Genome sequence and spore germination-associated transcriptome analysis of Corynespora cassiicola from cucumber
Abstract Background Corynespora cassiicola, as a necrotrophic phytopathogenic ascomycetous fungus, can infect hundreds of species of plants and rarely causes human diseases. This pathogen infects cucumber species and causes cucumber target spot, which has recently caused large cucumber yield losses...
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doaj-06560b2bac394fffa50dfdd19318d6ae2020-11-25T03:01:03ZengBMCBMC Microbiology1471-21802020-07-0120112010.1186/s12866-020-01873-wGenome sequence and spore germination-associated transcriptome analysis of Corynespora cassiicola from cucumberShigang Gao0Rong Zeng1Lihui Xu2Zhiwei Song3Ping Gao4Fuming Dai5Shanghai Runzhuang Agricultural Technology Co., LtdShanghai Runzhuang Agricultural Technology Co., LtdShanghai Runzhuang Agricultural Technology Co., LtdShanghai Runzhuang Agricultural Technology Co., LtdShanghai Runzhuang Agricultural Technology Co., LtdShanghai Runzhuang Agricultural Technology Co., LtdAbstract Background Corynespora cassiicola, as a necrotrophic phytopathogenic ascomycetous fungus, can infect hundreds of species of plants and rarely causes human diseases. This pathogen infects cucumber species and causes cucumber target spot, which has recently caused large cucumber yield losses in China. Genome sequence and spore germination-associated transcriptome analysis will contribute to the understanding of the molecular mechanism of pathogenicity and spore germination of C. cassiicola. Results First, we reported the draft genome sequences of the cucumber-sampled C. cassiicola isolate HGCC with high virulence. Although conspecific, HGCC exhibited distinct genome sequence differences from a rubber tree-sampled isolate (CCP) and a human-sampled isolate (UM591). The proportion of secreted proteins was 7.2% in HGCC. A total of 28.9% (4232) of HGCC genes, 29.5% (4298) of CCP genes and 28.6% (4214) of UM591 genes were highly homologous to experimentally proven virulence-associated genes, respectively, which were not significantly different (P = 0.866) from the average (29.7%) of 10 other phytopathogenic fungi. Thousands of putative virulence-associated genes in various pathways or families were identified in C. cassiicola. Second, a global view of the transcriptome of C. cassiicola spores during germination was evaluated using RNA sequencing (RNA-Seq). A total of 3288 differentially expressed genes (DEGs) were identified. The majority of KEGG-annotated DEGs were involved in metabolism, genetic information processing, cellular processes, the organismal system, human diseases and environmental information processing. Conclusions These results facilitate the exploration of the molecular pathogenic mechanism of C. cassiicola in cucumbers and the understanding of molecular and cellular processes during spore germination.http://link.springer.com/article/10.1186/s12866-020-01873-wCorynespora cassiicolaCucumberGenome sequenceVirulence-associated geneSpore germinationRNA-Seq |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Shigang Gao Rong Zeng Lihui Xu Zhiwei Song Ping Gao Fuming Dai |
spellingShingle |
Shigang Gao Rong Zeng Lihui Xu Zhiwei Song Ping Gao Fuming Dai Genome sequence and spore germination-associated transcriptome analysis of Corynespora cassiicola from cucumber BMC Microbiology Corynespora cassiicola Cucumber Genome sequence Virulence-associated gene Spore germination RNA-Seq |
author_facet |
Shigang Gao Rong Zeng Lihui Xu Zhiwei Song Ping Gao Fuming Dai |
author_sort |
Shigang Gao |
title |
Genome sequence and spore germination-associated transcriptome analysis of Corynespora cassiicola from cucumber |
title_short |
Genome sequence and spore germination-associated transcriptome analysis of Corynespora cassiicola from cucumber |
title_full |
Genome sequence and spore germination-associated transcriptome analysis of Corynespora cassiicola from cucumber |
title_fullStr |
Genome sequence and spore germination-associated transcriptome analysis of Corynespora cassiicola from cucumber |
title_full_unstemmed |
Genome sequence and spore germination-associated transcriptome analysis of Corynespora cassiicola from cucumber |
title_sort |
genome sequence and spore germination-associated transcriptome analysis of corynespora cassiicola from cucumber |
publisher |
BMC |
series |
BMC Microbiology |
issn |
1471-2180 |
publishDate |
2020-07-01 |
description |
Abstract Background Corynespora cassiicola, as a necrotrophic phytopathogenic ascomycetous fungus, can infect hundreds of species of plants and rarely causes human diseases. This pathogen infects cucumber species and causes cucumber target spot, which has recently caused large cucumber yield losses in China. Genome sequence and spore germination-associated transcriptome analysis will contribute to the understanding of the molecular mechanism of pathogenicity and spore germination of C. cassiicola. Results First, we reported the draft genome sequences of the cucumber-sampled C. cassiicola isolate HGCC with high virulence. Although conspecific, HGCC exhibited distinct genome sequence differences from a rubber tree-sampled isolate (CCP) and a human-sampled isolate (UM591). The proportion of secreted proteins was 7.2% in HGCC. A total of 28.9% (4232) of HGCC genes, 29.5% (4298) of CCP genes and 28.6% (4214) of UM591 genes were highly homologous to experimentally proven virulence-associated genes, respectively, which were not significantly different (P = 0.866) from the average (29.7%) of 10 other phytopathogenic fungi. Thousands of putative virulence-associated genes in various pathways or families were identified in C. cassiicola. Second, a global view of the transcriptome of C. cassiicola spores during germination was evaluated using RNA sequencing (RNA-Seq). A total of 3288 differentially expressed genes (DEGs) were identified. The majority of KEGG-annotated DEGs were involved in metabolism, genetic information processing, cellular processes, the organismal system, human diseases and environmental information processing. Conclusions These results facilitate the exploration of the molecular pathogenic mechanism of C. cassiicola in cucumbers and the understanding of molecular and cellular processes during spore germination. |
topic |
Corynespora cassiicola Cucumber Genome sequence Virulence-associated gene Spore germination RNA-Seq |
url |
http://link.springer.com/article/10.1186/s12866-020-01873-w |
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