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 M. Borgwardt; Jun Cao; Eunyoung Chae; Todd M M. Dezwaan; Wei Ding; Joseph R R. Ecker; Moises Exposito-Alonso; Ashley Farlow; Joffrey Fitz; Xiangchao Gan; Dominik G G. Grimm; Angela M M. Hancock; Stefan R R. Henz; Svante Holm; Matthew Horton; Mike Jarsulic; Randall A A. Kerstetter; Arthur Korte; Pamela Korte; Christa Lanz; Cheng Ruei Lee; Dazhe Meng; Todd P P. Michael; Richard Mott; Ni Wayan W. Muliyati; Thomas Nägele; Matthias Nagler; Viktoria Nizhynska; Magnus Nordborg; Polina Yu Y. Novikova; F.  Xavier Picó; Alexander Platzer; Fernando A A. Rabanal; Alex Rodriguez; Beth A A. Rowan; Patrice A A. Salomé; Karl J J. Schmid; Robert J J. Schmitz; Ümit Seren; Felice Gianluca G. Sperone; Mitchell Sudkamp; Hannes Svardal; Matt M M. Tanzer; Donald Todd; Samuel L L. Volchenboum; Congmao Wang; George Wang; Xi Wang; Wolfram Weckwerth; Detlef Weigel; Xuefeng Zhou

doi:10.1016/j.cell.2016.05.063

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 M. Borgwardt, Jun Cao, Eunyoung Chae, Todd M M. Dezwaan, Wei Ding, Joseph R R. Ecker, Moises Exposito-Alonso, Ashley Farlow, Joffrey Fitz, Xiangchao Gan, Dominik G G. Grimm, Angela M M. Hancock, Stefan R R. Henz, Svante Holm, Matthew HortonMike Jarsulic, Randall A A. Kerstetter, Arthur Korte, Pamela Korte, Christa Lanz, Cheng Ruei Lee, Dazhe Meng, Todd P P. Michael, Richard Mott, Ni Wayan W. Muliyati, Thomas Nägele, Matthias Nagler, Viktoria Nizhynska, Magnus Nordborg, Polina Yu Y. Novikova, F. Xavier Picó, Alexander Platzer, Fernando A A. Rabanal, Alex Rodriguez, Beth A A. Rowan, Patrice A A. Salomé, Karl J J. Schmid, Robert J J. Schmitz, Ümit Seren, Felice Gianluca G. Sperone, Mitchell Sudkamp, Hannes Svardal, Matt M M. Tanzer, Donald Todd, Samuel L L. Volchenboum, Congmao Wang, George Wang, Xi Wang, Wolfram Weckwerth, Detlef Weigel, Xuefeng Zhou

Biology and Genomics

Research output: Contribution to journal › Article › peer-review

Abstract

Arabidopsis thaliana serves as a model organism for the study of fundamental physiological, cellular, and molecular processes. It has also greatly advanced our understanding of intraspecific genome variation. We present a detailed map of variation in 1,135 high-quality re-sequenced natural inbred lines representing the native Eurasian and North African range and recently colonized North America. We identify relict populations that continue to inhabit ancestral habitats, primarily in the Iberian Peninsula. They have mixed with a lineage that has spread to northern latitudes from an unknown glacial refugium and is now found in a much broader spectrum of habitats. 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.

Original language	English (US)
Pages (from-to)	481-491
Number of pages	11
Journal	Cell
Volume	166
Issue number	2
DOIs	https://doi.org/10.1016/j.cell.2016.05.063
State	Published - Jul 14 2016

Keywords

1001 Genomes
Arabidopsis thaliana
GWAS
glacial refugia
population expansion

ASJC Scopus subject areas

General Biochemistry, Genetics and Molecular Biology

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10.1016/j.cell.2016.05.063

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Alonso-Blanco, C., Andrade, J., Becker, C., Bemm, F., Bergelson, J., Borgwardt, KM. M., Cao, J., Chae, E., Dezwaan, TM. M., Ding, W., Ecker, JR. R., Exposito-Alonso, M., Farlow, A., Fitz, J., Gan, X., Grimm, DG. G., Hancock, AM. M., Henz, SR. R., Holm, S., ... Zhou, X. (2016). 1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana. Cell, 166(2), 481-491. https://doi.org/10.1016/j.cell.2016.05.063

Alonso-Blanco, C, Andrade, J, Becker, C, Bemm, F, Bergelson, J, Borgwardt, KMM, Cao, J, Chae, E, Dezwaan, TMM, Ding, W, Ecker, JRR, Exposito-Alonso, M, Farlow, A, Fitz, J, Gan, X, Grimm, DGG, Hancock, AMM, Henz, SRR, Holm, S, Horton, M, Jarsulic, M, Kerstetter, RAA, Korte, A, Korte, P, Lanz, C, Lee, CR, Meng, D, Michael, TPP, Mott, R, Muliyati, NWW, Nägele, T, Nagler, M, Nizhynska, V, Nordborg, M, Novikova, PYY, Picó, FX, Platzer, A, Rabanal, FAA, Rodriguez, A, Rowan, BAA, Salomé, PAA, Schmid, KJJ, Schmitz, RJJ, Seren, Ü, Sperone, FGG, Sudkamp, M, Svardal, H, Tanzer, MMM, Todd, D, Volchenboum, SLL, Wang, C, Wang, G, Wang, X, Weckwerth, W, Weigel, D & Zhou, X 2016, '1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana', Cell, vol. 166, no. 2, pp. 481-491. https://doi.org/10.1016/j.cell.2016.05.063

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abstract = "Arabidopsis thaliana serves as a model organism for the study of fundamental physiological, cellular, and molecular processes. It has also greatly advanced our understanding of intraspecific genome variation. We present a detailed map of variation in 1,135 high-quality re-sequenced natural inbred lines representing the native Eurasian and North African range and recently colonized North America. We identify relict populations that continue to inhabit ancestral habitats, primarily in the Iberian Peninsula. They have mixed with a lineage that has spread to northern latitudes from an unknown glacial refugium and is now found in a much broader spectrum of habitats. 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.",

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author = "Carlos Alonso-Blanco and Jorge Andrade and Claude Becker and Felix Bemm and Joy Bergelson and Borgwardt, {Karsten M M.} and Jun Cao and Eunyoung Chae and Dezwaan, {Todd M M.} and Wei Ding and Ecker, {Joseph R R.} and Moises Exposito-Alonso and Ashley Farlow and Joffrey Fitz and Xiangchao Gan and Grimm, {Dominik G G.} and Hancock, {Angela M M.} and Henz, {Stefan R R.} and Svante Holm and Matthew Horton and Mike Jarsulic and Kerstetter, {Randall A A.} and Arthur Korte and Pamela Korte and Christa Lanz and Lee, {Cheng Ruei} and Dazhe Meng and Michael, {Todd P P.} and Richard Mott and Muliyati, {Ni Wayan W.} and Thomas N{\"a}gele and Matthias Nagler and Viktoria Nizhynska and Magnus Nordborg and Novikova, {Polina Yu Y.} and Pic{\'o}, {F. Xavier} and Alexander Platzer and Rabanal, {Fernando A A.} and Alex Rodriguez and Rowan, {Beth A A.} and Salom{\'e}, {Patrice A A.} and Schmid, {Karl J J.} and Schmitz, {Robert J J.} and {\"U}mit Seren and Sperone, {Felice Gianluca G.} and Mitchell Sudkamp and Hannes Svardal and Tanzer, {Matt M M.} and Donald Todd and Volchenboum, {Samuel L L.} and Congmao Wang and George Wang and Xi Wang and Wolfram Weckwerth and Detlef Weigel and Xuefeng Zhou",

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year = "2016",

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doi = "10.1016/j.cell.2016.05.063",

language = "English (US)",

volume = "166",

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T1 - 1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana

AU - Alonso-Blanco, Carlos

AU - Andrade, Jorge

AU - Becker, Claude

AU - Bemm, Felix

AU - Bergelson, Joy

AU - Borgwardt, Karsten M M.

AU - Cao, Jun

AU - Chae, Eunyoung

AU - Dezwaan, Todd M M.

AU - Ding, Wei

AU - Ecker, Joseph R R.

AU - Exposito-Alonso, Moises

AU - Farlow, Ashley

AU - Fitz, Joffrey

AU - Gan, Xiangchao

AU - Grimm, Dominik G G.

AU - Hancock, Angela M M.

AU - Henz, Stefan R R.

AU - Holm, Svante

AU - Horton, Matthew

AU - Jarsulic, Mike

AU - Kerstetter, Randall A A.

AU - Korte, Arthur

AU - Korte, Pamela

AU - Lanz, Christa

AU - Lee, Cheng Ruei

AU - Meng, Dazhe

AU - Michael, Todd P P.

AU - Mott, Richard

AU - Muliyati, Ni Wayan W.

AU - Nägele, Thomas

AU - Nagler, Matthias

AU - Nizhynska, Viktoria

AU - Nordborg, Magnus

AU - Novikova, Polina Yu Y.

AU - Picó, F. Xavier

AU - Platzer, Alexander

AU - Rabanal, Fernando A A.

AU - Rodriguez, Alex

AU - Rowan, Beth A A.

AU - Salomé, Patrice A A.

AU - Schmid, Karl J J.

AU - Schmitz, Robert J J.

AU - Seren, Ümit

AU - Sperone, Felice Gianluca G.

AU - Sudkamp, Mitchell

AU - Svardal, Hannes

AU - Tanzer, Matt M M.

AU - Todd, Donald

AU - Volchenboum, Samuel L L.

AU - Wang, Congmao

AU - Wang, George

AU - Wang, Xi

AU - Weckwerth, Wolfram

AU - Weigel, Detlef

AU - Zhou, Xuefeng

PY - 2016/7/14

Y1 - 2016/7/14

N2 - Arabidopsis thaliana serves as a model organism for the study of fundamental physiological, cellular, and molecular processes. It has also greatly advanced our understanding of intraspecific genome variation. We present a detailed map of variation in 1,135 high-quality re-sequenced natural inbred lines representing the native Eurasian and North African range and recently colonized North America. We identify relict populations that continue to inhabit ancestral habitats, primarily in the Iberian Peninsula. They have mixed with a lineage that has spread to northern latitudes from an unknown glacial refugium and is now found in a much broader spectrum of habitats. 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.

AB - Arabidopsis thaliana serves as a model organism for the study of fundamental physiological, cellular, and molecular processes. It has also greatly advanced our understanding of intraspecific genome variation. We present a detailed map of variation in 1,135 high-quality re-sequenced natural inbred lines representing the native Eurasian and North African range and recently colonized North America. We identify relict populations that continue to inhabit ancestral habitats, primarily in the Iberian Peninsula. They have mixed with a lineage that has spread to northern latitudes from an unknown glacial refugium and is now found in a much broader spectrum of habitats. 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.

KW - 1001 Genomes

KW - Arabidopsis thaliana

KW - GWAS

KW - glacial refugia

KW - population expansion

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AN - SCOPUS:84978218359

SN - 0092-8674

VL - 166

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EP - 491

JO - Cell

JF - Cell

IS - 2

ER -

1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana

Abstract

Keywords

ASJC Scopus subject areas

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