Characterization and evolutionary analysis of Brassica species-diverged sequences containing simple repeat units

Wei, Lijuan, Xiao, Meili, Mason, Annaliese S., Ma, Bi, Lu, Kun, Li, Jiana, Katrin, Link and Fu, Donghui (2013) Characterization and evolutionary analysis of Brassica species-diverged sequences containing simple repeat units. Genes and Genomics, 35 2: 167-175. doi:10.1007/s13258-013-0076-6

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Author Wei, Lijuan
Xiao, Meili
Mason, Annaliese S.
Ma, Bi
Lu, Kun
Li, Jiana
Katrin, Link
Fu, Donghui
Title Characterization and evolutionary analysis of Brassica species-diverged sequences containing simple repeat units
Formatted title
Characterization and evolutionary analysis of Brassica species-diverged sequences containing simple repeat units
Journal name Genes and Genomics   Check publisher's open access policy
ISSN 1976-9571
2092-9293
Publication date 2013-04
Sub-type Article (original research)
DOI 10.1007/s13258-013-0076-6
Volume 35
Issue 2
Start page 167
End page 175
Total pages 9
Place of publication Seoul, Republic of Korea
Publisher Genetics Society of Korea
Collection year 2014
Language eng
Formatted abstract
Brassica species, B. napus (canola), B. rapa and B. oleracea, are important sources of nutritionally valuable vegetable oil and protein-rich meal for animals and humans. Sequencing of the model plant Arabidopsis thaliana, has opened the way for investigations into the complex structure of the Brassica genomes, offering important insight into their evolution and composition. We use this sequence information for the characterization and functional analysis of SSR sequences that have diverged between the Brassica species. A total of 56 species-diverged sequences containing simple repeat units (SDS-SSR) of B. napus and its diploid progenitor species B. rapa and B. oleracea were isolated and characterized. Of these, 40 sequences showed homology with other Brassica sequences. Using the SSR Locator software, only 23 sequences were found to have SSRs, possibly due to the loss of SSR units in the process of species divergence. Sequence alignments with A. thaliana revealed that these species-diverged SSR sequences were responsible for Brassica divergence for differences between Brassica species in several genomic regions. Six active genes related to transferase, protein, transcription factor and retroelements were found in the SDS-SSRs. These results will further improve our understanding of the characteristics of species-diverged SSR fragments and their contribution to genome differentiation.
Keyword Brassica
Species-diverged sequences
SSR
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ
Additional Notes Published online 29 January 2013

Document type: Journal Article
Sub-type: Article (original research)
Collections: School of Agriculture and Food Sciences
Official 2014 Collection
 
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