The Capsella rubella genome and the genomic consequences of
rapid mating system evolution

J 2013

The Capsella rubella genome and the genomic consequences of rapid mating system evolution

SLOTTE, Tanja, Khaled M. HAZZOURI, J. Arvid AGREN, Daniel KOENIG, Florian MAUMUS et. al.

Basic information

Original name

The Capsella rubella genome and the genomic consequences of rapid mating system evolution

Authors

SLOTTE, Tanja (752 Sweden), Khaled M. HAZZOURI (784 United Arab Emirates), J. Arvid AGREN (124 Canada), Daniel KOENIG (276 Germany), Florian MAUMUS (250 France), Ya-Long GUO (156 China), Kim STEIGE (752 Sweden), Adrian E. PLATTS (124 Canada), Juan S. ESCOBAR (124 Canada), L. Killian NEWMAN (124 Canada), Wei WANG (124 Canada), Terezie MANDÁKOVÁ (203 Czech Republic, belonging to the institution), Emilio VELLO (124 Canada), Lisa M. SMITH (276 Germany), Stefan R. HENZ (276 Germany), Joshua STEFFEN (840 United States of America), Shohei TAKUNO (840 United States of America), Yaniv BRANDVAIN (840 United States of America), Graham COOP (840 United States of America), Peter ANDOLFATTO (840 United States of America), Tina T. HU (840 United States of America), Mathieu BLANCHETTE (124 Canada), Richard M. CLARK (840 United States of America), Hadi QUESNEVILLE (250 France), Magnus NORDBORG (40 Austria), Brandon S. GAUT (840 United States of America), Martin LYSÁK (203 Czech Republic, guarantor, belonging to the institution), Jerry JENKINS (840 United States of America), Jane GRIMWOOD (826 United Kingdom of Great Britain and Northern Ireland), Jarrod CHAPMAN (840 United States of America), Simon PROCHNIK (840 United States of America), Shengqiang SHU (840 United States of America), Daniel ROKHSAR (840 United States of America), Jeremy SCHMUTZ (840 United States of America), Detlef WEIGEL (276 Germany) and Stephen I. WRIGHT (124 Canada)

Edition

Nature Genetics, New York, Nature Publishing Group, 2013, 1061-4036

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

Genetics and molecular biology

Country of publisher

United States of America

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 29.648

RIV identification code

RIV/00216224:14740/13:00066453

Organization unit

Central European Institute of Technology

DOI

http://dx.doi.org/10.1038/ng.2669

UT WoS

000321005200022

Keywords in English

ARABIDOPSIS-THALIANA; TRANSPOSABLE ELEMENTS; MOLECULAR EVOLUTION; RECENT SPECIATION; SEQUENCE; EXPRESSION; GENES; GRANDIFLORA; ANNOTATION; MUTATIONS

Abstract

V originále

The shift from outcrossing to selfing is common in flowering plants(1,2), but the genomic consequences and the speed at which they emerge remain poorly understood. An excellent model for understanding the evolution of self fertilization is provided by Capsella rubella, which became self compatible <200,000 years ago. We report a C. rubella reference genome sequence and compare RNA expression and polymorphism patterns between C. rubella and its outcrossing progenitor Capsella grandiflora. We found a clear shift in the expression of genes associated with flowering phenotypes, similar to that seen in Arabidopsis, in which self fertilization evolved about 1 million years ago. Comparisons of the two Capsella species showed evidence of rapid genome-wide relaxation of purifying selection in C. rubella without a concomitant change in transposable element abundance. Overall we document that the transition to selfing may be typified by parallel shifts in gene expression, along with a measurable reduction of purifying selection.

Links

ED1.1.00/02.0068, research and development project

Name: CEITEC - central european institute of technology

GBP501/12/G090, research and development project

Name: Evoluce a funkce komplexních genomů rostlin

Citovat

SLOTTE, Tanja, Khaled M. HAZZOURI, J. Arvid AGREN, Daniel KOENIG, Florian MAUMUS, Ya-Long GUO, Kim STEIGE, Adrian E. PLATTS, Juan S. ESCOBAR, L. Killian NEWMAN, Wei WANG, Terezie MANDÁKOVÁ, Emilio VELLO, Lisa M. SMITH, Stefan R. HENZ, Joshua STEFFEN, Shohei TAKUNO, Yaniv BRANDVAIN, Graham COOP, Peter ANDOLFATTO, Tina T. HU, Mathieu BLANCHETTE, Richard M. CLARK, Hadi QUESNEVILLE, Magnus NORDBORG, Brandon S. GAUT, Martin LYSÁK, Jerry JENKINS, Jane GRIMWOOD, Jarrod CHAPMAN, Simon PROCHNIK, Shengqiang SHU, Daniel ROKHSAR, Jeremy SCHMUTZ, Detlef WEIGEL and Stephen I. WRIGHT. The Capsella rubella genome and the genomic consequences of rapid mating system evolution. Nature Genetics. New York: Nature Publishing Group, 2013, vol. 45, No 7, p. 831-"U165", 7 pp. ISSN 1061-4036. Available from: https://dx.doi.org/10.1038/ng.2669.

@article{1126886,
   author = {Slotte, Tanja and Hazzouri, Khaled M. and Agren, J. Arvid and Koenig, Daniel and Maumus, Florian and Guo, YaandLong and Steige, Kim and Platts, Adrian E. and Escobar, Juan S. and Newman, L. Killian and Wang, Wei and Mandáková, Terezie and Vello, Emilio and Smith, Lisa M. and Henz, Stefan R. and Steffen, Joshua and Takuno, Shohei and Brandvain, Yaniv and Coop, Graham and Andolfatto, Peter and Hu, Tina T. and Blanchette, Mathieu and Clark, Richard M. and Quesneville, Hadi and Nordborg, Magnus and Gaut, Brandon S. and Lysák, Martin and Jenkins, Jerry and Grimwood, Jane and Chapman, Jarrod and Prochnik, Simon and Shu, Shengqiang and Rokhsar, Daniel and Schmutz, Jeremy and Weigel, Detlef and Wright, Stephen I.},
   article_location = {New York},
   article_number = {7},
   doi = {http://dx.doi.org/10.1038/ng.2669},
   keywords = {ARABIDOPSIS-THALIANA; TRANSPOSABLE ELEMENTS; MOLECULAR EVOLUTION; RECENT SPECIATION; SEQUENCE; EXPRESSION; GENES; GRANDIFLORA; ANNOTATION; MUTATIONS},
   language = {eng},
   issn = {1061-4036},
   journal = {Nature Genetics},
   title = {The Capsella rubella genome and the genomic consequences of rapid mating system evolution},
   url = {http://www.nature.com/ng/journal/v45/n7/full/ng.2669.html},
   volume = {45},
   year = {2013}
}

TY  - JOUR
ID  - 1126886
AU  - Slotte, Tanja - Hazzouri, Khaled M. - Agren, J. Arvid - Koenig, Daniel - Maumus, Florian - Guo, Ya-Long - Steige, Kim - Platts, Adrian E. - Escobar, Juan S. - Newman, L. Killian - Wang, Wei - Mandáková, Terezie - Vello, Emilio - Smith, Lisa M. - Henz, Stefan R. - Steffen, Joshua - Takuno, Shohei - Brandvain, Yaniv - Coop, Graham - Andolfatto, Peter - Hu, Tina T. - Blanchette, Mathieu - Clark, Richard M. - Quesneville, Hadi - Nordborg, Magnus - Gaut, Brandon S. - Lysák, Martin - Jenkins, Jerry - Grimwood, Jane - Chapman, Jarrod - Prochnik, Simon - Shu, Shengqiang - Rokhsar, Daniel - Schmutz, Jeremy - Weigel, Detlef - Wright, Stephen I.
PY  - 2013
TI  - The Capsella rubella genome and the genomic consequences of rapid mating system evolution
JF  - Nature Genetics
VL  - 45
IS  - 7
SP  - 831-"U165"
EP  - 831-"U165"
PB  - Nature Publishing Group
SN  - 10614036
KW  - ARABIDOPSIS-THALIANA
KW  - TRANSPOSABLE ELEMENTS
KW  - MOLECULAR EVOLUTION
KW  - RECENT SPECIATION
KW  - SEQUENCE
KW  - EXPRESSION
KW  - GENES
KW  - GRANDIFLORA
KW  - ANNOTATION
KW  - MUTATIONS
UR  - http://www.nature.com/ng/journal/v45/n7/full/ng.2669.html
L2  - http://www.nature.com/ng/journal/v45/n7/full/ng.2669.html
N2  - The shift from outcrossing to selfing is common in flowering plants(1,2), but the genomic consequences and the speed at which they emerge remain poorly understood. An excellent model for understanding the evolution of self fertilization is provided by Capsella rubella, which became self compatible <200,000 years ago. We report a C. rubella reference genome sequence and compare RNA expression and polymorphism patterns between C. rubella and its outcrossing progenitor Capsella grandiflora. We found a clear shift in the expression of genes associated with flowering phenotypes, similar to that seen in Arabidopsis, in which self fertilization evolved about 1 million years ago. Comparisons of the two Capsella species showed evidence of rapid genome-wide relaxation of purifying selection in C. rubella without a concomitant change in transposable element abundance. Overall we document that the transition to selfing may be typified by parallel shifts in gene expression, along with a measurable reduction of purifying selection.
ER  -

SLOTTE, Tanja, Khaled M. HAZZOURI, J. Arvid AGREN, Daniel KOENIG, Florian MAUMUS, Ya-Long GUO, Kim STEIGE, Adrian E. PLATTS, Juan S. ESCOBAR, L. Killian NEWMAN, Wei WANG, Terezie MANDÁKOVÁ, Emilio VELLO, Lisa M. SMITH, Stefan R. HENZ, Joshua STEFFEN, Shohei TAKUNO, Yaniv BRANDVAIN, Graham COOP, Peter ANDOLFATTO, Tina T. HU, Mathieu BLANCHETTE, Richard M. CLARK, Hadi QUESNEVILLE, Magnus NORDBORG, Brandon S. GAUT, Martin LYSÁK, Jerry JENKINS, Jane GRIMWOOD, Jarrod CHAPMAN, Simon PROCHNIK, Shengqiang SHU, Daniel ROKHSAR, Jeremy SCHMUTZ, Detlef WEIGEL and Stephen I. WRIGHT. The Capsella rubella genome and the genomic consequences of rapid mating system evolution. \textit{Nature Genetics}. New York: Nature Publishing Group, 2013, vol.~45, No~7, p.~831-''U165'', 7 pp. ISSN~1061-4036. Available from: https://dx.doi.org/10.1038/ng.2669.

Detailed Information on Publication Record