S-Space College of Agriculture and Life Sciences (농업생명과학대학) Dept. of Plant Science (식물생산과학부) Journal Papers (저널논문_식물생산과학부)
New reference genome sequences of hot pepper reveal the massive evolution of plant disease-resistance genes by retroduplication
- Kim, Seungill; Park, Jieun; Yeom, Seon-In; Kim, Yong-Min; Seo, Eunyoung; Kim, Ki-Tae; Kim, Myung-Shin; Lee, Je Min; Cheong, Kyeongchae; Shin, Ho-Sub; Kim, Saet-Byul; Han, Koeun; Lee, Jundae; Park, Minkyu; Lee, Hyun-Ah; Lee, Hye-Young; Lee, Youngsill; Oh, Soohyun; Lee, Joo Hyun; Choi, Eunhye; Choi, Eunbi; Lee, So Eui; Jeon, Jongbum; Kim, Hyunbin; Choi, Gobong; Song, Hyeunjeong; Lee, JunKi; Lee, Sang-Choon; Kwon, Jin-Kyung; Lee, Hea-Young; Koo, Namjin; Hong, Yunji; Kim, Ryan W.; Kang, Won-Hee; Huh, Jin Hoe; Kang, Byoung-Cheorl; Yang, Tae-Jin; Lee, Yong-Hwan; Bennetzen, Jeffrey L.; Choi, Doil
- Issue Date
- BioMed Central
- Genome Biology, 18(1):210
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.
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.
Our study reveals that retroduplication has played key roles for the massive emergence of NLR genes including functional disease-resistance genes in pepper plants.