Name: Lysinibacter cavernae CC5-806
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 131462

Type strain:

Species: Lysinibacter cavernae

Strain Designation: CC5-806

Culture col. no.: DSM 27960, CGMCC 1.14983, KCTC 39762

Strain history: <- C.-H. Sun, Chinese Acad. Med. Sciences & Peking Union Medical College; CC5-806 <- L. Tuo

NCBI tax ID(s): 1640652 (species)

SI-ID 396763

DSM 27960

Section

Lysinibacter cavernae CC5-806 is a mesophilic bacterium that was isolated from soil from a wild karst cave.

mesophilic
16S sequence
Bacteria
genome sequence

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	*Lysinibacter*
	Species	**Lysinibacter cavernae**
	Full Scientific Name (LPSN)	Lysinibacter cavernae Tuo et al. 2015

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22689]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #22689]

Culture medium growth

[Ref.: #22689]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22689]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #22689]			growth	28 °C

[Ref.: #22689]

Temperature range

mesophilic

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

[Ref.: #22689]	Sample type/isolated from	soil from a wild karst cave
[Ref.: #22689]	Geographic location (country and/or sea, region)	Chongqing, Wulong region (29° 29' 42'' N 107° 54' 32'' E)
[Ref.: #22689]	Country	China
[Ref.: #22689]	Country ISO 3 Code	CHN
[Ref.: #22689]	Continent	Asia
[Ref.: #22689]	Geographic location	29.4950°/107.9090°
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KP411613 (>99% sequence identity) for Lysinibacter cavernae subclade from Microbeatlas

Aquatic Samples	42
Soil Samples	11
Animal Samples	5
Plant Samples	115
Total Samples	173

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

[Ref.: #22689]

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.: #22689]	Lysinibacter cavernae strain CC5-806 16S ribosomal RNA gene, partial sequence	KP411613	1482	ENA	1640652 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Lysinibacter cavernae DSM 27960	GCA_011758565	contig	GenBank	1640652 tax ID	*
[Ref.: #66792]	Lysinibacter cavernae strain DSM 27960	1640652.3	wgs	PATRIC	1640652 tax ID	*
[Ref.: #66792]	Lysinibacter cavernae DSM 27960	2820970551	draft	JGI IMG/M	1640652 tax ID	*

[Ref.: #22689]

GC-content

62.6 mol%

high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lysinibacter cavernae strain DSM 27960 PATRIC: 1640652.3
[Ref.: #69480]	motile	no	92.259	no
[Ref.: #69480]	gram-positive	yes	88.624	no
[Ref.: #69480]	anaerobic	no	99.381	no
[Ref.: #69480]	aerobic	yes	88.425	no
[Ref.: #69480]	halophile	no	85.5	no
[Ref.: #69480]	spore-forming	no	93.275	no
[Ref.: #69480]	glucose-util	yes	84.604	no
[Ref.: #69480]	flagellated	no	97.301	no
[Ref.: #69480]	thermophile	no	99.632	no
[Ref.: #69480]	glucose-ferment	no	83.508	no

Availability in culture collections External links

[Ref.: #22689]

Culture collection no.

DSM 27960, CGMCC 1.14983, KCTC 39762

[Ref.: #89881]

SI-ID 396763

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lacisediminihabitans profunda gen. nov., sp. nov., a member of the family Microbacteriaceae isolated from freshwater sediment.	Zhuo Y, Jin CZ, Jin FJ, Li T, Kang DH, Oh HM, Lee HG, Jin L	Antonie Van Leeuwenhoek	10.1007/s10482-019-01347-8	2019	*
Phylogeny	Lysinibacter cavernae gen. nov., sp. nov., a new member of the family Microbacteriaceae isolated from a karst cave.	Tuo L, Guo L, Liu SW, Liu JM, Zhang YQ, Jiang ZK, Liu XF, Chen L, Zu J, Sun CH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000415	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 )

#22689

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27960

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#89881

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-ID396763.1 )

* These data were automatically processed and therefore are not curated

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Lysinibacter cavernae strain DSM 27960

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