Name: Micrococcus flavus LW4
Creator: BacDive
License: https://creativecommons.org/licenses/by/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

Special Collections

Other strains from Micrococcus flavus

Section

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

coccus-shaped
Gram-positive
aerobe
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 %94.023

[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 %93.5

[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

	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.: #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	GenBank 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 ENA	384602 tax ID
[Ref.: #66792]	Micrococcus flavus DSM 19079	GCA_022348285	scaffold	GenBank ENA	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	Model	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	spore-formingⓘ	no	71	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Micrococcus flavus CGMCC 1.5361 NCBI: GCA_014644875.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	94.023	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.041	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	85.018	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	84.492	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.208	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	93.5	yes

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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