韩国赤芝全基因组重测序分析

The Analysis of Whole-genome Resequencing of Ganoderma Lucidum Originated from South Korea

目的:探索韩国赤芝与中国赤芝CGMCC5.0026间在基因组水平上存在的差异,为赤芝的遗传育种提供研究基础。方法:采用高通量重测序技术,对韩国赤芝进行全基因组重测序,并对单核苷酸多态位点突变(SNP)、小片段插入缺失变异(InDel)、结构变异(SV)进行检测和注释。对DNA水平变异基因进行KEGG、GO、COG、NR、SwissProt数据库注释。结果:韩国赤芝重测序覆盖深度为44×,与中国赤芝CGMCC5.0026相比,共发现10607个基因发生非同义SNP,4774个InDel和1428个SV,共导致9469个基因发生变异。这些变异基因中有转录因子86个,细胞色素P450 195个。结论:本研究通过对中国赤芝和韩国赤芝基因组序列进行比较,为赤芝的分子标记育种和对完善灵芝模式真菌研究体系提供了基础。

The difference in genomic level between Ganoderma lucidum(G. lucidum) from South Korea and G. lucidum CGMCC5.0026 from China were analyzed to provide a research basis for genetic breeding of G. lucidum. We used highthroughput sequencing technology to perform whole genome resequencing for G. lucidum from South Korea, as well as detected and annotated single nucleotide polymorphisms(SNP), small InDel(InDel) and structure variations(SV). Mutant genes at DNA level were annotated by Kyoto Encyclopaedia of Genes and Genomes(KEGG) pathways, Gene Ontology (GO), Clusters of Orthologous Groups of proteins(COG), Non-redundant (NR) and SwissProt. The results showed that the resequencing depth of the G. lucidum from South Korea was 44 fold. And compared with the G. lucidum CGMCC5.0026 from China, 10607 SNPs, 4774 InDels and 1428 SVs were found, which resulted in 9469 gene mutations. Among the mutant genes, there were 86 transcription factors and 195 cytochrome P450 s. This research provides data for molecular marker breeding of G. lucidum and the model system for studying medicinal fungi.