Hymenobacter rigui (UCCCB13, IMSNU 14116, KCTC 12533)

Name: Hymenobacter rigui (UCCCB13, IMSNU 14116, KCTC 12533)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 166087

Type strain

Strain Designation WPCB131

Culture col. no. UCCCB13 IMSNU 14116 KCTC 12533 NBRC 101118 WPCB131

NCBI tax ID(s) 334424

Special Collections KCTC UCCCB

History Baik, K.S. Sunchon National University

Links

Hymenobacter rigui WPCB131 is a bacterium that was isolated from Freshwater, woopo wetland.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 297237

KCTC 12533,NBRC 101118

@ref 20215

Last LPSN update 2026-02-09 11:40:15

Domain Bacteria

Phylum Bacteroidota

Class Cytophagia

Order Cytophagales

Family Hymenobacteraceae

Genus Hymenobacter

Species Hymenobacter rigui

Full scientific name Hymenobacter rigui Baik et al. 2006

BacDive ID	Other strains from **Hymenobacter rigui** (1)	Type strain
3809	H. rigui KO_6, DSM 30812

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	98.4
125438	negative	95.482

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67772	positive	minimum	4
67772	positive	optimum	30
67772	positive	maximum	37

Culture pH

@ref	Ability	Type	PH	PH range
67772	positive	maximum	11.0	alkaliphile
67772	positive	minimum	5.0
67772	positive	optimum	6.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	91.4

Spore formation

@ref	Spore formation	Confidence
125439		97.7

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
67772	Freshwater, woopo wetland	2000	Gyeongsangnam-do, Yueo-myeon	Republic of Korea	KOR	Asia

Interaction and safety

Risk assessment

67772

Biosafety level1

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67772	ASM394471v1 assembly for Hymenobacter rigui KCTC 12533	contig	GCA_003944715	334424.3	2895832707	334424	69.95

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67772	Hymenobacter rigui strain WPCB131 16S ribosomal RNA gene, partial sequence	DQ089669	1435		334424
124043	Hymenobacter rigui gene for 16S rRNA, partial sequence, strain: NBRC 101118.	AB681385	1438		334424

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Hymenobacter rigui KCTC 12533
NCBI: GCA_003944715

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.70	no
125439	motility	BacteriaNetⓘ	yes	77.00	no
125439	gram_stain	BacteriaNetⓘ	negative	98.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	91.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Hymenobacter rigui strain KCTC 12533
PATRIC: 334424.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.48	no
125438	anaerobic	anaerobicⓘ	no	97.89	no
125438	spore-forming	spore-formingⓘ	no	87.00	no
125438	aerobic	aerobicⓘ	yes	87.10	no
125438	thermophilic	thermophileⓘ	no	94.86	yes
125438	flagellated	motile2+ⓘ	no	85.53	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Hymenobacter endophyticus sp. nov., isolated from wheat leaf tissue.	Zhang X, Duan XM, Cheng J, Qiao HJ, Dai YM.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006197	2023
	Description of Hymenobacter sediminicola sp. nov., isolated from contaminated sediment.	Ren T, Zhang C, Jin CZ, Jin FJ, Li T, Oh HM, Lee HG, Jin L.	Antonie Van Leeuwenhoek	10.1007/s10482-023-01846-9	2023
Phylogeny	Hymenobacter translucens sp. nov. and Hymenobacter pini sp. nov. isolated from soil.	Bang M, Kim MK, Jung HY	Arch Microbiol	10.1007/s00203-022-02991-x	2022
Phylogeny	Hymenobacter metallilatus sp. nov., isolated from abandoned lead-zinc ore.	Feng GD, Zhang J, Zhang XJ, Wang SN, Xiong X, Zhang YL, Huang HR, Zhu HH	Int J Syst Evol Microbiol	10.1099/ijsem.0.003450	2019
Phylogeny	Hymenobacter pallidus sp. nov., isolated from a freshwater fish culture pond.	Sheu SY, Li YS, Young CC, Chen WM	Int J Syst Evol Microbiol	10.1099/ijsem.0.002047	2017
Phylogeny	Hymenobacter seoulensis sp. nov., isolated from river water.	Lee JJ, Lee YH, Park SJ, Lee SY, Park S, Kim MK, Ten LN, Jung HY	Int J Syst Evol Microbiol	10.1099/ijsem.0.001668	2017
Phylogeny	Hymenobacter swuensis sp. nov., a gamma-radiation-resistant bacteria isolated from mountain soil.	Lee JJ, Srinivasan S, Lim S, Joe M, Lee SH, Kwon SA, Kwon YJ, Lee J, Choi JJ, Lee HM, Auh YK, Kim MK	Curr Microbiol	10.1007/s00284-013-0478-3	2013
Phylogeny	Hymenobacter rigui sp. nov., isolated from wetland freshwater.	Baik KS, Seong CN, Moon EY, Park YD, Yi H, Chun J	Int J Syst Evol Microbiol	10.1099/ijs.0.64181-0	2006

References

#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#67772	The University of Coimbra Bacteria Culture Collection (UCCCB) ; Curators of the UCCCB;
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Hymenobacter rigui (UCCCB13, IMSNU 14116, KCTC 12533)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003944715

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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