Microsoft Premonition, Microsoft Research, Redmond, WA, 98052, USA.
Department of Biological Sciences, Purdue University, West Lafayette, IN, 47907, USA.
Commun Biol. 2024 May 30;7(1):667. doi: 10.1038/s42003-024-06337-9.
The Anopheles gambiae 1000 Genomes (Ag1000G) Consortium previously utilized deep sequencing methods to catalogue genetic diversity across African An. gambiae populations. We analyzed the complete datasets of 1142 individually sequenced mosquitoes through Microsoft Premonition's Bayesian mixture model based (BMM) metagenomics pipeline. All specimens were confirmed as either An. gambiae sensu stricto (s.s.) or An. coluzzii with a high degree of confidence ( > 98% identity to reference). Homo sapiens DNA was identified in all specimens indicating contamination may have occurred either at the time of specimen collection, preparation and/or sequencing. We found evidence of vertebrate hosts in 162 specimens. 59 specimens contained validated Plasmodium falciparum reads. Human hepatitis B and primate erythroparvovirus-1 viral sequences were identified in fifteen and three mosquito specimens, respectively. 478 of the 1,142 specimens were found to contain bacterial reads and bacteriophage-related contigs were detected in 27 specimens. This analysis demonstrates the capacity of metagenomic approaches to elucidate important vector-host-pathogen interactions of epidemiological significance.
冈比亚按蚊 1000 基因组（Ag1000G）联盟先前利用深度测序方法对非洲冈比亚按蚊种群的遗传多样性进行了编目。我们通过 Microsoft Premonition 的基于贝叶斯混合模型的（BMM）宏基因组学管道分析了 1142 只单独测序蚊子的完整数据集。所有标本都被高度确信地确认为冈比亚按蚊亚种（s.s.）或冈比亚按蚊亚种（An. coluzzii）（与参考序列的同一性 > 98%）。所有标本中都发现了人类 DNA，表明在标本采集、准备和/或测序时可能发生了污染。我们在 162 个标本中发现了脊椎动物宿主的证据。59 个标本中含有有效的恶性疟原虫读段。在 15 个和 3 个蚊子标本中分别鉴定出人乙型肝炎和灵长类动物细小病毒 1 的病毒序列。在 1142 个标本中有 478 个被发现含有细菌读段，在 27 个标本中检测到噬菌体相关的基因组序列。这项分析表明了宏基因组学方法阐明具有流行病学意义的重要媒介-宿主-病原体相互作用的能力。
