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Title 

New reference genome sequences of hot pepper reveal the massive evolution of plant disease-resistance genes by retroduplication

Authors 

S KimJ ParkS I YeomYong Min KimE SeoK T KimM S KimJ M LeeK CheongH S ShinS B KimK HanJ LeeM ParkH A LeeH Y LeeY LeeS OhJ H LeeE ChoiNamjin KooYunji HongRyan W KimJ L BennetzenD Choi

Publisher 

BioMed Central

Issue Date 

2017

Citation 

Genome Biology

Keywords 

Disease-resistance geneGenome evolutionLTR-retrotransposonNLRRetroduplication

Abstract 

Background: Transposable elements are major evolutionary forces which can cause new genome structure and species diversification. The role of transposable elements in the expansion of nucleotide-binding and leucine-rich-repeat proteins (NLRs), the major disease-resistance gene families, has been unexplored in plants. Results: We report two high-quality de novo genomes (Capsicum baccatum and C. chinense) and an improved reference genome (C. annuum) for peppers. Dynamic genome rearrangements involving translocations among chromosomes 3, 5, and 9 were detected in comparison between C. baccatum and the two other peppers. The amplification of athila LTR-retrotransposons, members of the gypsy superfamily, led to genome expansion in C. baccatum. In-depth genome-wide comparison of genes and repeats unveiled that the copy numbers of NLRs were greatly increased by LTR-retrotransposon-mediated retroduplication. Moreover, retroduplicated NLRs are abundant across the angiosperms and, in most cases, are lineage-specific. Conclusions: Our study reveals that retroduplication has played key roles for the massive emergence of NLR genes including functional disease-resistance genes in pepper plants

ISSN 

1474-760X

Link 

http://dx.doi.org/10.1186/s13059-017-1341-9

Appears in Collections

1. Journal Articles > Journal Articles

Registered Date

2019-05-02


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