scMicrobe PTA：来自单个细菌细胞的近乎完整的基因组。

scMicrobe PTA: near complete genomes from single bacterial cells.

作者信息

Bowers Robert M, Gonzalez-Pena Veronica, Wardhani Kartika, Goudeau Danielle, Blow Matthew James, Udwary Daniel, Klein David, Vill Albert C, Brito Ilana L, Woyke Tanja, Malmstrom Rex R, Gawad Charles

机构信息

DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States.

Department of Pediatrics, Stanford University, Stanford, CA, United States.

出版信息

ISME Commun. 2024 Jul 12;4(1):ycae085. doi: 10.1093/ismeco/ycae085. eCollection 2024 Jan.

DOI:10.1093/ismeco/ycae085

PMID:39021442

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11253033/

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.

摘要

通过标准单细胞扩增方法产生的微生物基因组大多是不完整的。在此，我们表明，初级模板导向扩增（PTA），一种新型单细胞扩增技术，能够从三种细菌分离物种中生成近乎完整的基因组。此外，使用PTA从水生和土壤微生物群落中获得的分类学上多样的基因组，其完整性中位数为81%，而基于标准多重置换扩增方法获得的基因组通常完整性小于30%。PTA衍生的基因组还包含更多相关病毒和生物合成基因簇。