Establishment and comparative genomics of a high-quality collection of mosquito-associated bacterial isolates - MosAIC (Mosquito-Associated Isolate Collection)
Establishment and comparative genomics of a high-quality collection of mosquito-associated bacterial isolates - MosAIC (Mosquito-Associated Isolate Collection)
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DOI：
10.1101/2023.10.04.560816
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发表时间：
2023-10
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影响因子：
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通讯作者：
Aidan Foo;Laura E. Brettell;Holly L. Nichols;Miguel Medina Muñoz;Jessica A. Lysne;Vishaal Dhokiya;A. Hoque;Douglas E Brackney;E. P. Caragata;Michael Hutchinson;Marcelo Jacobs-Lorena;David J. Lampe;Edwige Martin;Claire Valiente Moro;Michael Povelones;Sarah M. Short;B. Steven;Jiannong Xu;T. Paustian;Michelle R. Rondon;G. Hughes;K. L. Coon;E. Heinz
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作者：
Aidan Foo;Laura E. Brettell;Holly L. Nichols;Miguel Medina Muñoz;Jessica A. Lysne;Vishaal Dhokiya;A. Hoque;Douglas E Brackney;E. P. Caragata;Michael Hutchinson;Marcelo Jacobs-Lorena;David J. Lampe;Edwige Martin;Claire Valiente Moro;Michael Povelones;Sarah M. Short;B. Steven;Jiannong Xu;T. Paustian;Michelle R. Rondon;G. Hughes;K. L. Coon;E. Heinz
蚊子传播医学上重要的人类病原体，包括登革热病毒等病毒和疟原虫等寄生虫，疟疾的病原体。蚊子微生物组对于蚊子传播致病因子的能力至关重要。然而，虽然存在大量脊椎动物微生物的细菌分离株和基因组数据，但迄今为止，蚊子中的绝大多数工作都是基于16S rRNA基因扩增子数据，其提供的分类分辨率有限，并且没有功能信息。为了解决这一差距并促进未来使用实验微生物组操作的研究，我们生成了一个细菌蚊子相关分离株集合（MosAIC），由392个细菌分离株组成，具有广泛的元数据和高质量的基因组组装草图，可供科学界公开使用。MosAIC包括29个细菌科的142个物种，其中肠杆菌科的成员占收集的40%。对肠杆菌属、沙雷氏菌属和伊丽莎白金菌属三个属的系统基因组分析揭示了在多个实验室中从不同蚊子物种中分离出的蚊子相关细菌谱系。对物种泛基因组的研究进一步揭示了这些谱系特有的基因簇，这对未来确定蚊子宿主关联功能的工作很有意义。总之，我们描述了一个物理集合的蚊子相关的细菌分离株，其基因组数据，并在密切相关的分离株的基因组数据的背景下选定的组的分析，提供了一个独特的，非常有价值的资源，调查蚊子宿主内的细菌定植和适应的因素。未来的努力将扩大收集范围，包括更广泛的地理和宿主物种代表，特别是从野外种群收集的个体，以及其他与蚊子相关的微生物，包括真菌，古生菌和原生动物。
Mosquitoes transmit medically important human pathogens, including viruses like dengue virus and parasites such as Plasmodium spp., the causative agent of malaria. Mosquito microbiomes are critically important for the ability of mosquitoes to transmit disease-causing agents. However, while large collections of bacterial isolates and genomic data exist for vertebrate microbiomes, the vast majority of work in mosquitoes to date is based on 16S rRNA gene amplicon data that provides limited taxonomic resolution and no functional information. To address this gap and facilitate future studies using experimental microbiome manipulations, we generated a bacterial Mosquito-Associated Isolate Collection (MosAIC) consisting of 392 bacterial isolates with extensive metadata and high-quality draft genome assemblies that are publicly available for use by the scientific community. MosAIC encompasses 142 species spanning 29 bacterial families, with members of the Enterobacteriaceae comprising 40% of the collection. Phylogenomic analysis of three genera, Enterobacter, Serratia, and Elizabethkingia, reveal lineages of mosquito-associated bacteria isolated from different mosquito species in multiple laboratories. Investigation into species’ pangenomes further reveals clusters of genes specific to these lineages, which are of interest for future work to identify functions underlying mosquito host association. Altogether, we describe the generation of a physical collection of mosquito-associated bacterial isolates, their genomic data, and analyses of selected groups in context of genome data from closely related isolates, providing a unique, highly valuable resource to investigate factors for bacterial colonisation and adaptation within mosquito hosts. Future efforts will expand the collection to include broader geographic and host species representation, especially from individuals collected from field populations, as well as other mosquito-associated microbes, including fungi, archaea, and protozoa.