The complete reference genome for grapevine (Vitis vinifera L.) genetics and breeding
作者机构：College of HorticultureQingdao Agricultural UniversityQingdao 266109China State Key Laboratory of Tropical Crop BreedingShenzhen BranchGuangdong Laboratory of Lingnan Modern AgricultureKey Laboratory of Synthetic BiologyMinistry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhen 518120China Key Laboratory of Horticultural Plant Biology Ministry of EducationCollege of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhan 430070China School of Agriculture and Food ScienceUniversity College DublinBelfieldDublin 4Ireland National Demonstration Center for Experimental Plant Science EducationCollege of AgricultureGuangxi UniversityNanning 530004China State Key Laboratory of Resource InsectsSouthwest UniversityChongqing 400715China Institute of Horticulture CropsXinjiang Academy of Agricultural SciencesUrumqi 830091China Beijing Key Laboratory of Grape Science and EnologyInstitute of BotanyChinese Academy of SciencesXiangshanBeijing 100093China College of EnologyNorthwest A&F UniversityYangling 712100China SVQVINRAE-University of Strasbourg68000 ColmarFrance Genetics and Genomics of PlantsCeBiTec&Faculty of BiologyBielefeld University33615 BielefeldGermany Unidad de HortofruticulturaCentro de Investigación y Tecnología Agroalimentaria de Aragón(CITA)50059 ZaragozaSpain Institute for Integrative Systems Biology(I2SysBio)Systems Biotech ProgramUniversitat de València-CSICPaterna46908ValenciaSpain Cold Spring Harbor LaboratoryCold Spring HarborNY 11724USA USDA ARS NEA Robert W.Holley Center for Agriculture and HealthAgricultural Research ServiceIthacaNY 14853USA Fruit Research InstituteChinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetic Improvement of Horticultural Crops(Germplasm Resources Utilization)Ministry of Agriculture/Key Laboratory of Mineral Nutrition and Fertilizers Efficient Utilization of Deciduous Fruit TreeLiaoning ProvinceXingcheng 125100China Zhengzhou Fruit Research InstituteChinese Academy of Agricultural SciencesZhengzhou 450004China College of HorticultureNanjing Agricultural UniversityNanjing210095China State Key Laboratory of Tropical Crop BreedingTropical Crops Genetic Resources InstituteChinese Academy of Tropical Agricultural SciencesHaikou 571101China
出 版 物：《Horticulture Research》 (园艺研究（英文）)
年 卷 期：2023年第10卷第5期
页 面：207-219页
核心收录：
学科分类：09[农学] 0902[农学-园艺学] 090201[农学-果树学]
基 金：This work was supported by the National Natural Science Fund for Excellent Young Scientists Fund Program(Overseas)to Y.Z.,the National Key Research and Development Program of China(grant 2019YFA0906200) the Agricultural Science and Technology Innovation Program(CAAS-ZDRW202101) the Shenzhen Science and Technology Program(grant KQTD2016113010482651) the BMBF-funded de
摘 要：Grapevine is one of the most economically important crops ***,the previous versions of the grapevine reference genome tipically consist of thousands of fragments with missing centromeres and telomeres,limiting the accessibility of the repetitive sequences,the centromeric and telomeric regions,and the study of inheritance of important agronomic traits in these ***,we assembled a telomere-to-telomere(T2T)gap-free reference genome for the cultivar PN40024 using PacBio HiFi long *** T2T reference genome(PN_T2T)is 69 Mb longer with 9018 more genes identified than the 12X.v0 *** annotated 67%repetitive sequences,19 centromeres and 36 telomeres,and incorporated gene annotations of previous versions into the PN_T2T *** detected a total of 377 gene clusters,which showed associations with complex traits,such as aroma and disease *** though PN40024 derives from nine generations of selfing,we still found nine genomic hotspots of heterozygous sites associated with biological processes,such as the oxidation–reduction process and protein *** fully annotated complete reference genome therefore constitutes an important resource for grapevine genetic studies and breeding programs.
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