A comprehensive genome variation map of melon identifies multiple domestication events and loci influencing agronomic traits.

Chromosome Mapping Cucurbitaceae / classification Domestication Genome, Plant Genome-Wide Association Study Genomics Phenotype Plant Breeding Polymorphism, Single Nucleotide Quantitative Trait Loci

Journal

Nature genetics
ISSN: 1546-1718
Titre abrégé: Nat Genet
Pays: United States
ID NLM: 9216904

Informations de publication

Date de publication:
11 2019
Historique:
received: 30 04 2019
accepted: 24 09 2019
pubmed: 5 11 2019
medline: 23 1 2020
entrez: 3 11 2019
Statut: ppublish

Résumé

Melon is an economically important fruit crop that has been cultivated for thousands of years; however, the genetic basis and history of its domestication still remain largely unknown. Here we report a comprehensive map of the genomic variation in melon derived from the resequencing of 1,175 accessions, which represent the global diversity of the species. Our results suggest that three independent domestication events occurred in melon, two in India and one in Africa. We detected two independent sets of domestication sweeps, resulting in diverse characteristics of the two subspecies melo and agrestis during melon breeding. Genome-wide association studies for 16 agronomic traits identified 208 loci significantly associated with fruit mass, quality and morphological characters. This study sheds light on the domestication history of melon and provides a valuable resource for genomics-assisted breeding of this important crop.

Identifiants

DOI: 10.1038/s41588-019-0522-8 PMID: 31676864
pubmed: 31676864
doi: 10.1038/s41588-019-0522-8
pii: 10.1038/s41588-019-0522-8
doi:

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

1607-1615

Commentaires et corrections

Type : CommentIn
Type : CommentIn

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Auteurs

Guangwei Zhao (G)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Qun Lian (Q)

Lingnan Guangdong Laboratory of Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China.

Zhonghua Zhang (Z)

Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China.
College of Horticulture, Qingdao Agricultural University, Qingdao, China.

Qiushi Fu (Q)

Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China.

Yuhua He (Y)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Shuangwu Ma (S)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Valentino Ruggieri (V)

Centre for Research in Agricultural Genomics CSIC-IRTA-UAB-UB, Barcelona, Spain.
Institut de Recerca i Tecnologia Agroalimentàries (IRTA), Barcelona, Spain.

Antonio J Monforte (AJ)

Instituto de Biologia Molecular y Celular de Plantas, Universitat Politecnica de Valencia-Consejo Superior de Investigaciones Cientificas (CSIC-UPV), Valencia, Spain.
ORCID: 0000-0003-3461-3094

Pingyong Wang (P)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Irene Julca (I)

Universitat Autònoma de Barcelona (UAB), Barcelona, Spain.
Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology, Barcelona, Spain.
Universitat Pompeu Fabra (UPF), Barcelona, Spain.

Huaisong Wang (H)

Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China.

Junpu Liu (J)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Yong Xu (Y)

National Watermelon and Melon Improvement Center, Beijing Academy of Agricultural and Forestry Sciences, Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Beijing Key Laboratory of Vegetable Germplasm Improvement, Beijing, China.
ORCID: 0000-0002-3278-5215

Runze Wang (R)

Centre of Pear Engineering Technology Research, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China.

Jiabing Ji (J)

Lingnan Guangdong Laboratory of Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China.

Zhihong Xu (Z)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Weihu Kong (W)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Yang Zhong (Y)

Lingnan Guangdong Laboratory of Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China.

Jianli Shang (J)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Lara Pereira (L)

Centre for Research in Agricultural Genomics CSIC-IRTA-UAB-UB, Barcelona, Spain.
Institut de Recerca i Tecnologia Agroalimentàries (IRTA), Barcelona, Spain.

Jason Argyris (J)

Centre for Research in Agricultural Genomics CSIC-IRTA-UAB-UB, Barcelona, Spain.
Institut de Recerca i Tecnologia Agroalimentàries (IRTA), Barcelona, Spain.
ORCID: 0000-0003-2685-9959

Jian Zhang (J)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Carlos Mayobre (C)

Centre for Research in Agricultural Genomics CSIC-IRTA-UAB-UB, Barcelona, Spain.
Institut de Recerca i Tecnologia Agroalimentàries (IRTA), Barcelona, Spain.
ORCID: 0000-0001-5511-9728

Marta Pujol (M)

Centre for Research in Agricultural Genomics CSIC-IRTA-UAB-UB, Barcelona, Spain.
Institut de Recerca i Tecnologia Agroalimentàries (IRTA), Barcelona, Spain.
ORCID: 0000-0002-3595-5363

Elad Oren (E)

Plant Science Institute, Israeli Agricultural Research Organization, NeweYa'ar Research Center, Ramat Yishay, Israel.
ORCID: 0000-0001-6821-4409

Diandian Ou (D)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Jiming Wang (J)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Dexi Sun (D)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Shengjie Zhao (S)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Yingchun Zhu (Y)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Na Li (N)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China.

Nurit Katzir (N)

Plant Science Institute, Israeli Agricultural Research Organization, NeweYa'ar Research Center, Ramat Yishay, Israel.

Amit Gur (A)

Plant Science Institute, Israeli Agricultural Research Organization, NeweYa'ar Research Center, Ramat Yishay, Israel.

Catherine Dogimont (C)

INRA, Génétique et Amélioration des Fruits et Légumes, Montfavet, France.

Hanno Schaefer (H)

Department of Ecology and Ecosystem Management, Plant Biodiversity Research, Technical University of Munich, Freising, Germany.
ORCID: 0000-0001-7231-3987

Wei Fan (W)

Lingnan Guangdong Laboratory of Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China.
ORCID: 0000-0001-5036-8733

Abdelhafid Bendahmane (A)

INRA, Génétique et Amélioration des Fruits et Légumes, Montfavet, France.

Zhangjun Fei (Z)

Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, NY, USA.
US Department of Agriculture-Agricultural Research Service, Robert W. Holley Center for Agriculture and Health, Ithaca, NY, USA.
ORCID: 0000-0001-9684-1450

Michel Pitrat (M)

INRA, Génétique et Amélioration des Fruits et Légumes, Montfavet, France.

Toni Gabaldón (T)

Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology, Barcelona, Spain.
Universitat Pompeu Fabra (UPF), Barcelona, Spain.
Institució Catalana de Recercai Estudis Avançats (ICREA), Barcelona, Spain.

Tao Lin (T)

Lingnan Guangdong Laboratory of Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China.
College of Horticulture, China Agricultural University, Beijing, China.
ORCID: 0000-0003-3647-0488

Jordi Garcia-Mas (J)

Centre for Research in Agricultural Genomics CSIC-IRTA-UAB-UB, Barcelona, Spain. Jordi.Garcia@irta.cat.
Institut de Recerca i Tecnologia Agroalimentàries (IRTA), Barcelona, Spain. Jordi.Garcia@irta.cat.
ORCID: 0000-0001-7101-9049

Yongyang Xu (Y)

Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China. xuyongyang@caas.cn.
ORCID: 0000-0002-1930-3488

Sanwen Huang (S)

Lingnan Guangdong Laboratory of Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China. huangsanwen@caas.cn.
ORCID: 0000-0002-8547-5309

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Classifications MeSH

questionsmedicales.fr › Techniques d'investigation › Techniques génétiques › Cartographie chromosomique › A comprehensive genome variation map of melon...
questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Cucurbitaceae › A comprehensive genome variation map of melon...
questionsmedicales.fr › Technologie, industrie et agriculture › Agriculture › Domestication › A comprehensive genome variation map of melon...
questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Génome › Génome végétal › A comprehensive genome variation map of melon...
questionsmedicales.fr › Environnement et santé publique › Santé publique › Méthodes épidémiologiques › Épidémiologie moléculaire › Étude d'association pangénomique › A comprehensive genome variation map of melon...
questionsmedicales.fr › Disciplines des sciences naturelles › Disciplines des sciences biologiques › Biologie › Génétique › Génomique › A comprehensive genome variation map of melon...
questionsmedicales.fr › Phénomènes génétiques › Phénotype › A comprehensive genome variation map of melon...
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