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PMID: 16632644 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Sequence-level analysis of the diploidization process in the triplicated FLOWERING LOCUS C region of Brassica rapa.

The Plant cell ·Vol. 18 ·No. 6 ·2006-06-00 ·Pages 1339-47

Yang TJ, Kim JS, Kwon SJ, Lim KB, Choi BS, Kim JA, Jin M, Park JY, Lim MH, Kim HI, Lim YP, Kang JJ, Hong JH, Kim CB, Bhak J, Bancroft I, Park BS

Abstract

Strong evidence exists for polyploidy having occurred during the evolution of the tribe Brassiceae. We show evidence for the dynamic and ongoing diploidization process by comparative analysis of the sequences of four paralogous Brassica rapa BAC clones and the homologous 124-kb segment of Arabidopsis thaliana chromosome 5. We estimated the times since divergence of the paralogous and homologous lineages. The three paralogous subgenomes of B. rapa triplicated 13 to 17 million years ago (MYA), very soon after the Arabidopsis and Brassica divergence occurred at 17 to 18 MYA. In addition, a pair of BACs represents a more recent segmental duplication, which occurred approximately 0.8 MYA, and provides an exception to the general expectation of three paralogous segments within the B. rapa genome. The Brassica genome segments show extensive interspersed gene loss relative to the inferred structure of the ancestral genome, whereas the Arabidopsis genome segment appears little changed. Representatives of all 32 genes in the Arabidopsis genome segment are represented in Brassica, but the hexaploid complement of 96 has been reduced to 54 in the three subgenomes, with compression of the genomic region lengths they occupy to between 52 and 110 kb. The gene content of the recently duplicated B. rapa genome segments is identical, but intergenic sequences differ.

MeSH Terms
Brassica rapa/genetics Chromosome Mapping Chromosomes, Plant/genetics Conserved Sequence/genetics DNA Transposable Elements/genetics Diploidy Evolution, Molecular Gene Duplication Genes, Plant/genetics Genome, Plant/genetics Molecular Sequence Data Sequence Analysis, DNA Sequence Deletion/genetics
Chemicals
DNA Transposable Elements
Authors & Affiliations
17 authors, click to expand affiliations / ORCID
Yang Tae-Jin
Brassica Genomics Team, National Institute of Agricultural Biotechnology, Rural Development Administration, Suwon 441-707, Korea.
Kim Jung Sun
Kwon Soo-Jin
Lim Ki-Byung
Choi Beom-Soon
Kim Jin-A
Jin Mina
Park Jee Young
Lim Myung-Ho
Kim Ho-Il
Lim Yong Pyo
Kang Jason Jongho
Hong Jin-Han
Kim Chang-Bae
Bhak Jong
Bancroft Ian
Park Beom-Seok
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Article Info
Journal
The Plant cell
Abbr.
Plant Cell
ISSN
1040-4651
DOI
10.1105/tpc.105.040535
Published
2006-06-00
Epub
2006-00-21
Pages
1339-47
Language
English
Region
England
NLM ID
9208688
PMCID
PMC1475497
Subset
IM
Databases
GENBANK
AC146875, AC155341, AC155342, AC155344, AC166741
External Links
PubMed source DOI: 10.1105/tpc.105.040535 PMC Full Text View journal details
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