Whole-genome squence analysis of 23 Lentinula edodes germplasms based on genome re-sequencing
To identify and analyze the genetic diversity of Lentinula edodes isolated from the main producing area in Henan province,the study resequenced the genomes of 23 cultivated L.edodes germplasm resources.The researchers ana-lyzed the single nucleotide polymorphism(SNP)and insertion-deletion(InDel)data,and finished the genetic structure analysis,phylogenetic tree construction and principal component analysis based on the SNP variation.The proportion of reads matched to the reference genome ranged from 72.53%to 90.60%among the samples,with an average sequencing depth ranging from 12.83 to 19.99 and coverage rates ranging from 91.89%to 99.32%.The researchers identified a total of 14 115 075 SNP sites and 1 909 516 InDel sites.The results revealed the presence of three lineages with genetic distances ranging from 0.054 90 to 0.656 89,indicating the existence of at least three ancestral genetic components.Based on the principal component analysis,the relative distance of each strain was confirmed,which proved that the strain branches had obvious regional characteristics.The comprehensive analysis considered the similarity of gene sequences,genetic distance differences,and the relationships among relatives as the main characteristics.The understanding of these characteristics could facilitate the exchange and utilization of excellent germplasm resources.Additionally,the study provided insights into the relationship between the naming of local varieties and their genetic characteristics.
万方数据
维普
