Whole genome re-sequencing and transcriptome analysis of the Stylosanthes Anthracnose pathogen Colletotrichum gloeosporioides reveal its characteristics

文献类型： 外文期刊

第一作者： Huang, H. P.

作者： Huang, H. P.;Huang, H. P.;Huang, J. H.;Zheng, J. L.;Yi, K. X.;Ma, S.

作者机构：

关键词： de novo transcriptome assembly;gene annotation;pathogenicity;pathway analysis;RNA sequencing;SSR

期刊名称：MYCOSPHERE （ 影响因子：4.211； 五年影响因子：2.866 ）

ISSN： 2077-7000

年卷期： 2016 年 7 卷 8 期

页码：

收录情况： SCI

摘要： Stylosanthes anthracnose is an important disease caused by Colletotrichum gloeosporioides, which affects the production and utilization of Stylosanthes species in the world. Despite their importance, little progress has been made in understanding Stylosanthes anthracnose pathogens due to their insufficient genomic and transcriptomic data. In the current study, whole genome re-sequencing of seven C. gloeosporioides strains was carried out together with next generation RNA sequencing of C. gloeosporioides strain CH008. Whole genome re-sequencing was conducted with reference to the genome of highly virulent C. gloeosporioides strain CH008. It resulted in 10.06 G of effective data, with a mean proportion of 67.40% genes mapped to the reference strain and an average genome coverage of 79.71%. A total of 2,149,030 single nucleotide polymorphisms, 178,620 insertions and deletions, and 654 structural variations were discovered on the genomes of the seven tested strains. Transcriptomic analysis produced approximately 30.5 million high quality reads assembled into 33,529 contigs and further integrated into 25,376 unigenes. All assembled sequences were annotated against public databases. A total of 12,398 unigenes were assigned to 61 sub-categories of Gene Ontology terms. Among them, 3,717 unigenes were identified and mapped onto 264 pathways against Kyoto Encyclopaedia of Genes and Genomes pathway database. This study provides the first comprehensive transcriptomic resource available for C. gloeosporioides. The genome assembly and the unigenes identified in the study will benefit further studies on functional genes involved in pathogenicity. Simple sequence repeat markers developed in this study will facilitate studies on marker-assisted genomic and pathogenic diversities of Colletotrichum gloeosporioides.

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