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The “Bipartite” Structure of the First Genome of Ampelomyces quisqualis, a Common Hyperparasite and Biocontrol Agent of Powdery Mildews, May Point to Its Evolutionary Origin from Plant Pathogenic Fungi
Genome Biology and Evolution ( IF 3.3 ) Pub Date : 2021-08-05 , DOI: 10.1093/gbe/evab182
Lauren Huth 1 , Gavin J Ash 1 , Alexander Idnurm 2 , Levente Kiss 1 , Niloofar Vaghefi 1
Affiliation  

Powdery mildews are among the most important plant pathogens worldwide, which are often attacked in the field by mycoparasitic fungi belonging to the genus Ampelomyces. The taxonomy of the genus Ampelomyces is unresolved, but well-supported molecular operational taxonomic units were repeatedly defined suggesting that the genus may include at least four to seven species. Some Ampelomyces strains were commercialized as biocontrol agents of crop pathogenic powdery mildews. However, the genomic mechanisms underlying their mycoparasitism are still poorly understood. To date, the draft genome of a single Ampelomyces strain, designated as HMLAC 05119, has been released. We report a high-quality, annotated hybrid draft genome assembly of A. quisqualis strain BRIP 72107, which, based on phylogenetic analyses, is not conspecific with HMLAC 05119. The constructed genome is 40.38 Mb in size, consisting of 24 scaffolds with an N50 of 2.99 Mb and 96.2% completeness. Our analyses revealed “bipartite” structure of Ampelomyces genomes, where GC-balanced genomic regions are interspersed by longer or shorter stretches of AT-rich regions. This is also a hallmark of many plant pathogenic fungi and provides further evidence for evolutionary affinity of Ampelomyces species to plant pathogenic fungi. The high-quality genome and annotation produced here provide an important resource for future genomic studies of mycoparasitisim to decipher molecular mechanisms underlying biocontrol processes and natural tritrophic interactions.

中文翻译:

Ampelomyces quisqualis 第一基因组的“二分体”结构,一种常见的白粉病的超级寄生虫和生物防治剂,可能指向其进化起源于植物病原真菌

白粉病是世界范围内最重要的植物病原体之一,它们经常在田间受到属于 Ampelomyces 属的寄生真菌的攻击。Ampelomyces 属的分类学尚未解决,但得到充分支持的分子操作分类单位被反复定义,表明该属可能至少包括四到七个物种。一些Ampelomyces菌株被商业化作为作物病原性白粉病的生防剂。然而,它们寄生的基因组机制仍然知之甚少。迄今为止,已发布了一个名为 HMLAC 05119 的单一 Ampelomyces 菌株的基因组草图。我们报告了 A. quisqualis 菌株 BRIP 72107 的高质量、带注释的杂交草图基因组组装,根据系统发育分析,它与 HMLAC 05119 不具有同种性。构建的基因组大小为 40.38 Mb,由 24 个支架组成,N50 为 2.99 Mb,完整性为 96.2%。我们的分析揭示了 Ampelomyces 基因组的“二分”结构,其中 GC 平衡的基因组区域散布着更长或更短的富含 AT 的区域。这也是许多植物病原真菌的标志,并为 Ampelomyces 物种与植物病原真菌的进化亲和力提供了进一步的证据。这里产生的高质量基因组和注释为未来的寄生菌基因组研究提供了重要资源,以破译生物控制过程和自然三营养相互作用的分子机制。其中 GC 平衡的基因组区域散布着更长或更短的富含 AT 的区域。这也是许多植物病原真菌的标志,并为 Ampelomyces 物种与植物病原真菌的进化亲和力提供了进一步的证据。这里产生的高质量基因组和注释为未来的寄生菌基因组研究提供了重要资源,以破译生物控制过程和自然三营养相互作用的分子机制。其中 GC 平衡的基因组区域散布着更长或更短的富含 AT 的区域。这也是许多植物病原真菌的标志,并为 Ampelomyces 物种与植物病原真菌的进化亲和力提供了进一步的证据。这里产生的高质量基因组和注释为未来的寄生菌基因组研究提供了重要资源,以破译生物控制过程和自然三营养相互作用的分子机制。
更新日期:2021-08-05
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