A HPLC-based Method for Counting the Genome Copy Number of Cells Allows the Production of a High-quality Mock Community of Bacterial Cells.

IF 2.1 4区环境科学与生态学 Q3 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Microbes and Environments Pub Date : 2025-01-01 DOI:10.1264/jsme2.ME24076

Yoshifumi Ohyama, Takamasa Miura, Masataka Furukawa, Mamiko Shimamura, Yuki Asami, Atsushi Yamazoe, Yoshihito Uchino, Hiroko Kawasaki

引用次数: 0

Abstract

Improving the reliability of a metagenomic sequencing ana-lysis requires the use of control samples, known as mock communities. Therefore, mock communities must be prepared with high accuracy and reproducibility, which is particularly challenging for cellular mock communities. In the present study, we prepared a cellular mock community consisting of bacterial strains representative of the human and surrounding environmental microbiomes to demonstrate the suitability of a HPLC-based method that measures the genome number of cells. This method proved to be more accurate and reproducible for preparing cellular mock communities than traditional cell counting-based enumeration methods.

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一种基于高效液相色谱的细胞基因组拷贝数计数方法可以产生高质量的模拟细菌细胞群落。

提高宏基因组测序分析的可靠性需要使用对照样本，即模拟群落。因此，模拟群落必须具有较高的准确性和可重复性，这对细胞模拟群落来说尤其具有挑战性。在本研究中，我们制备了一个细胞模拟群落，由代表人类和周围环境微生物组的细菌菌株组成，以证明基于高效液相色谱的方法测量细胞基因组数量的适用性。与传统的基于细胞计数的枚举方法相比，该方法对制备细胞模拟群落具有更高的准确性和可重复性。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Microbes and Environments 生物-生物工程与应用微生物

CiteScore

4.10

自引率

13.60%

发文量

审稿时长

3 months

期刊介绍： Microbial ecology in natural and engineered environments; Microbial degradation of xenobiotic compounds; Microbial processes in biogeochemical cycles; Microbial interactions and signaling with animals and plants; Interactions among microorganisms; Microorganisms related to public health; Phylogenetic and functional diversity of microbial communities; Genomics, metagenomics, and bioinformatics for microbiology; Application of microorganisms to agriculture, fishery, and industry; Molecular biology and biochemistry related to environmental microbiology; Methodology in general and environmental microbiology; Interdisciplinary research areas for microbial ecology (e.g., Astrobiology, and Origins of Life); Taxonomic description of novel microorganisms with ecological perspective; Physiology and metabolisms of microorganisms; Evolution of genes and microorganisms; Genome report of microorganisms with ecological perspective.