Evidence map›Paper›PMID 40350266›Full record

ArticleMicrobes and environments2025

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

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

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In one paragraph

Article in Microbes and environments, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed
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1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Yoshifumi OhyamaBiological Resource Center, National Institute of Technology and Evaluation (NBRC).
Takamasa MiuraBiological Resource Center, National Institute of Technology and Evaluation (NBRC).
Masataka FurukawaBiological Resource Center, National Institute of Technology and Evaluation (NBRC).
Mamiko ShimamuraBiological Resource Center, National Institute of Technology and Evaluation (NBRC).
Yuki AsamiBiological Resource Center, National Institute of Technology and Evaluation (NBRC).
Atsushi YamazoeBiological Resource Center, National Institute of Technology and Evaluation (NBRC).
Yoshihito UchinoBiological Resource Center, National Institute of Technology and Evaluation (NBRC).
Hiroko KawasakiBiological Resource Center, National Institute of Technology and Evaluation (NBRC).

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

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.

Indexed as

BacteriaGenome, BacterialMicrobiotaChromatography, High Pressure LiquidHumansMetagenomicsReproducibility of Resultscontrol samplehigh-throughput sequencingHPLCmetagenomemock communities

Identifiers

PMID40350266
PMCPMC12213061

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.