and Human Health, University of Exeter Medical School, Truro, Cornwall, UK
| | - Cathryn Tonne
- ISGlobal, Centre for Research in Environmental Epidemiology (CREAL), Barcelona, Spain
- Universitat Pompeu Fabra (UPF), Barcelona, Spain
- CIBER Epidemiologia y Salud Publica (CIBERESP), Barcelona, Spain
| | - Detlef Van Vuuren
- PBL Netherlands Environmental Assessment Agency, The Hague, Netherlands
| | - Can Wang
- School of Environment, Tsinghua University, Beijing, China
| | - Nicholas Watts
- Institute for Global Health, University College London, London, UK
| | - J. Jason West
- Environmental Sciences & Engineering, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
| | - Paul Wilkinson
- Department of Public Health, Environments, and Society, London School of Hygiene & Tropical Medicine, London, UK
| | - Stephen A. Wood
- School of Forestry and Environmental Studies, Yale University, New Haven, Connecticut, USA
- The Nature Conservancy, New Haven, Connecticut, USA
| | - James Woodcock
- MRC Epidemiology Unit, University of Cambridge, Cambridge, UK
| | - Alistair Woodward
- Epidemiology and Biostatistics, University of Auckland, Auckland, New Zealand
| | - Yang Xie
- School of Economics and Management, Beihang University, Beijing, China
- Beijing Advanced Innovation Center for Big Data-based Precision Medicine, Beihang University, Beijing, China
| | - Ying Zhang
- School of Public Health, University of Sydney, New South Wales, Australia
| | - Kristie L. Ebi
- Center for Health and the Global Environment, University of Washington, Seattle, Washington, USA
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15
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Cook-Patton SC, Leavitt SM, Gibbs D, Harris NL, Lister K, Anderson-Teixeira KJ, Briggs RD, Chazdon RL, Crowther TW, Ellis PW, Griscom HP, Herrmann V, Holl KD, Houghton RA, Larrosa C, Lomax G, Lucas R, Madsen P, Malhi Y, Paquette A, Parker JD, Paul K, Routh D, Roxburgh S, Saatchi S, van den Hoogen J, Walker WS, Wheeler CE, Wood SA, Xu L, Griscom BW. Mapping carbon accumulation potential from global natural forest regrowth. Nature 2020; 585:545-550. [DOI: 10.1038/s41586-020-2686-x] [Citation(s) in RCA: 149] [Impact Index Per Article: 37.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2019] [Accepted: 07/15/2020] [Indexed: 12/31/2022]
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16
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Androić D, Armstrong DS, Asaturyan A, Bartlett K, Beaufait J, Beminiwattha RS, Benesch J, Benmokhtar F, Birchall J, Carlini RD, Cornejo JC, Dusa SC, Dalton MM, Davis CA, Deconinck W, Dowd JF, Dunne JA, Dutta D, Duvall WS, Elaasar M, Falk WR, Finn JM, Forest T, Gal C, Gaskell D, Gericke MTW, Grames J, Gray VM, Grimm K, Guo F, Hoskins JR, Jones D, Jones MK, Jones RT, Kargiantoulakis M, King PM, Korkmaz E, Kowalski S, Leacock J, Leckey JP, Lee AR, Lee JH, Lee L, MacEwan S, Mack D, Magee JA, Mahurin R, Mammei J, Martin JW, McHugh MJ, Meekins D, Mei J, Mesick KE, Michaels R, Micherdzinska A, Mkrtchyan A, Mkrtchyan H, Morgan N, Narayan A, Ndukum LZ, Nelyubin V, van Oers WTH, Owen VF, Page SA, Pan J, Paschke KD, Phillips SK, Pitt ML, Radloff RW, Rajotte JF, Ramsay WD, Roche J, Sawatzky B, Seva T, Shabestari MH, Silwal R, Simicevic N, Smith GR, Solvignon P, Spayde DT, Subedi A, Subedi R, Suleiman R, Tadevosyan V, Tobias WA, Tvaskis V, Waidyawansa B, Wang P, Wells SP, Wood SA, Yang S, Zang P, Zhamkochyan S. Precision Measurement of the Beam-Normal Single-Spin Asymmetry in Forward-Angle Elastic Electron-Proton Scattering. Phys Rev Lett 2020; 125:112502. [PMID: 32976004 DOI: 10.1103/physrevlett.125.112502] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2020] [Revised: 08/07/2020] [Accepted: 08/11/2020] [Indexed: 06/11/2023]
Abstract
A beam-normal single-spin asymmetry generated in the scattering of transversely polarized electrons from unpolarized nucleons is an observable related to the imaginary part of the two-photon exchange process. We report a 2% precision measurement of the beam-normal single-spin asymmetry in elastic electron-proton scattering with a mean scattering angle of θ_{lab}=7.9° and a mean energy of 1.149 GeV. The asymmetry result is B_{n}=-5.194±0.067(stat)±0.082 (syst) ppm. This is the most precise measurement of this quantity available to date and therefore provides a stringent test of two-photon exchange models at far-forward scattering angles (θ_{lab}→0) where they should be most reliable.
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Affiliation(s)
- D Androić
- University of Zagreb, Zagreb, HR 10002, Croatia
| | | | - A Asaturyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - K Bartlett
- William & Mary, Williamsburg, Virginia 23185, USA
| | - J Beaufait
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - R S Beminiwattha
- Ohio University, Athens, Ohio 45701, USA
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - J Benesch
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - F Benmokhtar
- Duquesne University, Pittburgh, Pennsylvania 15282, USA
| | - J Birchall
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - R D Carlini
- William & Mary, Williamsburg, Virginia 23185, USA
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - J C Cornejo
- William & Mary, Williamsburg, Virginia 23185, USA
| | - S Covrig Dusa
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M M Dalton
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - C A Davis
- TRIUMF, Vancouver, British Columbia V6T2A3, Canada
| | - W Deconinck
- William & Mary, Williamsburg, Virginia 23185, USA
| | - J F Dowd
- William & Mary, Williamsburg, Virginia 23185, USA
| | - J A Dunne
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - D Dutta
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - W S Duvall
- Virginia Polytechnic Institute & State University, Blacksburg, Virginia 24061, USA
| | - M Elaasar
- Southern University at New Orleans, New Orleans, Louisiana 70126, USA
| | - W R Falk
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - J M Finn
- William & Mary, Williamsburg, Virginia 23185, USA
| | - T Forest
- Louisiana Tech University, Ruston, Louisiana 71272, USA
- Idaho State University, Pocatello, Idaho 83209, USA
| | - C Gal
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - D Gaskell
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - M T W Gericke
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - J Grames
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - V M Gray
- William & Mary, Williamsburg, Virginia 23185, USA
| | - K Grimm
- William & Mary, Williamsburg, Virginia 23185, USA
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - F Guo
- Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - J R Hoskins
- William & Mary, Williamsburg, Virginia 23185, USA
| | - D Jones
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - M K Jones
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - R T Jones
- University of Connecticut, Storrs-Mansfield, Connecticut 06269, USA
| | | | - P M King
- Ohio University, Athens, Ohio 45701, USA
| | - E Korkmaz
- University of Northern British Columbia, Prince George, British Columbia V2N4Z9, Canada
| | - S Kowalski
- Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - J Leacock
- Virginia Polytechnic Institute & State University, Blacksburg, Virginia 24061, USA
| | - J P Leckey
- William & Mary, Williamsburg, Virginia 23185, USA
| | - A R Lee
- Virginia Polytechnic Institute & State University, Blacksburg, Virginia 24061, USA
| | - J H Lee
- William & Mary, Williamsburg, Virginia 23185, USA
- Ohio University, Athens, Ohio 45701, USA
| | - L Lee
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- TRIUMF, Vancouver, British Columbia V6T2A3, Canada
| | - S MacEwan
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - D Mack
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - J A Magee
- William & Mary, Williamsburg, Virginia 23185, USA
| | - R Mahurin
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - J Mammei
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- Virginia Polytechnic Institute & State University, Blacksburg, Virginia 24061, USA
| | - J W Martin
- University of Winnipeg, Winnipeg, Manitoba R3B2E9, Canada
| | - M J McHugh
- George Washington University, Washington, DC 20052, USA
| | - D Meekins
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - J Mei
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - K E Mesick
- George Washington University, Washington, DC 20052, USA
- Rutgers, The State University of New Jersey, Piscataway, New Jersey 088754, USA
| | - R Michaels
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | | | - A Mkrtchyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - H Mkrtchyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - N Morgan
- Virginia Polytechnic Institute & State University, Blacksburg, Virginia 24061, USA
| | - A Narayan
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - L Z Ndukum
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - V Nelyubin
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - W T H van Oers
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- TRIUMF, Vancouver, British Columbia V6T2A3, Canada
| | - V F Owen
- William & Mary, Williamsburg, Virginia 23185, USA
| | - S A Page
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - J Pan
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - K D Paschke
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - S K Phillips
- University of New Hampshire, Durham, New Hampshire 03824, USA
| | - M L Pitt
- Virginia Polytechnic Institute & State University, Blacksburg, Virginia 24061, USA
| | | | - J F Rajotte
- Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - W D Ramsay
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
- TRIUMF, Vancouver, British Columbia V6T2A3, Canada
| | - J Roche
- Ohio University, Athens, Ohio 45701, USA
| | - B Sawatzky
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - T Seva
- University of Zagreb, Zagreb, HR 10002, Croatia
| | - M H Shabestari
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - R Silwal
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - N Simicevic
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - G R Smith
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - P Solvignon
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - D T Spayde
- Hendrix College, Conway, Arkansas 72032, USA
| | - A Subedi
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - R Subedi
- George Washington University, Washington, DC 20052, USA
| | - R Suleiman
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - V Tadevosyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
| | - W A Tobias
- University of Virginia, Charlottesville, Virginia 22903, USA
| | - V Tvaskis
- University of Winnipeg, Winnipeg, Manitoba R3B2E9, Canada
| | - B Waidyawansa
- Ohio University, Athens, Ohio 45701, USA
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - P Wang
- University of Manitoba, Winnipeg, Manitoba R3T2N2, Canada
| | - S P Wells
- Louisiana Tech University, Ruston, Louisiana 71272, USA
| | - S A Wood
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - S Yang
- William & Mary, Williamsburg, Virginia 23185, USA
| | - P Zang
- Syracuse University, Syracuse, New York 13244, USA
| | - S Zhamkochyan
- A. I. Alikhanyan National Science Laboratory (Yerevan Physics Institute), Yerevan 0036, Armenia
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17
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Nguyen DT, Iqbal J, Han J, Pierens GK, Wood SA, Mellick GD, Feng Y. Chemical constituents from Macleaya cordata (Willd) R. Br. and their phenotypic functions against a Parkinson's disease patient-derived cell line. Bioorg Med Chem 2020; 28:115732. [PMID: 33065438 DOI: 10.1016/j.bmc.2020.115732] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Revised: 08/02/2020] [Accepted: 08/19/2020] [Indexed: 12/15/2022]
Abstract
Cytological profiling (CP) assay against a human olfactory neuroshpere-derived (hONS) cell line using a library of traditional Chinese medicinal plant extracts gave indications that the ethanolic extract of Macleaya cordata (Willd) R. Br. elicited strong perturbations to various cellular components. Further chemical investigation of this extract resulted in the isolation of two new benzo[c]phenanthridine alkaloids, (6R)-10-methoxybocconoline (1) and 6-(1-hydroxyethyl)-10-methoxy-5,6-dihydrochelerythrine (2). Their planar structures were elucidated by extensive 1D and 2D NMR studies, together with MS data. The absolute configuration for position C-6 of 1 and relative configurations for position C-6 and C-1' of 2 were assigned by density functional theory (DFT) calculations of ECD and NMR data, respectively. Also isolated were fourteen known metabolites, including ten alkaloids (3-12) and four coumaroyl-containing compounds (13-16). Cytological profiling of the isolates against Parkinson's Disease (PD) patient-derived olfactory cells revealed bocconoline (3) and 6-(1-hydroxyethyl)-5,6-dihydrochelerythrine (4) significantly perturbated the features of cellular organelles including early endosomes, mitochondria and autophagosomes. Given that hONS cells from PD patients model some functional aspects of the disease, the results suggested that these phenotypic profiles may have a role in the mechanisms underlying PD and signified the efficacy of CP in finding potential chemical tools to study the biological pathways in PD.
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Affiliation(s)
- Duy Thanh Nguyen
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD 4111, Australia
| | - Jamila Iqbal
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD 4111, Australia
| | - Jianying Han
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD 4111, Australia
| | - Gregory K Pierens
- Centre for Advanced Imaging, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD 4111, Australia
| | - George D Mellick
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD 4111, Australia
| | - Yunjiang Feng
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD 4111, Australia.
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18
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Gergel SE, Powell B, Baudron F, Wood SLR, Rhemtulla JM, Kennedy G, Rasmussen LV, Ickowitz A, Fagan ME, Smithwick EAH, Ranieri J, Wood SA, Groot JCJ, Sunderland TCH. Conceptual Links between Landscape Diversity and Diet Diversity: A Roadmap for Transdisciplinary Research. Bioscience 2020; 70:563-575. [PMID: 32665737 PMCID: PMC7340543 DOI: 10.1093/biosci/biaa048] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Malnutrition linked to poor quality diets affects at least 2 billion people. Forests, as well as agricultural systems linked to trees, are key sources of dietary diversity in rural settings. In the present article, we develop conceptual links between diet diversity and forested landscape mosaics within the rural tropics. First, we summarize the state of knowledge regarding diets obtained from forests, trees, and agroforests. We then hypothesize how disturbed secondary forests, edge habitats, forest access, and landscape diversity can function in bolstering dietary diversity. Taken together, these ideas help us build a framework illuminating four pathways (direct, agroecological, energy, and market pathways) connecting forested landscapes to diet diversity. Finally, we offer recommendations to fill remaining knowledge gaps related to diet and forest cover monitoring. We argue that better evaluation of the role of land cover complexity will help avoid overly simplistic views of food security and, instead, uncover nutritional synergies with forest conservation and restoration.
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Affiliation(s)
- Sarah E Gergel
- Department of Forest and Conservation Sciences, University of British Columbia, Vancouver, Canada
| | - Bronwen Powell
- Department of Geography and BP is also affiliated with the Departments of African Studies and Anthropology at Pennsylvania State University, University Park, Pennsylvania
| | - FrÉdÉric Baudron
- International Maize and Wheat Improvement Center CIMMYT-Southern Africa Regional Office, Harare, Zimbabwe
| | | | - Jeanine M Rhemtulla
- Department of Forest and Conservation Sciences, University of British Columbia, Vancouver, Canada
| | | | - Laura V Rasmussen
- Department of Forest and Conservation Sciences, University of British Columbia, Vancouver, Canada
| | - Amy Ickowitz
- Center for International Forestry Research, Bogor, Indonesia
| | - Matthew E Fagan
- Department of Geography and Environmental Systems, University of Maryland—Baltimore County, Baltimore, Maryland
| | - Erica A H Smithwick
- Department of Geography and BP is also affiliated with the Departments of African Studies and Anthropology at Pennsylvania State University, University Park, Pennsylvania
| | | | - Stephen A Wood
- Nature Conservancy, Arlington, Virginia, and with the School of Forestry and Environmental Studies, Yale University, New Haven, Connecticut
| | - Jeroen C J Groot
- Department of Farming Systems Ecology, Wageningen University and Research, Wageningen, The Netherlands
| | - Terry C H Sunderland
- Department of Forest and Conservation Sciences, University of British Columbia, Vancouver, Canada
- Center for International Forestry Research, Bogor, Indonesia
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19
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Oldfield EE, Wood SA, Bradford MA. Direct evidence using a controlled greenhouse study for threshold effects of soil organic matter on crop growth. Ecol Appl 2020; 30:e02073. [PMID: 31965653 DOI: 10.1002/eap.2073] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2019] [Accepted: 12/02/2019] [Indexed: 05/15/2023]
Abstract
Soil organic matter (SOM) is a key indicator of soil fertility, and building SOM is assumed to decrease reliance on external inputs and ensure stable crop production. Recent syntheses of field data support this assumption with positive SOM-productivity relationships that asymptote at ~4% SOM. Teasing out the directionality of this relationship-the extent to which SOM increases crop growth vs. greater growth leading to higher SOM concentrations-requires controlled experimentation. To disentangle this causative pathway, we conducted a greenhouse experiment whereby we manipulated SOM concentrations from 1% to 9% and evaluated whether the SOM-productivity relationship differed for spring wheat (Triticum aestivum, L.) under nitrogen fertilization crossed with irrigation due to the expectation that SOM buffers the effects of reduced fertilization and/or irrigation. We found that higher concentrations of SOM led to greater productivity (measured as aboveground biomass) up to a threshold of 5% SOM, after which productivity declined across all treatments. These declines occurred despite the fact that indicators of soil health (water-holding capacity, microbial biomass, and bulk density) improved linearly with increasing SOM concentrations. That is, improvements in soil properties did not translate to gains in productivity at the highest SOM levels. Nitrogen fertilization led to greater productivity across all treatments, but to a greater relative extent at lower SOM levels, where we found that productivity on unfertilized soils with 4% SOM matched that of fertilized soils with 2% SOM. Differences in productivity on unfertilized soils due to irrigation emerged at higher SOM levels (>5%), highlighting SOM's role in water retention. Our results demonstrate that building SOM leads to improved growth of a globally important crop; however, our results also indicated a pronounced SOM threshold, after which crop growth declined. This underscores the need to develop optimal SOM targets for desired agricultural and environmental outcomes.
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Affiliation(s)
- Emily E Oldfield
- School of Forestry and Environmental Studies, Yale University, 370 Prospect Street, New Haven, Connecticut, 06511, USA
| | - Stephen A Wood
- School of Forestry and Environmental Studies, Yale University, 370 Prospect Street, New Haven, Connecticut, 06511, USA
- The Nature Conservancy, Arlington, Virginia, 22201, USA
| | - Mark A Bradford
- School of Forestry and Environmental Studies, Yale University, 370 Prospect Street, New Haven, Connecticut, 06511, USA
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20
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Wang D, Murtaza M, Wood SA, Mellick GD, Miao WG, Guymer GP, Forster PI, Feng Y, Quinn RJ. A Grand Challenge. 3. Unbiased Phenotypic Function of Metabolites from Australia Plants Gloriosa superba and Alangium villosum against Parkinson's Disease. J Nat Prod 2020; 83:1440-1452. [PMID: 32372642 DOI: 10.1021/acs.jnatprod.9b00880] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
As part of a continuing research program aiming to identify chemical probes to interrogate Parkinson's disease (PD), we have investigated the Australian plants Gloriosa superba and Alangium villosum. The chemical investigations of G. superba resulted in the isolation of four new alkaloids, β-lumicolchicosides A-C (1-3) and γ-lumicolchicoside A (4), together with four lumicolchicine derivatives (5-8) and six colchicine analogues (9-14) as known structures. The chemical investigations of A. villosum resulted in the isolation of four new benzoquinolizidine N-oxides, tubulosine Nβ5-oxide (15), isotubulosine Nα5-oxide (16), 9-demethyltubulosine Nβ5-oxide (17), and 9-demethylisotubulosine Nα5-oxide (18), together with five known benzoquinolizidine alkaloids (19-23). The chemical structures of the new compounds (1-4 and 15-18) were characterized unambiguously by extensive analysis of their NMR and MS data. Unbiased multidimensional profiling was used to investigate the phenotypic profiles of all of the metabolites. The results show that the lead probes have different effects on cellular organelles that are implicated in PD in patient-derived cells.
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Affiliation(s)
- Dongdong Wang
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Mariyam Murtaza
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - George D Mellick
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - William Gang Miao
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Gordon P Guymer
- Queensland Herbarium, Brisbane Botanic Gardens, Brisbane, QLD 4066, Australia
| | - Paul I Forster
- Queensland Herbarium, Brisbane Botanic Gardens, Brisbane, QLD 4066, Australia
| | - Yunjiang Feng
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Ronald J Quinn
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
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21
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Bentley SR, Khan S, Öchsner M, Premarathne S, Aslam Z, Fowdar JY, Iqbal J, Naeem M, Love CA, Wood SA, Mellick GD, Sykes AM. Evidence of a Recessively Inherited CCN3 Mutation as a Rare Cause of Early-Onset Parkinsonism. Front Neurol 2020; 11:331. [PMID: 32499748 PMCID: PMC7242651 DOI: 10.3389/fneur.2020.00331] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2020] [Accepted: 04/06/2020] [Indexed: 12/11/2022] Open
Abstract
The study of consanguineous families has provided novel insights into genetic causes of monogenic parkinsonism. Here, we present a family from the rural Khyber Pakhtunkhwa province, Pakistan, where three siblings were diagnosed with early-onset parkinsonism. Homozygosity mapping of two affected siblings and three unaffected family members identified two candidate autozygous loci segregating with disease, 8q24.12-8q24.13 and 9q31.2-q33.1. Whole-exome sequence analysis identified a single rare homozygous missense sequence variant within this region, CCN3 p.D82G. Although unaffected family members were heterozygous for this putative causal mutation, it was absent in 3,222 non-Parkinson's disease (PD) subjects of Pakistani heritage. Screening of 353 Australian PD cases, including 104 early-onset cases and 57 probands from multi-incident families, also did not identify additional carriers. Overexpression of wild-type and the variant CCN3 constructs in HEK293T cells identified an impaired section of the variant protein, alluding to potential mechanisms for disease. Further, qPCR analysis complemented previous microarray data suggesting mRNA expression of CCN3 was downregulated in unrelated sporadic PD cases when compared to unaffected subjects. These data indicate a role for CCN3 in parkinsonism, both in this family as well as sporadic PD cases; however, the specific mechanisms require further investigation. Additionally, further screening of the rural community where the family resided is warranted to assess the local frequency of the variant. Overall, this study highlights the value of investigating underrepresented and isolated affected families for novel putative parkinsonism genes.
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Affiliation(s)
- Steven R Bentley
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - Suliman Khan
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - Marco Öchsner
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - Susitha Premarathne
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - Zain Aslam
- Department of Biotechnology, Quaid-i-Azam University, Islamabad, Pakistan
| | - Javed Y Fowdar
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - Jamila Iqbal
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - Muhammad Naeem
- Department of Biotechnology, Quaid-i-Azam University, Islamabad, Pakistan
| | - Christopher A Love
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - George D Mellick
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
| | - Alex M Sykes
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD, Australia
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22
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Fisher JRB, Wood SA, Bradford MA, Kelsey TR. Improving scientific impact: How to practice science that influences environmental policy and management. Conservat Sci and Prac 2020. [DOI: 10.1111/csp2.210] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Affiliation(s)
| | | | - Mark A. Bradford
- School of Forestry and Environmental StudiesYale University New Haven Connecticut USA
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23
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Johnson BV, Kumar R, Oishi S, Alexander S, Kasherman M, Vega MS, Ivancevic A, Gardner A, Domingo D, Corbett M, Parnell E, Yoon S, Oh T, Lines M, Lefroy H, Kini U, Van Allen M, Grønborg S, Mercier S, Küry S, Bézieau S, Pasquier L, Raynaud M, Afenjar A, Billette de Villemeur T, Keren B, Désir J, Van Maldergem L, Marangoni M, Dikow N, Koolen DA, VanHasselt PM, Weiss M, Zwijnenburg P, Sa J, Reis CF, López-Otín C, Santiago-Fernández O, Fernández-Jaén A, Rauch A, Steindl K, Joset P, Goldstein A, Madan-Khetarpal S, Infante E, Zackai E, Mcdougall C, Narayanan V, Ramsey K, Mercimek-Andrews S, Pena L, Shashi V, Schoch K, Sullivan JA, Pinto E Vairo F, Pichurin PN, Ewing SA, Barnett SS, Klee EW, Perry MS, Koenig MK, Keegan CE, Schuette JL, Asher S, Perilla-Young Y, Smith LD, Rosenfeld JA, Bhoj E, Kaplan P, Li D, Oegema R, van Binsbergen E, van der Zwaag B, Smeland MF, Cutcutache I, Page M, Armstrong M, Lin AE, Steeves MA, Hollander ND, Hoffer MJV, Reijnders MRF, Demirdas S, Koboldt DC, Bartholomew D, Mosher TM, Hickey SE, Shieh C, Sanchez-Lara PA, Graham JM, Tezcan K, Schaefer GB, Danylchuk NR, Asamoah A, Jackson KE, Yachelevich N, Au M, Pérez-Jurado LA, Kleefstra T, Penzes P, Wood SA, Burne T, Pierson TM, Piper M, Gécz J, Jolly LA. Partial Loss of USP9X Function Leads to a Male Neurodevelopmental and Behavioral Disorder Converging on Transforming Growth Factor β Signaling. Biol Psychiatry 2020; 87:100-112. [PMID: 31443933 PMCID: PMC6925349 DOI: 10.1016/j.biopsych.2019.05.028] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/27/2019] [Revised: 05/23/2019] [Accepted: 05/30/2019] [Indexed: 12/29/2022]
Abstract
BACKGROUND The X-chromosome gene USP9X encodes a deubiquitylating enzyme that has been associated with neurodevelopmental disorders primarily in female subjects. USP9X escapes X inactivation, and in female subjects de novo heterozygous copy number loss or truncating mutations cause haploinsufficiency culminating in a recognizable syndrome with intellectual disability and signature brain and congenital abnormalities. In contrast, the involvement of USP9X in male neurodevelopmental disorders remains tentative. METHODS We used clinically recommended guidelines to collect and interrogate the pathogenicity of 44 USP9X variants associated with neurodevelopmental disorders in males. Functional studies in patient-derived cell lines and mice were used to determine mechanisms of pathology. RESULTS Twelve missense variants showed strong evidence of pathogenicity. We define a characteristic phenotype of the central nervous system (white matter disturbances, thin corpus callosum, and widened ventricles); global delay with significant alteration of speech, language, and behavior; hypotonia; joint hypermobility; visual system defects; and other common congenital and dysmorphic features. Comparison of in silico and phenotypical features align additional variants of unknown significance with likely pathogenicity. In support of partial loss-of-function mechanisms, using patient-derived cell lines, we show loss of only specific USP9X substrates that regulate neurodevelopmental signaling pathways and a united defect in transforming growth factor β signaling. In addition, we find correlates of the male phenotype in Usp9x brain-specific knockout mice, and further resolve loss of hippocampal-dependent learning and memory. CONCLUSIONS Our data demonstrate the involvement of USP9X variants in a distinctive neurodevelopmental and behavioral syndrome in male subjects and identify plausible mechanisms of pathogenesis centered on disrupted transforming growth factor β signaling and hippocampal function.
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Affiliation(s)
- Brett V Johnson
- University of Adelaide and Robinson Research Institute, Adelaide, Australia
| | - Raman Kumar
- University of Adelaide and Robinson Research Institute, Adelaide, Australia
| | - Sabrina Oishi
- School of Biomedical Sciences, The University of Queensland, Brisbane, Australia
| | - Suzy Alexander
- Queensland Brain Institute, The University of Queensland, Brisbane, Australia; Queensland Centre for Mental Health Research, Wacol, Queensland, Australia
| | - Maria Kasherman
- School of Biomedical Sciences, The University of Queensland, Brisbane, Australia; Griffith Institute for Drug Discovery, Griffith University, Brisbane, Australia
| | | | - Atma Ivancevic
- University of Adelaide and Robinson Research Institute, Adelaide, Australia; BioFrontiers Institute, University of Colorado Boulder, Boulder, Colorado
| | - Alison Gardner
- University of Adelaide and Robinson Research Institute, Adelaide, Australia
| | - Deepti Domingo
- University of Adelaide and Robinson Research Institute, Adelaide, Australia
| | - Mark Corbett
- University of Adelaide and Robinson Research Institute, Adelaide, Australia
| | - Euan Parnell
- Department of Physiology, Northwestern University Feinberg School of Medicine, Chicago, Illinois
| | - Sehyoun Yoon
- Department of Physiology, Northwestern University Feinberg School of Medicine, Chicago, Illinois
| | - Tracey Oh
- Department of Medical Genetics, British Columbia Women's Hospital and University of British Columbia, Vancouver, British Columbia, Canada
| | - Matthew Lines
- Children's Hospital of Eastern Ontario, Ottawa, Ontario, Canada
| | - Henrietta Lefroy
- Oxford Centre for Genomic Medicine, Oxford University Hospitals National Health Services Foundation Trust, Oxford, United Kingdom
| | - Usha Kini
- Oxford Centre for Genomic Medicine, Oxford University Hospitals National Health Services Foundation Trust, Oxford, United Kingdom
| | - Margot Van Allen
- Department of Medical Genetics, University of British Columbia, Vancouver, British Columbia, Canada
| | - Sabine Grønborg
- Center for Rare Diseases, Department of Pediatrics and Department of Clinical Genetics, University Hospital Copenhagen, Copenhagen, Denmark
| | - Sandra Mercier
- Service de Génétique Médicale, Centre Hospitalier Universitaire Nantes and l'Institut du Thorax, Institut National de la Santé et de la Recherche Médicale, Centre National de la Recherche Scientifique, Université de Nantes, Nantes, France
| | - Sébastien Küry
- Service de Génétique Médicale, Centre Hospitalier Universitaire Nantes and l'Institut du Thorax, Institut National de la Santé et de la Recherche Médicale, Centre National de la Recherche Scientifique, Université de Nantes, Nantes, France
| | - Stéphane Bézieau
- Service de Génétique Médicale, Centre Hospitalier Universitaire Nantes and l'Institut du Thorax, Institut National de la Santé et de la Recherche Médicale, Centre National de la Recherche Scientifique, Université de Nantes, Nantes, France
| | - Laurent Pasquier
- Service de Génétique Clinique, Centre de Référence Déficiences Intellectuelles de Causes Rares, Centre Hospitalier Universitaire Hôpital Sud, Rennes, France
| | - Martine Raynaud
- Centre Hospitalier Régional Universitaire de Tours, Service de Génétique, Unité Nixte de Recherche 1253, iBrain, Université de Tours, Institut National de la Santé et de la Recherche Médicale, Tours, France
| | - Alexandra Afenjar
- Groupe de Recherche Clinique No. 19, ConCer-LD, Département de Génétique, Assistance Publique-Hôpitaux de Paris, Hôpital Armand Trousseau, Centres de Référence Maladies Rares des Déficits Intellectuels de Causes Rares, Paris, France
| | - Thierry Billette de Villemeur
- Sorbonne Université, Groupe de Recherche Clinique No. 19, ConCer-LD, Neuropédiatrie, Centres de Référence Maladies Rares Neurogénétique, Institut National de la Santé et de la Recherche Médicale, Assistance Publique-Hôpitaux de Paris, Hôpital Armand Trousseau, Paris, France
| | - Boris Keren
- Hôpital de la Pitié-Salpêtrière, Département de Génétique, Paris, France
| | - Julie Désir
- Erasme University Hospital, Université Libre de Bruxelles, Brussels, Belgium
| | | | - Martina Marangoni
- Erasme University Hospital, Université Libre de Bruxelles, Brussels, Belgium
| | - Nicola Dikow
- Institute of Human Genetics, Heidelberg University, Heidelberg, Germany
| | - David A Koolen
- Department of Human Genetics, Radboud University Medical Center, Nijmegen, The Netherlands
| | - Peter M VanHasselt
- Department of Metabolic Diseases, University Medical Center Utrecht, Utrecht, The Netherlands
| | - Marjan Weiss
- Department of Clinical Genetics, Vrije Universiteit University Medical Center, Amsterdam, The Netherlands
| | - Petra Zwijnenburg
- Medical Genetics Unit, Hospital Pediátrico, Centro Hospitalar e Universitário de Coimbra, Coimbra, Portugal
| | - Joaquim Sa
- Medical Genetics Unit, Hospital Pediátrico, Centro Hospitalar e Universitário de Coimbra, Coimbra, Portugal
| | - Claudia Falcao Reis
- Medical Genetics Unit, Hospital Pediátrico, Centro Hospitalar e Universitário de Coimbra, Coimbra, Portugal
| | - Carlos López-Otín
- Departamento de Bioquímica y Biología Molecular, Instituto Universitário de Oncología del Principado de Asturias, Universidad de Oviedo, Oviedo, Spain; Centro de Investigación Biomédica en Red de Cáncer, Spain
| | - Olaya Santiago-Fernández
- Departamento de Bioquímica y Biología Molecular, Instituto Universitário de Oncología del Principado de Asturias, Universidad de Oviedo, Oviedo, Spain
| | | | - Anita Rauch
- Institute of Medical Genetics, University of Zurich, Schlieren, Switzerland
| | - Katharina Steindl
- Institute of Medical Genetics, University of Zurich, Schlieren, Switzerland
| | - Pascal Joset
- Institute of Medical Genetics, University of Zurich, Schlieren, Switzerland
| | - Amy Goldstein
- Children's Hospital of Philadelphia, Philadelphia, Pennsylvania
| | | | - Elena Infante
- Children's Hospital of Pittsburgh, Pittsburgh, Pennsylvania
| | - Elaine Zackai
- Children's Hospital of Philadelphia, Philadelphia, Pennsylvania
| | - Carey Mcdougall
- Children's Hospital of Philadelphia, Philadelphia, Pennsylvania
| | - Vinodh Narayanan
- Center for Rare Childhood Disorders, Translational Genomics Research Institute, Phoenix, Arizona
| | - Keri Ramsey
- Center for Rare Childhood Disorders, Translational Genomics Research Institute, Phoenix, Arizona
| | - Saadet Mercimek-Andrews
- Division of Clinical and Metabolic Genetics, Department of Pediatrics, University of Toronto, The Hospital for Sick Children, Toronto, Ontario, Canada
| | - Loren Pena
- Division of Human Genetics, Cincinnati Children's Hospital; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, Ohio
| | - Vandana Shashi
- Department of Pediatrics, Division of Medical Genetics, Duke University Medical Center, Durham, North Carolina
| | - Kelly Schoch
- Department of Pediatrics, Division of Medical Genetics, Duke University Medical Center, Durham, North Carolina
| | - Jennifer A Sullivan
- Department of Pediatrics, Division of Medical Genetics, Duke University Medical Center, Durham, North Carolina
| | - Filippo Pinto E Vairo
- Department of Clinical Genomics, Mayo Clinic, Rochester, Minnesota; Center for Individualized Medicine, Mayo Clinic, Rochester, Minnesota
| | - Pavel N Pichurin
- Department of Clinical Genomics, Mayo Clinic, Rochester, Minnesota
| | - Sarah A Ewing
- Department of Clinical Genomics, Mayo Clinic, Rochester, Minnesota
| | - Sarah S Barnett
- Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota
| | - Eric W Klee
- Department of Clinical Genomics, Mayo Clinic, Rochester, Minnesota
| | - M Scott Perry
- Jane and John Justin Neuroscience Center, Cook Children's Medical Center, Fort Worth, Texas
| | - Mary Kay Koenig
- Department of Pediatrics, University of Texas Medical School at Houston, Houston, Texas
| | - Catherine E Keegan
- Division of Genetics, Department of Pediatrics, University of Michigan, Ann Arbor, Michigan
| | - Jane L Schuette
- Division of Genetics, Department of Pediatrics, University of Michigan, Ann Arbor, Michigan
| | - Stephanie Asher
- Translational Medicine & Human Genetics, Hospital of the University of Pennsylvania, Philadelphia, Pennsylvania
| | - Yezmin Perilla-Young
- Division of Pediatric Genetics and Metabolism, University of North Carolina, Chapel Hill, North Carolina
| | - Laurie D Smith
- Division of Pediatric Genetics and Metabolism, University of North Carolina, Chapel Hill, North Carolina
| | | | - Elizabeth Bhoj
- Children's Hospital of Philadelphia, Philadelphia, Pennsylvania
| | - Paige Kaplan
- Children's Hospital of Philadelphia, Philadelphia, Pennsylvania
| | - Dong Li
- Children's Hospital of Philadelphia, Philadelphia, Pennsylvania
| | - Renske Oegema
- Department of Genetics, University Medical Center Utrecht, Utrecht, The Netherlands
| | - Ellen van Binsbergen
- Department of Genetics, University Medical Center Utrecht, Utrecht, The Netherlands
| | - Bert van der Zwaag
- Department of Genetics, University Medical Center Utrecht, Utrecht, The Netherlands
| | | | | | - Matthew Page
- Translational Medicine, UCB Pharma, Braine-l'Alleud, Belgium
| | | | - Angela E Lin
- Medical Genetics Unit, Mass General Hospital for Children, Boston, Massachusetts
| | - Marcie A Steeves
- Medical Genetics Unit, Mass General Hospital for Children, Boston, Massachusetts
| | | | - Mariëtte J V Hoffer
- Department of Clinical Genetics, Leiden University Medical Center, Leiden, The Netherlands
| | - Margot R F Reijnders
- Department of Clinical Genetics, Maastricht University Medical Center, Maastricht, The Netherlands
| | - Serwet Demirdas
- Department of Clinical Genetics, Erasmus University Medical Center, Rotterdam, The Netherlands
| | | | | | | | - Scott E Hickey
- Department of Pediatrics, The Ohio State University College of Medicine, Columbus, Ohio
| | - Christine Shieh
- David Geffen School of Medicine, University of California-Los Angeles, California
| | | | - John M Graham
- Department of Pediatrics, Cedars-Sinai Medical Center, Los Angeles, California
| | - Kamer Tezcan
- Department of Genetics, Kaiser Permanente, Sacramento, California
| | - G B Schaefer
- Section of Genetics and Metabolism, University of Arkansas for Medical Sciences, Little Rock, Arkansas
| | - Noelle R Danylchuk
- Department of Genetic Counseling, University of Arkansas for Medical Sciences, Little Rock, Arkansas
| | - Alexander Asamoah
- Department of Pediatrics, University of Louisville School of Medicine, Louisville, Kentucky
| | - Kelly E Jackson
- Department of Pediatrics, University of Louisville School of Medicine, Louisville, Kentucky
| | - Naomi Yachelevich
- Clinical Genetics Services, Department of Pediatrics, New York University School of Medicine, New York, New York
| | - Margaret Au
- Department of Pediatrics, Cedars-Sinai Medical Center, Los Angeles, California
| | - Luis A Pérez-Jurado
- University of Adelaide and Robinson Research Institute, Adelaide, Australia; Women's and Children's Hospital, Adelaide, Australia; South Australian Health and Medical Research Institute, Adelaide, South Australia; Hospital del Mar Research Institute, Network Research Centre for Rare Diseases and Universitat Pompeu Fabra, Barcelona, Spain
| | - Tjitske Kleefstra
- Department of Human Genetics, Radboud University Medical Center, Nijmegen, The Netherlands
| | - Peter Penzes
- Department of Physiology, Northwestern University Feinberg School of Medicine, Chicago, Illinois
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, Australia
| | - Thomas Burne
- Queensland Brain Institute, The University of Queensland, Brisbane, Australia; Queensland Centre for Mental Health Research, Wacol, Queensland, Australia
| | - Tyler Mark Pierson
- Department of Pediatrics, Cedars-Sinai Medical Center, Los Angeles, California; Department of Neurology and the Board of Governors Regenerative Medicine Institute, Cedars-Sinai Medical Center, Los Angeles, California
| | - Michael Piper
- School of Biomedical Sciences, The University of Queensland, Brisbane, Australia; Queensland Brain Institute, The University of Queensland, Brisbane, Australia
| | - Jozef Gécz
- University of Adelaide and Robinson Research Institute, Adelaide, Australia; South Australian Health and Medical Research Institute, Adelaide, South Australia.
| | - Lachlan A Jolly
- University of Adelaide and Robinson Research Institute, Adelaide, Australia.
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Burford MA, Carey CC, Hamilton DP, Huisman J, Paerl HW, Wood SA, Wulff A. Perspective: Advancing the research agenda for improving understanding of cyanobacteria in a future of global change. Harmful Algae 2020; 91:101601. [PMID: 32057347 DOI: 10.1016/j.hal.2019.04.004] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2019] [Accepted: 04/05/2019] [Indexed: 05/19/2023]
Abstract
Harmful cyanobacterial blooms (=cyanoHABs) are an increasing feature of many waterbodies throughout the world. Many bloom-forming species produce toxins, making them of particular concern for drinking water supplies, recreation and fisheries in waterbodies along the freshwater to marine continuum. Global changes resulting from human impacts, such as climate change, over-enrichment and hydrological alterations of waterways, are major drivers of cyanoHAB proliferation and persistence. This review advocates that to better predict and manage cyanoHABs in a changing world, researchers need to leverage studies undertaken to date, but adopt a more complex and definitive suite of experiments, observations, and models which can effectively capture the temporal scales of processes driven by eutrophication and a changing climate. Better integration of laboratory culture and field experiments, as well as whole system and multiple-system studies are needed to improve confidence in models predicting impacts of climate change and anthropogenic over-enrichment and hydrological modifications. Recent studies examining adaptation of species and strains to long-term perturbations, e.g. temperature and carbon dioxide (CO2) levels, as well as incorporating multi-species and multi-stressor approaches emphasize the limitations of approaches focused on single stressors and individual species. There are also emerging species of concern, such as toxic benthic cyanobacteria, for which the effects of global change are less well understood, and require more detailed study. This review provides approaches and examples of studies tackling the challenging issue of understanding how global changes will affect cyanoHABs, and identifies critical information needs for effective prediction and management.
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Affiliation(s)
- M A Burford
- Australian Rivers Institute, and School of Environment and Science, Griffith University, Queensland, 4111, Australia.
| | - C C Carey
- Department of Biological Sciences, Virginia Tech, Blacksburg, Virginia, 24061, USA
| | - D P Hamilton
- Australian Rivers Institute, and School of Environment and Science, Griffith University, Queensland, 4111, Australia
| | - J Huisman
- Department of Freshwater and Marine Ecology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, the Netherlands
| | - H W Paerl
- Institute of Marine Sciences, University of North Carolina at Chapel Hill, Morehead City, NC, 28557, USA; College of Environment, Hohai University, Nanjing, 210098, China
| | - S A Wood
- Cawthron Institute, Nelson, 7010, New Zealand
| | - A Wulff
- Department of Biological and Environmental Sciences, University of Gothenburg, Box 461, 40530, Gothenburg, Sweden
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25
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Yoon S, Parnell E, Kasherman M, Forrest MP, Myczek K, Premarathne S, Sanchez Vega MC, Piper M, Burne THJ, Jolly LA, Wood SA, Penzes P. Usp9X Controls Ankyrin-Repeat Domain Protein Homeostasis during Dendritic Spine Development. Neuron 2019; 105:506-521.e7. [PMID: 31813652 DOI: 10.1016/j.neuron.2019.11.003] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Revised: 09/26/2019] [Accepted: 11/01/2019] [Indexed: 12/19/2022]
Abstract
Variants in the ANK3 gene encoding ankyrin-G are associated with neurodevelopmental disorders, including intellectual disability, autism, schizophrenia, and bipolar disorder. However, no upstream regulators of ankyrin-G at synapses are known. Here, we show that ankyrin-G interacts with Usp9X, a neurodevelopmental-disorder-associated deubiquitinase (DUB). Usp9X phosphorylation enhances their interaction, decreases ankyrin-G polyubiquitination, and stabilizes ankyrin-G to maintain dendritic spine development. In forebrain-specific Usp9X knockout mice (Usp9X-/Y), ankyrin-G as well as multiple ankyrin-repeat domain (ANKRD)-containing proteins are transiently reduced at 2 but recovered at 12 weeks postnatally. However, reduced cortical spine density in knockouts persists into adulthood. Usp9X-/Y mice display increase of ankyrin-G ubiquitination and aggregation and hyperactivity. USP9X mutations in patients with intellectual disability and autism ablate its catalytic activity or ankyrin-G interaction. Our data reveal a DUB-dependent mechanism of ANKRD protein homeostasis, the impairment of which only transiently affects ANKRD protein levels but leads to persistent neuronal, behavioral, and clinical abnormalities.
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Affiliation(s)
- Sehyoun Yoon
- Department of Physiology, Northwestern University Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA
| | - Euan Parnell
- Department of Physiology, Northwestern University Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA
| | - Maria Kasherman
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia; The School of Biomedical Sciences, The University of Queensland, Brisbane, QLD 4072 Australia
| | - Marc P Forrest
- Department of Physiology, Northwestern University Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA
| | - Kristoffer Myczek
- Department of Physiology, Northwestern University Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA
| | - Susitha Premarathne
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | | | - Michael Piper
- The School of Biomedical Sciences, The University of Queensland, Brisbane, QLD 4072 Australia; Queensland Brain Institute, The University of Queensland, Brisbane, QLD 4072, Australia
| | - Thomas H J Burne
- Queensland Brain Institute, The University of Queensland, Brisbane, QLD 4072, Australia; Queensland Centre for Mental Health Research, The Park Centre for Mental Health, Wacol, QLD 4076, Australia
| | - Lachlan A Jolly
- Robinson Research Institute, School of Medicine, University of Adelaide, Adelaide, SA 5005, Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Peter Penzes
- Department of Physiology, Northwestern University Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA; Department of Psychiatry and Behavioral Sciences, Northwestern University Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA.
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26
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Li WB, Huber GM, Blok HP, Gaskell D, Horn T, Semenov-Tian-Shansky K, Pire B, Szymanowski L, Laget JM, Aniol K, Arrington J, Beise EJ, Boeglin W, Brash EJ, Breuer H, Chang CC, Christy ME, Ent R, Gibson EF, Holt RJ, Jin S, Jones MK, Keppel CE, Kim W, King PM, Kovaltchouk V, Liu J, Lolos GJ, Mack DJ, Margaziotis DJ, Markowitz P, Matsumura A, Meekins D, Miyoshi T, Mkrtchyan H, Niculescu I, Okayasu Y, Pentchev L, Perdrisat C, Potterveld D, Punjabi V, Reimer PE, Reinhold J, Roche J, Roos PG, Sarty A, Smith GR, Tadevosyan V, Tang LG, Tvaskis V, Volmer J, Vulcan W, Warren G, Wood SA, Xu C, Zheng X. Unique Access to u-Channel Physics: Exclusive Backward-Angle Omega Meson Electroproduction. Phys Rev Lett 2019; 123:182501. [PMID: 31763910 DOI: 10.1103/physrevlett.123.182501] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Revised: 10/01/2019] [Indexed: 06/10/2023]
Abstract
Backward-angle meson electroproduction above the resonance region, which was previously ignored, is anticipated to offer unique access to the three quark plus sea component of the nucleon wave function. In this Letter, we present the first complete separation of the four electromagnetic structure functions above the resonance region in exclusive ω electroproduction off the proton, ep→e^{'}pω, at central Q^{2} values of 1.60, 2.45 GeV^{2}, at W=2.21 GeV. The results of our pioneering -u≈-u_{min} study demonstrate the existence of a unanticipated backward-angle cross section peak and the feasibility of full L/T/LT/TT separations in this never explored kinematic territory. At Q^{2}=2.45 GeV^{2}, the observed dominance of σ_{T} over σ_{L}, is qualitatively consistent with the collinear QCD description in the near-backward regime, in which the scattering amplitude factorizes into a hard subprocess amplitude and baryon to meson transition distribution amplitudes: universal nonperturbative objects only accessible through backward-angle kinematics.
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Affiliation(s)
- W B Li
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
- College of William and Mary, Williamsburg, Virginia 23185, USA
| | - G M Huber
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - H P Blok
- VU University, NL-1081 HV Amsterdam, Netherlands
- NIKHEF, Postbus 41882, NL-1009 DB Amsterdam, Netherlands
| | - D Gaskell
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - T Horn
- Catholic University of America, Washington, D.C. 20064, USA
| | - K Semenov-Tian-Shansky
- National Research Centre Kurchatov Institute: Petersburg Nuclear Physics Institute, RU-188300 Gatchina, Russia
- Saint Petersburg National Research Academic University of the Russian Academy of Sciences, RU-194021 St. Petersburg, Russia
| | - B Pire
- CPHT, CNRS, École Polytechnique, IP Paris, 91128-Palaiseau, France
| | - L Szymanowski
- National Centre for Nuclear Research (NCBJ), 02-093 Warsaw, Poland
| | - J-M Laget
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - K Aniol
- California State University Los Angeles, Los Angeles, California 90032, USA
| | - J Arrington
- Physics Division, Argonne National Laboratory, Argonne, Illinois 60439, USA
| | - E J Beise
- University of Maryland, College Park, Maryland 20742, USA
| | - W Boeglin
- Florida International University, Miami, Florida 33119, USA
| | - E J Brash
- Christopher Newport University, Newport News, Virginia 23606, USA
| | - H Breuer
- University of Maryland, College Park, Maryland 20742, USA
| | - C C Chang
- University of Maryland, College Park, Maryland 20742, USA
| | - M E Christy
- Hampton University, Hampton, Virginia 23668, USA
| | - R Ent
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - E F Gibson
- California State University, Sacramento, California 95819, USA
| | - R J Holt
- Caltech, Pasadena, California 91125, USA
| | - S Jin
- Kyungpook National University, Daegu, 702-701, Republic of Korea
| | - M K Jones
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - C E Keppel
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
- Hampton University, Hampton, Virginia 23668, USA
| | - W Kim
- Kyungpook National University, Daegu, 702-701, Republic of Korea
| | - P M King
- Ohio University, Athens, Ohio 45701, USA
| | - V Kovaltchouk
- Ontario Tech University, Oshawa, Ontario L1G 0C5, Canada
| | - J Liu
- Shanghai Jiao Tong University, Shanghai 200240, China
| | - G J Lolos
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - D J Mack
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - D J Margaziotis
- California State University Los Angeles, Los Angeles, California 90032, USA
| | - P Markowitz
- Florida International University, Miami, Florida 33119, USA
| | - A Matsumura
- Tohoku University, Sendai, Miyagi 980-8578, Japan
| | - D Meekins
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - T Miyoshi
- Tohoku University, Sendai, Miyagi 980-8578, Japan
| | - H Mkrtchyan
- A.I. Alikhanyan National Science Laboratory, Yerevan 0036, Armenia
| | - I Niculescu
- James Madison University, Harrisonburg, Virginia 22807, USA
| | - Y Okayasu
- Tohoku University, Sendai, Miyagi 980-8578, Japan
| | - L Pentchev
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - C Perdrisat
- College of William and Mary, Williamsburg, Virginia 23187, USA
| | - D Potterveld
- Physics Division, Argonne National Laboratory, Argonne, Illinois 60439, USA
| | - V Punjabi
- Norfolk State University, Norfolk, Virginia 23504, USA
| | - P E Reimer
- Physics Division, Argonne National Laboratory, Argonne, Illinois 60439, USA
| | - J Reinhold
- Florida International University, Miami, Florida 33119, USA
| | - J Roche
- Ohio University, Athens, Ohio 45701, USA
| | - P G Roos
- University of Maryland, College Park, Maryland 20742, USA
| | - A Sarty
- Saint Mary's University, Halifax, Nova Scotia B3H 3C3, Canada
| | - G R Smith
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - V Tadevosyan
- A.I. Alikhanyan National Science Laboratory, Yerevan 0036, Armenia
| | - L G Tang
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
- Hampton University, Hampton, Virginia 23668, USA
| | - V Tvaskis
- NIKHEF, Postbus 41882, NL-1009 DB Amsterdam, Netherlands
- VU University, NL-1081 HV Amsterdam, Netherlands
| | - J Volmer
- VU University, NL-1081 HV Amsterdam, Netherlands
- DESY, Hamburg 22607, Germany
| | - W Vulcan
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - G Warren
- Pacific Northwest National Laboratory, Richland, Washington 99352, USA
| | - S A Wood
- Thomas Jefferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - C Xu
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - X Zheng
- University of Virginia, Charlottesville, Virginia 22904, USA
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Shackelford GE, Kelsey R, Sutherland WJ, Kennedy CM, Wood SA, Gennet S, Karp DS, Kremen C, Seavy NE, Jedlicka JA, Gravuer K, Kross SM, Bossio DA, Muñoz-Sáez A, LaHue DG, Garbach K, Ford LD, Felice M, Reynolds MD, Rao DR, Boomer K, LeBuhn G, Dicks LV. Evidence Synthesis as the Basis for Decision Analysis: A Method of Selecting the Best Agricultural Practices for Multiple Ecosystem Services. Front Sustain Food Syst 2019. [DOI: 10.3389/fsufs.2019.00083] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023] Open
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28
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Alowaidi F, Hashimi SM, Alqurashi N, Wood SA, Wei MQ. Cripto-1 overexpression in U87 glioblastoma cells activates MAPK, focal adhesion and ErbB pathways. Oncol Lett 2019; 18:3399-3406. [PMID: 31452820 DOI: 10.3892/ol.2019.10626] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2019] [Accepted: 06/17/2019] [Indexed: 12/14/2022] Open
Abstract
Discovering the underlying signalling pathways that control cancer cells is crucial for understanding their biology and to develop therapeutic regimens. Thus, the aim of the present study was to determine the effect of Cripto-1 on pathways controlling glioblastoma (GBM) cell function. To this end, changes in protein phosphorylation in cells overexpressing Cripto-1 were analysed using the Kyoto Encyclopedia of Genes and Genomes pathway analysis tool, as well as the Uniprot resource to identify the functions of Cripto-1-dependent phosphorylated proteins. This revealed that proteins affected by Cripto-1 overexpression are involved in multiple signalling pathways. The mitogen-activated protein kinase (MAPK), focal adhesion (FA) and ErbB pathways were found to be enriched by Cripto-1 overexpression with 35, 27 and 24% of pathway proteins phosphorylated, respectively. These pathways control important cellular processes in cancer cells that correlate with the observed functional changes described in earlier studies. More specifically, Cripto-1 may regulate MAPK cellular proliferation and survival pathways by activating epithelial growth factor receptor (EGFR; Ser1070) or fibroblast GFR1 (Tyr654). Its effect on cellular proliferation and survival could be mediated through Src (Tyr418), FA kinase (FAK; Tyr396), p130CAS (Tyr410), c-Jun (Ser63), Paxillin (PXN; Tyr118) and BCL2 (Thr69) of the FA pathway. Cripto-1 may also control cellular motility and invasion by activating Src (Tyr418), FAK (Tyr396) and PXN (Tyr118) of the FA pathway. However, Cripto-1 regulation of cellular invasion and migration might be not limited to the FA pathway, it may also control these cellular mechanisms through signalling via EGFR (Ser1070)/Her2 (Tyr877) to mediate the Src (Tyr418) and FAK (Tyr396) cascade activation of the ErbB signalling pathway. Angiogenesis could be mediated by Cripto-1 by activating c-Jun (Ser63) through EGFR (Ser1070)/Her2 (Tyr877) of the ErbB pathway. To conclude, the present study has augmented and enriched our current knowledge on the crucial roles that Cripto-1 may play in controlling different cellular mechanisms in GBM cells.
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Affiliation(s)
- Faisal Alowaidi
- Department of Pathology and Laboratory Medicine, College of Medicine and University Hospital, King Saud University, Riyadh 11461, Saudi Arabia
| | - Saeed M Hashimi
- Department of Basic Science, Biology Unit, Deanship of Preparatory Year and Supporting Studies, Imam Abdulrahman Bin Faisal University, Dammam 34212, Saudi Arabia
| | - Naif Alqurashi
- Department of Basic Science, Biology Unit, Deanship of Preparatory Year and Supporting Studies, Imam Abdulrahman Bin Faisal University, Dammam 34212, Saudi Arabia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, Queensland 4111, Australia
| | - Ming Q Wei
- Division of Molecular and Gene Therapies, School of Medical Science, Griffith University, Gold Coast, Queensland 4222, Australia
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29
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Albayrak I, Mamyan V, Christy ME, Ahmidouch A, Arrington J, Asaturyan A, Bodek A, Bosted P, Bradford R, Brash E, Bruell A, Butuceanu C, Coleman SJ, Commisso M, Connell SH, Dalton MM, Danagoulian S, Daniel A, Day DB, Dhamija S, Dunne J, Dutta D, Ent R, Gaskell D, Gasparian A, Gran R, Horn T, Huang L, Huber GM, Jayalath C, Johnson M, Jones MK, Kalantarians N, Liyanage A, Keppel CE, Kinney E, Li Y, Malace S, Manly S, Markowitz P, Maxwell J, Mbianda NN, McFarland KS, Meziane M, Meziani ZE, Mills GB, Mkrtchyan H, Mkrtchyan A, Mulholland J, Nelson J, Niculescu G, Niculescu I, Pentchev L, Puckett A, Punjabi V, Qattan IA, Reimer PE, Reinhold J, Rodriguez VM, Rondon-Aramayo O, Sakuda M, Sakumoto WK, Segbefia E, Seva T, Sick I, Slifer K, Smith GR, Steinman J, Solvignon P, Tadevosyan V, Tajima S, Tvaskis V, Vulcan WF, Walton T, Wesselmann FR, Wood SA, Ye Z. Measurements of Nonsinglet Moments of the Nucleon Structure Functions and Comparison to Predictions from Lattice QCD for Q^{2}=4 GeV^{2}. Phys Rev Lett 2019; 123:022501. [PMID: 31386522 DOI: 10.1103/physrevlett.123.022501] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2018] [Revised: 04/10/2019] [Indexed: 06/10/2023]
Abstract
We present extractions of the nucleon nonsinglet moments utilizing new precision data on the deuteron F_{2} structure function at large Bjorken-x determined via the Rosenbluth separation technique at Jefferson Lab Experimental Hall C. These new data are combined with a complementary set of data on the proton previously measured in Hall C at similar kinematics and world datasets on the proton and deuteron at lower x measured at SLAC and CERN. The new Jefferson Lab data provide coverage of the upper third of the x range, crucial for precision determination of the higher moments. In contrast to previous extractions, these moments have been corrected for nuclear effects in the deuteron using a new global fit to the deuteron and proton data. The obtained experimental moments represent an order of magnitude improvement in precision over previous extractions using high x data. Moreover, recent exciting developments in lattice QCD calculations provide a first ever comparison of these new experimental results with calculations of moments carried out at the physical pion mass, as well as a new approach that first calculates the quark distributions directly before determining moments.
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Affiliation(s)
- I Albayrak
- Hampton University, Hampton, Virginia 23668, USA
- Catholic University of America, Washington, DC 20064, USA
| | - V Mamyan
- University of Chicago, Chicago, Illinois 60637, USA
| | - M E Christy
- Hampton University, Hampton, Virginia 23668, USA
| | - A Ahmidouch
- North Carolina A&T State University, Greensboro, North Carolina 27411, USA
| | - J Arrington
- Argonne National Laboratory, Argonne, Illinois 60439, USA
| | - A Asaturyan
- Yerevan Physics Institute, Yerevan 0036, Armenia
| | - A Bodek
- Department of Physics and Astronomy, University of Rochester, Rochester, New York 14627, USA
| | - P Bosted
- Department of Physics, College of William & Mary, Williamsburg, Virginia 23187, USA
| | - R Bradford
- Argonne National Laboratory, Argonne, Illinois 60439, USA
| | - E Brash
- Christopher Newport University, Newport News, Virginia 23606, USA
| | - A Bruell
- DFG, German Research Foundation, Bonn 51170, Germany
| | - C Butuceanu
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - S J Coleman
- Department of Physics, College of William & Mary, Williamsburg, Virginia 23187, USA
| | - M Commisso
- University of Virginia, Charlottesville, Virginia 22904, USA
| | - S H Connell
- University of Johannesburg, Auckland Park 2006, Johannesburg, South Africa
| | - M M Dalton
- University of Virginia, Charlottesville, Virginia 22904, USA
| | - S Danagoulian
- North Carolina A&T State University, Greensboro, North Carolina 27411, USA
| | - A Daniel
- University of Houston, Houston, Texas 77004, USA
| | - D B Day
- University of Virginia, Charlottesville, Virginia 22904, USA
| | - S Dhamija
- Florida International University, Miami, Florida 33199, USA
| | - J Dunne
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - D Dutta
- Mississippi State University, Mississippi State, Mississippi 39762, USA
| | - R Ent
- Thomas Jeferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - D Gaskell
- Thomas Jeferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - A Gasparian
- North Carolina A&T State University, Greensboro, North Carolina 27411, USA
| | - R Gran
- Department of Physics, University of Minnesota-Duluth, Duluth, Minnesota 55812, USA
| | - T Horn
- Catholic University of America, Washington, DC 20064, USA
| | - Liting Huang
- Hampton University, Hampton, Virginia 23668, USA
| | - G M Huber
- University of Regina, Regina, Saskatchewan S4S 0A2, Canada
| | - C Jayalath
- Hampton University, Hampton, Virginia 23668, USA
| | - M Johnson
- Argonne National Laboratory, Argonne, Illinois 60439, USA
- Northwestern University, Evanston, Illinois 60208, USA
| | - M K Jones
- Thomas Jeferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - N Kalantarians
- Virginia Union University, Richmond, Virginia 23220, USA
| | - A Liyanage
- Hampton University, Hampton, Virginia 23668, USA
| | - C E Keppel
- Thomas Jeferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - E Kinney
- University of Colorado, Boulder, Colorado 80309, USA
| | - Y Li
- Hampton University, Hampton, Virginia 23668, USA
| | - S Malace
- Duke University, Department of Physics, Box 90305, Durham, North Carolina 27708
| | - S Manly
- Department of Physics and Astronomy, University of Rochester, Rochester, New York 14627, USA
| | - P Markowitz
- Florida International University, Miami, Florida 33199, USA
| | - J Maxwell
- University of Virginia, Charlottesville, Virginia 22904, USA
| | - N N Mbianda
- University of Johannesburg, Auckland Park 2006, Johannesburg, South Africa
| | - K S McFarland
- Department of Physics and Astronomy, University of Rochester, Rochester, New York 14627, USA
| | - M Meziane
- Department of Physics, College of William & Mary, Williamsburg, Virginia 23187, USA
| | - Z E Meziani
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
| | - G B Mills
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | - H Mkrtchyan
- Yerevan Physics Institute, Yerevan 0036, Armenia
| | - A Mkrtchyan
- Yerevan Physics Institute, Yerevan 0036, Armenia
| | - J Mulholland
- University of Virginia, Charlottesville, Virginia 22904, USA
| | - J Nelson
- Department of Physics, College of William & Mary, Williamsburg, Virginia 23187, USA
| | - G Niculescu
- James Madison University, Harrisonburg, Virginia 22801, USA
| | - I Niculescu
- James Madison University, Harrisonburg, Virginia 22801, USA
| | - L Pentchev
- Department of Physics, College of William & Mary, Williamsburg, Virginia 23187, USA
| | - A Puckett
- University of Connecticut, Storrs, Connecticut 06269, USA
| | - V Punjabi
- Norfolk State University, Norfolk, Virginia 23504, USA
| | - I A Qattan
- Khalifa University of Science and Technology, Abu Dhabi 127788, United Arab Emirates
| | - P E Reimer
- Argonne National Laboratory, Argonne, Illinois 60439, USA
| | - J Reinhold
- Florida International University, Miami, Florida 33199, USA
| | | | | | - M Sakuda
- High Energy Accelerator Research Organization (KEK), Tsukuba, Ibaraki 305-0801, Japan
| | - W K Sakumoto
- Department of Physics and Astronomy, University of Rochester, Rochester, New York 14627, USA
| | - E Segbefia
- Hampton University, Hampton, Virginia 23668, USA
| | - T Seva
- University of Zagreb, Zagreb 10000, Croatia
| | - I Sick
- University of Basel, CH-4056 Basel, Switzerland
| | - K Slifer
- University of New Hampshire, Durham, New Hampshire 03824, USA
| | - G R Smith
- Thomas Jeferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - J Steinman
- Department of Physics and Astronomy, University of Rochester, Rochester, New York 14627, USA
| | - P Solvignon
- Argonne National Laboratory, Argonne, Illinois 60439, USA
| | - V Tadevosyan
- Yerevan Physics Institute, Yerevan 0036, Armenia
| | - S Tajima
- University of Virginia, Charlottesville, Virginia 22904, USA
| | - V Tvaskis
- University of Winnipeg, Winnipeg, Manitoba R3B 2E9, Canada
| | - W F Vulcan
- Thomas Jeferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - T Walton
- Hampton University, Hampton, Virginia 23668, USA
| | | | - S A Wood
- Thomas Jeferson National Accelerator Facility, Newport News, Virginia 23606, USA
| | - Zhihong Ye
- Hampton University, Hampton, Virginia 23668, USA
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30
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Alowaidi F, Hashimi SM, Nguyen M, Meshram M, Alqurashi N, Cavanagh BL, Bellette B, Ivanovski S, Meedenyia A, Wood SA. Investigating the role of CRIPTO-1 (TDGF-1) in glioblastoma multiforme U87 cell line. J Cell Biochem 2019; 120:7412-7427. [PMID: 30426531 DOI: 10.1002/jcb.28015] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2018] [Accepted: 10/10/2018] [Indexed: 01/24/2023]
Abstract
Cripto-1 has been implicated in a number of human cancers. Although there is high potential for a role of Cripto-1 in glioblastoma multiforme (GBM) pathogenesis and progression, few studies have tried to define its role in GBM. These studies were limited in that Cripto-1 expression was not studied in detail in relation to markers of cancer initiation and progression. Therefore, these correlative studies allowed limited interpretation of Criptos-1's effect on the various aspects of GBM development using the U87 GBM cell line. In this study, we sought to delineate the role of Cripto-1 in facilitating pathogenesis, stemness, proliferation, invasion, migration and angiogenesis in GBM. Our findings show that upon overexpressing Cripto-1 in U87 GBM cells, the stemness markers Nanog, Oct4, Sox2, and CD44 increased expression. Similarly, an increase in Ki67 was observed demonstrating Cripto-1's potential to induce cellular proliferation. Likewise, we report a novel finding that increased expression of the markers of migration and invasion, Vimentin and Twist, correlated with upregulation of Cripto-1. Moreover, Cripto-1 exposure led to VEGFR-2 overexpression along with higher tube formation under conditions promoting endothelial growth. Taken together our results support a role for Cripto-1 in the initiation, development, progression, and maintenance of GBM pathogenesis. The data presented here are also consistent with a role for Cripto-1 in the re-growth and invasive growth in GBM. This highlights its potential use as a predictive and diagnostic marker in GBM as well as a therapeutic target.
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Affiliation(s)
- Faisal Alowaidi
- Department of Pathology and Laboratory Medicine, College of Medicine and University Hospitals, King Saud University, Riyadh, Saudi Arabia.,Menzies Health Institute Queensland, School of Medical Science, Griffith University, Gold Coast, Queensland, Australia
| | - Saeed M Hashimi
- Department of Basic Science, Biology Unit, Deanship of Preparatory Year and Supporting studies, Imam Abdulrahman Bin Faisal University, Dammam, Saudi Arabia
| | - Maria Nguyen
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Mallika Meshram
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Naif Alqurashi
- Department of Basic Science, Biology Unit, Deanship of Preparatory Year and Supporting studies, Imam Abdulrahman Bin Faisal University, Dammam, Saudi Arabia
| | - Brenton L Cavanagh
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Bernadette Bellette
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Saso Ivanovski
- Menzies Health Institute Queensland, School of Medical Science, Griffith University, Gold Coast, Queensland, Australia
| | - Adrian Meedenyia
- Menzies Health Institute Queensland, School of Medical Science, Griffith University, Gold Coast, Queensland, Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
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31
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Dzierlenga MW, Yoon M, Wania F, Ward PL, Armitage JM, Wood SA, Clewell HJ, Longnecker MP. Quantitative bias analysis of the association of type 2 diabetes mellitus with 2,2',4,4',5,5'-hexachlorobiphenyl (PCB-153). Environ Int 2019; 125:291-299. [PMID: 30735960 DOI: 10.1016/j.envint.2018.12.036] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2018] [Revised: 12/14/2018] [Accepted: 12/17/2018] [Indexed: 06/09/2023]
Abstract
An association between serum concentrations of persistent organic pollutants (POPs), such as 2,2',4,4',5,5'-hexachlorobiphenyl (PCB-153), and risk of type 2 diabetes mellitus (T2DM) has been reported. Conditional on body mass index (BMI) and waist circumference (WC), a higher serum PCB-153 concentration may be a marker of T2DM risk because it reflects other aspects of obesity that are related to T2DM risk and to PCB-153 clearance. To estimate the amount of residual confounding by other aspects of obesity, we performed a quantitative bias analysis on the results of a specific study. A physiologically-based pharmacokinetic (PBPK) model was developed to predict serum levels of PCB-153 for a simulated population. T2DM status was assigned to simulated subjects based on age, sex, BMI, WC, and visceral adipose tissue mass. The distributions of age, BMI, WC, and T2DM prevalence of the simulated population were tailored to closely match the target population. Analysis of the simulated data showed that a small part of the observed association appeared to be due to residual confounding. For example, the predicted odds ratio of T2DM that would have been obtained had the results been adjusted for visceral adipose tissue mass, for the ≥90th percentile of PCB-153 serum concentration, was 6.60 (95% CI 2.46-17.74), compared with an observed odds ratio of 7.13 (95% CI 2.65-19.13). Our results predict that the association between PCB-153 and risk of type 2 diabetes mellitus would not be substantially changed by additional adjustment for visceral adipose tissue mass in epidemiologic analyses. Confirmation of these predictions with longitudinal data would be reassuring.
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Affiliation(s)
| | - M Yoon
- ScitoVation, LLC, Research Triangle Park, NC, USA
| | - F Wania
- University of Toronto Scarborough, Toronto, Ontario, Canada
| | - P L Ward
- Ramboll, Research Triangle Park, NC, USA
| | - J M Armitage
- University of Toronto Scarborough, Toronto, Ontario, Canada
| | - S A Wood
- University of Toronto Scarborough, Toronto, Ontario, Canada
| | - H J Clewell
- ScitoVation, LLC, Research Triangle Park, NC, USA
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32
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Bradford MA, McCulley RL, Crowther TW, Oldfield EE, Wood SA, Fierer N. Cross-biome patterns in soil microbial respiration predictable from evolutionary theory on thermal adaptation. Nat Ecol Evol 2019; 3:223-231. [PMID: 30643243 DOI: 10.1038/s41559-018-0771-4] [Citation(s) in RCA: 50] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2018] [Accepted: 11/26/2018] [Indexed: 11/09/2022]
Abstract
Climate warming may stimulate microbial metabolism of soil carbon, causing a carbon-cycle-climate feedback whereby carbon is redistributed from the soil to atmospheric CO2. The magnitude of this feedback is uncertain, in part because warming-induced shifts in microbial physiology and/or community composition could retard or accelerate soil carbon losses. Here, we measure microbial respiration rates for soils collected from 22 sites in each of 3 years, at locations spanning boreal to tropical climates. Respiration was measured in the laboratory with standard temperatures, moisture and excess carbon substrate, to allow physiological and community effects to be detected independent of the influence of these abiotic controls. Patterns in respiration for soils collected across the climate gradient are consistent with evolutionary theory on physiological responses that compensate for positive effects of temperature on metabolism. Respiration rates per unit microbial biomass were as much as 2.6 times higher for soils sampled from sites with a mean annual temperature of -2.0 versus 21.7 °C. Subsequent 100-d incubations suggested differences in the plasticity of the thermal response among microbial communities, with communities sampled from sites with higher mean annual temperature having a more plastic response. Our findings are consistent with adaptive metabolic responses to contrasting thermal regimes that are also observed in plants and animals. These results may help build confidence in soil-carbon-climate feedback projections by improving understanding of microbial processes represented in biogeochemical models.
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Affiliation(s)
- Mark A Bradford
- School of Forestry and Environmental Studies, Yale University, New Haven, CT, USA.
| | - Rebecca L McCulley
- Department of Plant and Soil Science, University of Kentucky, Lexington, KY, USA
| | | | - Emily E Oldfield
- School of Forestry and Environmental Studies, Yale University, New Haven, CT, USA
| | - Stephen A Wood
- School of Forestry and Environmental Studies, Yale University, New Haven, CT, USA.,The Nature Conservancy, Arlington, VA, USA
| | - Noah Fierer
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, USA.,Cooperative Institute for Research in Environmental Sciences, University of Colorado, Boulder, CO, USA
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33
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Mazraati Tajabadi F, Pouwer RH, Liu M, Dashti Y, Campitelli MR, Murtaza M, Mellick GD, Wood SA, Jenkins ID, Quinn RJ. Design and Synthesis of Natural Product Inspired Libraries Based on the Three-Dimensional (3D) Cedrane Scaffold: Toward the Exploration of 3D Biological Space. J Med Chem 2018; 61:6609-6628. [DOI: 10.1021/acs.jmedchem.8b00194] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
| | - Rebecca H. Pouwer
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Miaomiao Liu
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Yousef Dashti
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Marc R. Campitelli
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Mariyam Murtaza
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - George D. Mellick
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Stephen A. Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Ian D. Jenkins
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
| | - Ronald J. Quinn
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia
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34
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Khan OM, Carvalho J, Spencer-Dene B, Mitter R, Frith D, Snijders AP, Wood SA, Behrens A. The deubiquitinase USP9X regulates FBW7 stability and suppresses colorectal cancer. J Clin Invest 2018; 128:1326-1337. [PMID: 29346117 PMCID: PMC5873885 DOI: 10.1172/jci97325] [Citation(s) in RCA: 71] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2017] [Accepted: 01/16/2018] [Indexed: 01/03/2023] Open
Abstract
The tumor suppressor FBW7 targets oncoproteins such as c-MYC for ubiquitylation and is mutated in several human cancers. We noted that in a substantial percentage of colon cancers, FBW7 protein is undetectable despite the presence of FBW7 mRNA. To understand the molecular mechanism of FBW7 regulation in these cancers, we employed proteomics and identified the deubiquitinase (DUB) USP9X as an FBW7 interactor. USP9X antagonized FBW7 ubiquitylation, and Usp9x deletion caused Fbw7 destabilization. Mice lacking Usp9x in the gut showed reduced secretory cell differentiation and increased progenitor proliferation, phenocopying Fbw7 loss. In addition, Usp9x inactivation impaired intestinal regeneration and increased tumor burden in colitis-associated intestinal cancer. c-Myc heterozygosity abrogated increased progenitor proliferation and tumor burden in Usp9x-deficient mice, suggesting that Usp9x suppresses tumor formation by regulating Fbw7 protein stability and thereby reducing c-Myc. Thus, we identify a tumor suppressor mechanism in the mammalian intestine that arises from the posttranslational regulation of FBW7 by USP9X independent of somatic FBW7 mutations.
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Affiliation(s)
| | | | | | | | - David Frith
- Proteomics, The Francis Crick Institute, London, United Kingdom
| | | | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Nathan, Queensland, Australia
| | - Axel Behrens
- Adult Stem Cell Laboratory.,King's College London, Faculty of Life Sciences and Medicine, Guy's Campus, London, United Kingdom
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35
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Affiliation(s)
- Stephen A. Wood
- Yale School of Forestry & Environmental Studies New Haven CT USA
- The Nature Conservancy Arlington VA USA
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36
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Garreau A, Blaize G, Argenty J, Rouquié N, Tourdès A, Wood SA, Saoudi A, Lesourne R. Grb2-Mediated Recruitment of USP9X to LAT Enhances Themis Stability following Thymic Selection. J Immunol 2017; 199:2758-2766. [PMID: 28877990 DOI: 10.4049/jimmunol.1700566] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2017] [Accepted: 08/10/2017] [Indexed: 11/19/2022]
Abstract
Themis is a new component of the TCR signaling machinery that plays a critical role during T cell development. The positive selection of immature CD4+CD8+ double-positive thymocytes and their commitment to the CD4+CD8- single-positive stage are impaired in Themis-/- mice, suggesting that Themis might be important to sustain TCR signals during these key developmental processes. However, the analysis of Themis mRNA levels revealed that Themis gene expression is rapidly extinguished during positive selection. We show in this article that Themis protein expression is increased in double-positive thymocytes undergoing positive selection and is sustained in immature single-positive thymocytes, despite the strong decrease in Themis mRNA levels in these subsets. We found that Themis stability is controlled by the ubiquitin-specific protease USP9X, which removes ubiquitin K48-linked chains on Themis following TCR engagement. Biochemical analyses indicate that USP9X binds directly to the N-terminal CABIT domain of Themis and indirectly to the adaptor protein Grb2, with the latter interaction enabling recruitment of Themis/USP9X complexes to LAT, thereby sustaining Themis expression following positive selection. Together, these data suggest that TCR-mediated signals enhance Themis stability upon T cell development and identify USP9X as a key regulator of Themis protein turnover.
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Affiliation(s)
- Anne Garreau
- Centre de Physiopathologie de Toulouse Purpan, Université de Toulouse, CNRS, INSERM, UPS, 31024 Toulouse, France; and
| | - Gaëtan Blaize
- Centre de Physiopathologie de Toulouse Purpan, Université de Toulouse, CNRS, INSERM, UPS, 31024 Toulouse, France; and
| | - Jérémy Argenty
- Centre de Physiopathologie de Toulouse Purpan, Université de Toulouse, CNRS, INSERM, UPS, 31024 Toulouse, France; and
| | - Nelly Rouquié
- Centre de Physiopathologie de Toulouse Purpan, Université de Toulouse, CNRS, INSERM, UPS, 31024 Toulouse, France; and
| | - Audrey Tourdès
- Centre de Physiopathologie de Toulouse Purpan, Université de Toulouse, CNRS, INSERM, UPS, 31024 Toulouse, France; and
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Brisbane, Queensland 4111, Australia
| | - Abdelhadi Saoudi
- Centre de Physiopathologie de Toulouse Purpan, Université de Toulouse, CNRS, INSERM, UPS, 31024 Toulouse, France; and
| | - Renaud Lesourne
- Centre de Physiopathologie de Toulouse Purpan, Université de Toulouse, CNRS, INSERM, UPS, 31024 Toulouse, France; and
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37
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Toloczko A, Guo F, Yuen HF, Wen Q, Wood SA, Ong YS, Chan PY, Shaik AA, Gunaratne J, Dunne MJ, Hong W, Chan SW. Deubiquitinating Enzyme USP9X Suppresses Tumor Growth via LATS Kinase and Core Components of the Hippo Pathway. Cancer Res 2017; 77:4921-4933. [PMID: 28720576 DOI: 10.1158/0008-5472.can-16-3413] [Citation(s) in RCA: 59] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2016] [Revised: 05/05/2017] [Accepted: 07/07/2017] [Indexed: 12/25/2022]
Abstract
The core LATS kinases of the Hippo tumor suppressor pathway phosphorylate and inhibit the downstream transcriptional co-activators YAP and TAZ, which are implicated in various cancers. Recent studies have identified various E3 ubiquitin ligases that negatively regulate the Hippo pathway via ubiquitination, yet few deubiquitinating enzymes (DUB) have been implicated. In this study, we report the DUB USP9X is an important regulator of the core kinases of this pathway. USP9X interacted strongly with LATS kinase and to a lesser extent with WW45, KIBRA, and Angiomotin, and LATS co-migrated exclusively with USP9X during gel filtration chromatography analysis. Knockdown of USP9X significantly downregulated and destabilized LATS and resulted in enhanced nuclear translocation of YAP and TAZ, accompanied with activation of their target genes. In the absence of USP9X, cells exhibited an epithelial-to-mesenchymal transition phenotype, acquired anchorage-independent growth in soft agar, and led to enlarged, disorganized, three-dimensional acini. YAP/TAZ target gene activation in response to USP9X knockdown was suppressed by knockdown of YAP, TAZ, and TEAD2. Deletion of USP9X in mouse embryonic fibroblasts resulted in significant downregulation of LATS. Furthermore, USP9X protein expression correlated positively with LATS but negatively with YAP/TAZ in pancreatic cancer tissues as well as pancreatic and breast cancer cell lines. Overall, these results strongly indicate that USP9X potentiates LATS kinase to suppress tumor growth. Cancer Res; 77(18); 4921-33. ©2017 AACR.
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Affiliation(s)
- Aleksandra Toloczko
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore
- School of Medical Sciences, Faculty of Biology, Medicine and Health, University of Manchester, United Kingdom
| | - Fusheng Guo
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore
| | - Hiu-Fung Yuen
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore
| | - Qing Wen
- Centre for Public Health and Centre for Cancer Research & Cell Biology, School of Medicine, Dentistry and Biomedical Sciences, Queen's University Belfast, Belfast, United Kingdom
| | - Stephen A Wood
- Eskitis Institute for Drug Discovery, Griffith University, Queensland, Australia
| | - Yan Shan Ong
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore
| | - Pei Yi Chan
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore
| | - Asfa Alli Shaik
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore
| | - Jayantha Gunaratne
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore
| | - Mark J Dunne
- School of Medical Sciences, Faculty of Biology, Medicine and Health, University of Manchester, United Kingdom
| | - Wanjin Hong
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore.
| | - Siew Wee Chan
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Republic of Singapore.
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38
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Kishi K, Uchida A, Takase HM, Suzuki H, Kurohmaru M, Tsunekawa N, Kanai-Azuma M, Wood SA, Kanai Y. Spermatogonial deubiquitinase USP9X is essential for proper spermatogenesis in mice. Reproduction 2017; 154:135-143. [PMID: 28559472 DOI: 10.1530/rep-17-0184] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2017] [Revised: 05/23/2017] [Accepted: 05/26/2017] [Indexed: 12/12/2022]
Abstract
USP9X (ubiquitin-specific peptidase 9, X chromosome) is the mammalian orthologue of Drosophila deubiquitinase fat facets that was previously shown to regulate the maintenance of the germ cell lineage partially through stabilizing Vasa, one of the widely conserved factors crucial for gametogenesis. Here, we demonstrate that USP9X is expressed in the gonocytes and spermatogonia in mouse testes from newborn to adult stages. By using Vasa-Cre mice, germ cell-specific conditional deletion of Usp9x from the embryonic stage showed no abnormality in the developing testes by 1 week and no appreciable defects in the undifferentiated and differentiating spermatogonia at postnatal and adult stages. Interestingly, after 2 weeks, Usp9x-null spermatogenic cells underwent apoptotic cell death at the early spermatocyte stage, and then, caused subsequent aberrant spermiogenesis, which resulted in a complete infertility of Usp9x conditional knockout male mice. These data provide the first evidence of the crucial role of the spermatogonial USP9X during transition from the mitotic to meiotic phases and/or maintenance of early meiotic phase in Usp9x conditional knockout testes.
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Affiliation(s)
- Kasane Kishi
- Department of Veterinary AnatomyThe University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Aya Uchida
- Department of Veterinary AnatomyThe University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Hinako M Takase
- Department of Experimental Animal Model for Human DiseaseCentre for Experimental Animals, Tokyo Medical and Dental University, Bunkyo-ku, Tokyo, Japan
| | - Hitomi Suzuki
- Department of Experimental Animal Model for Human DiseaseCentre for Experimental Animals, Tokyo Medical and Dental University, Bunkyo-ku, Tokyo, Japan
| | - Masamichi Kurohmaru
- Department of Veterinary AnatomyThe University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Naoki Tsunekawa
- Department of Veterinary AnatomyThe University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Masami Kanai-Azuma
- Department of Experimental Animal Model for Human DiseaseCentre for Experimental Animals, Tokyo Medical and Dental University, Bunkyo-ku, Tokyo, Japan
| | - Stephen A Wood
- Griffith Institute for Drug DiscoveryGriffith University, Brisbane, Queensland, Australia
| | - Yoshiakira Kanai
- Department of Veterinary AnatomyThe University of Tokyo, Bunkyo-ku, Tokyo, Japan
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39
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Bridges CR, Tan MC, Premarathne S, Nanayakkara D, Bellette B, Zencak D, Domingo D, Gecz J, Murtaza M, Jolly LA, Wood SA. USP9X deubiquitylating enzyme maintains RAPTOR protein levels, mTORC1 signalling and proliferation in neural progenitors. Sci Rep 2017; 7:391. [PMID: 28341829 PMCID: PMC5427856 DOI: 10.1038/s41598-017-00149-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2015] [Accepted: 02/13/2017] [Indexed: 12/27/2022] Open
Abstract
USP9X, is highly expressed in neural progenitors and, essential for neural development in mice. In humans, mutations in USP9X are associated with neurodevelopmental disorders. To understand USP9X’s role in neural progenitors, we studied the effects of altering its expression in both the human neural progenitor cell line, ReNcell VM, as well as neural stem and progenitor cells derived from Nestin-cre conditionally deleted Usp9x mice. Decreasing USP9X resulted in ReNcell VM cells arresting in G0 cell cycle phase, with a concomitant decrease in mTORC1 signalling, a major regulator of G0/G1 cell cycle progression. Decreased mTORC1 signalling was also observed in Usp9x-null neurospheres and embryonic mouse brains. Further analyses revealed, (i) the canonical mTORC1 protein, RAPTOR, physically associates with Usp9x in embryonic brains, (ii) RAPTOR protein level is directly proportional to USP9X, in both loss- and gain-of-function experiments in cultured cells and, (iii) USP9X deubiquitlyating activity opposes the proteasomal degradation of RAPTOR. EdU incorporation assays confirmed Usp9x maintains the proliferation of neural progenitors similar to Raptor-null and rapamycin-treated neurospheres. Interestingly, loss of Usp9x increased the number of sphere-forming cells consistent with enhanced neural stem cell self-renewal. To our knowledge, USP9X is the first deubiquitylating enzyme shown to stabilize RAPTOR.
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Affiliation(s)
- Caitlin R Bridges
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Men-Chee Tan
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Susitha Premarathne
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Devathri Nanayakkara
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Bernadette Bellette
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Dusan Zencak
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Deepti Domingo
- School of Molecular and Biomedical Science, University of Adelaide, Adelaide, South Australia, Australia
| | - Jozef Gecz
- School of Molecular and Biomedical Science, University of Adelaide, Adelaide, South Australia, Australia.,Robinson Institute, School of Paediatrics and Reproductive Health, University of Adelaide, Adelaide, South Australia, Australia
| | - Mariyam Murtaza
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia
| | - Lachlan A Jolly
- Robinson Institute, School of Paediatrics and Reproductive Health, University of Adelaide, Adelaide, South Australia, Australia.
| | - Stephen A Wood
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, Queensland, Australia.
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Vitale AM, Matigian NA, Cristino AS, Nones K, Ravishankar S, Bellette B, Fan Y, Wood SA, Wolvetang E, Mackay-Sim A. DNA methylation in schizophrenia in different patient-derived cell types. NPJ Schizophr 2017; 3:6. [PMID: 28560252 PMCID: PMC5441549 DOI: 10.1038/s41537-016-0006-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/13/2016] [Revised: 11/11/2016] [Accepted: 12/02/2016] [Indexed: 12/21/2022]
Abstract
DNA methylation of gene promoter regions represses transcription and is a mechanism via which environmental risk factors could affect cells during development in individuals at risk for schizophrenia. We investigated DNA methylation in patient-derived cells that might shed light on early development in schizophrenia. Induced pluripotent stem cells may reflect a “ground state” upon which developmental and environmental influences would be minimal. Olfactory neurosphere-derived cells are an adult-derived neuro-ectodermal stem cell modified by developmental and environmental influences. Fibroblasts provide a non-neural control for life-long developmental and environmental influences. Genome-wide profiling of DNA methylation and gene expression was done in these three cell types from the same individuals. All cell types had distinct, statistically significant schizophrenia-associated differences in DNA methylation and linked gene expression, with Gene Ontology analysis showing that the differentially affected genes clustered in networks associated with cell growth, proliferation, and movement, functions known to be affected in schizophrenia patient-derived cells. Only five gene loci were differentially methylated in all three cell types. Understanding the role of epigenetics in cell function in the brain in schizophrenia is likely to be complicated by similar cell type differences in intrinsic and environmentally induced epigenetic regulation. Schizophrenia-associated differences in the DNA methylation status of patient-derived cells suggest it could affect early brain development. Mechanisms that control gene expression without altering the genetic code, such as DNA methylation, could explain how environmental risk factors contribute to schizophrenia in genetically susceptible individuals. Alan Mackay-Sim and colleagues from Griffith University, Australia, carried out genome-wide comparisons of DNA methylation in induced pluripotent stem (iPS) cells, olfactory neurosphere-derived cells and fibroblasts from patients and controls. Differences in the DNA methylation pattern between patient and control iPS cells, which could reflect what happens in the embryo, suggest a disease-associated effect very early on in development. Only five genes were differentially methylated in all three patient-derived cell types compared to controls. None of these genes has previously been associated with schizophrenia and may represent new targets for future research.
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Affiliation(s)
- Alejandra M Vitale
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD Australia.,Instituto de Biologia y Medicina Experimental-IBYME-CONICET, Buenos Aires, Argentina
| | - Nicholas A Matigian
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD Australia.,The University of Queensland Diamantina Institute, Translational Research Institute, Brisbane, QLD Australia
| | - Alexandre S Cristino
- The University of Queensland Diamantina Institute, Translational Research Institute, Brisbane, QLD Australia
| | - Katia Nones
- Queensland Centre for Medical Genomics, Institute for Molecular Bioscience, The University of Queensland, St Lucia, Brisbane, QLD Australia
| | - Sugandha Ravishankar
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD Australia
| | - Bernadette Bellette
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD Australia
| | - Yongjun Fan
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD Australia
| | - Stephen A Wood
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD Australia
| | - Ernst Wolvetang
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, QLD Australia
| | - Alan Mackay-Sim
- Griffith Institute for Drug Discovery, Griffith University, Nathan, QLD Australia
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41
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Rose KC, Graves RA, Hansen WD, Harvey BJ, Qiu J, Wood SA, Ziter C, Turner MG. Historical foundations and future directions in macrosystems ecology. Ecol Lett 2016; 20:147-157. [PMID: 28029730 DOI: 10.1111/ele.12717] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2016] [Revised: 08/08/2016] [Accepted: 11/15/2016] [Indexed: 11/28/2022]
Abstract
Macrosystems ecology is an effort to understand ecological processes and interactions at the broadest spatial scales and has potential to help solve globally important social and ecological challenges. It is important to understand the intellectual legacies underpinning macrosystems ecology: How the subdiscipline fits within, builds upon, differs from and extends previous theories. We trace the rise of macrosystems ecology with respect to preceding theories and present a new hypothesis that integrates the multiple components of macrosystems theory. The spatio-temporal anthropogenic rescaling (STAR) hypothesis suggests that human activities are altering the scales of ecological processes, resulting in interactions at novel space-time scale combinations that are diverse and predictable. We articulate four predictions about how human actions are "expanding", "shrinking", "speeding up" and "slowing down" ecological processes and interactions, and thereby generating new scaling relationships for ecological patterns and processes. We provide examples of these rescaling processes and describe ecological consequences across terrestrial, freshwater and marine ecosystems. Rescaling depends in part on characteristics including connectivity, stability and heterogeneity. Our STAR hypothesis challenges traditional assumptions about how the spatial and temporal scales of processes and interactions operate in different types of ecosystems and provides a lens through which to understand macrosystem-scale environmental change.
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Affiliation(s)
- Kevin C Rose
- Department of Biological Sciences, Rensselaer Polytechnic Institute, Troy, NY, 12309, USA
| | - Rose A Graves
- Department of Zoology, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Winslow D Hansen
- Department of Zoology, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Brian J Harvey
- Department of Geography, University of Colorado-Boulder, Boulder, CO, 80309, USA
| | - Jiangxiao Qiu
- Department of Zoology, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Stephen A Wood
- Yale School of Forestry and Environmental Studies, Yale University, New Haven, CT, 06511, USA
| | - Carly Ziter
- Department of Zoology, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Monica G Turner
- Department of Zoology, University of Wisconsin-Madison, Madison, WI, 53706, USA
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42
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Wood SA, Sokol N, Bell CW, Bradford MA, Naeem S, Wallenstein MD, Palm CA. Opposing effects of different soil organic matter fractions on crop yields. Ecol Appl 2016; 26:2072-2085. [PMID: 27755738 DOI: 10.1890/16-0024.1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2016] [Accepted: 02/10/2016] [Indexed: 05/15/2023]
Abstract
Soil organic matter is critical to sustainable agriculture because it provides nutrients to crops as it decomposes and increases nutrient- and water-holding capacity when built up. Fast- and slow-cycling fractions of soil organic matter can have different impacts on crop production because fast-cycling fractions rapidly release nutrients for short-term plant growth and slow-cycling fractions bind nutrients that mineralize slowly and build up water-holding capacity. We explored the controls on these fractions in a tropical agroecosystem and their relationship to crop yields. We performed physical fractionation of soil organic matter from 48 farms and plots in western Kenya. We found that fast-cycling, particulate organic matter was positively related to crop yields, but did not have a strong effect, while slower-cycling, mineral-associated organic matter was negatively related to yields. Our finding that slower-cycling organic matter was negatively related to yield points to a need to revise the view that stabilization of organic matter positively impacts food security. Our results support a new paradigm that different soil organic matter fractions are controlled by different mechanisms, potentially leading to different relationships with management outcomes, like crop yield. Effectively managing soils for sustainable agriculture requires quantifying the effects of specific organic matter fractions on these outcomes.
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Affiliation(s)
- Stephen A Wood
- Department of Ecology, Evolution & Environmental Biology, Columbia University, 1200 Amsterdam Ave., 10th Fl., New York, New York, 10027, USA.
- Agriculture and Food Security Center, The Earth Institute at Columbia University, 61 Route 9W, Lamont Hall, 2G, New York, New York, 10964, USA.
| | - Noah Sokol
- School of Forestry and Environmental Studies, Yale University, 195 Prospect St., New Haven, Connecticut, 06511, USA
| | - Colin W Bell
- Natural Resource Ecology Laboratory, Colorado State University, 1499 Campus Delivery, Fort Collins, Colorado, 80523, USA
| | - Mark A Bradford
- School of Forestry and Environmental Studies, Yale University, 195 Prospect St., New Haven, Connecticut, 06511, USA
| | - Shahid Naeem
- Department of Ecology, Evolution & Environmental Biology, Columbia University, 1200 Amsterdam Ave., 10th Fl., New York, New York, 10027, USA
| | - Matthew D Wallenstein
- Natural Resource Ecology Laboratory, Colorado State University, 1499 Campus Delivery, Fort Collins, Colorado, 80523, USA
| | - Cheryl A Palm
- Agriculture and Food Security Center, The Earth Institute at Columbia University, 61 Route 9W, Lamont Hall, 2G, New York, New York, 10964, USA
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43
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Oishi S, Zalucki O, Premarathne S, Wood SA, Piper M. USP9X deletion elevates the density of oligodendrocytes within the postnatal dentate gyrus. Neurogenesis (Austin) 2016; 3:e1235524. [PMID: 27830160 DOI: 10.1080/23262133.2016.1235524] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2016] [Revised: 09/05/2016] [Accepted: 09/07/2016] [Indexed: 12/27/2022]
Abstract
Neural stem cells (NSCs) within the adult hippocampal dentate gyrus reside in the subgranular zone (SGZ). A dynamic network of signaling mechanisms controls the balance between the maintenance of NSC identity, and their subsequent differentiation into dentate granule neurons. Recently, the ubiquitin-specific protease 9 X-linked (USP9X) was shown to be important for hippocampal morphogenesis, as mice lacking this gene exhibited a higher proportion of proliferating NSCs, yet a decrease in neuronal numbers, within the postnatal dentate gyrus. Here we reveal that Usp9x-deficiency results in the upregulation of numerous oligodendrocytic and myelin-associated genes within the postnatal hippocampus. Moreover, cell counts reveal a significant increase in oligodendrocyte precursor cells and mature oligodendrocytes per unit volume of the mutant dentate gyrus. Collectively, these findings indicate that USP9X may regulate NSC lineage determination within the postnatal SGZ.
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Affiliation(s)
- Sabrina Oishi
- The School of Biomedical Sciences, The University of Queensland , Brisbane, Queensland, Australia
| | - Oressia Zalucki
- The School of Biomedical Sciences, The University of Queensland, Brisbane, Queensland, Australia; Queensland Brain Institute, The University of Queensland, Brisbane, Queensland, Australia
| | - Susitha Premarathne
- The Eskitis Institute for Drug Discovery, Griffith University , Brisbane, Queensland, Australia
| | - Stephen A Wood
- The Eskitis Institute for Drug Discovery, Griffith University , Brisbane, Queensland, Australia
| | - Michael Piper
- The School of Biomedical Sciences, The University of Queensland, Brisbane, Queensland, Australia; Queensland Brain Institute, The University of Queensland, Brisbane, Queensland, Australia
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44
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Wood SA, Xu F, Armitage JM, Wania F. Unravelling the Relationship between Body Mass Index and Polychlorinated Biphenyl Concentrations Using a Mechanistic Model. Environ Sci Technol 2016; 50:10055-10064. [PMID: 27616073 DOI: 10.1021/acs.est.6b01961] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Human biomonitoring (HBM) often reveals statistical associations between persistent organic pollutant (POP) concentrations and body mass index (BMI). Both negative and positive associations have been observed, which has been hypothesized to reflect variable toxicokinetics in lean and obese individuals during times of increasing and decreasing exposure. We examined this hypothesis and assessed the influence of the obesity epidemic on time trends in human exposure to polychlorinated biphenyls (PCB) at the population level using a mechanistic modeling approach and data from the National Health and Nutrition Examination Survey (NHANES) 1999-2004. Using model results for PCB-153, we simulated cross-sectional body burden versus BMI trends (CBBTs), as well as population level body burden versus time trends. Negative associations between PCB-153 concentrations and BMI are predicted for all birth cohorts in HBM studies conducted in the 1990s, while for future cross-sectional studies, we predict negative or positive relationships depending on the age group sampled. At the population level, demographic changes such as the obesity epidemic and population aging had only marginal influence on the simulated rate of decline in PCB-153 concentrations between 1980 and 2010. Mechanistic bioaccumulation models can help unravel relationships between age, BMI, and POP concentrations, informing efforts to understand potential obesogenic effects of POPs.
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Affiliation(s)
- Stephen A Wood
- Department of Physical and Environmental Sciences, University of Toronto Scarborough , 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
- Department of Chemistry, University of Toronto Scarborough , 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - Feng Xu
- Department of Physical and Environmental Sciences, University of Toronto Scarborough , 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - James M Armitage
- Department of Physical and Environmental Sciences, University of Toronto Scarborough , 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - Frank Wania
- Department of Physical and Environmental Sciences, University of Toronto Scarborough , 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
- Department of Chemistry, University of Toronto Scarborough , 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
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45
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Wood SA, Armitage JM, Binnington MJ, Wania F. Deterministic modeling of the exposure of individual participants in the National Health and Nutrition Examination Survey (NHANES) to polychlorinated biphenyls. Environ Sci Process Impacts 2016; 18:1157-1168. [PMID: 27711883 DOI: 10.1039/c6em00424e] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
A population's exposure to persistent organic pollutants, e.g., polychlorinated biphenyls (PCBs), is typically assessed through national biomonitoring programs, such as the United States National Health and Nutrition Examination Survey (NHANES). To complement statistical methods, we use a deterministic modeling approach to establish mechanistic links between human contaminant concentrations and factors (e.g. age, diet, lipid mass) deemed responsible for the often considerable variability in these concentrations. Lifetime exposures to four PCB congeners in 6128 participants from NHANES 1999-2004 are simulated using the ACC-Human model supplied with individualized input parameters obtained from NHANES questionnaires (e.g., birth year, sex, body mass index, dietary composition, reproductive behavior). Modeled and measured geometric mean PCB-153 concentrations in NHANES participants of 13.3 and 22.0 ng g-1 lipid, respectively, agree remarkably well, although lower model-measurement agreement for air, water, and food suggests that this is partially due to fortuitous error cancellation. The model also reproduces trends in the measured data with key factors such as age, parity and sex. On an individual level, 62% of all modeled concentrations are within a factor of three of their corresponding measured values (Spearman rs = 0.44). However, the model attributes more of the inter-individual variability to differences in dietary lipid intake than is indicated by the measured data. While the model succeeds in predicting levels and trends on the population level, the accuracy of individual-specific predictions would need to be improved for refined exposure characterization in epidemiological studies.
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Affiliation(s)
- Stephen A Wood
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada. and Department of Chemistry, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - James M Armitage
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada.
| | - Matthew J Binnington
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada.
| | - Frank Wania
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada. and Department of Chemistry, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
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46
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Vial ML, Zencak D, Grkovic T, Gorse AD, Mackay-Sim A, Mellick GD, Wood SA, Quinn RJ. A Grand Challenge. 2. Phenotypic Profiling of a Natural Product Library on Parkinson's Patient-Derived Cells. J Nat Prod 2016; 79:1982-1989. [PMID: 27447544 DOI: 10.1021/acs.jnatprod.6b00258] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Harnessing the inherent biological relevance of natural products requires a method for the recognition of biological effects that may subsequently lead to the discovery of particular targets. An unbiased multidimensional profiling method was used to examine the activities of natural products on primary cells derived from a Parkinson's disease patient. The biological signature of 482 natural products was examined using multiparametric analysis to investigate known cellular pathways and organelles implicated in Parkinson's disease such as mitochondria, lysosomes, endosomes, apoptosis, and autophagy. By targeting several cell components simultaneously the chance of finding a phenotype was increased. The phenotypes were then clustered using an uncentered correlation. The multidimensional phenotypic screening showed that all natural products, in our screening set, were biologically relevant compounds as determined by an observed phenotypic effect. Multidimensional phenotypic screening can predict the cellular function and subcellular site of activity of new compounds, while the cluster analysis provides correlation with compounds with known mechanisms of action. This study reinforces the value of natural products as biologically relevant compounds.
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Affiliation(s)
- Marie-Laure Vial
- Eskitis Institute for Drug Discovery, Griffith University , Brisbane, QLD 4111, Australia
| | - Dusan Zencak
- Eskitis Institute for Drug Discovery, Griffith University , Brisbane, QLD 4111, Australia
| | - Tanja Grkovic
- Eskitis Institute for Drug Discovery, Griffith University , Brisbane, QLD 4111, Australia
| | - Alain-Dominique Gorse
- QFAB Bioinformatics, Institute for Molecular Bioscience, The University of Queensland , St Lucia, QLD 4072, Australia
| | - Alan Mackay-Sim
- Eskitis Institute for Drug Discovery, Griffith University , Brisbane, QLD 4111, Australia
| | - George D Mellick
- Eskitis Institute for Drug Discovery, Griffith University , Brisbane, QLD 4111, Australia
| | - Stephen A Wood
- Eskitis Institute for Drug Discovery, Griffith University , Brisbane, QLD 4111, Australia
| | - Ronald J Quinn
- Eskitis Institute for Drug Discovery, Griffith University , Brisbane, QLD 4111, Australia
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Farias NE, Wood SA, Obenat S, Schwindt E. Genetic barcoding confirms the presence of the neurotoxic sea slug Pleurobranchaea maculata in southwestern Atlantic coast. New Zealand Journal of Zoology 2016. [DOI: 10.1080/03014223.2016.1159582] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- NE Farias
- Laboratorio de Invertebrados, FCEyN, Universidad Nacional de Mar del Plata, Mar del Plata, Argentina
- Instituto de Investigaciones Marinas y Costeras (IIMyC), CONICET, Mar del Plata, Argentina
| | - SA Wood
- Cawthron Institute, Nelson, New Zealand
- Environmental Research Institute, Waikato University, Hamilton, New Zealand
| | - S Obenat
- Laboratorio de Invertebrados, FCEyN, Universidad Nacional de Mar del Plata, Mar del Plata, Argentina
- Instituto de Investigaciones Marinas y Costeras (IIMyC), CONICET, Mar del Plata, Argentina
| | - E Schwindt
- Grupo de Ecología en Ambientes Costeros (GEAC- IBIOMAR-CONICET), Puerto Madryn, Argentina
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48
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Nanayakkara DM, Nguyen MN, Wood SA. Deubiquitylating enzyme, USP9X, regulates proliferation of cells of head and neck cancer lines. Cell Prolif 2016; 49:494-502. [PMID: 27374971 DOI: 10.1111/cpr.12273] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2016] [Accepted: 06/02/2016] [Indexed: 12/12/2022] Open
Abstract
OBJECTIVES Truncating mutations in USP9X have been identified in oral squamous cell carcinoma patients. The aim of this study was to determine USP9X's functional role, if any, in head and neck cancer cells. MATERIALS AND METHODS USP9X was depleted/overexpressed in head and neck cancer cell line: SCC15 (tongue), CAL27 (tongue), FaDu (pharynx) and Detroit 562 (pharynx). Cell proliferation was monitored using the CyQUANT assay, and cell cycle distribution was determined by flow cytometry. Immunoblot assays were conducted to assess protein levels. RT-qPCR was performed to determine Notch and Wnt pathway target gene expression. RESULTS Our data showed a direct correlation between USP9X protein levels and proliferation, as well as Notch pathway activity in head and neck cancer cells. However, at least in FaDu, USP9X did not appear to regulate proliferation through the Notch pathway. Immunoblotting revealed a dramatic reduction in downstream targets of mTOR complex 1, namely total ribosomal protein (S6) and its phosphorylated form (pS6), when USP9X was depleted in FaDu cells. In contrast, in immortalized but non-tumorigenic HaCaT keratinocytes, USP9X depletion led to increase in cell proliferation, maintaining direct regulation of Notch activity. CONCLUSIONS The functional role of USP9X was found to be context dependent. USP9X possibly promotes head and neck cancer cell proliferation through the mTOR pathway.
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Affiliation(s)
- D M Nanayakkara
- Eskitis Institute for Drug Discovery, Griffith University, Nathan, Qld, Australia
| | - M N Nguyen
- Eskitis Institute for Drug Discovery, Griffith University, Nathan, Qld, Australia
| | - S A Wood
- Eskitis Institute for Drug Discovery, Griffith University, Nathan, Qld, Australia
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49
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Oishi S, Premarathne S, Harvey TJ, Iyer S, Dixon C, Alexander S, Burne THJ, Wood SA, Piper M. Usp9x-deficiency disrupts the morphological development of the postnatal hippocampal dentate gyrus. Sci Rep 2016; 6:25783. [PMID: 27181636 PMCID: PMC4867638 DOI: 10.1038/srep25783] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2015] [Accepted: 04/18/2016] [Indexed: 02/04/2023] Open
Abstract
Within the adult mammalian brain, neurogenesis persists within two main discrete locations, the subventricular zone lining the lateral ventricles, and the hippocampal dentate gyrus. Neurogenesis within the adult dentate gyrus contributes to learning and memory, and deficiencies in neurogenesis have been linked to cognitive decline. Neural stem cells within the adult dentate gyrus reside within the subgranular zone (SGZ), and proteins intrinsic to stem cells, and factors within the niche microenvironment, are critical determinants for development and maintenance of this structure. Our understanding of the repertoire of these factors, however, remains limited. The deubiquitylating enzyme USP9X has recently emerged as a mediator of neural stem cell identity. Furthermore, mice lacking Usp9x exhibit a striking reduction in the overall size of the adult dentate gyrus. Here we reveal that the development of the postnatal SGZ is abnormal in mice lacking Usp9x. Usp9x conditional knockout mice exhibit a smaller hippocampus and shortened dentate gyrus blades from as early as P7. Moreover, the analysis of cellular populations within the dentate gyrus revealed reduced stem cell, neuroblast and neuronal numbers and abnormal neuroblast morphology. Collectively, these findings highlight the critical role played by USP9X in the normal morphological development of the postnatal dentate gyrus.
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Affiliation(s)
- Sabrina Oishi
- The School of Biomedical Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Susitha Premarathne
- The Eskitis Institute for Drug Discovery, Griffith University, Brisbane, QLD, 4111, Australia
| | - Tracey J Harvey
- The School of Biomedical Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Swati Iyer
- The School of Biomedical Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Chantelle Dixon
- The School of Biomedical Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Suzanne Alexander
- Queensland Centre for Mental Health Research, The Park Centre for Mental Health, Richlands, QLD, 4077, Australia.,Queensland Brain Institute, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Thomas H J Burne
- Queensland Centre for Mental Health Research, The Park Centre for Mental Health, Richlands, QLD, 4077, Australia.,Queensland Brain Institute, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Stephen A Wood
- The Eskitis Institute for Drug Discovery, Griffith University, Brisbane, QLD, 4111, Australia
| | - Michael Piper
- The School of Biomedical Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia.,Queensland Brain Institute, The University of Queensland, Brisbane, QLD, 4072, Australia
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50
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Todorovic M, Wood SA, Mellick GD. Nrf2: a modulator of Parkinson’s disease? J Neural Transm (Vienna) 2016; 123:611-9. [DOI: 10.1007/s00702-016-1563-0] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2016] [Accepted: 04/27/2016] [Indexed: 01/23/2023]
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