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探索水稻病原体的比较基因组：揭示毒力、适应性特征及一种潜在的III型分泌系统效应蛋白

Exploring the comparative genome of rice pathogen : unveiling virulence, fitness traits, and a potential type III secretion system effector.

作者信息

Mannaa Mohamed, Lee Duyoung, Lee Hyun-Hee, Han Gil, Kang Minhee, Kim Tae-Jin, Park Jungwook, Seo Young-Su

机构信息

Department of Integrated Biological Science, Pusan National University, Busan, Republic of Korea.

Institute of System Biology, Pusan National University, Busan, Republic of Korea.

出版信息

Front Plant Sci. 2024 May 23;15:1416253. doi: 10.3389/fpls.2024.1416253. eCollection 2024.

DOI:10.3389/fpls.2024.1416253
PMID:38845849
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11153758/
Abstract

This study presents a comprehensive genomic analysis of , a rice pathogen that causes blight and grain rot in seedlings. The entire genome of KACC 18964 was sequenced, followed by a comparative genomic analysis with other available genomes to gain insights into its virulence, fitness, and interactions with rice. Multiple secondary metabolite gene clusters were identified. Among these, 12 demonstrated varying similarity levels to known clusters linked to bioactive compounds, whereas eight exhibited no similarity, indicating as a source of potentially novel secondary metabolites. Notably, the genes responsible for tropolone and quorum sensing were conserved across the examined genomes. Additionally, was observed to possess three complete CRISPR systems and a range of secretion systems, exhibiting minor variations among the analyzed genomes. Genomic islands were analyzed across the four genomes, and a detailed study of the KACC 18964 genome revealed 59 unique islands. These islands were thoroughly investigated for their gene contents and potential roles in virulence. Particular attention has been devoted to the Type III secretion system (T3SS), a crucial virulence factor. An analysis of potential T3SS effectors identified a conserved gene, . Further mutational studies, and analyses validated the association between and virulence in rice. Overall, this study enriches our understanding of the genomic basis of pathogenicity and emphasizes the potential role of in virulence. This understanding may guide the development of effective disease management strategies.

摘要

本研究对一种导致水稻幼苗枯萎病和谷粒腐烂的水稻病原体进行了全面的基因组分析。对水稻细菌性条斑病菌KACC 18964的全基因组进行了测序，随后与其他可用基因组进行了比较基因组分析，以深入了解其毒力、适应性以及与水稻的相互作用。鉴定出了多个次生代谢物基因簇。其中，12个与已知的与生物活性化合物相关的基因簇显示出不同程度的相似性，而8个则没有相似性，这表明水稻细菌性条斑病菌是潜在新型次生代谢物的一个来源。值得注意的是，在所研究的基因组中，负责 tropolone 和群体感应的基因是保守的。此外，观察到水稻细菌性条斑病菌拥有三个完整的CRISPR系统和一系列分泌系统，在所分析的基因组中表现出微小差异。对四个基因组的基因组岛进行了分析，对水稻细菌性条斑病菌KACC 18964基因组的详细研究揭示了59个独特的岛。对这些岛的基因内容及其在毒力中的潜在作用进行了深入研究。特别关注了III型分泌系统（T3SS），这是一种关键的毒力因子。对潜在T3SS效应子的分析鉴定出一个保守基因。进一步的突变研究、功能缺失和功能获得分析验证了该基因与水稻毒力之间的关联。总体而言，本研究丰富了我们对水稻细菌性条斑病菌致病性基因组基础的理解，并强调了水稻细菌性条斑病菌在毒力中的潜在作用。这种理解可能会指导有效的病害管理策略的制定。

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