Categorization of Orthologous Gene Clusters in 92 Ascomycota Genomes Reveals Functions Important for Phytopathogenicity.
Categorization of Orthologous Gene Clusters in 92 Ascomycota Genomes Reveals Functions Important for Phytopathogenicity.
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92个子囊菌基因组中的Orthopathic基因簇的分类揭示了对植物致病性重要的功能。
DOI：
10.3390/jof7050337
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发表时间：
2021-04-27
期刊：
影响因子：
--
通讯作者：
Yin Y
中科院分区：
文献类型：
--
作者：
Peterson D;Li T;Calvo AM;Yin Y
植物致病性子囊菌每年造成巨大的经济损失，破坏有价值的作物。本研究旨在从比较基因组学的角度对子囊菌的植物致病性提供新的认识。这是通过将68个植物致病性和24个非植物致病性子囊菌基因组的同源基因群（正群）分为三类：核心基因群、（病原体或非病原体）群体特异性基因群和基因组特异性附属正群来实现的。我们发现(1)在92个子囊菌基因组中，约20%的正类群是群特异性和辅助的；(2)植物致病性不是系统发育决定的；(3)群特异性正类群比辅助正类群具有更丰富的功能项，这种趋势在植物致病性真菌中尤为明显。（iv）带信号肽的分泌蛋白和水平基因转移（hgt）是两个功能术语，在群体特异性正群中显示出最高的发生率和重要性，(v)许多其他功能术语也被确定在群体特异性正群中具有更高的重要性和发生率。总的来说，我们的比较基因组学分析确定了正类群之间存在正富集，并揭示了使子囊菌具有植物致病性的基因组特征的预测。我们的结论是，多个植物致病性基因组共享的基因比每个基因组中独特的基因对植物致病性更重要。
Phytopathogenic Ascomycota are responsible for substantial economic losses each year, destroying valuable crops. The present study aims to provide new insights into phytopathogenicity in Ascomycota from a comparative genomic perspective. This has been achieved by categorizing orthologous gene groups (orthogroups) from 68 phytopathogenic and 24 non-phytopathogenic Ascomycota genomes into three classes: Core, (pathogen or non-pathogen) group-specific, and genome-specific accessory orthogroups. We found that (i) ~20% orthogroups are group-specific and accessory in the 92 Ascomycota genomes, (ii) phytopathogenicity is not phylogenetically determined, (iii) group-specific orthogroups have more enriched functional terms than accessory orthogroups and this trend is particularly evident in phytopathogenic fungi, (iv) secreted proteins with signal peptides and horizontal gene transfers (HGTs) are the two functional terms that show the highest occurrence and significance in group-specific orthogroups, (v) a number of other functional terms are also identified to have higher significance and occurrence in group-specific orthogroups. Overall, our comparative genomics analysis determined positive enrichment existing between orthogroup classes and revealed a prediction of what genomic characteristics make an Ascomycete phytopathogenic. We conclude that genes shared by multiple phytopathogenic genomes are more important for phytopathogenicity than those that are unique in each genome.
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