Massive genomic variation and strong selection in Arabidopsis
thaliana lines from Sweden

J 2013

Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden

LONG, Quan, Fernando A. RABANAL, Dazhe MENG, Christian D. HUBER, Ashley FARLOW et. al.

Základní údaje

Originální název

Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden

Autoři

LONG, Quan (40 Rakousko), Fernando A. RABANAL (40 Rakousko), Dazhe MENG (840 Spojené státy), Christian D. HUBER (40 Rakousko), Ashley FARLOW (40 Rakousko), Alexander PLATZER (40 Rakousko), Qingrun ZHANG (40 Rakousko), Bjarni J. VILHJÁLMSSON (840 Spojené státy), Arthur KORTE (40 Rakousko), Viktoria NIZHYNSKA (40 Rakousko), Viktor VORONIN (40 Rakousko), Pamela KORTE (40 Rakousko), Laura SEDMAN (40 Rakousko), Terezie MANDÁKOVÁ (203 Česká republika, domácí), Martin LYSÁK (203 Česká republika, garant, domácí), Uemit SEREN (40 Rakousko), Ines HELLMANN (40 Rakousko) a Magnus NORDBORG (840 Spojené státy)

Vydání

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

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

Genetika a molekulární biologie

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 29.648

Kód RIV

RIV/00216224:14740/13:00066452

Organizační jednotka

Středoevropský technologický institut

DOI

http://dx.doi.org/10.1038/ng.2678

UT WoS

000322374900010

Klíčová slova anglicky

RIBOSOMAL-RNA GENES; LINKAGE DISEQUILIBRIUM; WIDE ASSOCIATION; NATURAL VARIATION; DNA; POPULATIONS; SEQUENCE; POLYMORPHISM; METHYLATION; ACCESSIONS

Štítky

ok, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 25. 4. 2014 16:52, Olga Křížová

Anotace

V originále

Despite advances in sequencing, the goal of obtaining a comprehensive view of genetic variation in populations is still far from reached. We sequenced 180 lines of A. thaliana from Sweden to obtain as complete a picture as possible of variation in a single region. Whereas simple polymorphisms in the unique portion of the genome are readily identified, other polymorphisms are not. The massive variation in genome size identified by flow cytometry seems largely to be due to 45S rDNA copy number variation, with lines from northern Sweden having particularly large numbers of copies. Strong selection is evident in the form of long-range linkage disequilibrium (LD), as well as in LD between nearby compensatory mutations. Many footprints of selective sweeps were found in lines from northern Sweden, and a massive global sweep was shown to have involved a 700-kb transposition.

Návaznosti

GAP506/12/0668, projekt VaV

Název: Trendy v evoluci polyploidních komplexů: obdobné nebo odlišné příběhy u třech skupin z čeledi Brassicaceae?

Investor: Grantová agentura ČR, Trendy v evoluci polyploidních komplexů: obdobné nebo odlišné příběhy u třech skupin z čeledi Brassicaceae

GBP501/12/G090, projekt VaV

Název: Evoluce a funkce komplexních genomů rostlin

Citovat

LONG, Quan, Fernando A. RABANAL, Dazhe MENG, Christian D. HUBER, Ashley FARLOW, Alexander PLATZER, Qingrun ZHANG, Bjarni J. VILHJÁLMSSON, Arthur KORTE, Viktoria NIZHYNSKA, Viktor VORONIN, Pamela KORTE, Laura SEDMAN, Terezie MANDÁKOVÁ, Martin LYSÁK, Uemit SEREN, Ines HELLMANN a Magnus NORDBORG. Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden. Nature Genetics. New York: Nature Publishing Group, 2013, roč. 45, č. 8, s. 884-"U218", 8 s. ISSN 1061-4036. Dostupné z: https://dx.doi.org/10.1038/ng.2678.

@article{1126885,
   author = {Long, Quan and Rabanal, Fernando A. and Meng, Dazhe and Huber, Christian D. and Farlow, Ashley and Platzer, Alexander and Zhang, Qingrun and Vilhjálmsson, Bjarni J. and Korte, Arthur and Nizhynska, Viktoria and Voronin, Viktor and Korte, Pamela and Sedman, Laura and Mandáková, Terezie and Lysák, Martin and Seren, Uemit and Hellmann, Ines and Nordborg, Magnus},
   article_location = {New York},
   article_number = {8},
   doi = {http://dx.doi.org/10.1038/ng.2678},
   keywords = {RIBOSOMAL-RNA GENES; LINKAGE DISEQUILIBRIUM; WIDE ASSOCIATION; NATURAL VARIATION; DNA; POPULATIONS; SEQUENCE; POLYMORPHISM; METHYLATION; ACCESSIONS},
   language = {eng},
   issn = {1061-4036},
   journal = {Nature Genetics},
   title = {Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden},
   url = {http://www.nature.com/ng/journal/v45/n8/full/ng.2678.html},
   volume = {45},
   year = {2013}
}

TY  - JOUR
ID  - 1126885
AU  - Long, Quan - Rabanal, Fernando A. - Meng, Dazhe - Huber, Christian D. - Farlow, Ashley - Platzer, Alexander - Zhang, Qingrun - Vilhjálmsson, Bjarni J. - Korte, Arthur - Nizhynska, Viktoria - Voronin, Viktor - Korte, Pamela - Sedman, Laura - Mandáková, Terezie - Lysák, Martin - Seren, Uemit - Hellmann, Ines - Nordborg, Magnus
PY  - 2013
TI  - Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden
JF  - Nature Genetics
VL  - 45
IS  - 8
SP  - 884-"U218"
EP  - 884-"U218"
PB  - Nature Publishing Group
SN  - 10614036
KW  - RIBOSOMAL-RNA GENES
KW  - LINKAGE DISEQUILIBRIUM
KW  - WIDE ASSOCIATION
KW  - NATURAL VARIATION
KW  - DNA
KW  - POPULATIONS
KW  - SEQUENCE
KW  - POLYMORPHISM
KW  - METHYLATION
KW  - ACCESSIONS
UR  - http://www.nature.com/ng/journal/v45/n8/full/ng.2678.html
L2  - http://www.nature.com/ng/journal/v45/n8/full/ng.2678.html
N2  - Despite advances in sequencing, the goal of obtaining a comprehensive view of genetic variation in populations is still far from reached. We sequenced 180 lines of A. thaliana from Sweden to obtain as complete a picture as possible of variation in a single region. Whereas simple polymorphisms in the unique portion of the genome are readily identified, other polymorphisms are not. The massive variation in genome size identified by flow cytometry seems largely to be due to 45S rDNA copy number variation, with lines from northern Sweden having particularly large numbers of copies. Strong selection is evident in the form of long-range linkage disequilibrium (LD), as well as in LD between nearby compensatory mutations. Many footprints of selective sweeps were found in lines from northern Sweden, and a massive global sweep was shown to have involved a 700-kb transposition.
ER  -

LONG, Quan, Fernando A. RABANAL, Dazhe MENG, Christian D. HUBER, Ashley FARLOW, Alexander PLATZER, Qingrun ZHANG, Bjarni J. VILHJÁLMSSON, Arthur KORTE, Viktoria NIZHYNSKA, Viktor VORONIN, Pamela KORTE, Laura SEDMAN, Terezie MANDÁKOVÁ, Martin LYSÁK, Uemit SEREN, Ines HELLMANN a Magnus NORDBORG. Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden. \textit{Nature Genetics}. New York: Nature Publishing Group, 2013, roč.~45, č.~8, s.~884-''U218'', 8 s. ISSN~1061-4036. Dostupné z: https://dx.doi.org/10.1038/ng.2678.

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