The telomere-to-telomere genome of Fragaria vesca reveals the genomic evolution of Fragaria and the origin of cultivated octoploid strawberry  

作　　者：Yuhan Zhou Jinsong Xiong Ziqiang Shu Chao Dong Tingting Gu Pengchuan Sun Shuang He Mian Jiang Zhiqiang Xia Jiayu Xue Wasi Ullah Khan Fei Chen Zong-Ming Cheng 

机构地区：[1]College of Horticulture,Nanjing Agricultural University,Nanjing 210095,China [2]Hainan Yazhou Bay Seed Laboratory,Sanya 572024,China [3]Wuhan Benagen Tech Solutions Company Limited,Wuhan,Hubei 430021,China [4]Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education&State Key Laboratory of Hydraulics&Mountain River Engineering,College of Life Sciences,Sichuan University,Chengdu 610065,China [5]College of Tropical Crops,Hainan University,Haikou 570228,China [6]Sanya Nanfan Research Institute from Hainan University,Sanya 572025,China

出　　处：《Horticulture Research》2023年第4期101-109,共9页园艺研究（英文）

基　　金：funding from the National Natural Science Foundation of China(32172614);a startup fund fromHainan University and a Hainan Province Science and Technology Special Fund(ZDYF2023XDNY050).

摘　　要：Fragaria vesca,commonly known as wild or woodland strawberry,is the most widely distributed diploid Fragaria species and is native to Europe and Asia.Because of its small plant size,low heterozygosity,and relative ease of genetic transformation,F.vesca has been a model plant for fruit research since the publication of its Illumina-based genome in 2011.However,its genomic contribution to octoploid cultivated strawberry remains a long-standing question.Here,we de novo assembled and annotated a telomere-to-telomere,gap-free genome of F.vesca‘Hawaii 4’,with all seven chromosomes assembled into single contigs,providing the highest completeness and assembly quality to date.The gap-free genome is 220785082 bp in length and encodes 36173 protein-coding gene models,including 1153 newly annotated genes.All 14 telomeres and seven centromeres were annotated within the seven chromosomes.Among the three previously recognized wild diploid strawberry ancestors,F.vesca,F.iinumae,and F.viridis,phylogenomic analysis showed that F.vesca and F.viridis are the ancestors of the cultivated octoploid strawberry F.×ananassa,and F.vesca is its closest relative.Three subgenomes of F.×ananassa belong to the F.vesca group,and one is sister to F.viridis.We anticipate that this high-quality,telomere-to-telomere,gap-free F.vesca genome,combined with our phylogenomic inference of the origin of cultivated strawberry,will provide insight into the genomic evolution of Fragaria and facilitate strawberry genetics and molecular breeding.

关 键 词：straw FRAGARIA ORIGIN 

分 类 号：S668.4[农业科学—果树学]