Name: Humibacter antri D7-27
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 24189

Type strain:

Species: Humibacter antri

Strain Designation: D7-27

Culture col. no.: DSM 25738, JCM 31974, KCTC 33009

Strain history: <- Soon Dong Lee, ì œì£¼ëŒ€í•™êµ ê³¼í•™êµìœ¡ê³¼

NCBI tax ID(s): 1280375 (species)

SI-ID 402829

DSM 25738

Special Collections

Section

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

Gram-positive
rod-shaped
aerobe
16S sequence
Bacteria

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Microbacteriaceae*
	Genus	*Humibacter*
	Species	**Humibacter antri**
	Full Scientific Name (LPSN)	Humibacter antri Lee 2013

Information on morphological and physiological properties Morphology

[Ref.: #31046]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive

[Ref.: #31046]	Cell length	1.33 µm

[Ref.: #31046]	Cell width	0.485 µm

[Ref.: #31046]	Cell shape	rod-shaped

[Ref.: #31046]	Motility	no

[Ref.: #31046]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21183]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #21183]

Culture medium growth

[Ref.: #21183]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21183]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #21183]	growth	28 °C
[Ref.: #31046]	growth	20-30 °C
[Ref.: #31046]	optimum	29 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #31046]			optimum	7.5
[Ref.: #31046]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31046]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31046]		NaCl		optimum	1	%

[Ref.: #31046]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: MK-12, MK-11, MK-10
[Ref.: #67771]	Observation	quinones: MK-12, MK-11, MK-10(minor)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31046]	esculin ChEBI	+	hydrolysis
[Ref.: #31046]	glucose ChEBI	+	carbon source
[Ref.: #31046]	malate ChEBI	+	carbon source
[Ref.: #31046]	maltose ChEBI	+	carbon source
[Ref.: #31046]	mannose ChEBI	+	carbon source
[Ref.: #31046]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #31046]	nitrate ChEBI	+	reduction

	Enzyme	Enzyme activity	EC number
[Ref.: #31046]	acid phosphatase	+	3.1.3.2
[Ref.: #31046]	alpha-galactosidase	+	3.2.1.22
[Ref.: #31046]	catalase	+	1.11.1.6

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #21183]	Sample type/isolated from	clay soil from inside a natural cave
[Ref.: #21183]	Geographic location (country and/or sea, region)	Jeju
[Ref.: #21183]	Country	Republic of Korea
[Ref.: #21183]	Country ISO 3 Code	KOR
[Ref.: #21183]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Clay soils inside a natural cave in Jeju
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From Natural cave soil
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #21183]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #21183]	Humibacter antri partial 16S rRNA gene, type strain D7-27T	HF570028	1412	GenBank ENA	1280375 tax ID

[Ref.: #21183]	GC-content	66.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #31046]	GC-content	66.3 mol%

Availability in culture collections External links

[Ref.: #21183]

Culture collection no.

DSM 25738, JCM 31974, KCTC 33009

[Ref.: #88142]

SI-ID 402829

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

#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 (see below)

#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 .

#88142

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID402829.1 )

#27376

IJSEM 4315 2013 ( DOI 10.1099/ijs.0.050708-0 , PubMed 23838446 )

* These data were automatically processed and therefore are not curated

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