1
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Razi A, Lo CC, Wang S, Leek JT, Hansen KD. Genotype prediction of 336,463 samples from public expression data. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2023.10.21.562237. [PMID: 38559266 PMCID: PMC10979922 DOI: 10.1101/2023.10.21.562237] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 04/04/2024]
Abstract
Tens of thousands of RNA-sequencing experiments comprising hundreds of thousands of individual samples have now been performed. These data represent a broad range of experimental conditions, sequencing technologies, and hypotheses under study. The Recount project has aggregated and uniformly processed hundreds of thousands of publicly available RNA-seq samples. Most of these samples only include RNA expression measurements; genotype data for these same samples would enable a wide range of analyses including variant prioritization, eQTL analysis, and studies of allele specific expression. Here, we developed a statistical model based on the existing reference and alternative read counts from the RNA-seq experiments available through Recount3 to predict genotypes at autosomal biallelic loci in coding regions. We demonstrate the accuracy of our model using large-scale studies that measured both gene expression and genotype genome-wide. We show that our predictive model is highly accurate with 99.5% overall accuracy, 99.6% major allele accuracy, and 90.4% minor allele accuracy. Our model is robust to tissue and study effects, provided the coverage is high enough. We applied this model to genotype all the samples in Recount 3 and provide the largest ready-to-use expression repository containing genotype information. We illustrate that the predicted genotype from RNA-seq data is sufficient to unravel the underlying population structure of samples in Recount3 using Principal Component Analysis.
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Affiliation(s)
- Afrooz Razi
- Department of Genetic Medicine, Johns Hopkins University School of Medicine
| | - Christopher C. Lo
- Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health
| | - Siruo Wang
- Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health
| | - Jeffrey T. Leek
- Biostatistics Program, Division of Public Health Sciences, Fred Hutchinson Cancer Center
| | - Kasper D. Hansen
- Department of Genetic Medicine, Johns Hopkins University School of Medicine
- Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health
- Department of Biomedical Engineering, Johns Hopkins University School of Medicine
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2
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Bieker VC, Battlay P, Petersen B, Sun X, Wilson J, Brealey JC, Bretagnolle F, Nurkowski K, Lee C, Barreiro FS, Owens GL, Lee JY, Kellner FL, van Boheeman L, Gopalakrishnan S, Gaudeul M, Mueller-Schaerer H, Lommen S, Karrer G, Chauvel B, Sun Y, Kostantinovic B, Dalén L, Poczai P, Rieseberg LH, Gilbert MTP, Hodgins KA, Martin MD. Uncovering the genomic basis of an extraordinary plant invasion. SCIENCE ADVANCES 2022; 8:eabo5115. [PMID: 36001672 PMCID: PMC9401624 DOI: 10.1126/sciadv.abo5115] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2022] [Accepted: 07/11/2022] [Indexed: 05/31/2023]
Abstract
Invasive species are a key driver of the global biodiversity crisis, but the drivers of invasiveness, including the role of pathogens, remain debated. We investigated the genomic basis of invasiveness in Ambrosia artemisiifolia (common ragweed), introduced to Europe in the late 19th century, by resequencing 655 ragweed genomes, including 308 herbarium specimens collected up to 190 years ago. In invasive European populations, we found selection signatures in defense genes and lower prevalence of disease-inducing plant pathogens. Together with temporal changes in population structure associated with introgression from closely related Ambrosia species, escape from specific microbial enemies likely favored the plant's remarkable success as an invasive species.
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Affiliation(s)
- Vanessa C. Bieker
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | - Paul Battlay
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Bent Petersen
- Center for Evolutionary Hologenomics, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
- Centre of Excellence for Omics-Driven Computational Biodiscovery (COMBio), AIMST University, 08100 Kedah, Malaysia
| | - Xin Sun
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | - Jonathan Wilson
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Jaelle C. Brealey
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | - François Bretagnolle
- UMR CNRS/uB 6282 Biogéosciences, Université de Bourgogne-Franche-Comté, Dijon, France
| | - Kristin Nurkowski
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Chris Lee
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Fátima Sánchez Barreiro
- Center for Evolutionary Hologenomics, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | | | - Jacqueline Y. Lee
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Fabian L. Kellner
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | | | - Shyam Gopalakrishnan
- Center for Evolutionary Hologenomics, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | - Myriam Gaudeul
- Institut de Systématique Evolution Biodiversité (ISYEB), Muséum National d’Histoire Naturelle, CNRS, SU, EPHE, UA, National Herbarium (P), 57 rue Cuvier, CP39, 75005 Paris, France
| | | | - Suzanne Lommen
- Department of Biology, University of Fribourg, Fribourg, Switzerland
- Institute of Biology, Section Plant Ecology and Phytochemistry, Leiden University, P.O. Box 9505, 2300 RA Leiden, Netherlands
- Koppert Biological Systems, Department R&D Macrobiology, Veilingweg 14, 2651 BE Berkel en Rodenrijs, Netherlands
| | - Gerhard Karrer
- Department of Integrative Biology and Biodiversity Research, University of Natural Resources and Life Sciences Vienna, Vienna, Austria
| | - Bruno Chauvel
- UMR Agroécologie, Institut Agro, INRAE, Univ. Bourgogne, Univ. Bourgogne-Franche-Comté, F-21000 Dijon, France
| | - Yan Sun
- College of Resources and Environment, Huazhong Agricultural University, Wuhan, China
| | - Bojan Kostantinovic
- Department of Environmental and Plant Protection, Faculty of Agriculture, University of Novi Sad, Novi Sad, Serbia
| | - Love Dalén
- Centre for Palaeogenetics, Stockholm, Sweden
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, Stockholm, Sweden
| | - Péter Poczai
- Botany Unit, Finnish Museum of Natural History, University of Helsinki, Helsinki, Finland
- Faculty of Biological and Environmental Sciences, University of Helsinki, Helsinki, Finland
- Institute of Advanced Studies Kőszeg (iASK), Kőszeg, Hungary
| | - Loren H. Rieseberg
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, Canada
| | - M. Thomas P. Gilbert
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
- Center for Evolutionary Hologenomics, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | | | - Michael D. Martin
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
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3
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Salvo M, González-Feliú E, Toro J, Gallegos I, Maureira I, Miranda-González N, Barajas O, Bustamante E, Ahumada M, Colombo A, Armisén R, Villamán C, Ibañez C, Bravo ML, Sanhueza V, Spencer ML, de Toro G, Morales E, Bizama C, García P, Carrasco AM, Gutiérrez L, Bermejo JL, Verdugo RA, Marcelain K. Validation of an NGS Panel Designed for Detection of Actionable Mutations in Tumors Common in Latin America. J Pers Med 2021; 11:jpm11090899. [PMID: 34575676 PMCID: PMC8472524 DOI: 10.3390/jpm11090899] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2021] [Revised: 08/29/2021] [Accepted: 09/03/2021] [Indexed: 12/24/2022] Open
Abstract
Next-generation sequencing (NGS) is progressively being used in clinical practice. However, several barriers preclude using this technology for precision oncology in most Latin American countries. To overcome some of these barriers, we have designed a 25-gene panel that contains predictive biomarkers for most current and near-future available therapies in Chile and Latin America. Library preparation was optimized to account for low DNA integrity observed in formalin-fixed paraffin-embedded tissue. The workflow includes an automated bioinformatic pipeline that accounts for the underrepresentation of Latin Americans in genome databases. The panel detected small insertions, deletions, and single nucleotide variants down to allelic frequencies of 0.05 with high sensitivity, specificity, and reproducibility. The workflow was validated in 272 clinical samples from several solid tumor types, including gallbladder (GBC). More than 50 biomarkers were detected in these samples, mainly in BRCA1/2, KRAS, and PIK3CA genes. In GBC, biomarkers for PARP, EGFR, PIK3CA, mTOR, and Hedgehog signaling inhibitors were found. Thus, this small NGS panel is an accurate and sensitive method that may constitute a more cost-efficient alternative to multiple non-NGS assays and costly, large NGS panels. This kind of streamlined assay with automated bioinformatics analysis may facilitate the implementation of precision medicine in Latin America.
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Affiliation(s)
- Mauricio Salvo
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
| | - Evelin González-Feliú
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
| | - Jessica Toro
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
| | - Iván Gallegos
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
- Department of Pathology, Hospital Clínico de la Universidad de Chile, Santiago 8380456, Chile
| | - Ignacio Maureira
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
- Department of Medical Technology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile
| | - Nicolás Miranda-González
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
| | - Olga Barajas
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
- Department of Internal Medicine, Hospital Clínico Universidad de Chile, Santiago 8380456, Chile
- Fundación Arturo López Pérez, Santiago 7500921, Chile; (E.B.); (A.M.C.)
| | - Eva Bustamante
- Fundación Arturo López Pérez, Santiago 7500921, Chile; (E.B.); (A.M.C.)
| | - Mónica Ahumada
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
- Department of Internal Medicine, Hospital Clínico Universidad de Chile, Santiago 8380456, Chile
| | - Alicia Colombo
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
- Department of Pathology, Hospital Clínico de la Universidad de Chile, Santiago 8380456, Chile
| | - Ricardo Armisén
- Center for Genetics and Genomics, Instituto de Ciencias e Innovación en Medicina, Facultad de Medicina Clínica Alemana, Universidad del Desarrollo, Santiago 8320000, Chile;
| | - Camilo Villamán
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
| | - Carolina Ibañez
- Department of Hematology & Oncology, Faculty of Medicine, Pontificia Universidad Católica de Chile (PUC), Santiago 3580000, Chile; (C.I.); (M.L.B.)
| | - María Loreto Bravo
- Department of Hematology & Oncology, Faculty of Medicine, Pontificia Universidad Católica de Chile (PUC), Santiago 3580000, Chile; (C.I.); (M.L.B.)
| | - Verónica Sanhueza
- Department of Pathology, Hospital Padre Hurtado, Santiago 8710022, Chile;
| | - M. Loreto Spencer
- Department of Pathology, Hospital Clínico Regional Guillermo Grant Benavente, Concepción 4070038, Chile;
| | - Gonzalo de Toro
- School of Medical Technology, Universidad Austral de Chile at Puerto Montt, Puerto Montt 5110566, Chile;
| | - Erik Morales
- Department of Pathology, Hospital Regional de Talca, Talca 3460000, Chile;
- Department of Preclinical Sciences, Faculty of Medicine, Universidad Católica del Maule, Talca 3460000, Chile
| | - Carolina Bizama
- Department of Pathology, Faculty of Medicine, Pontificia Universidad Católica de Chile, Santiago 3580000, Chile; (C.B.); (P.G.)
| | - Patricia García
- Department of Pathology, Faculty of Medicine, Pontificia Universidad Católica de Chile, Santiago 3580000, Chile; (C.B.); (P.G.)
| | | | - Lorena Gutiérrez
- Department of Pathology, Hospital San Juan de Dios, Santiago 8320000, Chile;
| | | | - Ricardo A. Verdugo
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
- Human Genetics Program, ICBM, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile
- Correspondence: (R.A.V.); (K.M.); Tel.: +56-22978-9527 (R.A.V.); +56-22978-9562 (K.M.)
| | - Katherine Marcelain
- Department of Basic and Clinical Oncology, Faculty of Medicine, Universidad de Chile, Santiago 8330015, Chile; (M.S.); (E.G.-F.); (J.T.); (I.G.); (I.M.); (N.M.-G.); (O.B.); (M.A.); (A.C.); (C.V.)
- Correspondence: (R.A.V.); (K.M.); Tel.: +56-22978-9527 (R.A.V.); +56-22978-9562 (K.M.)
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4
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Choi YY, Shin SJ, Lee JE, Madlensky L, Lee ST, Park JS, Jo JH, Kim H, Nachmanson D, Xu X, Noh SH, Cheong JH, Harismendy O. Prevalence of cancer susceptibility variants in patients with multiple Lynch syndrome related cancers. Sci Rep 2021; 11:14807. [PMID: 34285288 PMCID: PMC8292343 DOI: 10.1038/s41598-021-94292-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2021] [Accepted: 07/05/2021] [Indexed: 12/30/2022] Open
Abstract
Along with early-onset cancers, multiple primary cancers (MPCs) are likely resulting from increased genetic susceptibility; however, the associated predisposition genes or prevalence of the pathogenic variants genes in MPC patients are often unknown. We screened 71 patients with MPC of the stomach, colorectal, and endometrium, sequencing 65 cancer predisposition genes. A subset of 19 patients with early-onset MPC of stomach and colorectum were further evaluated for variants in cancer related genes using both normal and tumor whole exome sequencing. Among 71 patients with MPCs, variants classified to be pathogenic were observed in 15 (21.1%) patients and affected Lynch Syndrome (LS) genes: MLH1 (n = 10), MSH6 (n = 2), PMS2 (n = 2), and MSH2 (n = 1). All carriers had tumors with high microsatellite instability and 13 of them (86.7%) were early-onset, consistent with LS. In 19 patients with early-onset MPCs, loss of function (LoF) variants in RECQL5 were more prevalent in non-LS MPC than in matched sporadic cancer patients (OR = 31.6, 2.73–1700.6, p = 0.001). Additionally, there were high-confidence LoF variants at FANCG and CASP8 in two patients accompanied by somatic loss of heterozygosity in tumor, respectively. The results suggest that genetic screening should be considered for synchronous cancers and metachronous MPCs of the LS tumor spectrum, particularly in early-onset. Susceptibility variants in non-LS genes for MPC patients may exist, but evidence for their role is more elusive than for LS patients.
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Affiliation(s)
- Yoon Young Choi
- Department of Surgery, CHA University School of Medicine, Pocheon-si, Korea.,Department of Surgery, Yonsei University Health System, Yonsei University College of Medicine, 50 Yonsei-ro, Seodaemun-gu,, Seoul, 120-752, Korea.,Yonsei Biomedical Research Institute, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea
| | - Su-Jin Shin
- Department of Pathology, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea
| | - Jae Eun Lee
- Yonsei Biomedical Research Institute, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea
| | - Lisa Madlensky
- Moores Cancer Center and Division of Biomedical Informatics Department of Medicine, University of California San Diego School of Medicine, 3855 Health Sciences Dr, La Jolla, CA, 92037, USA.,Department of Family Medicine and Public Health, University of California San Diego School of Medicine, San Diego, CA, USA
| | - Seung-Tae Lee
- Hereditary Cancer Clinic, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea.,Department of Laboratory Medicine, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea
| | - Ji Soo Park
- Hereditary Cancer Clinic, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea.,Department of Medicine, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea
| | - Jeong-Hyeon Jo
- Department of Pathology, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea
| | - Hyunki Kim
- Department of Pathology, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea
| | - Daniela Nachmanson
- Bioinformatics and Systems Biology Graduate Program, University of California San Diego School of Medicine, San Diego, USA
| | - Xiaojun Xu
- Moores Cancer Center and Division of Biomedical Informatics Department of Medicine, University of California San Diego School of Medicine, 3855 Health Sciences Dr, La Jolla, CA, 92037, USA
| | - Sung Hoon Noh
- Department of Surgery, Yonsei University Health System, Yonsei University College of Medicine, 50 Yonsei-ro, Seodaemun-gu,, Seoul, 120-752, Korea
| | - Jae-Ho Cheong
- Department of Surgery, Yonsei University Health System, Yonsei University College of Medicine, 50 Yonsei-ro, Seodaemun-gu,, Seoul, 120-752, Korea. .,Yonsei Biomedical Research Institute, Yonsei University Health System, Yonsei University College of Medicine, Seoul, Korea.
| | - Olivier Harismendy
- Moores Cancer Center and Division of Biomedical Informatics Department of Medicine, University of California San Diego School of Medicine, 3855 Health Sciences Dr, La Jolla, CA, 92037, USA. .,Department of Medicine, University of California San Diego School of Medicine, San Diego, CA, USA.
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5
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Smith AL, Hodkinson TR, Villellas J, Catford JA, Csergő AM, Blomberg SP, Crone EE, Ehrlén J, Garcia MB, Laine AL, Roach DA, Salguero-Gómez R, Wardle GM, Childs DZ, Elderd BD, Finn A, Munné-Bosch S, Baudraz MEA, Bódis J, Brearley FQ, Bucharova A, Caruso CM, Duncan RP, Dwyer JM, Gooden B, Groenteman R, Hamre LN, Helm A, Kelly R, Laanisto L, Lonati M, Moore JL, Morales M, Olsen SL, Pärtel M, Petry WK, Ramula S, Rasmussen PU, Enri SR, Roeder A, Roscher C, Saastamoinen M, Tack AJM, Töpper JP, Vose GE, Wandrag EM, Wingler A, Buckley YM. Global gene flow releases invasive plants from environmental constraints on genetic diversity. Proc Natl Acad Sci U S A 2020; 117:4218-4227. [PMID: 32034102 PMCID: PMC7049112 DOI: 10.1073/pnas.1915848117] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Abstract
When plants establish outside their native range, their ability to adapt to the new environment is influenced by both demography and dispersal. However, the relative importance of these two factors is poorly understood. To quantify the influence of demography and dispersal on patterns of genetic diversity underlying adaptation, we used data from a globally distributed demographic research network comprising 35 native and 18 nonnative populations of Plantago lanceolata Species-specific simulation experiments showed that dispersal would dilute demographic influences on genetic diversity at local scales. Populations in the native European range had strong spatial genetic structure associated with geographic distance and precipitation seasonality. In contrast, nonnative populations had weaker spatial genetic structure that was not associated with environmental gradients but with higher within-population genetic diversity. Our findings show that dispersal caused by repeated, long-distance, human-mediated introductions has allowed invasive plant populations to overcome environmental constraints on genetic diversity, even without strong demographic changes. The impact of invasive plants may, therefore, increase with repeated introductions, highlighting the need to constrain future introductions of species even if they already exist in an area.
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Affiliation(s)
- Annabel L Smith
- Zoology, School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland;
- School of Agriculture and Food Science, University of Queensland, Gatton, 4343, Australia
| | - Trevor R Hodkinson
- Botany, School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland
| | - Jesus Villellas
- Departamento Biogeografía y Cambio Global, Museo Nacional de Ciencias Naturales-Consejo Superior de Investigaciones Científicas (MNCN-CSIC), E-28006 Madrid, Spain
| | - Jane A Catford
- Department of Geography, King's College London, WC2B 4BG London, United Kingdom
| | - Anna Mária Csergő
- Zoology, School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland
- Department of Botany, Faculty of Horticultural Science, Szent István University, 1118 Budapest, Hungary
- Soroksár Botanical Garden, Faculty of Horticultural Science, Szent István University, 1118 Budapest, Hungary
| | - Simone P Blomberg
- School of Biological Sciences, University of Queensland, Brisbane, QLD 4072, Australia
| | | | - Johan Ehrlén
- Department of Ecology, Environment and Plant Sciences, Stockholm University, SE-106 91 Stockholm, Sweden
| | - Maria B Garcia
- Pyrenean Institute of Ecology, CSIC, 50059 Zaragoza, Spain
| | - Anna-Liisa Laine
- Department of Evolutionary Biology and Environmental Studies, University of Zurich, CH-8057 Zurich, Switzerland
- Research Centre for Ecological Change, Faculty of Biological and Environmental Sciences, University of Helsinki, FI-00014 Helsinki, Finland
| | - Deborah A Roach
- Department of Biology, University of Virginia, Charlottesville, VA 22904
| | | | - Glenda M Wardle
- School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW 2006, Australia
| | - Dylan Z Childs
- Department of Animal and Plant Sciences, University of Sheffield, S10 2TN Sheffield, United Kingdom
| | - Bret D Elderd
- Department of Biological Sciences, Louisiana State University, Baton Rouge, LA 70803
| | - Alain Finn
- Zoology, School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland
| | - Sergi Munné-Bosch
- Department of Evolutionary Biology, Ecology and Environmental Sciences, University of Barcelona, 08028 Barcelona, Spain
- Institut de Recerca de la Biodiversitat, University of Barcelona, 08028 Barcelona, Spain
| | - Maude E A Baudraz
- Zoology, School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland
| | - Judit Bódis
- Georgikon Faculty, University of Pannonia, H-8360 Keszthely, Hungary
| | - Francis Q Brearley
- Department of Natural Sciences, Manchester Metropolitan University, M1 5GD Manchester, United Kingdom
| | - Anna Bucharova
- Plant Evolutionary Ecology, Institute of Evolution and Ecology, University of Tübingen, 72074 Tübingen, Germany
- Ecosystem and Biodiversity Research Group, Institute of Landscape Ecology, University of Münster, 48149 Münster, Germany
| | - Christina M Caruso
- Department of Integrative Biology, University of Guelph, Guelph, ON N1G 2W1, Canada
| | - Richard P Duncan
- Institute for Applied Ecology, University of Canberra, Canberra, ACT 2617, Australia
| | - John M Dwyer
- School of Biological Sciences, University of Queensland, Brisbane, QLD 4072, Australia
- CSIRO Land & Water, Commonwealth Scientific and Industrial Research Organisation (CSIRO), Dutton Park, QLD 4102, Australia
| | - Ben Gooden
- CSIRO Health & Biosecurity, CSIRO, Black Mountain, ACT 2601, Australia
- School of Earth, Atmospheric and Life Sciences, Faculty of Science, Medicine and Health, University of Wollongong, Wollongong, NSW 2522, Australia
| | | | - Liv Norunn Hamre
- Department of Environmental Sciences, Western Norway University of Applied Sciences, N-6856 Sogndal, Norway
| | - Aveliina Helm
- Institute of Ecology and Earth Sciences, University of Tartu, 51005 Tartu, Estonia
| | - Ruth Kelly
- Zoology, School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland
| | - Lauri Laanisto
- Biodiversity and Nature Tourism, Estonian University of Life Sciences, 51006 Tartu, Estonia
| | - Michele Lonati
- Department of Agricultural, Forest and Food Science, University of Torino, 10015 Grugliasco, Italy
| | - Joslin L Moore
- School of Biological Sciences, Monash University, Clayton, VIC 3800, Australia
| | - Melanie Morales
- Department of Evolutionary Biology, Ecology and Environmental Sciences, University of Barcelona, 08028 Barcelona, Spain
- Research Group of Plant Biology under Mediterranean Conditions, Faculty of Biology, University of Balearic Islands, 07122 Palma de Mallorca, Spain
| | - Siri Lie Olsen
- Norwegian Institute for Nature Research, N-0349 Oslo, Norway
| | - Meelis Pärtel
- Institute of Ecology and Earth Sciences, University of Tartu, 51005 Tartu, Estonia
| | - William K Petry
- Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08544
| | - Satu Ramula
- Department of Biology, University of Turku, 20014 Turku, Finland
| | - Pil U Rasmussen
- Department of Ecology, Environment and Plant Sciences, Stockholm University, SE-106 91 Stockholm, Sweden
- The National Research Centre for the Working Environment, 2100 København Ø, Denmark
| | - Simone Ravetto Enri
- Department of Agricultural, Forest and Food Science, University of Torino, 10015 Grugliasco, Italy
| | - Anna Roeder
- Department of Physiological Diversity, Helmholtz Centre for Environmental Research - UFZ, 04103 Leipzig, Germany
- German Centre for Integrative Biodiversity Research Halle-Jena-Leipzig (iDiv), 04318 Leipzig, Germany
| | - Christiane Roscher
- Department of Physiological Diversity, Helmholtz Centre for Environmental Research - UFZ, 04103 Leipzig, Germany
- German Centre for Integrative Biodiversity Research Halle-Jena-Leipzig (iDiv), 04318 Leipzig, Germany
| | - Marjo Saastamoinen
- Helsinki Institute of Life Science, University of Helsinki, 00100 Helsinki, Finland
- Organismal and Evolutionary Research Programme, University of Helsinki, 00014 Helsinki, Finland
| | - Ayco J M Tack
- Department of Ecology, Environment and Plant Sciences, Stockholm University, SE-106 91 Stockholm, Sweden
| | | | - Gregory E Vose
- Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697
| | - Elizabeth M Wandrag
- Institute for Applied Ecology, University of Canberra, Canberra, ACT 2617, Australia
- School of Environmental and Rural Science, University of New England, Armidale, NSW 2351, Australia
| | - Astrid Wingler
- School of Biological, Earth & Environmental Sciences and Environmental Research Institute, University College Cork, Cork T23 N73K, Ireland
| | - Yvonne M Buckley
- Zoology, School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland
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Bakken S. Not the medical informatics of our founding mothers and fathers, or is it? J Am Med Inform Assoc 2019; 26:381-382. [DOI: 10.1093/jamia/ocz027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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