Catenovulum agarivorans (DSM 23111, CGMCC 1.10245, JCM 16580)

Name: Catenovulum agarivorans (DSM 23111, CGMCC 1.10245, JCM 16580)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 500

Type strain

Culture col. no. DSM 23111 CGMCC 1.10245 JCM 16580 YM 01

NCBI tax ID(s) 1172192

Special Collections DSMZ JCM

History <- X.-H. Zhang, Ocean Univ. China, Qingdao, P. R. China; YM01 <- Y. Wang X.-H. Zhang YM01 <-- Y. Wang YM01.

Links

Catenovulum agarivorans DSM 23111 is a mesophilic prokaryote that was isolated from seawater.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 408154

JCM 16580,DSM 23111

@ref 20215

Last LPSN update 2026-02-09 11:17:53

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Alteromonadales

Family Alteromonadaceae

Genus Catenovulum

Species Catenovulum agarivorans

Full scientific name Catenovulum agarivorans Yan et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	99.489

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16702	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l Agar 2.0 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
16702	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125438		92.132

Observation

67770

Observationquinones: MK-7

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
16702	seawater	Yellow Sea, coastal region of Qingdao (36° 04' N 120° 19' E)	China	CHN	Asia	36.0667	120.317 36.0667/120.317
67770	Seawater of Yellow Sea		China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence GQ262000 (>99% sequence identity) for Alteromonadaceae from Microbeatlas

Aquatic Samples	432
Soil Samples	20
Animal Samples	70
Plant Samples	1
Total Samples	523

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16702	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM28108v1 assembly for Catenovulum agarivorans YM01	scaffold	GCA_000281085	659495.3	2548877024	659495	50.95

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16702	Catenovulum agarivorans YM01 16S ribosomal RNA gene, partial sequence	GQ262000	1379		659495

GC content

@ref	GC-content (mol%)	Method
16702	44.8	high performance liquid chromatography (HPLC)
67770	44.8

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Catenovulum agarivorans YM01 YM01
NCBI: GCA_000281085.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.49	no
125438	anaerobic	anaerobicⓘ	no	92.31	no
125438	aerobic	aerobicⓘ	yes	73.90	no
125438	spore-forming	spore-formingⓘ	no	92.13	no
125438	thermophilic	thermophileⓘ	no	97.94	yes
125438	flagellated	motile2+ⓘ	yes	75.94	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Characterization and overexpression of a glycosyl hydrolase family 16 beta-agarase YM01-1 from marine bacterium Catenovulum agarivorans YM01(T).	An K, Shi X, Cui F, Cheng J, Liu N, Zhao X, Zhang XH	Protein Expr Purif	10.1016/j.pep.2017.10.002	2017
Genetics	Overexpression and characterization of a novel thermostable beta-agarase YM01-3, from marine bacterium Catenovulum agarivorans YM01(T).	Cui F, Dong S, Shi X, Zhao X, Zhang XH	Mar Drugs	10.3390/md12052731	2014
Genetics	Genome sequence of the thermostable-agarase-producing marine bacterium Catenovulum agarivorans YM01(T), which reveals the presence of a series of agarase-encoding genes.	Shi X, Yu M, Yan S, Dong S, Zhang XH	J Bacteriol	10.1128/JB.01283-12	2012
Phylogeny	Saccharobesus litoralis gen. nov., sp. nov., a novel alginate-degrading bacterium isolated from the surface of intertidal algal turf.	Amrina RA, Furusawa G, Lau NS	Int J Syst Evol Microbiol	10.1099/ijsem.0.005087	2021
Phylogeny	Algibacillus agarilyticus gen. nov., sp. nov., isolated from the surface of the red algae Gelidium amansii.	Meng X, Chang YQ, Wang H, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.004558	2020
Phylogeny	Catenovulum sediminis sp. nov., isolated from coastal sediment.	Shi MJ, Du WJ, Wang C, Chen GJ, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002219	2017
Phylogeny	Catenovulum maritimus sp. nov., a novel agarolytic gammaproteobacterium isolated from the marine alga Porphyra yezoensis Ueda (AST58-103), and emended description of the genus Catenovulum.	Li DQ, Zhou YX, Liu T, Chen GJ, Du ZJ	Antonie Van Leeuwenhoek	10.1007/s10482-015-0495-2	2015
Phylogeny	Isolation and characterization of a novel agar-degrading marine bacterium, Gayadomonas joobiniege gen, nov, sp. nov., from the Southern Sea, Korea.	Chi WJ, Park JS, Kwak MJ, Kim JF, Chang YK, Hong SK	J Microbiol Biotechnol	10.4014/jmb.1308.08007	2013
Phylogeny	Catenovulum agarivorans gen. nov., sp. nov., a peritrichously flagellated, chain-forming, agar-hydrolysing gammaproteobacterium from seawater.	Yan S, Yu M, Wang Y, Shen C, Zhang XH	Int J Syst Evol Microbiol	10.1099/ijs.0.027565-0	2011

References

#16702	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23111
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#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 )
#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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Catenovulum agarivorans (DSM 23111, CGMCC 1.10245, JCM 16580)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000281085

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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