Exiguobacterium profundum (DSM 17289, CCUG 50949, CNCM I-2962)

Name: Exiguobacterium profundum (DSM 17289, CCUG 50949, CNCM I-2962)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 18119

Type strain

Strain Designation 10c

Culture col. no. DSM 17289 CCUG 50949 CNCM I-2962 10c

NCBI tax ID(s) 307643

Special Collections DSMZ CCUG Literature strains

History <- M.-L. Fardeau; 10c

Links

Exiguobacterium profundum 10c is a facultative anaerobe, mesophilic, Gram-positive prokaryote that was isolated from mud .

Gram-positive motile rod-shaped facultative anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 297183

CCUG 50949,DSM 17289,LMG 26405

@ref 20215

Last LPSN update 2025-12-16 09:51:16

Domain Bacillati

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Exiguobacterium

Species Exiguobacterium profundum

Full scientific name Exiguobacterium profundum Crapart et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
31911	positive	6 µm	0.75 µm	rod-shaped

Pigmentation

31911

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6874	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 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
6874	positive	growth	30	mesophilic
31911	positive	growth	12-49
31911	positive	optimum	45	thermophilic
59059	positive	growth	30-42

Culture pH

@ref	Ability	Type	PH	PH range
31911	positive	optimum	7
31911	positive	growth	5.5-9.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
31911	facultative anaerobe
59059	aerobe

Spore formation

31911

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31911	NaCl	positive	growth	0-11 %
31911	NaCl	positive	optimum	2 %

Observation

31911

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31911	30089 ChEBI	acetate	+	carbon source
31911	17057 ChEBI	cellobiose	+	carbon source
31911	4853 ChEBI	esculin	+	hydrolysis
31911	28757 ChEBI	fructose	+	carbon source
31911	28260 ChEBI	galactose	+	carbon source
31911	17234 ChEBI	glucose	+	carbon source
31911	24996 ChEBI	lactate	+	carbon source
31911	17716 ChEBI	lactose	+	carbon source
31911	17306 ChEBI	maltose	+	carbon source
31911	29864 ChEBI	mannitol	+	carbon source
31911	37684 ChEBI	mannose	+	carbon source
31911	28053 ChEBI	melibiose	+	carbon source
31911	506227 ChEBI	N-acetylglucosamine	+	carbon source
31911	17632 ChEBI	nitrate	+	reduction
31911	15361 ChEBI	pyruvate	+	carbon source
31911	16634 ChEBI	raffinose	+	carbon source
31911	33942 ChEBI	ribose	+	carbon source
31911	17814 ChEBI	salicin	+	carbon source
31911	17992 ChEBI	sucrose	+	carbon source
31911	27082 ChEBI	trehalose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
31911	catalase	+	1.11.1.6

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Hydrothermal vent
#Environmental	#Terrestrial	#Mud (Sludge)
#Condition	#Thermophilic (>45°C)	-

Isolation

@ref	Sample type	Geographic location	Country
6874	mud (deep-sea hydrothermal vent)	East Pacific Rise (2600), Grandbonum vent site	International waters
59059	Deep-sea hydrothermal vent	13°N East-Paciifc Rise at 2600m

Taxonmaps

69479

Global distribution of 16S sequence AY818050 (>99% sequence identity) for Exiguobacterium from Microbeatlas

Aquatic Samples	453
Soil Samples	61
Animal Samples	1235
Plant Samples	41
Total Samples	1790

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6874	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
124043	ASM4265286v1 assembly for Exiguobacterium profundum CCUG 50949	contig	GCA_042652865			307643	76.82
66792	ASM2523463v1 assembly for Exiguobacterium profundum 10C	contig	GCA_025234635	307643.10	8116517699	307643	52.69

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6874	Exiguobacterium profundum strain 10C 16S ribosomal RNA gene, partial sequence	AY818050	1510		307643

GC content

6874

GC-content (mol%)50.4

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Exiguobacterium profundum 10C
NCBI: GCA_025234635.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	75.07	yes
125438	anaerobic	anaerobicⓘ	no	95.12	no
125438	aerobic	aerobicⓘ	yes	53.82	no
125438	spore-forming	spore-formingⓘ	no	51.94	yes
125438	thermophilic	thermophileⓘ	no	95.75	yes
125438	flagellated	motile2+ⓘ	yes	79.04	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Screening and biodiversity analysis of cultivable inorganic phosphate-solubilizing bacteria in the rhizosphere of Hydrilla verticillata.	Li Y, Liu H, Yu X, Gong S, Gong Z.	PLoS One	10.1371/journal.pone.0297047	2024
Phylogeny	Exiguobacterium himgiriensis sp. nov. a novel member of the genus Exiguobacterium, isolated from the Indian Himalayas.	Singh NK, Raichand R, Kaur I, Kaur C, Pareek S, Mayilraj S	Antonie Van Leeuwenhoek	10.1007/s10482-012-9861-5	2012
Phylogeny	Exiguobacterium profundum sp. nov., a moderately thermophilic, lactic acid-producing bacterium isolated from a deep-sea hydrothermal vent.	Crapart S, Fardeau ML, Cayol JL, Thomas P, Sery C, Ollivier B, Combet-Blanc Y	Int J Syst Evol Microbiol	10.1099/ijs.0.64639-0	2007

References

#6874	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17289
#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 )
#28168	IJSEM 287 2007 ( DOI 10.1099/ijs.0.64639-0 , PubMed 17267965 )
#31911	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 #28168
#59059	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 50949
#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 .
#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 )
#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 )

Rate our new design

Content

About us

Exiguobacterium profundum (DSM 17289, CCUG 50949, CNCM I-2962)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042652865

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media