Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species

被引：788

作者：

Kim, Seungill ^{[1
,2
]}

Park, Minkyu ^{[1
,2
]}

Yeom, Seon-In ^{[1
,2
]}

Kim, Yong-Min ^{[1
,2
]}

Lee, Je Min ^{[1
,2
]}

Lee, Hyun-Ah ^{[1
,2
]}

Seo, Eunyoung ^{[1
,2
]}

Choi, Jaeyoung ^{[3
]}

Cheong, Kyeongchae ^{[3
]}

Kim, Ki-Tae ^{[3
]}

Jung, Kyongyong ^{[3
]}

Lee, Gir-Won ^{[4
]}

Oh, Sang-Keun ^{[1
,2
]}

Bae, Chungyun ^{[1
]}

Kim, Saet-Byul ^{[1
]}

Lee, Hye-Young ^{[1
]}

Kim, Shin-Young ^{[1
]}

Kim, Myung-Shin ^{[1
]}

Kang, Byoung-Cheorl ^{[1
,2
,5
]}

Jo, Yeong Deuk ^{[1
]}

Yang, Hee-Bum ^{[1
]}

Jeong, Hee-Jin ^{[1
]}

Kang, Won-Hee ^{[1
]}

Kwon, Jin-Kyung

Shin, Chanseok ^{[3
]}

Lim, Jae Yun ^{[3
]}

Park, June Hyun ^{[3
]}

Huh, Jin Hoe ^{[1
]}

Kim, June-Sik ^{[1
]}

Kim, Byung-Dong ^{[1
]}

Cohen, Oded ^{[6
]}

Paran, Ilan ^{[6
]}

Suh, Mi Chung ^{[7
]}

Lee, Saet Buyl ^{[7
]}

Kim, Yeon-Ki ^{[8
]}

Shin, Younhee ^{[9
]}

Noh, Seung-Jae ^{[9
]}

Park, Junhyung ^{[9
]}

Seo, Young Sam ^{[10
]}

Kwon, Suk-Yoon ^{[11
]}

Kim, Hyun A. ^{[11
]}

Park, Jeong Mee ^{[11
]}

Kim, Hyun-Jin ^{[11
]}

Choi, Sang-Bong ^{[12
]}

Bosland, Paul W. ^{[13
,14
]}

Reeves, Gregory ^{[13
]}

Jo, Sung-Hwan ^{[15
]}

Lee, Bong-Woo ^{[15
]}

Cho, Hyung-Taeg ^{[16
]}

Choi, Hee-Seung ^{[16
]}

机构：

[1] Seoul Natl Univ, Dept Plant Sci, Seoul, South Korea

[2] Seoul Natl Univ, Plant Genom & Breeding Inst, Seoul, South Korea

[3] Seoul Natl Univ, Dept Agr Biotechnol, Seoul, South Korea

[4] Soongsil Univ, Dept Bioinformat & Life Sci, Seoul, South Korea

[5] Seoul Natl Univ, Vegetable Breeding Res Ctr, Seoul, South Korea

[6] Agr Res Org, Volcani Ctr, Inst Plant Sci, IL-50250 Bet Dagan, Israel

[7] Chonnam Natl Univ, Dept Bioenergy Sci & Technol, Kwangju, South Korea

[8] GreenGene BioTech Inc, Genom Genet Inst, Yongin, South Korea

[9] Insilicogen Inc, Codes Div, Suwon, South Korea

[10] Korea Ginseng Corp, Ginseng Resources Res Lab, Taejon, South Korea

[11] Korea Res Inst Biosci & Biotechnol, Taejon, South Korea

[12] Myongji Univ, Div Biosci & Bioinformat, Yongin, South Korea

[13] New Mexico State Univ, Dept Plant & Environm Sci, Las Cruces, NM 88003 USA

[14] New Mexico State Univ, Chile Pepper Inst, Las Cruces, NM 88003 USA

[15] Seeders Inc, Taejon, South Korea

[16] Seoul Natl Univ, Dept Biol Sci, Seoul, South Korea

[17] Univ Arizona, Arizona Genom Inst, Tucson, AZ USA

[18] Natl Acad Agr Sci, Rural Dev Adm, Agr Genome Ctr, Suwon, South Korea

[19] Univ Calif Davis, Seed Biotechnol Ctr, Davis, CA 95616 USA

[20] Yonsei Univ, Dept Syst Biol, Seoul 120749, South Korea

[21] Andong Natl Univ, Dept Hort & Breeding, Andong, South Korea

[22] USDA ARS, Robert W Holley Ctr, Ithaca, NY 14853 USA

[23] Cornell Univ, Boyce Thompson Inst Plant Res, Ithaca, NY 14853 USA

[24] Cornell Univ, Dept Plant Biol, Ithaca, NY USA

[25] Inst Biotechnol, Nongwoo Bio, Yeoju, South Korea

[26] Univ Calif Davis, Genome Ctr, Davis, CA 95616 USA

[27] Seoul Natl Univ, Natl Instrumentat Ctr Environm Management, Seoul, South Korea

来源：

NATURE GENETICS | 2014年 / 46卷 / 03期

基金：

新加坡国家研究基金会;

关键词：

DIFFERENTIAL EXPRESSION; OXIDATIVE STRESS; GENE FAMILY; CAPSAICIN; FRUIT; ANNUUM; ANTIOXIDANT; PATHWAY; QUALITY; RETROTRANSPOSONS;

D O I：

10.1038/ng.2877

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Hot pepper (Capsicum annuum), one of the oldest domesticated crops in the Americas, is the most widely grown spice crop in the world. We report whole-genome sequencing and assembly of the hot pepper (Mexican landrace of Capsicum annuum cv. CM334) at 186.6x coverage. We also report resequencing of two cultivated peppers and de novo sequencing of the wild species Capsicum chinense. The genome size of the hot pepper was approximately fourfold larger than that of its close relative tomato, and the genome showed an accumulation of Gypsy and Caulimoviridae family elements. Integrative genomic and transcriptomic analyses suggested that change in gene expression and neofunctionalization of capsaicin synthase have shaped capsaicinoid biosynthesis. We found differential molecular patterns of ripening regulators and ethylene synthesis in hot pepper and tomato. The reference genome will serve as a platform for improving the nutritional and medicinal values of Capsicum species.

引用

页码：270 / +

页数：10

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