Journal ArticleDOI
A Map of Local Adaptation in Arabidopsis thaliana
Alexandre Fournier-Level,Arthur Korte,Martha D. Cooper,Magnus Nordborg,Johanna Schmitt,Amity M. Wilczek,Amity M. Wilczek +6 more
TLDR
Fitness-associated loci exhibited both geographic and climatic signatures of local adaptation, and independent local adaptation by distinct genetic mechanisms may facilitate a flexible evolutionary response to changing environment across a species range.Abstract:
Local adaptation is critical for species persistence in the face of rapid environmental change, but its genetic basis is not well understood. Growing the model plant Arabidopsis thaliana in field experiments in four sites across the species' native range, we identified candidate loci for local adaptation from a genome-wide association study of lifetime fitness in geographically diverse accessions. Fitness-associated loci exhibited both geographic and climatic signatures of local adaptation. Relative to genomic controls, high-fitness alleles were generally distributed closer to the site where they increased fitness, occupying specific and distinct climate spaces. Independent loci with different molecular functions contributed most strongly to fitness variation in each site. Independent local adaptation by distinct genetic mechanisms may facilitate a flexible evolutionary response to changing environment across a species range.read more
Citations
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疟原虫var基因转换速率变化导致抗原变异[英]/Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A
TL;DR: PfPMP1)与感染红细胞、树突状组胞以及胎盘的单个或多个受体作用,在黏附及免疫逃避中起关键的作�ly.
Journal ArticleDOI
The advantages and limitations of trait analysis with GWAS: a review
Arthur Korte,Ashley Farlow +1 more
TL;DR: The relevance of biological factors including effect size, sample size, genetic heterogeneity, genomic confounding, linkage disequilibrium and spurious association, and statistical tools to account for these are presented.
Journal ArticleDOI
Ecological genomics of local adaptation
TL;DR: Genomic tools are now allowing genome-wide studies, and recent theoretical advances can help to design research strategies that combine genomics and field experiments to examine the genetics of local adaptation.
Journal ArticleDOI
Climate change, adaptation, and phenotypic plasticity: the problem and the evidence.
Juha Merilä,Andrew P. Hendry +1 more
TL;DR: Evidence for genetic adaptation to climate change has been found in some systems, but is still relatively scarce and it is clear that more studies are needed – and these must employ better inferential methods – before general conclusions can be drawn.
Journal ArticleDOI
1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana
Carlos Alonso-Blanco,Jorge Andrade,Claude Becker,Felix Bemm,Joy Bergelson,Karsten M. Borgwardt,Jun Cao,Eunyoung Chae,Todd M. Dezwaan,Wei Ding,Joseph R. Ecker,Moises Exposito-Alonso,Ashley Farlow,Joffrey Fitz,Xiangchao Gan,Dominik G. Grimm,Angela M. Hancock,Stefan R. Henz,Svante Holm,Matthew W. Horton,Mike Jarsulic,Randall A. Kerstetter,Arthur Korte,Pamela Korte,Christa Lanz,Cheng-Ruei Lee,Dazhe Meng,Todd P. Michael,Richard Mott,Ni Wayan Muliyati,Thomas Nägele,Matthias Nagler,Viktoria Nizhynska,Magnus Nordborg,Polina Yu. Novikova,F. Xavier Picó,Alexander Platzer,Fernando A. Rabanal,Alex Rodriguez,Beth A. Rowan,Patrice A. Salomé,Karl Schmid,Robert J. Schmitz,Ümit Seren,Felice Gianluca Sperone,Mitchell Sudkamp,Hannes Svardal,Matt M. Tanzer,Donald Todd,Samuel L. Volchenboum,Congmao Wang,George Wang,Xi Wang,Wolfram Weckwerth,Detlef Weigel,Xuefeng Zhou +55 more
TL;DR: Insights into the history of the species and the fine-scale distribution of genetic diversity provide the basis for full exploitation of A. thaliana natural variation through integration of genomes and epigenomes with molecular and non-molecular phenotypes.
References
More filters
疟原虫var基因转换速率变化导致抗原变异[英]/Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A
TL;DR: PfPMP1)与感染红细胞、树突状组胞以及胎盘的单个或多个受体作用,在黏附及免疫逃避中起关键的作�ly.
Journal ArticleDOI
Maximum entropy modeling of species geographic distributions
TL;DR: In this paper, the use of the maximum entropy method (Maxent) for modeling species geographic distributions with presence-only data was introduced, which is a general-purpose machine learning method with a simple and precise mathematical formulation.
Journal ArticleDOI
Variance component model to account for sample structure in genome-wide association studies
Hyun Min Kang,Jae Hoon Sul,Noah Zaitlen,Sit Yee Kong,Nelson B. Freimer,Chiara Sabatti,Eleazar Eskin +6 more
TL;DR: A variance component approach implemented in publicly available software, EMMA eXpedited (EMMAX), that reduces the computational time for analyzing large GWAS data sets from years to hours is reported.
Journal ArticleDOI
Detecting recent positive selection in the human genome from haplotype structure
Pardis C. Sabeti,David Reich,John M. Higgins,Haninah Z P Levine,Daniel J. Richter,Stephen F. Schaffner,Stacey Gabriel,Jill Platko,Nick Patterson,Gavin J. McDonald,Hans Ackerman,Sarah J. Campbell,David Altshuler,David Altshuler,Richard H. Cooper,Dominic P. Kwiatkowski,Ryk Ward,Eric S. Lander +17 more
TL;DR: A framework for detecting the genetic imprint of recent positive selection by analysing long-range haplotypes in human populations is introduced, and the core haplotypes carrying the proposed protective mutation stand out and show significant evidence of selection.
Journal ArticleDOI
Adaptation, migration or extirpation: climate change outcomes for tree populations
TL;DR: As all tree species will be suffering lags, interspecific competition may weaken, facilitating persistence under suboptimal conditions, and species with small populations, fragmented ranges, low fecundity, or suffering declines due to introduced insects or diseases should be candidates for facilitated migration.
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