Humibacter antri (DSM 25738, JCM 31974, KCTC 33009)

Name: Humibacter antri (DSM 25738, JCM 31974, KCTC 33009)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24189

Type strain

Strain Designation D7-27

Culture col. no. DSM 25738 JCM 31974 KCTC 33009 D7-27

NCBI tax ID(s) 1280375

Special Collections DSMZ JCM KCTC Literature strains

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Humibacter antri D7-27 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from clay soil from inside a natural cave.

Gram-positive rod-shaped aerobe mesophilic 16S sequence

Name and taxonomic classification

SI-ID 402829

KCTC 33009,JCM 31974,DSM 25738

@ref 20215

Last LPSN update 2025-12-16 09:52:48

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Microbacteriaceae

Genus Humibacter

Species Humibacter antri

Full scientific name Humibacter antri Lee 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
31046	positive	1.33 µm	0.485 µm	rod-shaped
67771	positive

Pigmentation

31046

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21183	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)		Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
21183	positive	growth	28	mesophilic
31046	positive	growth	20-30
31046	positive	optimum	29	mesophilic
67770	positive	growth	28	mesophilic
67771	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH
31046	positive	optimum	7.5
31046	positive	growth	5.0-8.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
31046	aerobe
67771	aerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31046	NaCl	positive	optimum	1 %

Observation

@ref	Observation
31046	aggregates in clumps
67770	quinones: MK-12, MK-11, MK-10
67771	quinones: MK-12, MK-11, MK-10(minor)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31046	4853 ChEBI	esculin	+	hydrolysis
31046	17234 ChEBI	glucose	+	carbon source
31046	25115 ChEBI	malate	+	carbon source
31046	17306 ChEBI	maltose	+	carbon source
31046	37684 ChEBI	mannose	+	carbon source
31046	506227 ChEBI	N-acetylglucosamine	+	carbon source
31046	17632 ChEBI	nitrate	+	reduction

Enzymes

@ref	Value	Activity	Ec
31046	acid phosphatase	+	3.1.3.2
31046	alpha-galactosidase	+	3.2.1.22
31046	catalase	+	1.11.1.6

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
21183	clay soil from inside a natural cave	Jeju	Republic of Korea	KOR	Asia
67770	Clay soils inside a natural cave in Jeju		Republic of Korea	KOR	Asia
67771	From Natural cave soil		Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence HF570028 (>99% sequence identity) for Humibacter from Microbeatlas

Aquatic Samples	7
Soil Samples	71
Animal Samples	32
Plant Samples	29
Total Samples	139

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21183	1	Risk group (German classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21183	Humibacter antri partial 16S rRNA gene, type strain D7-27T	HF570028	1412		1280375

GC content

@ref	GC-content (mol%)	Method
21183	66.3	high performance liquid chromatography (HPLC)
31046	66.3

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Humibacter antri sp. nov., an actinobacterium isolated from a natural cave, and emended description of the genus Humibacter.	Lee SD	Int J Syst Evol Microbiol	10.1099/ijs.0.050708-0	2013
Phylogeny	Humibacter aquilariae sp. nov., an actinobacterium isolated from an agarwood chip.	Lin SY, Hameed A, Liu YC, Hsu YH, Hsieh YT, Lai WA, Young CC	Int J Syst Evol Microbiol	10.1099/ijsem.0.001740	2017
Phylogeny	Cnuibacter physcomitrellae gen. nov., sp. nov., a novel member of the family Microbacteriaceae isolated from the moss of Physcomitrella patens.	Zhou X, Nan Guo G, Qi Wang L, Lan Bai S, Hong Li Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.000775	2015
Phylogeny	Humibacter ginsengiterrae sp. nov., and Humibacter ginsengisoli sp. nov., isolated from soil of a ginseng field.	Kim EK, Hoang VA, Kim YJ, Nguyen NL, Sukweenadhi J, Kang JP, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.000335	2015

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 )
#21183	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25738
#27376	IJSEM 4315 2013 ( DOI 10.1099/ijs.0.050708-0 , PubMed 23838446 )
#31046	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 #27376
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#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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Humibacter antri (DSM 25738, JCM 31974, KCTC 33009)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

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