Evidence map›Paper›PMID 37582072›Full record

ArticlePloS one2023

Genome taxonomy of the genus Neptuniibacter and proposal of Neptuniibacter victor sp. nov. isolated from sea cucumber larvae.

Rika Kudo, Ryota Yamano, Juanwen Yu, Shotaro Koike, Alfabetian Harjuno Condro Haditomo, Mayanne A M de Freitas, Jiro Tsuchiya, Sayaka Mino, Fabiano Thompson, Jesús L Romalde and 3 more

Abstract read
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In one paragraph

Article in PloS one, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Article
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

13 authors.

Rika KudoLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.
Ryota YamanoLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.
Juanwen YuLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.
Shotaro KoikeLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.
Alfabetian Harjuno Condro HaditomoLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.
Mayanne A M de FreitasLaboratory of Microbiology, Biology Institute, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil.ORCID 0009-0009-4885-341X
Jiro TsuchiyaLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.
Sayaka MinoLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.
Fabiano ThompsonLaboratory of Microbiology, Biology Institute, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil.
Jesús L RomaldeDepartamento de Microbiología y Parasitología, CRETUS & CIBUS-Facultad de Biología, Universidade de Santiago de Compostela, Santiago, Spain.ORCID 0000-0003-4786-4773
Hisae KasaiLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.
Yuichi SakaiHakodate Fisheries Research, Hokkaido Research Organization, Local Independent Administrative Agency, Hakodate, Japan.
Tomoo SawabeLaboratory of Microbiology, Faculty of Fisheries Sciences, Hokkaido University, Hakodate, Japan.ORCID 0000-0002-6013-2369

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

A Gram-staining-negative, oxidase-positive, strictly aerobic rod-shaped bacterium, designated strain PT1T, was isolated from the laboratory-reared larvae of the sea cucumber Apostichopus japonicus. A phylogenetic analysis based on the 16S rRNA gene nucleotide sequences revealed that PT1T was closely related to Neptuniibacter marinus ATR 1.1T (= CECT 8938T = DSM 100783T) and Neptuniibacter caesariensis MED92T (= CECT 7075T = CCUG 52065T) showing 98.2% and 98.1% sequence similarity, respectively. However, the average nucleotide identity (ANI) and in silico DNA-DNA hybridization (DDH) values among these three strains were 72.0%-74.8% and 18.3%-19.5% among related Neptuniibacter species, which were below 95% and 70%, respectively, confirming the novel status of PT1T. The average amino acid identity (AAI) values of PT1T showing 74-77% among those strains indicated PT1T is a new species in the genus Neptuniibacter. Based on the genome-based taxonomic approach, Neptuniibacter victor sp. nov. is proposed for PT1T. The type strain is PT1T (JCM 35563T = LMG 32868T).

Indexed as

Fatty AcidsSea CucumbersAnimalsBacterial Typing TechniquesDNADNA, BacterialLarvaNucleic Acid HybridizationPhylogenyRNA, Ribosomal, 16SSequence Analysis, DNADNADNA, BacterialFatty AcidsRNA, Ribosomal, 16S

Identifiers

PMID37582072
PMCPMC10426996

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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.