Background:Arundo donax L.has great potential as an energy crop due to its high biomass yield and broad adaptability,while lack of a reference genome is a hindrance to genetic improvement efforts for this species.Meth...Background:Arundo donax L.has great potential as an energy crop due to its high biomass yield and broad adaptability,while lack of a reference genome is a hindrance to genetic improvement efforts for this species.Methods:Genome assembly of A.donax was conducted by utilizing PacBio SMRT sequencing and high-throughput chromosome conformation capture technology,with further analysis exploring the plant's ploidy,whole-genome duplication event,and evolutionary history through comparative genomics.Results:The genome assembly of A.donax consists of 1.30 Gb with a contig N50 size of 33.15 Mb.A total of 74403 gene models were identified,with over 90%of genes being functionally annotated.Karyotype and synteny analyses revealed that A.donax is an autoalloenneaploid(3n=9x=108)and has experienced significant gene family expansion and two whole-genome duplication events during its evolutionary history.Furthermore,utilizing the genome assembly,a variety of salinity stress-related genes were uncovered through the analysis of public RNA-seq data.Conclusions:This study presents the initial chromosome-scale genome assembly of A.donax,which will advance genetic comprehension and support the genetic enhancement of this important energy crop.展开更多
基金Jianghan University,Grant/Award Number:2023XKZ024National Forestry and Grassland Administration,Grant/Award Number:KJZXXP202314。
文摘Background:Arundo donax L.has great potential as an energy crop due to its high biomass yield and broad adaptability,while lack of a reference genome is a hindrance to genetic improvement efforts for this species.Methods:Genome assembly of A.donax was conducted by utilizing PacBio SMRT sequencing and high-throughput chromosome conformation capture technology,with further analysis exploring the plant's ploidy,whole-genome duplication event,and evolutionary history through comparative genomics.Results:The genome assembly of A.donax consists of 1.30 Gb with a contig N50 size of 33.15 Mb.A total of 74403 gene models were identified,with over 90%of genes being functionally annotated.Karyotype and synteny analyses revealed that A.donax is an autoalloenneaploid(3n=9x=108)and has experienced significant gene family expansion and two whole-genome duplication events during its evolutionary history.Furthermore,utilizing the genome assembly,a variety of salinity stress-related genes were uncovered through the analysis of public RNA-seq data.Conclusions:This study presents the initial chromosome-scale genome assembly of A.donax,which will advance genetic comprehension and support the genetic enhancement of this important energy crop.
