Deciphering the Diploid Ancestral Genome of the Mesohexaploid
Brassica rapa

J 2013

Deciphering the Diploid Ancestral Genome of the Mesohexaploid Brassica rapa

CHENG, Feng, Terezie MANDÁKOVÁ, Jian WU, Qi XIE, Martin LYSÁK et. al.

Basic information

Original name

Deciphering the Diploid Ancestral Genome of the Mesohexaploid Brassica rapa

Authors

CHENG, Feng (156 China), Terezie MANDÁKOVÁ (203 Czech Republic, belonging to the institution), Jian WU (156 China), Qi XIE (156 China), Martin LYSÁK (203 Czech Republic, guarantor, belonging to the institution) and Xiaowu WANG (156 China)

Edition

Plant Cell, AMER SOC PLANT BIOLOGISTS, 2013, 1040-4651

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: 9.575

RIV identification code

RIV/00216224:14740/13:00066451

Organization unit

Central European Institute of Technology

DOI

http://dx.doi.org/10.1105/tpc.113.110486

UT WoS

000321035800009

Keywords in English

CHROMOSOME-NUMBER REDUCTION; ARABIDOPSIS-THALIANA; SPECIES BRASSICACEAE; KARYOTYPE EVOLUTION; RAPHANUS-SATIVUS; SEQUENCE; PHYLOGENY; MAP; BLOCKS; RECONSTRUCTION

Abstract

V originále

The genus Brassica includes several important agricultural and horticultural crops. Their current genome structures were shaped by whole-genome triplication followed by extensive diploidization. The availability of several crucifer genome sequences, especially that of Chinese cabbage (Brassica rapa), enables study of the evolution of the mesohexaploid Brassica genomes from their diploid progenitors. We reconstructed three ancestral subgenomes of B. rapa (n = 10) by comparing its whole-genome sequence to ancestral and extant Brassicaceae genomes. All three B. rapa paleogenomes apparently consisted of seven chromosomes, similar to the ancestral translocation Proto-Calepineae Karyotype (tPCK; n = 7), which is the evolutionarily younger variant of the Proto-Calepineae Karyotype (n = 7). Based on comparative analysis of genome sequences or linkage maps of Brassica oleracea, Brassica nigra, radish (Raphanus sativus), and other closely related species, we propose a two-step merging of three tPCK-like genomes to form the hexaploid ancestor of the tribe Brassiceae with 42 chromosomes. Subsequent diversification of the Brassiceae was marked by extensive genome reshuffling and chromosome number reduction mediated by translocation events and followed by loss and/or inactivation of centromeres. Furthermore, via interspecies genome comparison, we refined intervals for seven of the genomic blocks of the Ancestral Crucifer Karyotype (n = 8), thus revising the key reference genome for evolutionary genomics of crucifers.

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

CHENG, Feng, Terezie MANDÁKOVÁ, Jian WU, Qi XIE, Martin LYSÁK and Xiaowu WANG. Deciphering the Diploid Ancestral Genome of the Mesohexaploid Brassica rapa. Plant Cell. AMER SOC PLANT BIOLOGISTS, 2013, vol. 25, No 5, p. 1541-1554. ISSN 1040-4651. Available from: https://dx.doi.org/10.1105/tpc.113.110486.

@article{1126884,
   author = {Cheng, Feng and Mandáková, Terezie and Wu, Jian and Xie, Qi and Lysák, Martin and Wang, Xiaowu},
   article_number = {5},
   doi = {http://dx.doi.org/10.1105/tpc.113.110486},
   keywords = {CHROMOSOME-NUMBER REDUCTION; ARABIDOPSIS-THALIANA; SPECIES BRASSICACEAE; KARYOTYPE EVOLUTION; RAPHANUS-SATIVUS; SEQUENCE; PHYLOGENY; MAP; BLOCKS; RECONSTRUCTION},
   language = {eng},
   issn = {1040-4651},
   journal = {Plant Cell},
   title = {Deciphering the Diploid Ancestral Genome of the Mesohexaploid Brassica rapa},
   url = {http://www.plantcell.org/content/early/2013/05/06/tpc.113.110486.abstract},
   volume = {25},
   year = {2013}
}

TY  - JOUR
ID  - 1126884
AU  - Cheng, Feng - Mandáková, Terezie - Wu, Jian - Xie, Qi - Lysák, Martin - Wang, Xiaowu
PY  - 2013
TI  - Deciphering the Diploid Ancestral Genome of the Mesohexaploid Brassica rapa
JF  - Plant Cell
VL  - 25
IS  - 5
SP  - 1541-1554
EP  - 1541-1554
PB  - AMER SOC PLANT BIOLOGISTS
SN  - 10404651
KW  - CHROMOSOME-NUMBER REDUCTION
KW  - ARABIDOPSIS-THALIANA
KW  - SPECIES BRASSICACEAE
KW  - KARYOTYPE EVOLUTION
KW  - RAPHANUS-SATIVUS
KW  - SEQUENCE
KW  - PHYLOGENY
KW  - MAP
KW  - BLOCKS
KW  - RECONSTRUCTION
UR  - http://www.plantcell.org/content/early/2013/05/06/tpc.113.110486.abstract
L2  - http://www.plantcell.org/content/early/2013/05/06/tpc.113.110486.abstract
N2  - The genus Brassica includes several important agricultural and horticultural crops. Their current genome structures were shaped by whole-genome triplication followed by extensive diploidization. The availability of several crucifer genome sequences, especially that of Chinese cabbage (Brassica rapa), enables study of the evolution of the mesohexaploid Brassica genomes from their diploid progenitors. We reconstructed three ancestral subgenomes of B. rapa (n = 10) by comparing its whole-genome sequence to ancestral and extant Brassicaceae genomes. All three B. rapa paleogenomes apparently consisted of seven chromosomes, similar to the ancestral translocation Proto-Calepineae Karyotype (tPCK; n = 7), which is the evolutionarily younger variant of the Proto-Calepineae Karyotype (n = 7). Based on comparative analysis of genome sequences or linkage maps of Brassica oleracea, Brassica nigra, radish (Raphanus sativus), and other closely related species, we propose a two-step merging of three tPCK-like genomes to form the hexaploid ancestor of the tribe Brassiceae with 42 chromosomes. Subsequent diversification of the Brassiceae was marked by extensive genome reshuffling and chromosome number reduction mediated by translocation events and followed by loss and/or inactivation of centromeres. Furthermore, via interspecies genome comparison, we refined intervals for seven of the genomic blocks of the Ancestral Crucifer Karyotype (n = 8), thus revising the key reference genome for evolutionary genomics of crucifers.
ER  -

CHENG, Feng, Terezie MANDÁKOVÁ, Jian WU, Qi XIE, Martin LYSÁK and Xiaowu WANG. Deciphering the Diploid Ancestral Genome of the Mesohexaploid Brassica rapa. \textit{Plant Cell}. AMER SOC PLANT BIOLOGISTS, 2013, vol.~25, No~5, p.~1541-1554. ISSN~1040-4651. Available from: https://dx.doi.org/10.1105/tpc.113.110486.

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