Name: Micrococcus flavus LW4
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7756

Type strain:

Species: Micrococcus flavus

Strain Designation: LW4

Culture col. no.: DSM 19079, CGMCC 1.5361, JCM 14000, CCUG 56037, BCRC 80069, CCUG 54219, CIP 109517

Strain history: CIP <- 2007, JCM <- 2006, S. Liu, Chinese Acad. Scie., Beijing, China: strain LW4

NCBI tax ID(s): 384602 (species)

SI-ID 297256

CGMCC 1.5361, JCM 14000, DSM 19079, CIP 109517

Other strains from Micrococcus flavus

M. flavus KO_59, DSM 30824
M. flavus CCUG 54219
M. flavus CCUG 54220
M. flavus CCUG 55955
M. flavus CCUG 59085
M. flavus CCUG 59674
M. flavus IMI 358538

Section

Micrococcus flavus LW4 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from activated sludge.

coccus-shaped
Gram-positive
aerobe
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	*Micrococcaceae*
	Genus	*Micrococcus*
	Species	**Micrococcus flavus**
	Full Scientific Name (LPSN)	Micrococcus flavus Liu et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #31842]	Gram stain	positive
[Ref.: #119387]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #31842]	Cell length	0.85 µm

[Ref.: #31842]	Cell width	0.85 µm

[Ref.: #31842]	Cell shape	coccus-shaped
[Ref.: #119387]	Cell shape	coccus-shaped

[Ref.: #31842]	Motility	no
[Ref.: #119387]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %91.879

[Ref.: #31842]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7871]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #7871]

Culture medium growth

[Ref.: #7871]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7871]

Culture medium composition

expand / minimize

[Ref.: #37751]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #37751]

Culture medium growth

[Ref.: #37751]

Culture medium composition

expand / minimize

[Ref.: #119387]

Culture medium

CIP Medium 368

[Ref.: #119387]

Culture medium growth

[Ref.: #119387]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #119387]

Culture medium

CIP Medium 72

[Ref.: #119387]

Culture medium growth

[Ref.: #119387]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7871]	growth	28 °C
[Ref.: #31842]	growth	26-34 °C
[Ref.: #31842]	optimum	31 °C
[Ref.: #37751]	growth	30 °C
[Ref.: #60837]	growth	37 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #7871]	Temperature range	mesophilic
[Ref.: #31842]	Temperature range	mesophilic
[Ref.: #37751]	Temperature range	mesophilic
[Ref.: #60837]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31842]			optimum	6.1
[Ref.: #31842]			growth	05-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31842]	Oxygen tolerance	aerobe
[Ref.: #60837]	Oxygen tolerance	aerobe
[Ref.: #119387]	Oxygen tolerance	obligate aerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %100

[Ref.: #67770]

Observation

quinones: MK-8(H₂), MK-7(H₂)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31842]	dextrin ChEBI	+	carbon source
[Ref.: #31842]	glycerol ChEBI	+	carbon source
[Ref.: #119387]	nitrate ChEBI	-	reduction
[Ref.: #119387]	nitrite ChEBI	-	reduction
[Ref.: #31842]	trehalose ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #119387]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #31842]	catalase	+	1.11.1.6
[Ref.: #119387]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #31842]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #119387]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #119387]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #119387]	11924	-	-	+	-	-	+	-	-	+	-	+	+	-	-	-	+	-	-	-	-

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

[Ref.: #7871]	Sample type/isolated from	activated sludge
[Ref.: #7871]	Country	China
[Ref.: #7871]	Country ISO 3 Code	CHN
[Ref.: #7871]	Continent	Asia

[Ref.: #60837]	Sample type/isolated from	Activated sludge
[Ref.: #60837]	Country	China
[Ref.: #60837]	Country ISO 3 Code	CHN
[Ref.: #60837]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Activated sludge in a bioreactor

[Ref.: #119387]	Sample type/isolated from	Environment, Bioreactor, activated sludge
[Ref.: #119387]	Geographic location (country and/or sea, region)	Beijing
[Ref.: #119387]	Country	China
[Ref.: #119387]	Country ISO 3 Code	CHN
[Ref.: #119387]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered

#Waste

#Activated sludge

What are isolation sources categories?

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

[Ref.: #7871]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119387]	Biosafety level	1	Risk group (French classification)

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.: #7871]	Micrococcus flavus strain LW4 16S ribosomal RNA gene, partial sequence	DQ491453	1407	ENA	384602 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Micrococcus flavus BCRC 80069	GCA_004563965	scaffold	GenBank	384602 tax ID
[Ref.: #66792]	Micrococcus flavus DSM 19079	GCA_022348285	scaffold	GenBank	384602 tax ID	*
[Ref.: #66792]	Micrococcus flavus strain BCRC 80069	384602.4	wgs	PATRIC	384602 tax ID	*
[Ref.: #66792]	Micrococcus flavus strain CGMCC 1.5361	384602.6	wgs	PATRIC	384602 tax ID	*
[Ref.: #66792]	Micrococcus flavus strain DSM 19079	384602.5	wgs	PATRIC	384602 tax ID	*
[Ref.: #66792]	Micrococcus flavus DSM 19079	2870573580	draft	JGI IMG/M	384602 tax ID	*

[Ref.: #7871]	GC-content	71.4 mol%
[Ref.: #67770]	GC-content	71.4 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Micrococcus flavus BCRC 80069 NCBI: GCA_004563965.1
[Ref.: #69481]	spore-forming	no	71	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Micrococcus flavus CGMCC 1.5361 NCBI: GCA_014644875.1
[Ref.: #69480]	flagellated	no	96.782	yes
[Ref.: #69480]	gram-positive	yes	91.702	yes
[Ref.: #69480]	anaerobic	no	99.272	no
[Ref.: #69480]	aerobic	yes	93.138	yes
[Ref.: #69480]	halophile	no	58.388	no
[Ref.: #69480]	spore-forming	no	93.462	no
[Ref.: #69480]	thermophile	no	98.381	yes
[Ref.: #69480]	glucose-util	yes	82.407	no
[Ref.: #69480]	motile	no	94.502	yes
[Ref.: #69480]	glucose-ferment	no	90.086	no

Availability in culture collections External links

[Ref.: #7871]

Culture collection no.

DSM 19079, CGMCC 1.5361, JCM 14000, CCUG 56037, BCRC 80069, CCUG 54219, CIP 109517

[Ref.: #77199]	SI-ID 297256	*
[Ref.: #77200]	SI-ID 303640	*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Micrococcus flavus sp. nov., isolated from activated sludge in a bioreactor.	Liu XY, Wang BJ, Jiang CY, Liu SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.64489-0	2007	*

References

#7871

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19079

#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 )

#31842

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 #28108 (see below)

#37751 ; Curators of the CIP;
#60837 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 56037

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68382

Automatically annotated from API zym .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#77199

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-ID297256.1 )

#77200

#119387 Collection of Institut Pasteur ; Curators of the CIP; CIP 109517

#28108

IJSEM 66 2007 ( DOI 10.1099/ijs.0.64489-0 , PubMed 17220443 )

* These data were automatically processed and therefore are not curated

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Search for species Micrococcus flavus in external resources:
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Micrococcus flavus BCRC 80069

Micrococcus flavus CGMCC 1.5361

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