Chromosome-level genomes of seeded and seedless date plum based on third-generation DNA sequencing and Hi-C analysis  

作　　者：Weitao Mao Guoxin Yao Shangde Wang Lei Zhou Guosong Chen Ningguang Dong Guanglong Hu 

机构地区：[1]Key Laboratory of Biology and Genetic Improvement of Horticultural Crops(North China),Ministry of Agriculture,Beijing Engineering Research Center for Deciduous Fruit Trees,Beijing Academy of Forestry and Pomology Sciences,Beijing 100093,China [2]Hubei Key Laboratory of Quality Control of Characteristic Fruits and Vegetables,College of Life Science and Technology,Hubei Engineering University,Xiaogan 432000,China [3]School of Life Science,Hubei University,Wuhan 430062,China [4]Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement,Food Crops Institute,Hubei Academy of Agricultural Sciences,Wuhan 430072,China [5]Beijing XinTaoYuan Commerce&Trading Co.,Ltd.,Beijing 101215,China

出　　处：《Forestry Research》2021年第1期77-85,共9页林学研究（英文）

基　　金：financially supported by the Presidential Foundation of Beijing Academy of Forestry and Pomology Sciences(grant no.LGY201901);the Special Fund for the Construction of Scientific and Technological Innovation Capability(KJCX20210114).

摘　　要：Diospyros lotus L.(Date plum)is an important tree species that produces fruit with a high nutritional value.An accurate chromosomal assembly of a species facilitates research on chromosomal evolution and functional gene mapping.In this study,we assembled the first chromosome-level genomes of seeded and seedless D.lotus using Illumina short reads,PacBio long reads,and Hi-C technology.The assembled genomes comprising 15 chromosomes were 617.66 and 647.31 Mb in size,with a scaffold N50 of 40.72 and 42.67 Mb for the seedless and seeded D.lotus,respectively.A BUSCO analysis revealed that the seedless and seeded D.lotus genomes were 91.53% and 91.60%complete,respectively.Additionally,20,689(95.4%)and 22,844(98.5%)protein-coding genes in the seedless and seeded D.lotus genomes were annotated,respectively.Comparisons of the chromosomes between genomes revealed inversions and translocations on chromosome 8 and inversions on chromosome 11.We identified 490 and 424 gene families that expanded in the seedless and seeded D.lotus,respectively.The enriched pathways among these gene families included the estrogen signaling pathway,the MAPK signaling pathway,and biosynthetic pathways for flavonoids,monoterpenoids,and glucosinolates.Moreover,we constructed the first Diospyros genome database(http://www.persimmongenome.cn).On the basis of our data,we developed the first high-quality annotated D.lotus reference genomes,which will be useful for genomic studies on persimmon and for clarifying the molecular mechanisms underlying important traits.Comparisons between the seeded and seedless D.lotus genomes may also elucidate the molecular basis of seedlessness.

关 键 词：BUS database ANALYSIS 

分 类 号：TP3[自动化与计算机技术—计算机科学与技术]