Cyclobacterium qasimii (KCTC 23011, NBRC 106168, CCUG 58687)

Name: Cyclobacterium qasimii (KCTC 23011, NBRC 106168, CCUG 58687)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133805

Type strain

Strain Designation M12-11B

Culture col. no. KCTC 23011 NBRC 106168 CCUG 58687 M12-11B

NCBI tax ID(s) 1350429

Special Collections CCUG KCTC Literature strains

Links

Cyclobacterium qasimii M12-11B is an aerobe, Gram-negative prokaryote that was isolated from marine sediment.

Gram-negative aerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 408683

KCTC 23011,NBRC 106168,CCUG 58687

@ref 20215

Last LPSN update 2025-12-16 10:01:53

Domain Pseudomonadati

Phylum Bacteroidota

Class Cytophagia

Order Cytophagales

Family Cyclobacteriaceae

Genus Cyclobacterium

Species Cyclobacterium qasimii

Full scientific name Cyclobacterium qasimii Shivaji et al. 2012

Morphology

Cell morphology

@ref	Gram stain	Cell width	Confidence
30557	negative	0.2 µm
125438			90.5
125438	negative		95.75
125439	negative		98.8

Pigmentation

30557

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
30557	positive	growth	4-30
30557	positive	optimum	18	psychrophilic
61738	positive	growth	20	psychrophilic

Culture pH

@ref	Ability	Type	PH	PH range
30557	positive	optimum	8
30557	positive	growth	06-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

61738

Oxygen toleranceaerobe

Spore formation

@ref	Spore formation	Confidence
125439		97

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30557	NaCl	positive	growth	<6 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30557	16449 ChEBI	alanine	+	carbon source
30557	22599 ChEBI	arabinose	+	carbon source
30557	29016 ChEBI	arginine	+	carbon source
30557	35391 ChEBI	aspartate	+	carbon source
30557	17057 ChEBI	cellobiose	+	carbon source
30557	28757 ChEBI	fructose	+	carbon source
30557	28260 ChEBI	galactose	+	carbon source
30557	5417 ChEBI	glucosamine	+	carbon source
30557	17234 ChEBI	glucose	+	carbon source
30557	29987 ChEBI	glutamate	+	carbon source
30557	27570 ChEBI	histidine	+	carbon source
30557	17716 ChEBI	lactose	+	carbon source
30557	17306 ChEBI	maltose	+	carbon source
30557	29864 ChEBI	mannitol	+	carbon source
30557	37684 ChEBI	mannose	+	carbon source
30557	28053 ChEBI	melibiose	+	carbon source
30557	16634 ChEBI	raffinose	+	carbon source
30557	26546 ChEBI	rhamnose	+	carbon source
30557	33942 ChEBI	ribose	+	carbon source
30557	17992 ChEBI	sucrose	+	carbon source
30557	27082 ChEBI	trehalose	+	carbon source
30557	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30557	catalase	+	1.11.1.6
30557	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
30557	marine sediment
61738	Black marine sediment	2007-08-09	Svalbard,Kongsfjord region	Norway	NOR	Europe

Taxonmaps

69479

Global distribution of 16S sequence FN377719 (>99% sequence identity) for Cyclobacterium qasimii from Microbeatlas

Aquatic Samples	404
Soil Samples	29
Animal Samples	17
Plant Samples	1
Total Samples	451

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM799169v1 assembly for Cyclobacterium qasimii NBRC 106168	contig	GCA_007991695	1350429.3	2890793229	1350429	66.72
66792	CyQa1.0 assembly for Cyclobacterium qasimii M12-11B	contig	GCA_000427295	641524.5	2545824641	641524	28.07

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
30557	Cyclobacterium qasimii M12-11B partial 16S rRNA gene	FN377719	1520		641524

GC content

30557

GC-content (mol%)40.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Cyclobacterium qasimii NBRC 106168
NCBI: GCA_007991695

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.00	no
125439	motility	BacteriaNetⓘ	no	71.80	no
125439	gram_stain	BacteriaNetⓘ	negative	98.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	79.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Cyclobacterium qasimii M12-11B
PATRIC: 641524.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.75	no
125438	anaerobic	anaerobicⓘ	no	91.42	yes
125438	spore-forming	spore-formingⓘ	no	84.75	no
125438	aerobic	aerobicⓘ	yes	86.92	yes
125438	thermophilic	thermophileⓘ	no	96.17	yes
125438	flagellated	motile2+ⓘ	no	90.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequence of Cyclobacterium qasimii Strain M12-11BT, Isolated from Arctic Marine Sediment.	Shivaji S, Ara S, Singh A, Kumar Pinnaka A	Genome Announc	10.1128/genomeA.00642-13	2013
Phylogeny	Cyclobacterium caenipelagi sp. nov., isolated from a tidal flat sediment, and emended description of the genus Cyclobacterium.	Jung YT, Lee JS, Yoon JH	Int J Syst Evol Microbiol	10.1099/ijs.0.050161-0	2013
Phylogeny	Cyclobacterium qasimii sp. nov., a psychrotolerant bacterium isolated from Arctic marine sediment.	Shivaji S, Reddy PVV, Rao SSSN, Begum Z, Manasa P, Srinivas TNR	Int J Syst Evol Microbiol	10.1099/ijs.0.038661-0	2011

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 )
#26888	IJSEM 2133 2012 ( DOI 10.1099/ijs.0.038661-0 , PubMed 22039004 )
#30557	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26888
#61738	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 58687
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#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 )
#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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Cyclobacterium qasimii (KCTC 23011, NBRC 106168, CCUG 58687)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_007991695

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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