Name: Nocardia cavernae KCTC 39595
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140953

Type strain:

Species: Nocardia cavernae

Culture col. no.: KCTC 39595, CCTCC AA 2017030, DSM 100514, YIM A1135

Strain history: <- W.-J. Li, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM A1135 <- W.-Q. Zhang

NCBI tax ID(s): 2027872 (species)

SI-ID 397079

DSM 100514

Section

Nocardia cavernae KCTC 39595 is an aerobe, Gram-positive bacterium that was isolated from soil sample from a karst cave located in Xingyi county, Guizhou province, south-western China.

Gram-positive
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	*Mycobacteriales*
	Family	*Nocardiaceae*
	Genus	*Nocardia*
	Species	**Nocardia cavernae**
	Full Scientific Name (LPSN)	Nocardia cavernae Li et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43853]	Gram stain	positive

[Ref.: #43853]	Motility	no

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	ISP 2 agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	ISP 3 agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	ISP 4 agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	ISP 5 agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	ISP 6 agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	ISP 7 agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	Czapek's agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	Nutrient agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	Potato dextrose agar

[Ref.: #43853]	Colony color	white
[Ref.: #43853]	Incubation period	21 days
[Ref.: #43853]	Cultivation medium used	Gause's synthetic agar

Multimedia content

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Caption:

Medium 215 28°C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Czapek's agar

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Culture medium growth

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Culture medium

Gause's synthetic agar

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Culture medium growth

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Culture medium

ISP 2 agar

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Culture medium growth

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Culture medium

ISP 3 agar

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Culture medium growth

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Culture medium

ISP 4 agar

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Culture medium growth

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Culture medium

ISP 5 agar

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Culture medium growth

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Culture medium

ISP 6 agar

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Culture medium growth

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Culture medium

ISP 7 agar

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Culture medium growth

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Potato dextrose agar

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Culture medium growth

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Culture medium

BHI MEDIUM (DSMZ Medium 215)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

		Temperature
[Ref.: #43853]	growth	4-35 °C
[Ref.: #43853]	optimum	28 °C
[Ref.: #64866]	growth	28 °C

[Ref.: #43853]	Temperature range	mesophilic
[Ref.: #64866]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43853]			growth	6.0-8.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43853]		NaCl		growth	0-3	%(w/v)

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Observation

quinone MK-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43853]	cellobiose ChEBI	-	carbon source
[Ref.: #43853]	cellulose ChEBI	-	hydrolysis
[Ref.: #43853]	D-fructose ChEBI	+	carbon source
[Ref.: #43853]	D-galactose ChEBI	-	carbon source
[Ref.: #43853]	D-glucose ChEBI	+	carbon source
[Ref.: #43853]	D-mannitol ChEBI	-	carbon source
[Ref.: #43853]	D-mannose ChEBI	-	carbon source
[Ref.: #43853]	D-ribose ChEBI	-	carbon source
[Ref.: #43853]	D-ribose ChEBI	+	carbon source
[Ref.: #43853]	D-sorbitol ChEBI	+	carbon source
[Ref.: #43853]	D-xylose ChEBI	+	carbon source
[Ref.: #43853]	glycerol ChEBI	+	carbon source
[Ref.: #43853]	glycine ChEBI	+	nitrogen source
[Ref.: #43853]	L-alanine 4-nitroanilide	+	nitrogen source
[Ref.: #43853]	L-arabinose ChEBI	+	carbon source
[Ref.: #43853]	L-arginine ChEBI	+	nitrogen source
[Ref.: #43853]	L-aspartate ChEBI	+	nitrogen source
[Ref.: #43853]	L-cysteine ChEBI	-	nitrogen source
[Ref.: #43853]	L-glutamate ChEBI	-	nitrogen source
[Ref.: #43853]	L-glutamine ChEBI	+	nitrogen source
[Ref.: #43853]	L-histidine ChEBI	+	nitrogen source
[Ref.: #43853]	L-lysine ChEBI	+	nitrogen source
[Ref.: #43853]	L-methionine ChEBI	+	nitrogen source
[Ref.: #43853]	L-phenylalanine ChEBI	-	nitrogen source
[Ref.: #43853]	L-rhamnose ChEBI	+	carbon source
[Ref.: #43853]	L-serine ChEBI	+	nitrogen source
[Ref.: #43853]	L-threonine ChEBI	+	nitrogen source
[Ref.: #43853]	L-tryptophan ChEBI	+	nitrogen source
[Ref.: #43853]	L-tyrosine ChEBI	+	nitrogen source
[Ref.: #43853]	L-valine ChEBI	-	nitrogen source
[Ref.: #43853]	lactose ChEBI	-	carbon source
[Ref.: #43853]	maltose ChEBI	-	carbon source
[Ref.: #43853]	myo-inositol ChEBI	+	carbon source
[Ref.: #43853]	nitrate ChEBI	-	reduction
[Ref.: #43853]	raffinose ChEBI	-	carbon source
[Ref.: #43853]	starch ChEBI	-	hydrolysis
[Ref.: #43853]	sucrose ChEBI	-	carbon source
[Ref.: #43853]	trehalose ChEBI	+	carbon source
[Ref.: #43853]	tween 20 ChEBI	-	hydrolysis
[Ref.: #43853]	tween 40 ChEBI	-	hydrolysis
[Ref.: #43853]	tween 60 ChEBI	+	hydrolysis
[Ref.: #43853]	tween 80 ChEBI	-	hydrolysis
[Ref.: #43853]	xylitol ChEBI	-	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43853]		hydrogen sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43853]	catalase	-	1.11.1.6
[Ref.: #43853]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43853]	urease	-	3.5.1.5

Fatty acid profile

Metadata FA analysis

Reference

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Fatty acid	Percentage
C16:0	29.7
C18:1ω9c	20.9
C16:1ω7c / C16:1ω6c	14.9
10-methyl C18:0	14.7
C18:0	5.1
C14:0	4.1
iso-C17:1ω9c / C16:0 10 methyl	2.7
C19:1ω11c / C19:1ω9c	2
C17:0 iso	1.1
C17:0	0.9
C15:1ω8c	0.3
C16:0 iso	0.3

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

[Ref.: #43853]	Sample type/isolated from	soil sample from a karst cave located in Xingyi county, Guizhou province, south-western China
[Ref.: #43853]	Geographic location (country and/or sea, region)	Xingyi county, Guizhou province
[Ref.: #43853]	Country	China
[Ref.: #43853]	Country ISO 3 Code	CHN
[Ref.: #43853]	Continent	Asia
[Ref.: #43853]	Geographic location	25.1500°/104.7670°
[Ref.: #43853]	Enrichment culture	Humic acid vitamin agar
[Ref.: #43853]	Enrichment culture composition	supplemented with cycloheximide (50 mg/L) and nalidixic acid (20 mg/L)
[Ref.: #43853]	Enrichment culture duration	2 weeks
[Ref.: #43853]	Enrichment culture temperature	28 ̊C

[Ref.: #64866]	Sample type/isolated from	cave
[Ref.: #64866]	Geographic location (country and/or sea, region)	Guizhou province, Xingyi county (25° 09' N, 104° 46' E)
[Ref.: #64866]	Country	China
[Ref.: #64866]	Country ISO 3 Code	CHN
[Ref.: #64866]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Geologic
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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Global distribution of 16S sequence KY285257 (>99% sequence identity) for Nocardia from Microbeatlas

Aquatic Samples	53
Soil Samples	81
Animal Samples	47
Plant Samples	12
Total Samples	193

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

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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.: #64866]	Nocardia cavernae strain YIM A1135 16S ribosomal RNA gene, partial sequence	KY285257	1510	ENA	2027872 tax ID

[Ref.: #43853]	GC-content	66.7 mol%	high performance liquid chromatography (HPLC)
[Ref.: #64866]	GC-content	66.7 mol%

Availability in culture collections External links

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Culture collection no.

KCTC 39595, CCTCC AA 2017030, DSM 100514, YIM A1135

[Ref.: #96819]

SI-ID 397079

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardia cavernae sp. nov., a novel actinobacterium isolated from a karst cave sample.	Li QQ, Han MX, Fang BZ, Jiao JY, Liu L, Yang ZW, Zhang WQ, Wei DQ, Li WJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002072	2017	*

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 )

#43853

Qing-Qing Li, Ming-Xian Han, Bao-Zhu Fang, Jian-Yu Jiao, Lan Liu, Zi-Wen Yang, Wan-Qin Zhang, Da-Qiao Wei, Wen-Jun Li: Nocardia cavernae sp. nov., a novel actinobacterium isolated from a karst cave sample. IJSEM 67: 2998 - 3003 2017 ( DOI 10.1099/ijsem.0.002072 , PubMed 28820104 )

#64866

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100514

#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 .

#96819

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-ID397079.1 )

* These data were automatically processed and therefore are not curated

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