Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 425882
Title Biased Gene Fractionation and Dominant Gene Expression among the Subgenomes of Brassica rapa
Author(s) Cheng, F.; Wu, J.; Fang, L.; Sun, S.; Liu, B.; Lin, K.; Bonnema, A.B.; Wang, Xiaowu
Source PLoS One 7 (2012)5. - ISSN 1932-6203
DOI http://dx.doi.org/10.1371/journal.pone.0036442
Department(s) Laboratory of Genetics
Bioinformatics
Laboratory of Plant Breeding
EPS
Publication type Refereed Article in a scientific journal
Publication year 2012
Keyword(s) short read alignment - arabidopsis-thaliana - dna methylation - genome sequence - duplication - evolution - polyploids - plants
Abstract Polyploidization, both ancient and recent, is frequent among plants. A ‘‘two-step theory’’ was proposed to explain the meso-triplication of the Brassica ‘‘A’’ genome: Brassica rapa. By accurately partitioning of this genome, we observed that genes in the less fractioned subgenome (LF) were dominantly expressed over the genes in more fractioned subgenomes (MFs: MF1 and MF2), while the genes in MF1 were slightly dominantly expressed over the genes in MF2. The results indicated that the dominantly expressed genes tended to be resistant against gene fractionation. By re-sequencing two B. rapa accessions: a vegetable turnip (VT117) and a Rapid Cycling line (L144), we found that genes in LF had less nonsynonymous or frameshift mutations than genes in MFs; however mutation rates were not significantly different between MF1 and MF2. The differences in gene expression patterns and on-going gene death among the three subgenomes suggest that ‘‘two-step’’ genome triplication and differential subgenome methylation played important roles in the genome evolution of B. rapa.
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