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Harms KE, Watson DM, Santiago‐Rosario LY, Mathews S. Exposing the error hidden in plain sight: A critique of Calder's (1983) group selectionist seed-dispersal hypothesis for mistletoe "mimicry" of host plants. Ecol Evol 2023; 13:e10760. [PMID: 38020691 PMCID: PMC10667604 DOI: 10.1002/ece3.10760] [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] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2023] [Revised: 09/12/2023] [Accepted: 11/09/2023] [Indexed: 12/01/2023] Open
Abstract
Some mistletoe species (Loranthaceae) resemble their host plants to a striking degree. Various mechanisms have been proposed for the developmental origins of novel traits that cause mistletoes to appear similar to their hosts, as well as for the adaptive phenotypic evolution of such traits. Calder (1983) proposed a logically flawed group selectionist seed-dispersal hypothesis for mistletoes to resemble their hosts. Calder's (1983) hypothesis does not provide a viable potential explanation for mistletoe resemblance to hosts.
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Affiliation(s)
- Kyle E. Harms
- Department of Biological SciencesLouisiana State UniversityBaton RougeLouisianaUSA
| | - David M. Watson
- Gulbali InstituteCharles Sturt University, Albury–Wodonga CampusAlburyNew South WalesAustralia
| | | | - Sarah Mathews
- Department of Biological SciencesLouisiana State UniversityBaton RougeLouisianaUSA
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Lawn S, Kaine C, Stafrace S, Backman-Hoyle D, Lavranos E, Jefferies B, Byrne S, Kaur M, Giordani G, Matthews L, Mathews S. Why talking about loneliness matters to the mental health of consumers and to the work of the psychiatrist. Aust N Z J Psychiatry 2023; 57:469-471. [PMID: 36949578 DOI: 10.1177/00048674231159622] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 03/24/2023]
Affiliation(s)
- Sharon Lawn
- Lived Experience Australia Ltd., Oaklands Park, SA, Australia
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - Christine Kaine
- Lived Experience Australia Ltd., Oaklands Park, SA, Australia
| | - Simon Stafrace
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - De Backman-Hoyle
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - Eileen Lavranos
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - Bronte Jefferies
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - Simon Byrne
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - Manjit Kaur
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - Gina Giordani
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - Lyndy Matthews
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
| | - Sarah Mathews
- Community Collaboration Committee, Royal Australian and New Zealand College of Psychiatrists, Melbourne, VIC, Australia
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Moloney K, Byrne T, Mathews S, Foran M, Conroy B, Molamphy A, Murphy N, Dillon A, Doyle K, Cunningham C, Romero-Ortuno R. 82 THE IMPACT OF THE COVID-19 PANDEMIC ON THE ACTIVITY OF A RAPID-ACCESS GERIATRIC DAY HOSPITAL SERVICE. Age Ageing 2022. [PMCID: PMC9620317 DOI: 10.1093/ageing/afac218.067] [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] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Background In the 1970s, Jack Flanagan developed the first Geriatric Day Hospital (GDH) in Ireland. Since, the GDH model of care has evolved to accommodate for the growing demands of our ageing population. Before the COVID-19 pandemic, the operational scope of our GDH was extended to allow for the rapid medical and multidisciplinary assessment and follow-up of older patients. During the pandemic, the GDH did not suspend operations and remained open as a COVID-negative ambulatory pathway. We evaluated the activity of this GDH service. Methods Retrospective Service Evaluation Approval was granted by our Research & Innovation Office (Reference: 7419). Pseudonymised data corresponding to all GDH attendances between January 2017 and December 2021 were retrieved from the hospital electronic records. Yearly trends in proportions were tested with the Chi-square for trend statistic. Trends in monthly attendances were assessed via Statistical Process Control (SPC) charts with three-sigma limits. Statistical significance was set at p<0.05. Results There were 27,278 attendances of patients aged 65 and over to the GDH over the 5-year period (6,362, 5,978, 6,115, 4,306, and 4,517, respectively). Mean age was 82 every year. Of the 7,813 new episodes, yearly proportions referred directly by primary care teams were 10.4%, 29.5%, 38.6%, 24.5%, and 16.3% (p<0.001). SPC charts showed that Apr-May 2020 and Jan-Feb 2021 had significantly lower numbers of review attendances (50-59 and 146-142, respectively, average 324 p/m). However, new appointments did not significantly decline (average 130 p/m). Of the 7,813 new episodes, 2,595 (33.2%) were seen by Physiotherapy, and 1,860 (23.8%) by Occupational Therapy. Conclusion Our GDH saw a sustained number of new attendances and demonstrated increased community availability during the unprecedented COVID-19 crisis, especially during the first wave of the pandemic when hospital access was most affected. A rapid access GDH model can facilitate integrated care at times of crisis to promote ageing in place.
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Affiliation(s)
- K Moloney
- St. James's Hospital , Dublin, Ireland
| | - T Byrne
- St. James's Hospital , Dublin, Ireland
| | - S Mathews
- St. James's Hospital , Dublin, Ireland
| | - M Foran
- St. James's Hospital , Dublin, Ireland
| | - B Conroy
- St. James's Hospital , Dublin, Ireland
| | | | - N Murphy
- St. James's Hospital , Dublin, Ireland
| | - A Dillon
- St. James's Hospital , Dublin, Ireland
| | - K Doyle
- St. James's Hospital , Dublin, Ireland
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McLay TGB, Murphy DJ, Holmes GD, Mathews S, Brown GK, Cantrill DJ, Udovicic F, Allnutt TR, Jackson CJ. A genome resource for Acacia, Australia's largest plant genus. PLoS One 2022; 17:e0274267. [PMID: 36240205 PMCID: PMC9565413 DOI: 10.1371/journal.pone.0274267] [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: 05/04/2022] [Accepted: 08/24/2022] [Indexed: 11/05/2022] Open
Abstract
Acacia (Leguminosae, Caesalpinioideae, mimosoid clade) is the largest and most widespread genus of plants in the Australian flora, occupying and dominating a diverse range of environments, with an equally diverse range of forms. For a genus of its size and importance, Acacia currently has surprisingly few genomic resources. Acacia pycnantha, the golden wattle, is a woody shrub or tree occurring in south-eastern Australia and is the country's floral emblem. To assemble a genome for A. pycnantha, we generated long-read sequences using Oxford Nanopore Technology, 10x Genomics Chromium linked reads, and short-read Illumina sequences, and produced an assembly spanning 814 Mb, with a scaffold N50 of 2.8 Mb, and 98.3% of complete Embryophyta BUSCOs. Genome annotation predicted 47,624 protein-coding genes, with 62.3% of the genome predicted to comprise transposable elements. Evolutionary analyses indicated a shared genome duplication event in the Caesalpinioideae, and conflict in the relationships between Cercis (subfamily Cercidoideae) and subfamilies Caesalpinioideae and Papilionoideae (pea-flowered legumes). Comparative genomics identified a suite of expanded and contracted gene families in A. pycnantha, and these were annotated with both GO terms and KEGG functional categories. One expanded gene family of particular interest is involved in flowering time and may be associated with the characteristic synchronous flowering of Acacia. This genome assembly and annotation will be a valuable resource for all studies involving Acacia, including the evolution, conservation, breeding, invasiveness, and physiology of the genus, and for comparative studies of legumes.
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Affiliation(s)
- Todd G. B. McLay
- Royal Botanic Gardens Victoria, South Yarra, Victoria, Australia
- School of BioSciences, The University of Melbourne, Parkville, Victoria, Australia
- Centre for Australian Biodiversity Research, CSIRO, Black Mountain, Australian Capital Territory, Australia
| | - Daniel J. Murphy
- Royal Botanic Gardens Victoria, South Yarra, Victoria, Australia
| | - Gareth D. Holmes
- Royal Botanic Gardens Victoria, South Yarra, Victoria, Australia
| | - Sarah Mathews
- Centre for Australian Biodiversity Research, CSIRO, Black Mountain, Australian Capital Territory, Australia
- Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana, United States of America
| | - Gillian K. Brown
- Queensland Herbarium, Department of Environment and Science, Toowong, Queensland, Australia
| | | | - Frank Udovicic
- Royal Botanic Gardens Victoria, South Yarra, Victoria, Australia
| | | | - Chris J. Jackson
- Royal Botanic Gardens Victoria, South Yarra, Victoria, Australia
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Patel D, Mathews S, van Unen V, Chan J, Al-Hammadi N, Borowitz D, Gelfond D, Sellers Z. 206 Investigating colonic pH in cystic fibrosis: Wireless motility capsule to single-cell sequencing. J Cyst Fibros 2022. [DOI: 10.1016/s1569-1993(22)00896-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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Prakasan A, Krishna J, Kumar A, Mathews S, Sambasivan S, Joseph J, James F. 22P A comparison of new ESGO-ESTRO-ESP endometrial risk classification with previous classification in predicting outcome. Ann Oncol 2022. [DOI: 10.1016/j.annonc.2022.04.040] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022] Open
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Greenfield L, Mathews S, Toukhsati SR. Anhedonia and anergia predict mortality in older Australians living in residential aged care. Aging Ment Health 2022; 26:614-622. [PMID: 33459050 DOI: 10.1080/13607863.2021.1872491] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
OBJECTIVES Depression is common in older adults and is linked to morbidity and mortality. The aim of this study was to investigate whether specific symptoms of depression (dysphoria, anhedonia and anergia) predicted mortality in older Australian Aged Care residents. METHODS Eighty older adults (M = 83.16 ± 7.14) without cognitive impairment residing in 14 Residential Aged Care facilities located in Melbourne, Australia, completed the 15-item Geriatric Depression Scale-Short Form (GDS-15) and the Standardized Mini Mental State Examination. Residential Aged Care facilities provided the primary end-point of all-cause mortality at follow-up (M = 5.4 years ± 0.1). RESULTS Univariate Kaplan-Meier survival curves and Cox Proportional Hazards regression analyses were used to evaluate whether symptoms of depression predicted all-cause mortality, with known prognostic factors controlled. The results indicated that anhedonia (Hazard Ratio = 2.931 [95% CI 1.278-6.722], p = .011) and anergia (Hazard Ratio = 2.783 [95% CI 1.065-7.276], p = .037) were associated with almost a threefold increased risk of mortality in older adults living in RAC in adjusted analyses. Dysphoria did not predict mortality. CONCLUSIONS These findings advance understanding of the mortality risks of anhedonia and anergia in an understudied population. Symptoms of anhedonia and anergia should be targeted for screening in older adults living in Aged Care to increase the detection and potential for referral to treatment for depressive presentation.
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Affiliation(s)
- L Greenfield
- Department of Cardiology, Austin Health, Heidelberg, VIC, Australia.,The Cairnmillar Institute, VIC, Australia
| | - S Mathews
- Department of Cardiology, Austin Health, Heidelberg, VIC, Australia
| | - S R Toukhsati
- Department of Cardiology, Austin Health, Heidelberg, VIC, Australia.,School of Science, Psychology and Sport, Federation University Australia, Berwick, VIC, Australia.,Faculty of Medicine, Dentistry and Health Sciences, University of Melbourne, Parkville, VIC, Australia
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8
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Nazem-Bokaee H, Hom EFY, Warden AC, Mathews S, Gueidan C. Towards a Systems Biology Approach to Understanding the Lichen Symbiosis: Opportunities and Challenges of Implementing Network Modelling. Front Microbiol 2021; 12:667864. [PMID: 34012428 PMCID: PMC8126723 DOI: 10.3389/fmicb.2021.667864] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [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: 02/14/2021] [Accepted: 04/09/2021] [Indexed: 11/16/2022] Open
Abstract
Lichen associations, a classic model for successful and sustainable interactions between micro-organisms, have been studied for many years. However, there are significant gaps in our understanding about how the lichen symbiosis operates at the molecular level. This review addresses opportunities for expanding current knowledge on signalling and metabolic interplays in the lichen symbiosis using the tools and approaches of systems biology, particularly network modelling. The largely unexplored nature of symbiont recognition and metabolic interdependency in lichens could benefit from applying a holistic approach to understand underlying molecular mechanisms and processes. Together with ‘omics’ approaches, the application of signalling and metabolic network modelling could provide predictive means to gain insights into lichen signalling and metabolic pathways. First, we review the major signalling and recognition modalities in the lichen symbioses studied to date, and then describe how modelling signalling networks could enhance our understanding of symbiont recognition, particularly leveraging omics techniques. Next, we highlight the current state of knowledge on lichen metabolism. We also discuss metabolic network modelling as a tool to simulate flux distribution in lichen metabolic pathways and to analyse the co-dependence between symbionts. This is especially important given the growing number of lichen genomes now available and improved computational tools for reconstructing such models. We highlight the benefits and possible bottlenecks for implementing different types of network models as applied to the study of lichens.
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Affiliation(s)
- Hadi Nazem-Bokaee
- CSIRO Australian National Herbarium, Centre for Australian National Biodiversity Research, National Research Collections Australia, NCMI, Canberra, ACT, Australia.,CSIRO Land and Water, Canberra, ACT, Australia.,CSIRO Synthetic Biology Future Science Platform, Canberra, ACT, Australia
| | - Erik F Y Hom
- Department of Biology and Center for Biodiversity and Conservation Research, The University of Mississippi, University City, MS, United States
| | | | - Sarah Mathews
- Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, United States
| | - Cécile Gueidan
- CSIRO Australian National Herbarium, Centre for Australian National Biodiversity Research, National Research Collections Australia, NCMI, Canberra, ACT, Australia
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9
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Gualtieri T, Ferrari M, Taboni S, Chan H, Townson J, Mattavelli D, Sahovaler A, Eu D, Dey K, Mathews S, Re F, Bernardi S, Borsani E, Viswanathan S, Nicolai P, Sartore L, Russo D, Gilbert R, Irish J. 3D-mapping of mesenchymal stem cells growth on bioengineered scaffolds for maxillofacial skeleton regeneration: a preclinical, in vitro study. Cytotherapy 2021. [DOI: 10.1016/s146532492100517x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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10
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Cai L, Arnold BJ, Xi Z, Khost DE, Patel N, Hartmann CB, Manickam S, Sasirat S, Nikolov LA, Mathews S, Sackton TB, Davis CC. Deeply Altered Genome Architecture in the Endoparasitic Flowering Plant Sapria himalayana Griff. (Rafflesiaceae). Curr Biol 2021; 31:1002-1011.e9. [DOI: 10.1016/j.cub.2020.12.045] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Revised: 12/11/2020] [Accepted: 12/23/2020] [Indexed: 12/18/2022]
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11
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Nair L, Krishna KJ, Kumar A, Mathews S, Joseph J, James F. 208P Prognostic factors and outcomes of non-seminomatous germ cell tumours of testis: Experience from a tertiary cancer centre in India. Ann Oncol 2020. [DOI: 10.1016/j.annonc.2020.10.220] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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12
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Smith J, Stewart MG, Foggin E, Mathews S, Harris J, Thomas P, Cooney A, Stocker CJ. Assessing the benefits and usefulness of Schwartz Centre rounds in second-year medical students using clinical educator-facilitated group work session: not just "a facilitated moan"! BMC Med Educ 2020; 20:271. [PMID: 32807145 PMCID: PMC7433116 DOI: 10.1186/s12909-020-02199-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [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: 04/06/2020] [Accepted: 08/11/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND An experiential curriculum exposing medical students to the clinic early has many benefits but comes with the emotional stress this environment engenders. Schwartz rounds (SR) are an effective means to combat emotional stress and increasingly used in UK and USA hospitals. Recent studies show that the SR format may also provide benefits for medical students. This study aimed to investigate whether the guidance of SR in second year medical students provides the same benefits as to healthcare professionals. METHODS SR assessment involved 83 s year MBChB students in facilitated groupwork sessions. Topics discussed were "change and resilience" and "duty of candour". Students completed a Likert Scale questionnaire evaluating outcomes proffered by the Point of Care Foundation in collaboration with the Schwartz Foundation, with freeform feedback. RESULTS There was an 86% completion rate with 25% providing written feedback. Participants were more likely to agree than disagree that SR were beneficial. SR effectiveness in enhancing students' working relationship awareness and skills was strongly correlated with understanding the purpose of, and engagement with, the SR (P < 0.001). Similarly, engagement with the SR was strongly correlated with self-reporting of enhanced patient-centredness (P < 0.001). Freeform feedback could be grouped into five themes that revolved around understanding of the SR and engagement with the process. Many positive comments regarded the SR as a forum not only to "learn experientially" but to so in a "safe environment". Many negative comments stemmed from students not seeing any benefits of engagement with the SR, in that sharing experiences was "unbeneficial", "empathy is inherent and not learnt", or that sharing emotional problems is simply "moaning". CONCLUSION SRs are an effective way of fostering empathy and understanding towards patients and colleagues. However, for the students to benefit fully from the SR it is necessary for them to engage and understand the process. Therefore, for the successful implementation of SR into pre-clinical medical education, it is important to help students realise that SR are not merely a "facilitated whinge".
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Affiliation(s)
- J. Smith
- Medical School, University of Buckingham, Hunter Street, Buckingham, MK18 1EG UK
| | - M. G. Stewart
- Medical School, University of Buckingham, Hunter Street, Buckingham, MK18 1EG UK
| | - E. Foggin
- Medical School, University of Buckingham, Hunter Street, Buckingham, MK18 1EG UK
| | - S. Mathews
- Medical School, University of Buckingham, Hunter Street, Buckingham, MK18 1EG UK
| | - J. Harris
- Medical School, University of Buckingham, Hunter Street, Buckingham, MK18 1EG UK
| | - P. Thomas
- Medical School, University of Buckingham, Hunter Street, Buckingham, MK18 1EG UK
| | - A. Cooney
- Medical School, University of Buckingham, Hunter Street, Buckingham, MK18 1EG UK
| | - C. J. Stocker
- Medical School, University of Buckingham, Hunter Street, Buckingham, MK18 1EG UK
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Sundaram M, Donoghue MJ, Farjon A, Filer D, Mathews S, Jetz W, Leslie AB. Accumulation over evolutionary time as a major cause of biodiversity hotspots in conifers. Proc Biol Sci 2019; 286:20191887. [PMID: 31594500 DOI: 10.1098/rspb.2019.1887] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [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: 01/17/2023] Open
Abstract
Biodiversity hotspots are important for understanding how areas of high species richness form, but disentangling the processes that produce them is difficult. We combine geographical ranges, phylogenetic relationships and trait data for 606 conifer species in order to explore the mechanisms underlying richness hotspot formation. We identify eight richness hotspots that overlap known centres of plant endemism and diversity, and find that conifer richness hotspots occur in mountainous areas within broader regions of long-term climate stability. Conifer hotspots are not unique in their species composition, traits or phylogenetic structure; however, a large percentage of their species are not restricted to hotspots and they rarely show either a preponderance of new radiating lineages or old relictual lineages. We suggest that conifer hotspots have primarily formed as a result of lineages accumulating over evolutionary time scales in stable mountainous areas rather than through high origination, preferential retention of relictual lineages or radiation of species with unique traits, although such processes may contribute to nuanced differences among hotspots. Conifers suggest that a simple accumulation of regional diversity can generate high species richness without additional processes and that geography rather than biology may play a primary role in hotspot formation.
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Affiliation(s)
- Mekala Sundaram
- Department of Ecology and Evolutionary Biology, Brown University, Box G-W, 80 Waterman Street, Providence, RI 02912, USA
| | - Michael J Donoghue
- Department of Ecology and Evolutionary Biology, Yale University, P.O. Box 208106, New Haven, CT 06520, USA
| | - Aljos Farjon
- Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3AE, UK
| | - Denis Filer
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford OX1 3RB, UK
| | - Sarah Mathews
- CSIRO National Research Collections Australia, Australian National Herbarium, Canberra, Australian Capital Territory 2601, Australia
| | - Walter Jetz
- Department of Ecology and Evolutionary Biology, Yale University, P.O. Box 208106, New Haven, CT 06520, USA
| | - Andrew B Leslie
- Department of Ecology and Evolutionary Biology, Brown University, Box G-W, 80 Waterman Street, Providence, RI 02912, USA
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Toukhsati SR, Mathews S, Sheed A, Freijah I, Moncur L, Cropper P, Ha FJ, Hare DL. Confirming a beneficial effect of the six-minute walk test on exercise confidence in patients with heart failure. Eur J Cardiovasc Nurs 2019; 19:165-171. [DOI: 10.1177/1474515119876784] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Background: Low confidence to exercise is a barrier to engaging in exercise in heart failure patients. Participating in low to moderate intensity exercise, such as the six-minute walk test, may increase exercise confidence. Aim: To compare the effects of a six-minute walk test with an educational control condition on exercise confidence in heart failure patients. Methods: This was a prospective, quasi-experimental design whereby consecutive adult patients attending an out-patient heart failure clinic completed the Exercise Confidence Scale prior to and following involvement in the six-minute walk test or an educational control condition. Results: Using a matched pairs, mixed model design ( n=60; 87% male; Mage=58.87±13.16), we identified a significantly greater improvement in Total exercise confidence ( F(1,54)=4.63, p=0.036, partial η2=0.079) and Running confidence ( F(1,57)=4.21, p=0. 045, partial η2=0.069) following the six-minute walk test compared to the educational control condition. These benefits were also observed after adjustment for age, gender, functional class and depression. Conclusion: Heart failure patients who completed a six-minute walk test reported greater improvement in exercise confidence than those who read an educational booklet for 10 min. The findings suggest that the six-minute walk test may be used as a clinical tool to improve exercise confidence. Future research should test these results under randomized conditions and examine whether improvements in exercise confidence translate to greater engagement in exercise behavior.
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Affiliation(s)
- SR Toukhsati
- Psychology, School of Health and Life Sciences, Federation University Australia, Australia
- Department of Cardiology, Austin Health, Australia
| | - S Mathews
- Department of Cardiology, Austin Health, Australia
- Faculty of Health, Arts and Design, Swinburne University of Technology, Australia
| | - A Sheed
- Department of Cardiology, Austin Health, Australia
| | - I Freijah
- Department of Cardiology, Austin Health, Australia
- Department of Psychiatry, University of Melbourne, Australia
| | - L Moncur
- Department of Cardiology, Austin Health, Australia
| | - P Cropper
- Department of Cardiology, Austin Health, Australia
| | - FJ Ha
- Department of Cardiology, Austin Health, Australia
- Faculty of Health, Arts and Design, Swinburne University of Technology, Australia
| | - DL Hare
- Psychology, School of Health and Life Sciences, Federation University Australia, Australia
- Department of Cardiology, Austin Health, Australia
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Hill B, Switchenko J, Martin P, Churnetski M, Sawalha Y, Goyal S, Shanmugasundaram K, Calzada O, Kolla B, Bachanova V, Gerson J, Barta S, Maldonado E, Gordon M, Danilov A, Grover N, Mathews S, Burkart M, Karmali R, Ghosh N, Park S, Epperla N, Bond D, Badar T, Blum K, Guo J, Hamadani M, Fenske T, Malecek M, Maddocks K, Flowers C, Kahl B, Cohen J. MAINTENANCE RITUXIMAB IS ASSOCIATED WITH IMPROVED OVERALL SURVIVAL IN MANTLE CELL LYMPHOMA PATIENTS RESPONDING TO INDUCTION THERAPY WITH BENDAMUSTINE + RITUXIMAB (BR). Hematol Oncol 2019. [DOI: 10.1002/hon.75_2631] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- B.T. Hill
- Hematology and Medical Oncology; Cleveland Clinic Taussig Cancer Institute; Cleveland United States
| | | | - P. Martin
- Hematology/Oncology; Weill Cornell Medical College; New York United States
| | - M.C. Churnetski
- Hematology and Medical Oncology; Emory University - Winship Cancer Institute; Atlanta United States
| | - Y. Sawalha
- Hematology and Medical Oncology; Cleveland Clinic Taussig Cancer Institute; Cleveland United States
| | - S. Goyal
- Biostatistics; Emory University; Atlanta United States
| | - K. Shanmugasundaram
- Hematology and Medical Oncology; Emory University - Winship Cancer Institute; Atlanta United States
| | - O. Calzada
- Hematology and Medical Oncology; Emory University - Winship Cancer Institute; Atlanta United States
| | - B. Kolla
- Hematology; Oncology,and Transplantation, University of Minnesota; Minneapolis United States
| | - V. Bachanova
- Hematology; Oncology,and Transplantation, University of Minnesota; Minneapolis United States
| | - J.N. Gerson
- Hematology/Oncology; Fox Chase Cancer Center; Philadelphia United States
| | - S.K. Barta
- Hematology/Oncology; Fox Chase Cancer Center; Philadelphia United States
| | - E. Maldonado
- Knight Cancer Institute; Oregon Health and Sciences University; Portland United States
| | - M. Gordon
- Knight Cancer Institute; Oregon Health and Sciences University; Portland United States
| | - A. Danilov
- Knight Cancer Institute; Oregon Health and Sciences University; Portland United States
| | - N.S. Grover
- Lineberger Cancer Institute; University of North Carolina; Chapel Hill United States
| | - S. Mathews
- Lineberger Cancer Institute; University of North Carolina; Chapel Hill United States
| | - M. Burkart
- Hematology; Northwestern University; Chicago United States
| | - R. Karmali
- Hematology; Northwestern University; Chicago United States
| | - N. Ghosh
- Hematology and Medical Oncology; Levine Cancer Institute; Charlotte United States
| | - S.I. Park
- Hematology and Medical Oncology; Levine Cancer Institute; Charlotte United States
| | - N. Epperla
- Hematology; The Ohio State University James Cancer Center; Columbus United States
| | - D.A. Bond
- Hematology; The Ohio State University James Cancer Center; Columbus United States
| | - T. Badar
- Hematology and Oncology; Medical College of Wisconsin; Milwaukee United States
| | - K.A. Blum
- Hematology and Medical Oncology; Emory University - Winship Cancer Institute; Atlanta United States
| | - J. Guo
- Hematology/Oncology; Weill Cornell Medical College; New York United States
| | - M. Hamadani
- Hematology and Oncology; Medical College of Wisconsin; Milwaukee United States
| | - T.S. Fenske
- Hematology and Oncology; Medical College of Wisconsin; Milwaukee United States
| | - M. Malecek
- Siteman Cancer Center; Washington University; St Louis United States
| | - K. Maddocks
- Hematology; The Ohio State University James Cancer Center; Columbus United States
| | - C.R. Flowers
- Hematology and Medical Oncology; Emory University - Winship Cancer Institute; Atlanta United States
| | - B.S. Kahl
- Siteman Cancer Center; Washington University; St Louis United States
| | - J.B. Cohen
- Hematology and Medical Oncology; Emory University - Winship Cancer Institute; Atlanta United States
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Bond D, Switchenko J, Maddocks K, Churnetski M, Goyal S, Shanmugasundaram K, Calzada O, Kolla B, Bachanova V, Gerson J, Barta S, Hill B, Salwaha Y, Martin P, Maldonado E, Gordon M, Danilov A, Grover N, Mathews S, Burkart M, Karmali R, Ghosh N, Park S, Epperla N, Badar T, Guo J, Hamadani M, Fenske T, Malecek M, Kahl B, Flowers C, Blum K, Cohen J. OUTCOMES FOR PATIENTS WITH MANTLE CELL LYMPHOMA EXPERIENCING FRONTLINE TREATMENT FAILURE: A MULTICENTER RETROSPECTIVE STUDY. Hematol Oncol 2019. [DOI: 10.1002/hon.77_2631] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- D.A. Bond
- Division of Hematology; Ohio State University Comprehensive Cancer Center; Columbus United States
| | - J. Switchenko
- Department of Biostatistics and Bioinformatics; Rollins School of Public Health, Emory University; Atlanta United States
| | - K. Maddocks
- Division of Hematology; Ohio State University Comprehensive Cancer Center; Columbus United States
| | - M. Churnetski
- Department of Hematology and Medical Oncology; Winship Cancer Institute; Atlanta United States
| | - S. Goyal
- Department of Biostatistics and Bioinformatics; Rollins School of Public Health, Emory University; Atlanta United States
| | - K. Shanmugasundaram
- Department of Internal Medicine; Emory University School of Medicine; Atlanta United States
| | - O. Calzada
- Department of Hematology and Medical Oncology; Winship Cancer Institute; Atlanta United States
| | - B. Kolla
- Department of Hematology; University of Minnesota; Minneapolis United States
| | - V. Bachanova
- Department of Hematology; University of Minnesota; Minneapolis United States
| | - J. Gerson
- Hematology; Abramson Cancer Center, University of Pennsylvania; Pennsylvania United States
| | - S. Barta
- Hematology; Abramson Cancer Center, University of Pennsylvania; Pennsylvania United States
| | - B. Hill
- Hematology and Oncology; Cleveland Clinic Taussig Cancer Institute; Cleveland United States
| | - Y. Salwaha
- Hematology and Oncology; Cleveland Clinic Taussig Cancer Institute; Cleveland United States
| | - P. Martin
- Department of Medicine; Weil Cornell Medicine; New York United States
| | - E. Maldonado
- Hematology and Oncology; Oregon Health and Science University, Knight Cancer Institute; Portland United States
| | - M. Gordon
- Hematology and Oncology; Oregon Health and Science University, Knight Cancer Institute; Portland United States
| | - A. Danilov
- Hematology and Oncology; Oregon Health and Science University, Knight Cancer Institute; Portland United States
| | - N. Grover
- Hematology and Oncology; University of North Carolina Lineberger Comprehensive Cancer Center; Chapel Hill United States
| | - S. Mathews
- Hematology and Oncology; University of North Carolina Lineberger Comprehensive Cancer Center; Chapel Hill United States
| | - M. Burkart
- Hematology and Oncology; Northwestern University, Feinberg School of Medicine; Chicago United States
| | - R. Karmali
- Hematology and Oncology; Northwestern University, Feinberg School of Medicine; Chicago United States
| | - N. Ghosh
- Hematology and Oncology; Atrium Health; Charlotte United States
| | - S. Park
- Hematology and Oncology; Atrium Health; Charlotte United States
| | - N. Epperla
- Division of Hematology; Ohio State University Comprehensive Cancer Center; Columbus United States
| | - T. Badar
- Hematology and Oncology; Medical College of Wisconsin; Milwaukee United States
| | - J. Guo
- Department of Medicine; Weil Cornell Medicine; New York United States
| | - M. Hamadani
- Hematology and Oncology; Medical College of Wisconsin; Milwaukee United States
| | - T. Fenske
- Hematology and Oncology; Medical College of Wisconsin; Milwaukee United States
| | - M. Malecek
- Hematology and Oncology; Siteman Cancer Center, Washington University; St. Louis United States
| | - B. Kahl
- Hematology and Oncology; Siteman Cancer Center, Washington University; St. Louis United States
| | - C. Flowers
- Department of Hematology and Medical Oncology; Winship Cancer Institute; Atlanta United States
| | - K. Blum
- Department of Hematology and Medical Oncology; Winship Cancer Institute; Atlanta United States
| | - J. Cohen
- Department of Hematology and Medical Oncology; Winship Cancer Institute; Atlanta United States
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Nair P, Kumar A, Mathews S, Joseph J, Suchetha S, Krishna J, James F. Dysgerminoma ovary: Clinical features and treatment outcome. Ann Oncol 2018. [DOI: 10.1093/annonc/mdy436.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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Leslie AB, Beaulieu J, Holman G, Campbell CS, Mei W, Raubeson LR, Mathews S. An overview of extant conifer evolution from the perspective of the fossil record. Am J Bot 2018; 105:1531-1544. [PMID: 30157290 DOI: 10.1002/ajb2.1143] [Citation(s) in RCA: 53] [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] [Subscribe] [Scholar Register] [Received: 10/02/2017] [Accepted: 05/29/2018] [Indexed: 05/07/2023]
Abstract
PREMISE OF THE STUDY Conifers are an important living seed plant lineage with an extensive fossil record spanning more than 300 million years. The group therefore provides an excellent opportunity to explore congruence and conflict between dated molecular phylogenies and the fossil record. METHODS We surveyed the current state of knowledge in conifer phylogenetics to present a new time-calibrated molecular tree that samples ~90% of extant species diversity. We compared phylogenetic relationships and estimated divergence ages in this new phylogeny with the paleobotanical record, focusing on clades that are species-rich and well known from fossils. KEY RESULTS Molecular topologies and estimated divergence ages largely agree with the fossil record in Cupressaceae, conflict with it in Araucariaceae, and are ambiguous in Pinaceae and Podocarpaceae. Molecular phylogenies provide insights into some fundamental questions in conifer evolution, such as the origin of their seed cones, but using them to reconstruct the evolutionary history of specific traits can be challenging. CONCLUSIONS Molecular phylogenies are useful for answering deep questions in conifer evolution if they depend on understanding relationships among extant lineages. Because of extinction, however, molecular datasets poorly sample diversity from periods much earlier than the Late Cretaceous. This fundamentally limits their utility for understanding deep patterns of character evolution and resolving the overall pattern of conifer phylogeny.
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Affiliation(s)
- Andrew B Leslie
- Department of Ecology and Evolutionary Biology, Brown University, Box G-W, 80 Waterman Street, Providence, Rhode Island, 02912, USA
| | - Jeremy Beaulieu
- Department of Biological Sciences, University of Arkansas, Fayetteville, Arkansas, 72701, USA
| | - Garth Holman
- School of Biology and Ecology, University of Maine, Orono, Maine, 04469, USA
| | | | - Wenbin Mei
- Department of Plant Sciences, University of California, Davis, 1 Shields Avenue, Davis, California, 95616, USA
| | - Linda R Raubeson
- Department of Biological Sciences, Central Washington University, 400 E. University Way, Ellensburg, Washington, 98926, USA
| | - Sarah Mathews
- CSIRO National Research Collections Australia, Australian National Herbarium, Canberra, ACT, 2601, Australia
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Dean GH, Asmarayani R, Ardiyani M, Santika Y, Triono T, Mathews S, Webb CO. Generating DNA sequence data with limited resources for molecular biology: Lessons from a barcoding project in Indonesia. Appl Plant Sci 2018; 6:e01167. [PMID: 30131909 PMCID: PMC6055555 DOI: 10.1002/aps3.1167] [Citation(s) in RCA: 2] [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] [Subscribe] [Scholar Register] [Received: 11/18/2017] [Accepted: 05/15/2018] [Indexed: 05/29/2023]
Abstract
The advent of the DNA sequencing age has led to a revolution in biology. The rapid and cost-effective generation of high-quality sequence data has transformed many fields, including those focused on discovering species and surveying biodiversity, monitoring movement of biological materials, forensic biology, and disease diagnostics. There is a need to build capacity to generate useful sequence data in countries with limited historical access to laboratory resources, so that researchers can benefit from the advantages offered by these data. Commonly used molecular techniques such as DNA extraction, PCR, and DNA sequencing are within the reach of small laboratories in many countries, with the main obstacles to successful implementation being lack of funding and limited practical experience. Here we describe a successful approach that we developed to obtain DNA sequence data during a small DNA barcoding project in Indonesia.
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Affiliation(s)
- Gillian H. Dean
- Department of BotanyUniversity of British ColumbiaVancouverV6T1Z4British ColumbiaCanada
| | - Rani Asmarayani
- Herbarium BogorienseBotany DivisionResearch Center for BiologyIndonesian Institute of Sciences (LIPI)Cibinong16911BogorWest JavaIndonesia
- Present address:
Department of BiologyUniversity of Missouri–St. LouisSt. LouisMissouri63121USA
| | - Marlina Ardiyani
- Herbarium BogorienseBotany DivisionResearch Center for BiologyIndonesian Institute of Sciences (LIPI)Cibinong16911BogorWest JavaIndonesia
| | - Yessi Santika
- Herbarium BogorienseBotany DivisionResearch Center for BiologyIndonesian Institute of Sciences (LIPI)Cibinong16911BogorWest JavaIndonesia
| | - Teguh Triono
- Herbarium BogorienseBotany DivisionResearch Center for BiologyIndonesian Institute of Sciences (LIPI)Cibinong16911BogorWest JavaIndonesia
- Present address:
Zoological Society of London (ZSL) Indonesia ProgramBogor16128Indonesia
| | - Sarah Mathews
- Arnold Arboretum of Harvard UniversityBostonMassachusetts02131USA
- Present address:
CSIROAustralian National HerbariumCanberraAustralian Capital Territory2601Australia
| | - Campbell O. Webb
- Arnold Arboretum of Harvard UniversityBostonMassachusetts02131USA
- Present address:
University of Alaska Museum of the NorthFairbanksAlaska99775USA
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20
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Lu LM, Mao LF, Yang T, Ye JF, Liu B, Li HL, Sun M, Miller JT, Mathews S, Hu HH, Niu YT, Peng DX, Chen YH, Smith SA, Chen M, Xiang KL, Le CT, Dang VC, Lu AM, Soltis PS, Soltis DE, Li JH, Chen ZD. Evolutionary history of the angiosperm flora of China. Nature 2018; 554:234-238. [DOI: 10.1038/nature25485] [Citation(s) in RCA: 210] [Impact Index Per Article: 35.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2017] [Accepted: 12/22/2017] [Indexed: 01/03/2023]
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Affiliation(s)
- J James
- Department of Neurology, Government Medical College Kozhikode, Njaralakatt House, Pottangadi Road, West Nadakkav, Calicut 673011, Kerala, India
| | - S Mathews
- Department of Internal Medicine, Government Medical College Kozhikode Njaralakatt House, Pottangadi Road, West Nadakkav, Calicut 673011, Kerala, India
| | - N K Thulaseedharan
- Department of Internal Medicine, Government Medical College Kozhikode Njaralakatt House, Pottangadi Road, West Nadakkav, Calicut 673011, Kerala, India
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22
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Anjanappa M, Kumar A, Mathews S, Joseph J, Jagathnathkrishna KM, James FV. Testicular seminoma: Are clinical features and treatment outcomes any different in India? Indian J Cancer 2017; 54:385-387. [PMID: 29199728 DOI: 10.4103/ijc.ijc_100_17] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
AIM This study aims to identify clinical features, treatment outcomes, and prognostic factors for relapse and survival in patients with testicular seminoma. MATERIALS AND METHODS Retrospective analysis of all patients with pure seminoma treated at our center during over a decade (January 2005-December 2014) was carried out. Patient demographics, tumor characteristics, and treatment details and pattern of recurrence were recorded in a structured format, and disease-free survival and overall survival were calculated. RESULTS Sixty-three patients' case records were included in the analysis. Ten patients developed disease in the undescended testis. All patients underwent orchiectomy as the initial treatment procedure. Majority of the patients were Stage I (57.14%) followed by Stage II (39.6%). Among the patients with Stage I, 55.5% received adjuvant chemotherapy while 22.2% received adjuvant radiation and the rest opted for surveillance. The compliance for active surveillance was very poor. Among patients with Stage II disease, majority (80%) were treated with adjuvant chemotherapy and the rest with radiation. At a median follow-up of 49 months, there were four recurrences of which three were salvaged successfully, and one patient remained alive with disease. There were no disease-related deaths. CONCLUSIONS Testicular seminoma remains to be relatively low and majority of them presented with Stage I disease and single agent carboplatin appeared to be the preferred adjuvant treatment. Advanced disease patients were treated with etoposide and cisplatin/bleomycin, etoposide and cisplatin chemotherapy and the clinical outcome is comparable with the Western literature.
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Affiliation(s)
- M Anjanappa
- Division of Clinical Oncology, Genitourinary Clinic, Regional Cancer Centre, Thiruvananthapuram, Kerala, India
| | - A Kumar
- Division of Clinical Oncology, Genitourinary Clinic, Regional Cancer Centre, Thiruvananthapuram, Kerala, India
| | - S Mathews
- Division of Clinical Oncology, Genitourinary Clinic, Regional Cancer Centre, Thiruvananthapuram, Kerala, India
| | - J Joseph
- Division of Clinical Oncology, Genitourinary Clinic, Regional Cancer Centre, Thiruvananthapuram, Kerala, India
| | - K M Jagathnathkrishna
- Division of Statistics and Cancer Epidemiology, Regional Cancer Centre, Thiruvananthapuram, Kerala, India
| | - F V James
- Division of Clinical Oncology, Genitourinary Clinic, Regional Cancer Centre, Thiruvananthapuram, Kerala, India
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Godfree RC, Marshall DJ, Young AG, Miller CH, Mathews S. Empirical evidence of fixed and homeostatic patterns of polyploid advantage in a keystone grass exposed to drought and heat stress. R Soc Open Sci 2017; 4:170934. [PMID: 29291088 PMCID: PMC5717662 DOI: 10.1098/rsos.170934] [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] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2017] [Accepted: 10/20/2017] [Indexed: 05/06/2023]
Abstract
A long-standing hypothesis in evolutionary biology is that polyploid plants have a fitness advantage over diploids in climatically variable or extreme habitats. Here we provide the first empirical evidence that polyploid advantage in these environments is caused by two distinct processes: homeostatic maintenance of reproductive output under elevated abiotic stress, and fixed differences in seed development. In an outdoor climate manipulation experiment using coastal to inland Australian populations of the perennial grass Themeda triandra Forssk., we found that total output of viable seed in drought- and heat-stressed tetraploid plants was over four times higher than in diploids, despite being equal under more favourable growing conditions. Tetraploids also consistently produced heavier seeds with longer hygroscopic awns, traits which increase propagule fitness in extreme environments. These differences add to fitness benefits associated with broader-scale local adaptation of inland T. triandra populations to drought stress. Our study provides evidence that nucleotypic effects of genome size and increased reproductive flexibility can jointly underlie polyploid advantage in plants in stressful environments, and argue that ploidy can be an important criterion for selecting plant populations for use in genetic rescue, restoration and revegetation projects, including in habitats affected by climate change.
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Mathews S, Ngoma L, Gashe B, Mpuchane S. The Effect of Different Temperatures and Chemical Substances on Growth of Some Bacterial Species Isolated from Ice Cream and Ice Pop (Sorbates) Sold in Gaborone, Botswana. ACTA ACUST UNITED AC 2017. [DOI: 10.1080/09735070.2013.11886464] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- S. Mathews
- Department of Biological Sciences, School of Environmental and Health Sciences, Faculty of Agriculture, Science and Technology, North-West University, Mafikeng Campus, Private Bag X2046, Mmabatho 2735, South Africa
| | - L. Ngoma
- Department of Biological Sciences, School of Environmental and Health Sciences, Faculty of Agriculture, Science and Technology, North-West University, Mafikeng Campus, Private Bag X2046, Mmabatho 2735, South Africa
| | - B. Gashe
- Department of Biological Sciences, Faculty of Science, University of Botswana, 4775 Notwane Rd, Gaborone, Botswana Private Bag UB 0022 Gaborone, Botswana
| | - S. Mpuchane
- Department of Biological Sciences, Faculty of Science, University of Botswana, 4775 Notwane Rd, Gaborone, Botswana Private Bag UB 0022 Gaborone, Botswana
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Affiliation(s)
- S. Mathews
- Department of Biological Sciences, School of Environmental and Health Sciences, Faculty of Agriculture, Science and Technology, North-West University, Mafikeng Campus, Private Bag X2046, Mmabatho 2735, South Africa
| | - L. Ngoma
- Department of Biological Sciences, School of Environmental and Health Sciences, Faculty of Agriculture, Science and Technology, North-West University, Mafikeng Campus, Private Bag X2046, Mmabatho 2735, South Africa
| | - B. Gashe
- Department of Biological Sciences, Faculty of Science, University of Botswana, 4775 Notwane Rd. Gaborone, Botswana Private Bag UB 0022 Gaborone, Botswana
| | - S. Mpuchane
- Department of Biological Sciences, Faculty of Science, University of Botswana, 4775 Notwane Rd. Gaborone, Botswana Private Bag UB 0022 Gaborone, Botswana
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Leslie AB, Beaulieu JM, Mathews S. Variation in seed size is structured by dispersal syndrome and cone morphology in conifers and other nonflowering seed plants. New Phytol 2017; 216:429-437. [PMID: 28185279 DOI: 10.1111/nph.14456] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [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: 11/21/2016] [Accepted: 12/23/2016] [Indexed: 05/07/2023]
Abstract
Seed size varies tremendously in plants and its evolution is influenced by multiple ecological and biological factors that are difficult to disentangle. In this study, we focus on understanding the role of seed dispersal by animals in the evolution of seed size in conifers, the most diverse extant nonflowering seed plant group. Relationships among seed size, dispersal syndrome, climate and cone morphology were analyzed across conifers using quantitative models of character evolution and phylogenetic regression techniques. Dispersal syndrome is a more consistent predictor of seed size within major extant conifer clades than climate. Seeds are generally larger in animal-dispersed than wind-dispersed species, and particular cone morphologies are consistently associated with specific ranges in seed size. Seed size and cone morphology evolve in a correlated manner in many animal-dispersed conifers, following a trade-off that minimizes the total size of the dispersal unit. These relationships are also present in other nonflowering seed plant groups, and have been important in the evolution of seeds and cones at least over the Cenozoic and perhaps over much of the later Mesozoic.
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Affiliation(s)
- Andrew B Leslie
- Department of Ecology and Evolutionary Biology, Brown University, Box G-W, 80 Waterman Street, Providence, RI, 02912, USA
| | - Jeremy M Beaulieu
- Department of Biological Sciences, University of Arkansas, Science and Engineering Room 601, Fayetteville, AR, 72701, USA
| | - Sarah Mathews
- CSIRO National Research Collections Australia, Australian National Herbarium, Canberra, ACT, 2601, Australia
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Latvis M, Mortimer SME, Morales-Briones DF, Torpey S, Uribe-Convers S, Jacobs SJ, Mathews S, Tank DC. Primers for Castilleja and their utility across Orobanchaceae: I. Chloroplast primers. Appl Plant Sci 2017; 5:apps.1700020. [PMID: 28989821 PMCID: PMC5628025 DOI: 10.3732/apps.1700020] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2017] [Accepted: 04/10/2017] [Indexed: 05/24/2023]
Abstract
PREMISE OF THE STUDY Chloroplast primers were developed from genomic data for the taxonomically challenging genus Castilleja. We further tested the broader utility of these primers across Orobanchaceae, identifying a core set of chloroplast primers amplifying across the clade. METHODS AND RESULTS Using a combination of three low-coverage Castilleja genomes and sequence data from 12 Castilleja plastomes, 76 primer combinations were specifically designed and tested for Castilleja. The primers targeted the most variable portions of the plastome and were validated for their applicability across the clade. Of these, 38 primer combinations were subsequently evaluated in silico and then validated across other major clades in Orobanchaceae. CONCLUSIONS These results demonstrate the utility of these primers, not only across Castilleja, but for other clades in Orobanchaceae-particularly hemiparasitic lineages-and will contribute to future phylogenetic studies of this important clade of parasitic plants.
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Affiliation(s)
- Maribeth Latvis
- Department of Natural Resource Management, South Dakota State University, 1390 College Avenue, Brookings, South Dakota 57007 USA
| | - Sebastian M. E. Mortimer
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
| | - Diego F. Morales-Briones
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
- Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
| | - Samuel Torpey
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
| | - Simon Uribe-Convers
- Department of Ecology and Evolutionary Biology, University of Michigan, 830 North University Avenue, Ann Arbor, Michigan 48109 USA
| | - Sarah J. Jacobs
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
- Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
| | - Sarah Mathews
- Australian National Herbarium, CSIRO National Research Collections, Canberra, Australia
| | - David C. Tank
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
- Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
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Latvis M, Jacobs SJ, Mortimer SME, Richards M, Blischak PD, Mathews S, Tank DC. Primers for Castilleja and their utility across Orobanchaceae: II. Single-copy nuclear loci. Appl Plant Sci 2017; 5:apps.1700038. [PMID: 28989822 PMCID: PMC5628026 DOI: 10.3732/apps.1700038] [Citation(s) in RCA: 2] [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] [Subscribe] [Scholar Register] [Received: 04/15/2017] [Accepted: 07/20/2017] [Indexed: 05/25/2023]
Abstract
PREMISE OF THE STUDY We developed primers targeting nuclear loci in Castilleja with the goal of reconstructing the evolutionary history of this challenging clade. These primers were tested across other major clades in Orobanchaceae to assess their broader utility. METHODS AND RESULTS We assembled low-coverage genomes for three taxa in Castilleja and developed primer combinations for the single-copy conserved ortholog set (COSII) and the pentatricopeptide repeat (PPR) gene family. These primer combinations were designed to take advantage of the Fluidigm microfluidic PCR platform and are well suited for high-throughput sequencing applications. Eighty-seven primers were designed for Castilleja, and 27 were found to have broader utility in Orobanchaceae. CONCLUSIONS These results demonstrate the utility of these primers, not only across Castilleja, but for other lineages within Orobanchaceae as well. This expanded molecular toolkit will be an asset to future phylogenetic studies in Castilleja and throughout Orobanchaceae.
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Affiliation(s)
- Maribeth Latvis
- Department of Natural Resource Management, South Dakota State University, 1390 College Avenue, Brookings, South Dakota 57007 USA
| | - Sarah J. Jacobs
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
- Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
| | - Sebastian M. E. Mortimer
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
| | - Melissa Richards
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
| | - Paul D. Blischak
- The Ohio State University, Department of Evolution, Ecology, and Organismal Biology, 318 W. 12th Avenue, Columbus, Ohio 43210 USA
| | - Sarah Mathews
- Australian National Herbarium, CSIRO National Research Collections, Canberra, Australia
| | - David C. Tank
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
- Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
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Latvis M, Jacobs SJ, Mortimer SME, Richards M, Blischak PD, Mathews S, Tank DC. Primers for Castilleja and their utility across Orobanchaceae: II. Single-copy nuclear loci. Appl Plant Sci 2017. [PMID: 28989822 DOI: 10.5061/dryad.52v62] [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: 05/08/2023]
Abstract
PREMISE OF THE STUDY We developed primers targeting nuclear loci in Castilleja with the goal of reconstructing the evolutionary history of this challenging clade. These primers were tested across other major clades in Orobanchaceae to assess their broader utility. METHODS AND RESULTS We assembled low-coverage genomes for three taxa in Castilleja and developed primer combinations for the single-copy conserved ortholog set (COSII) and the pentatricopeptide repeat (PPR) gene family. These primer combinations were designed to take advantage of the Fluidigm microfluidic PCR platform and are well suited for high-throughput sequencing applications. Eighty-seven primers were designed for Castilleja, and 27 were found to have broader utility in Orobanchaceae. CONCLUSIONS These results demonstrate the utility of these primers, not only across Castilleja, but for other lineages within Orobanchaceae as well. This expanded molecular toolkit will be an asset to future phylogenetic studies in Castilleja and throughout Orobanchaceae.
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Affiliation(s)
- Maribeth Latvis
- Department of Natural Resource Management, South Dakota State University, 1390 College Avenue, Brookings, South Dakota 57007 USA
| | - Sarah J Jacobs
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
- Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
| | - Sebastian M E Mortimer
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
| | - Melissa Richards
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
| | - Paul D Blischak
- The Ohio State University, Department of Evolution, Ecology, and Organismal Biology, 318 W. 12th Avenue, Columbus, Ohio 43210 USA
| | - Sarah Mathews
- Australian National Herbarium, CSIRO National Research Collections, Canberra, Australia
| | - David C Tank
- Department of Biological Sciences, University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
- Stillinger Herbarium, University of Idaho, 875 Perimeter Drive, MS 1133, Moscow, Idaho 83844-1133 USA
- Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, 875 Perimeter Drive, MS 3051, Moscow, Idaho 83844-3051 USA
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Rockwell NC, Martin SS, Li FW, Mathews S, Lagarias JC. The phycocyanobilin chromophore of streptophyte algal phytochromes is synthesized by HY2. New Phytol 2017; 214:1145-1157. [PMID: 28106912 PMCID: PMC5388591 DOI: 10.1111/nph.14422] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2016] [Accepted: 12/04/2016] [Indexed: 05/11/2023]
Abstract
Land plant phytochromes perceive red and far-red light to control growth and development, using the linear tetrapyrrole (bilin) chromophore phytochromobilin (PΦB). Phytochromes from streptophyte algae, sister species to land plants, instead use phycocyanobilin (PCB). PCB and PΦB are synthesized by different ferredoxin-dependent bilin reductases (FDBRs): PΦB is synthesized by HY2, whereas PCB is synthesized by PcyA. The pathway for PCB biosynthesis in streptophyte algae is unknown. We used phylogenetic analysis and heterologous reconstitution of bilin biosynthesis to investigate bilin biosynthesis in streptophyte algae. Phylogenetic results suggest that PcyA is present in chlorophytes and prasinophytes but absent in streptophytes. A system reconstituting bilin biosynthesis in Escherichia coli was modified to utilize HY2 from the streptophyte alga Klebsormidium flaccidum (KflaHY2). The resulting bilin was incorporated into model cyanobacterial photoreceptors and into phytochrome from the early-diverging streptophyte alga Mesostigma viride (MvirPHY1). All photoreceptors tested incorporate PCB rather than PΦB, indicating that KflaHY2 is sufficient for PCB synthesis without any other algal protein. MvirPHY1 exhibits a red-far-red photocycle similar to those seen in other streptophyte algal phytochromes. These results demonstrate that streptophyte algae use HY2 to synthesize PCB, consistent with the hypothesis that PΦB synthesis arose late in HY2 evolution.
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Affiliation(s)
- Nathan C. Rockwell
- Department of Molecular and Cellular Biology, University of California, Davis, CA 95616, USA
| | - Shelley S. Martin
- Department of Molecular and Cellular Biology, University of California, Davis, CA 95616, USA
| | - Fay-Wei Li
- Department of Biology, Duke University, Durham, NC 27708, USA
| | - Sarah Mathews
- CSIRO National Research Collections Australia, Australian National Herbarium, Canberra, ACT, 2601, Australia
| | - J. Clark Lagarias
- Department of Molecular and Cellular Biology, University of California, Davis, CA 95616, USA
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Lu L, Cox CJ, Mathews S, Wang W, Wen J, Chen Z. Optimal data partitioning, multispecies coalescent and Bayesian concordance analyses resolve early divergences of the grape family (Vitaceae). Cladistics 2017; 34:57-77. [DOI: 10.1111/cla.12191] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/04/2017] [Indexed: 12/25/2022] Open
Affiliation(s)
- Limin Lu
- State Key Laboratory of Systematic and Evolutionary Botany Institute of Botany Chinese Academy of Sciences Beijing 100093 China
| | - Cymon J. Cox
- Centro de Ciências do Mar Universidade do Algarve Gambelas Faro 8005‐319 Portugal
| | - Sarah Mathews
- CSIRO National Research Collections Australian National Herbarium Canberra ACT 2601 Australia
| | - Wei Wang
- State Key Laboratory of Systematic and Evolutionary Botany Institute of Botany Chinese Academy of Sciences Beijing 100093 China
| | - Jun Wen
- Department of Botany National Museum of Natural History MRC166, Smithsonian Institution Washington DC 20013‐7012 USA
| | - Zhiduan Chen
- State Key Laboratory of Systematic and Evolutionary Botany Institute of Botany Chinese Academy of Sciences Beijing 100093 China
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Iyer RV, Nasrin F, See E, Mathews S. Smoothing Splines on Unit Ball Domains with Application to Corneal Topography. IEEE Trans Med Imaging 2017; 36:518-526. [PMID: 27775513 DOI: 10.1109/tmi.2016.2618389] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Optical coherence tomography (OCT) is a non-invasive imaging technique used to study and understand internal structures of biological tissues such as the anterior chamber of the human eye. An interesting problem is the reconstruction of the shape of the biological tissue from OCT images, that is not only a good fit of the data but also respects the smoothness properties observed in the images. A similar problem arises in Magnetic Resonance Imaging (MRI). We cast the problem as a penalized weighted least squares regression with a penalty on the magnitude of the second derivative (Laplacian) of the surface. We present a novel algorithm to construct the Kimeldorf-Wahba solution for unit ball domains. Our method unifies the ad-hoc approaches currently in the literature. Application of the theory to data from an anterior segment optical coherence tomographer is presented. A detailed comparison of the reconstructed surface using different approaches is presented.
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Rosen L, El Hachem L, Hoan K, Mathews S, Gretz HF. Laparoscopic Cornuostomy for the Removal of Essure Microinserts. J Minim Invasive Gynecol 2016. [DOI: 10.1016/j.jmig.2016.08.679] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Mandelberger AH, Mathews S, Chuang L. Practice Changes in Power Morcellation Among Gynecologic-Oncologists Since 2014. J Minim Invasive Gynecol 2016. [DOI: 10.1016/j.jmig.2016.08.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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35
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Mathews S, Barr Grzesh R, Rosen L, Weinberg A, Ascher-Walsh C. Competitive Laparoscopic Skills Training Among Obstetrics and Gynecology Residents. J Minim Invasive Gynecol 2016. [DOI: 10.1016/j.jmig.2016.08.586] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Mathews S, Rosen L, D’Angelo D, Mudiraj S, Friedman F, Brodman M, Ascher-Walsh C. Predictors of Laparoscopic Virtual Reality Simulation Performance in Attending Obstetrician/Gynecologists to Establish Cut-Offs for Additional Training and Annual Testing. J Minim Invasive Gynecol 2016. [DOI: 10.1016/j.jmig.2016.08.219] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Sequist L, Anderson I, Bauer T, Demars N, Felip E, Frost N, Harb W, Horn L, Huber R, Kudla A, Lee J, Mathews S, Mehra R, Nieva J, Perol M, Shepherd F, Spira A, Czibere A. A phase 2 study of seribantumab (MM-121) in combination with docetaxel or pemetrexed versus docetaxel or pemetrexed alone in patients with heregulin positive (HRG+), locally advanced or metastatic non-small cell lung cancer (NSCLC). Ann Oncol 2016. [DOI: 10.1093/annonc/mdw383.96] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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Affiliation(s)
- L El Hachem
- Minimally Invasive Gynecology and Gynecologic Oncology, Icahn School of Medicine at Mount Sinai, New York, New York; Minimally Invasive Gynecology and Gynecologic Oncology, White Plains Hospital Center, White Plains, New York
| | - S Mathews
- Minimally Invasive Gynecology and Gynecologic Oncology, Icahn School of Medicine at Mount Sinai, New York, New York; Minimally Invasive Gynecology and Gynecologic Oncology, White Plains Hospital Center, White Plains, New York
| | - E Pereira
- Minimally Invasive Gynecology and Gynecologic Oncology, Icahn School of Medicine at Mount Sinai, New York, New York
| | - M Momeni
- Minimally Invasive Gynecology and Gynecologic Oncology, Icahn School of Medicine at Mount Sinai, New York, New York
| | - K Friedman
- Minimally Invasive Gynecology and Gynecologic Oncology, Icahn School of Medicine at Mount Sinai, New York, New York
| | - L C Chuang
- Minimally Invasive Gynecology and Gynecologic Oncology, Icahn School of Medicine at Mount Sinai, New York, New York; Minimally Invasive Gynecology and Gynecologic Oncology, White Plains Hospital Center, White Plains, New York
| | - H F Gretz
- Minimally Invasive Gynecology and Gynecologic Oncology, Icahn School of Medicine at Mount Sinai, New York, New York; Minimally Invasive Gynecology and Gynecologic Oncology, White Plains Hospital Center, White Plains, New York
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Pirone-Davies C, Prior N, von Aderkas P, Smith D, Hardie D, Friedman WE, Mathews S. Insights from the pollination drop proteome and the ovule transcriptome of Cephalotaxus at the time of pollination drop production. Ann Bot 2016; 117:973-84. [PMID: 27045089 PMCID: PMC4866313 DOI: 10.1093/aob/mcw026] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [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: 07/20/2015] [Accepted: 01/08/2016] [Indexed: 05/06/2023]
Abstract
BACKGROUND AND AIMS Many gymnosperms produce an ovular secretion, the pollination drop, during reproduction. The drops serve as a landing site for pollen, but also contain a suite of ions and organic compounds, including proteins, that suggests diverse roles for the drop during pollination. Proteins in the drops of species of Chamaecyparis, Juniperus, Taxus, Pseudotsuga, Ephedra and Welwitschia are thought to function in the conversion of sugars, defence against pathogens, and pollen growth and development. To better understand gymnosperm pollination biology, the pollination drop proteomes of pollination drops from two species of Cephalotaxus have been characterized and an ovular transcriptome for C. sinensis has been assembled. METHODS Mass spectrometry was used to identify proteins in the pollination drops of Cephalotaxus sinensis and C. koreana RNA-sequencing (RNA-Seq) was employed to assemble a transcriptome and identify transcripts present in the ovules of C. sinensis at the time of pollination drop production. KEY RESULTS About 30 proteins were detected in the pollination drops of both species. Many of these have been detected in the drops of other gymnosperms and probably function in defence, polysaccharide metabolism and pollen tube growth. Other proteins appear to be unique to Cephalotaxus, and their putative functions include starch and callose degradation, among others. Together, the proteins appear either to have been secreted into the drop or to occur there due to breakdown of ovular cells during drop production. Ovular transcripts represent a wide range of gene ontology categories, and some may be involved in drop formation, ovule development and pollen-ovule interactions. CONCLUSIONS The proteome of Cephalotaxus pollination drops shares a number of components with those of other conifers and gnetophytes, including proteins for defence such as chitinases and for carbohydrate modification such as β-galactosidase. Proteins likely to be of intracellular origin, however, form a larger component of drops from Cephalotaxus than expected from studies of other conifers. This is consistent with the observation of nucellar breakdown during drop formation in Cephalotaxus The transcriptome data provide a framework for understanding multiple metabolic processes that occur within the ovule and the pollination drop just before fertilization. They reveal the deep conservation of WUSCHEL expression in ovules and raise questions about whether any of the S-locus transcripts in Cephalotaxus ovules might be involved in pollen-ovule recognition.
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Affiliation(s)
| | | | | | - Derek Smith
- UVic Genome BC Proteomics Centre, Victoria, BC, Canada
| | - Darryl Hardie
- UVic Genome BC Proteomics Centre, Victoria, BC, Canada
| | - William E Friedman
- The Arnold Arboretum of Harvard University, Boston, MA, USA, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA
| | - Sarah Mathews
- CSIRO, Centre for Australian National Biodiversity Research, Canberra, Australia and
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Mathews S, Friedman F, Weinberg A, Brodman M, Ascher-Walsh C. 47: The role of virtual reality simulation in the evaluation of laparoscopic skills in gynecology. Am J Obstet Gynecol 2016. [DOI: 10.1016/j.ajog.2016.01.078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Abstract
Plant photoreceptors link environmental light cues with physiological responses, determining how individual plants complete their life cycles. Structural and functional evolution of photoreceptors has co-occurred as plants diversified and faced the challenge of new light environments, during the transition of plants to land and as substantial plant canopies evolved. Large-scale comparative sequencing projects allow us for the first time to document photoreceptor evolution in understudied clades, revealing some surprises. Here we review recent progress in evolutionary studies of three photoreceptor families: phytochromes, phototropins and neochromes.
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Affiliation(s)
- Fay-Wei Li
- Department of Biology, Duke University, Durham, NC, 27708, USA.
- University Herbarium and Department of Integrative Biology, University of California, Berkeley, CA, 94720, USA.
| | - Sarah Mathews
- CSIRO National Research Collections Australia, Australian National Herbarium, Canberra, ACT, 2601, Australia.
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Mandelberger A, Mathews S, Andikyan V, Chuang L. Laparoscopic Removal of Streak Gonads in Turner Syndrome. J Minim Invasive Gynecol 2015; 22:S15. [DOI: 10.1016/j.jmig.2015.08.048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Epperson CN, Shanmugan S, Kim DR, Mathews S, Czarkowski KA, Bradley J, Appleby DH, Iannelli C, Sammel MD, Brown TE. New onset executive function difficulties at menopause: a possible role for lisdexamfetamine. Psychopharmacology (Berl) 2015; 232:3091-100. [PMID: 26063677 PMCID: PMC4631394 DOI: 10.1007/s00213-015-3953-7] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [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: 02/06/2015] [Accepted: 04/27/2015] [Indexed: 12/20/2022]
Abstract
RATIONALE Reports of cognitive decline, particularly in the domains of executive functions (EFs), are common among menopausal women. OBJECTIVE This study aims to determine the impact of the psychostimulant lisdexamfetamine (LDX) on subjective and objective cognitive function among menopausal women who report new-onset EF complaints. METHODS Thirty-two healthy perimenopausal and early postmenopausal women experiencing mid-life-onset executive function difficulties as measured using the Brown Attention Deficit Disorder Scale (BADDS) were administered LDX 40-60 mg/day for 4 weeks in this double-blind, placebo-controlled, cross-over study. Diagnosis of lifetime ADHD was exclusionary. BADDS total and subscale scores and performance on verbal memory and working memory tasks were outcomes of interest. RESULTS Analyses revealed a significant effect of LDX treatment over placebo for total BADDS scores (p = 0.0001) and for four out of the five BADDS subscales (all p < 0.004). LDX treatment also resulted in significant improvement in delayed paragraph recall (p = 0.018), but there was no significant effect of treatment on other cognitive measures. Systolic blood pressure (p = 0.017) and heart rate increased significantly (p = 0.006) when women were on LDX but remained, on average, within the normal range. CONCLUSIONS LDX 40-60 mg/day was well tolerated and improved the subjective measures of executive function as well as objective measures of delayed verbal recall in this sample of healthy menopausal women.
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Affiliation(s)
- C Neill Epperson
- Department of Psychiatry, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, USA,
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Imms C, Mathews S, Nicola Richmond K, Law M, Ullenhag A. Optimising leisure participation: a pilot intervention study for adolescents with physical impairments. Disabil Rehabil 2015. [DOI: 10.3109/09638288.2015.1068876] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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45
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Ruhsam M, Rai HS, Mathews S, Ross TG, Graham SW, Raubeson LA, Mei W, Thomas PI, Gardner MF, Ennos RA, Hollingsworth PM. Does complete plastid genome sequencing improve species discrimination and phylogenetic resolution in Araucaria? Mol Ecol Resour 2015; 15:1067-78. [PMID: 25611173 DOI: 10.1111/1755-0998.12375] [Citation(s) in RCA: 64] [Impact Index Per Article: 7.1] [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: 10/28/2014] [Revised: 01/15/2015] [Accepted: 01/16/2015] [Indexed: 12/13/2022]
Abstract
Obtaining accurate phylogenies and effective species discrimination using a small standardized set of plastid genes is challenging in evolutionarily young lineages. Complete plastid genome sequencing offers an increasingly easy-to-access source of characters that helps address this. The usefulness of this approach, however, depends on the extent to which plastid haplotypes track morphological species boundaries. We have tested the power of complete plastid genomes to discriminate among multiple accessions of 11 of 13 New Caledonian Araucaria species, an evolutionarily young lineage where the standard DNA barcoding approach has so far failed and phylogenetic relationships have remained elusive. Additionally, 11 nuclear gene regions were Sanger sequenced for all accessions to ascertain the success of species discrimination using a moderate number of nuclear genes. Overall, fewer than half of the New Caledonian Araucaria species with multiple accessions were monophyletic in the plastid or nuclear trees. However, the plastid data retrieved a phylogeny with a higher resolution compared to any previously published tree of this clade and supported the monophyly of about twice as many species and nodes compared to the nuclear data set. Modest gains in discrimination thus are possible, but using complete plastid genomes or a small number of nuclear genes in DNA barcoding may not substantially raise species discriminatory power in many evolutionarily young lineages. The big challenge therefore remains to develop techniques that allow routine access to large numbers of nuclear markers scaleable to thousands of individuals from phylogenetically disparate sample sets.
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Affiliation(s)
- Markus Ruhsam
- Royal Botanic Garden Edinburgh, 20A Inverleith Row, Edinburgh, EH3 5LR, UK
| | - Hardeep S Rai
- Department of Wildland Resources, Utah State University, 5230 Old Main Hill, Logan, UT, 84322, USA
| | - Sarah Mathews
- The Arnold Arboretum of Harvard University, 22 Divinity Avenue, Cambridge, MA, 02138, USA
| | - T Gregory Ross
- Department of Botany, University of British Columbia, 3529-6270 University Blvd., Vancouver, BC, Canada, V6T 1Z4
| | - Sean W Graham
- Department of Botany, University of British Columbia, 3529-6270 University Blvd., Vancouver, BC, Canada, V6T 1Z4
| | - Linda A Raubeson
- Central Washington University, University Way, Ellensburg, WA, 98926-7537, USA
| | - Wenbin Mei
- Central Washington University, University Way, Ellensburg, WA, 98926-7537, USA.,Department of Biology, University of Florida, Gainesville, FL, 32611, USA
| | - Philip I Thomas
- Royal Botanic Garden Edinburgh, 20A Inverleith Row, Edinburgh, EH3 5LR, UK
| | - Martin F Gardner
- Royal Botanic Garden Edinburgh, 20A Inverleith Row, Edinburgh, EH3 5LR, UK
| | - Richard A Ennos
- Institute of Evolutionary Biology, University of Edinburgh, West Main Rd, Edinburgh, EH3 9JT, UK
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46
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Li FW, Rothfels CJ, Melkonian M, Villarreal JC, Stevenson DW, Graham SW, Wong GKS, Mathews S, Pryer KM. The origin and evolution of phototropins. Front Plant Sci 2015; 6:637. [PMID: 26322073 PMCID: PMC4532919 DOI: 10.3389/fpls.2015.00637] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2015] [Accepted: 07/31/2015] [Indexed: 05/19/2023]
Abstract
Plant phototropism, the ability to bend toward or away from light, is predominantly controlled by blue-light photoreceptors, the phototropins. Although phototropins have been well-characterized in Arabidopsis thaliana, their evolutionary history is largely unknown. In this study, we complete an in-depth survey of phototropin homologs across land plants and algae using newly available transcriptomic and genomic data. We show that phototropins originated in an ancestor of Viridiplantae (land plants + green algae). Phototropins repeatedly underwent independent duplications in most major land-plant lineages (mosses, lycophytes, ferns, and seed plants), but remained single-copy genes in liverworts and hornworts-an evolutionary pattern shared with another family of photoreceptors, the phytochromes. Following each major duplication event, the phototropins differentiated in parallel, resulting in two specialized, yet partially overlapping, functional forms that primarily mediate either low- or high-light responses. Our detailed phylogeny enables us to not only uncover new phototropin lineages, but also link our understanding of phototropin function in Arabidopsis with what is known in Adiantum and Physcomitrella (the major model organisms outside of flowering plants). We propose that the convergent functional divergences of phototropin paralogs likely contributed to the success of plants through time in adapting to habitats with diverse and heterogeneous light conditions.
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Affiliation(s)
- Fay-Wei Li
- Department of Biology, Duke UniversityDurham, NC, USA
- *Correspondence: Fay-Wei Li, Department of Biology, Duke University, Biological Sciences Building, 130 Science Drive, Durham, NC 27708, USA,
| | - Carl J. Rothfels
- University Herbarium and Department of Integrative Biology, University of California at BerkeleyBerkeley, CA, USA
| | - Michael Melkonian
- Botany Department, Cologne Biocenter, University of CologneCologne, Germany
| | | | | | - Sean W. Graham
- Department of Botany, University of British ColumbiaVancouver, BC, Canada
| | - Gane K.-S. Wong
- Department of Biological Sciences, University of AlbertaEdmonton, AB, Canada
- Department of Medicine, University of AlbertaEdmonton, AB, Canada
- BGI-ShenzhenShenzhen, China
| | - Sarah Mathews
- CSIRO, Centre for Australian National Biodiversity ResearchCanberra, ACT, Australia
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Lagomarsino LP, Antonelli A, Muchhala N, Timmermann A, Mathews S, Davis CC. Phylogeny, classification, and fruit evolution of the species-rich Neotropical bellflowers (Campanulaceae: Lobelioideae). Am J Bot 2014; 101:2097-112. [PMID: 25480707 DOI: 10.3732/ajb.1400339] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
UNLABELLED • PREMISE OF THE STUDY The species-rich Neotropical genera Centropogon, Burmeistera, and Siphocampylus represent more than half of the ∼1200 species in the subfamily Lobelioideae (Campanulaceae). They exhibit remarkable morphological variation in floral morphology and habit. Limited taxon sampling and phylogenetic resolution, however, obscures our understanding of relationships between and within these genera and underscores our uncertainty of the systematic value of fruit type as a major diagnostic character.• METHODS We inferred a phylogeny from five plastid DNA regions (rpl32-trnL, ndhF-rpl32, rps16-trnK, trnG-trnG-trns, rbcL) using maximum-likelihood and Bayesian inference. Ancestral character reconstructions were applied to infer patterns of fruit evolution.• KEY RESULTS Our results demonstrate that the majority of species in the genera Centropogon, Burmeistera, and Siphocampylus together form a primarily mainland Neotropical clade, collectively termed the "centropogonids." Caribbean Siphocampylus, however, group with other Caribbean lobelioid species. We find high support for the monophyly of Burmeistera and the polyphyly of Centropogon and mainland Siphocampylus. The ancestral fruit type of the centropogonids is a capsule; berries have evolved independently multiple times.• CONCLUSIONS Our plastid phylogeny greatly improves the phylogenetic resolution within Neotropical Lobelioideae and highlights the need for taxonomic revisions in the subfamily. Inference of ancestral character states identifies a dynamic pattern of fruit evolution within the centropogonids, emphasizing the difficulty of diagnosing broad taxonomic groups on the basis of fruit type. Finally, we identify that the centropogonids, Lysipomia, and Lobelia section Tupa form a Pan-Andean radiation with broad habitat diversity. This clade is a prime candidate for investigations of Neotropical biogeography and morphological evolution.
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Affiliation(s)
- Laura P Lagomarsino
- Department of Organismic and Evolutionary Biology, Harvard University Herbaria, 22 Divinity Avenue, Cambridge, Massachusetts 02138 USA
| | - Alexandre Antonelli
- Department of Biological and Environmental Science, University of Gothenburg and Gothenburg Botanical Garden, Carl Skottsbergs Gata 22B, P.O. Box 461, SE 405 30, Göteborg, Sweden
| | - Nathan Muchhala
- Department of Biology, University of Missouri-St. Louis, R428 Research Building, St. Louis, Missouri 63121 USA
| | - Allan Timmermann
- Section for Ecoinformatics and Biodiversity, Department of Bioscience, Aarhus University, Ny Munkegade 114, DK-8000 Aarhus C, Denmark
| | - Sarah Mathews
- Department of Organismic and Evolutionary Biology, Harvard University Herbaria, 22 Divinity Avenue, Cambridge, Massachusetts 02138 USA National Research Collections Australia, CSIRO National Facilities and Collections, Canberra ACT 2601, Australia
| | - Charles C Davis
- Department of Organismic and Evolutionary Biology, Harvard University Herbaria, 22 Divinity Avenue, Cambridge, Massachusetts 02138 USA
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Wickett NJ, Mirarab S, Nguyen N, Warnow T, Carpenter E, Matasci N, Ayyampalayam S, Barker MS, Burleigh JG, Gitzendanner MA, Ruhfel BR, Wafula E, Der JP, Graham SW, Mathews S, Melkonian M, Soltis DE, Soltis PS, Miles NW, Rothfels CJ, Pokorny L, Shaw AJ, DeGironimo L, Stevenson DW, Surek B, Villarreal JC, Roure B, Philippe H, dePamphilis CW, Chen T, Deyholos MK, Baucom RS, Kutchan TM, Augustin MM, Wang J, Zhang Y, Tian Z, Yan Z, Wu X, Sun X, Wong GKS, Leebens-Mack J. Phylotranscriptomic analysis of the origin and early diversification of land plants. Proc Natl Acad Sci U S A 2014; 111:E4859-68. [PMID: 25355905 PMCID: PMC4234587 DOI: 10.1073/pnas.1323926111] [Citation(s) in RCA: 748] [Impact Index Per Article: 74.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023] Open
Abstract
Reconstructing the origin and evolution of land plants and their algal relatives is a fundamental problem in plant phylogenetics, and is essential for understanding how critical adaptations arose, including the embryo, vascular tissue, seeds, and flowers. Despite advances in molecular systematics, some hypotheses of relationships remain weakly resolved. Inferring deep phylogenies with bouts of rapid diversification can be problematic; however, genome-scale data should significantly increase the number of informative characters for analyses. Recent phylogenomic reconstructions focused on the major divergences of plants have resulted in promising but inconsistent results. One limitation is sparse taxon sampling, likely resulting from the difficulty and cost of data generation. To address this limitation, transcriptome data for 92 streptophyte taxa were generated and analyzed along with 11 published plant genome sequences. Phylogenetic reconstructions were conducted using up to 852 nuclear genes and 1,701,170 aligned sites. Sixty-nine analyses were performed to test the robustness of phylogenetic inferences to permutations of the data matrix or to phylogenetic method, including supermatrix, supertree, and coalescent-based approaches, maximum-likelihood and Bayesian methods, partitioned and unpartitioned analyses, and amino acid versus DNA alignments. Among other results, we find robust support for a sister-group relationship between land plants and one group of streptophyte green algae, the Zygnematophyceae. Strong and robust support for a clade comprising liverworts and mosses is inconsistent with a widely accepted view of early land plant evolution, and suggests that phylogenetic hypotheses used to understand the evolution of fundamental plant traits should be reevaluated.
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Affiliation(s)
- Norman J Wickett
- Chicago Botanic Garden, Glencoe, IL 60022; Program in Biological Sciences, Northwestern University, Evanston, IL 60208;
| | - Siavash Mirarab
- Department of Computer Science, University of Texas, Austin, TX 78712
| | - Nam Nguyen
- Department of Computer Science, University of Texas, Austin, TX 78712
| | - Tandy Warnow
- Department of Computer Science, University of Texas, Austin, TX 78712
| | - Eric Carpenter
- Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada T6G 2E9
| | - Naim Matasci
- iPlant Collaborative, Tucson, AZ 85721; Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721
| | | | - Michael S Barker
- Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721
| | | | - Matthew A Gitzendanner
- Department of Biology and Genetics Institute, University of Florida, Gainesville, FL 32611
| | - Brad R Ruhfel
- Department of Biology and Department of Biological Sciences, Eastern Kentucky University, Richmond, KY 40475; Florida Museum of Natural History, Gainesville, FL 32611
| | - Eric Wafula
- Department of Biology, Pennsylvania State University, University Park, PA 16803
| | - Joshua P Der
- Department of Biology, Pennsylvania State University, University Park, PA 16803
| | | | - Sarah Mathews
- Arnold Arboretum of Harvard University, Cambridge, MA 02138
| | | | - Douglas E Soltis
- Department of Biology and Genetics Institute, University of Florida, Gainesville, FL 32611; Florida Museum of Natural History, Gainesville, FL 32611
| | - Pamela S Soltis
- Department of Biology and Genetics Institute, University of Florida, Gainesville, FL 32611; Florida Museum of Natural History, Gainesville, FL 32611
| | | | - Carl J Rothfels
- Department of Biology, Duke University, Durham, NC 27708; Department of Zoology, University of British Columbia, Vancouver, BC, Canada V6T 1Z4
| | - Lisa Pokorny
- Department of Biology, Duke University, Durham, NC 27708; Department of Biodiversity and Conservation, Real Jardín Botánico-Consejo Superior de Investigaciones Cientificas, 28014 Madrid, Spain
| | | | | | | | - Barbara Surek
- Botanical Institute, Universität zu Köln, Cologne D-50674, Germany
| | - Juan Carlos Villarreal
- Department fur Biologie, Systematische Botanik und Mykologie, Ludwig-Maximilians-Universitat, 80638 Munich, Germany
| | - Béatrice Roure
- Département de Biochimie, Centre Robert-Cedergren, Université de Montréal, Succursale Centre-Ville, Montreal, QC, Canada H3C 3J7
| | - Hervé Philippe
- Département de Biochimie, Centre Robert-Cedergren, Université de Montréal, Succursale Centre-Ville, Montreal, QC, Canada H3C 3J7; CNRS, Station d' Ecologie Expérimentale du CNRS, Moulis, 09200, France
| | | | - Tao Chen
- Shenzhen Fairy Lake Botanical Garden, The Chinese Academy of Sciences, Shenzhen, Guangdong 518004, China
| | - Michael K Deyholos
- Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada T6G 2E9
| | - Regina S Baucom
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109
| | - Toni M Kutchan
- Donald Danforth Plant Science Center, St. Louis, MO 63132
| | | | - Jun Wang
- BGI-Shenzhen, Bei shan Industrial Zone, Yantian District, Shenzhen 518083, China; and
| | - Yong Zhang
- CNRS, Station d' Ecologie Expérimentale du CNRS, Moulis, 09200, France
| | - Zhijian Tian
- BGI-Shenzhen, Bei shan Industrial Zone, Yantian District, Shenzhen 518083, China; and
| | - Zhixiang Yan
- BGI-Shenzhen, Bei shan Industrial Zone, Yantian District, Shenzhen 518083, China; and
| | - Xiaolei Wu
- BGI-Shenzhen, Bei shan Industrial Zone, Yantian District, Shenzhen 518083, China; and
| | - Xiao Sun
- BGI-Shenzhen, Bei shan Industrial Zone, Yantian District, Shenzhen 518083, China; and
| | - Gane Ka-Shu Wong
- Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada T6G 2E9; BGI-Shenzhen, Bei shan Industrial Zone, Yantian District, Shenzhen 518083, China; and Department of Medicine, University of Alberta, Edmonton, AB, Canada T6G 2E1
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49
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Mathews S, Orbuch I, Orbuch L. Endometrioma Excision: Outcomes Using Consistent Technique. J Minim Invasive Gynecol 2014. [DOI: 10.1016/j.jmig.2014.08.445] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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50
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Li FW, Villarreal JC, Kelly S, Rothfels CJ, Melkonian M, Frangedakis E, Ruhsam M, Sigel EM, Der JP, Pittermann J, Burge DO, Pokorny L, Larsson A, Chen T, Weststrand S, Thomas P, Carpenter E, Zhang Y, Tian Z, Chen L, Yan Z, Zhu Y, Sun X, Wang J, Stevenson DW, Crandall-Stotler BJ, Shaw AJ, Deyholos MK, Soltis DE, Graham SW, Windham MD, Langdale JA, Wong GKS, Mathews S, Pryer KM. Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns. Proc Natl Acad Sci U S A 2014; 111:6672-7. [PMID: 24733898 PMCID: PMC4020063 DOI: 10.1073/pnas.1319929111] [Citation(s) in RCA: 124] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
Ferns are well known for their shade-dwelling habits. Their ability to thrive under low-light conditions has been linked to the evolution of a novel chimeric photoreceptor--neochrome--that fuses red-sensing phytochrome and blue-sensing phototropin modules into a single gene, thereby optimizing phototropic responses. Despite being implicated in facilitating the diversification of modern ferns, the origin of neochrome has remained a mystery. We present evidence for neochrome in hornworts (a bryophyte lineage) and demonstrate that ferns acquired neochrome from hornworts via horizontal gene transfer (HGT). Fern neochromes are nested within hornwort neochromes in our large-scale phylogenetic reconstructions of phototropin and phytochrome gene families. Divergence date estimates further support the HGT hypothesis, with fern and hornwort neochromes diverging 179 Mya, long after the split between the two plant lineages (at least 400 Mya). By analyzing the draft genome of the hornwort Anthoceros punctatus, we also discovered a previously unidentified phototropin gene that likely represents the ancestral lineage of the neochrome phototropin module. Thus, a neochrome originating in hornworts was transferred horizontally to ferns, where it may have played a significant role in the diversification of modern ferns.
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Affiliation(s)
- Fay-Wei Li
- Department of Biology, Duke University, Durham, NC 27708
| | - Juan Carlos Villarreal
- Systematic Botany and Mycology, Department of Biology, University of Munich, 80638 Munich, Germany
| | - Steven Kelly
- Department of Plant Sciences, University of Oxford, Oxford OX1 3RB, United Kingdom
| | - Carl J. Rothfels
- Department of Zoology, University of British Columbia, Vancouver, BC, Canada V6T 1Z4
| | - Michael Melkonian
- Botany Department, Cologne Biocenter, University of Cologne, 50674 Cologne, Germany
| | | | - Markus Ruhsam
- Royal Botanic Garden Edinburgh, Edinburgh EH3 5LR, Scotland
| | - Erin M. Sigel
- Department of Biology, Duke University, Durham, NC 27708
| | - Joshua P. Der
- Department of Biology and
- Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, PA 16802
| | - Jarmila Pittermann
- Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95064
| | | | | | - Anders Larsson
- Systematic Biology, Evolutionary Biology Centre, Uppsala University, SE-752 36 Uppsala, Sweden
| | - Tao Chen
- Fairy Lake Botanical Garden, Shenzhen, Guangdong 518004, China
| | - Stina Weststrand
- Systematic Biology, Evolutionary Biology Centre, Uppsala University, SE-752 36 Uppsala, Sweden
| | - Philip Thomas
- Royal Botanic Garden Edinburgh, Edinburgh EH3 5LR, Scotland
| | - Eric Carpenter
- Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada T6G 2E9
| | | | | | - Li Chen
- BGI-Shenzhen, Shenzhen 518083, China
| | | | - Ying Zhu
- BGI-Shenzhen, Shenzhen 518083, China
| | - Xiao Sun
- BGI-Shenzhen, Shenzhen 518083, China
| | - Jun Wang
- BGI-Shenzhen, Shenzhen 518083, China
| | | | | | | | - Michael K. Deyholos
- Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada T6G 2E9
| | - Douglas E. Soltis
- Florida Museum of Natural History
- Department of Biology, and
- Genetics Institute, University of Florida, Gainesville, FL 32611
| | - Sean W. Graham
- Department of Botany, University of British Columbia, Vancouver, BC, Canada V6T 1Z4
| | | | - Jane A. Langdale
- Department of Plant Sciences, University of Oxford, Oxford OX1 3RB, United Kingdom
| | - Gane Ka-Shu Wong
- Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada T6G 2E9
- BGI-Shenzhen, Shenzhen 518083, China
- Department of Medicine, University of Alberta, Edmonton, AB, Canada T6G 2E1; and
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