文献类型：期刊文献

英文题名：Chromosome-scale Cerasus humilis genome assembly reveals gene family evolution and possible genomic basis of calcium accumulation in fruits

作者：Zhao, Yang[2,3,4] Fu, Guangjun[1] Jiang, Jinyu[1] Li, Yingchao[2] Liu, Xiaojuan[2] Li, Jian[1] Sun, Jingyu[1] Wang, Qi[1] Liu, Donglin[1] Luo, Zhumei[1] Ding, Shuxia[1] Bi, Quanxin[2] Shi, Changchun[1] Wang, Libing[1,2]

第一作者：Zhao, Yang

通信作者：Shi, CC[1];Wang, LB[1];Bi, QX[2];Wang, LB[2]

机构：[1]Shaanxi Acad Forestry, Res Inst Sand Control, Yulin 719000, Peoples R China;[2]Chinese Acad Forestry, Res Inst Forestry, State Key Lab Tree Genet & Breeding, Beijing 100091, Peoples R China;[3]Chinese Acad Sci, Inst Genet & Dev Biol, State Key Lab Plant Genom, Beijing 100101, Peoples R China;[4]Univ Chinese Acad Sci, Beijing 100039, Peoples R China

年份：2022

卷号：299

外文期刊名：SCIENTIA HORTICULTURAE

收录：;WOS:【SCI-EXPANDED(收录号:WOS:000792620800003)】；

基金：This work was financially supported by the Shaanxi Forestry Science and Technology Innovation Special Plan Fund (SXLK2020-06-01) and the "Youth Top Talent Project" of the "Ten Thousand Talents Program" of the State.

语种：英文

外文关键词：Chinese dwarf cherry; Comparative genomics; Gene family analysis; Positive selection genes

摘要：Chinese dwarf cherry (Cerasus humilis), which is well known as "calcium fruit " for its high calcium content, is widely utilized in North China for its ecological and economical value. Understanding the evolutionary history and genetic basis underlying the calcium accumulation in this fruit is a fundamental goal in comparative genomics. In this study, we obtained a full phased chromosome-scale C. humilis genome for the cultivar "zhisha " using PacBio circular consensus sequencing reads and Phase genomics Proximo Hi-C technologies. The final assembled genome lengths were 235.41 and 237.35 Mb for primary assembly (p0) and alternate haplotig (p1), respectively, with an N50 contig length of 3.23 Mb. The genome contained 26,800 protein-coding genes, while 41.33% of the genome length consisted of TEs. Phylogenetic analysis revealed that C. humilis displayed a close relationship with Prunus and phylogenetically diverged from its common ancestor ~& nbsp;23.2 million years ago (MYA). Functional enrichment of expanded gene families in C. humilis genome highlighted genes involved in signal transduction, antiporter activity, polygalacturonase activity, auxin efflux transmembrane transporter activity, and auxin efflux, which is related to calcium transport and distribution. Phylogenetic analysis coupled with tissue-specific expression patterns indicated that PSGs WAK2 and CBL10, may also be responsible for the high Ca(2+)accumulation ability in C. humilis. These results glean tremendous insight into the fundamental genetic basis of the high calcium content in C. humilis fruit. In addition, the reference C. humilis genome we present in this study will be valuable resources for molecular breeding and genetic research of this fruit species.