scMicrobe PTA: near complete genomes from single bacterial cells.

IF 5.1 Q1 ECOLOGY ISME communications Pub Date : 2024-07-12 eCollection Date: 2024-01-01 DOI:10.1093/ismeco/ycae085
Robert M Bowers, Veronica Gonzalez-Pena, Kartika Wardhani, Danielle Goudeau, Matthew James Blow, Daniel Udwary, David Klein, Albert C Vill, Ilana L Brito, Tanja Woyke, Rex R Malmstrom, Charles Gawad
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Abstract

Microbial genomes produced by standard single-cell amplification methods are largely incomplete. Here, we show that primary template-directed amplification (PTA), a novel single-cell amplification technique, generated nearly complete genomes from three bacterial isolate species. Furthermore, taxonomically diverse genomes recovered from aquatic and soil microbiomes using PTA had a median completeness of 81%, whereas genomes from standard multiple displacement amplification-based approaches were usually <30% complete. PTA-derived genomes also included more associated viruses and biosynthetic gene clusters.

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scMicrobe PTA:来自单个细菌细胞的近乎完整的基因组。
标准单细胞扩增方法产生的微生物基因组大多不完整。在这里,我们展示了一种新型单细胞扩增技术--初级模板定向扩增(PTA)--从三个细菌分离物种中产生了几乎完整的基因组。此外,利用 PTA 从水生和土壤微生物组中恢复的分类学多样性基因组的中位完整率为 81%,而基于标准多位移扩增方法的基因组通常为
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