Evidence map›Paper›PMID 42683226›Full record

ArticleISME communications2026

Significant impact of threshold adjustments on microbiome characterization following Nanopore sequencing.

Minjie Fu, Yeojoo Yoon, Haeun Cho, Piotr G Jablonski, Sang-Im Lee, Jae Chun Choe

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in ISME communications, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
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

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

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

6 authors.

Minjie FuInterdisciplinary Program of EcoCreative, Ewha Womans University, Seoul 03760, Republic of Korea.ORCID https://orcid.org/0000-0002-4649-6545
Yeojoo YoonInterdisciplinary Program of EcoCreative, Ewha Womans University, Seoul 03760, Republic of Korea.
Haeun ChoInterdisciplinary Program of EcoCreative, Ewha Womans University, Seoul 03760, Republic of Korea.
Piotr G JablonskiMuseum and Institute of Zoology, Polish Academy of Sciences, Warsaw 00-818, Poland.
Sang-Im LeeDepartment of New Biology, Daegu Gyeongbuk Institute of Science and Technology, Daegu 42988, Republic of Korea.
Jae Chun ChoeInterdisciplinary Program of EcoCreative, Ewha Womans University, Seoul 03760, Republic of Korea.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Sequencing the full-length 16S rRNA gene is essential for improving the taxonomic resolution of bacterial identification. Long-read Oxford Nanopore Technologies (ONT) sequencing, coupled with its real-time analysis platform EPI2ME, has become increasingly competitive in microbial community profiling studies. However, the impact of threshold settings in EPI2ME Agent on the alignment-based confidence (hereafter "Alignment accuracy") and the proportion of reads successfully assigned to a taxon (hereafter "Classification success") has not yet been systematically evaluated. In this study, we performed ONT-based full-length 16S rRNA gene sequencing on samples collected from eggshells of wild Oriental Tits (

Indexed as

16S rRNA geneEPI2ME Agentfiltering thresholdslong-read sequencingOxford Nanopore Technologies (ONT)Parus minorreal-time microbiome characterizationwild birds

Identifiers

PMID42683226
PMCPMC13533206

What OpenQuestion holds

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Registered trials

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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.