Name: Microbacterium luticocti SC-087B
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7433

Type strain:

Species: Microbacterium luticocti

Strain Designation: SC-087B

Culture col. no.: DSM 19459, CCUG 54537, JCM 15576

Strain history: DSM 19459 <-- C. M. Manaia SC-087B.

NCBI tax ID(s): 1122239 (strain), 451764 (species)

SI-ID 408295

DSM 19459, CCUG 54537

Section

Microbacterium luticocti SC-087B is an aerobe, mesophilic, Gram-positive bacterium that was isolated from municipal sewage sludge compost.

Gram-positive
motile
rod-shaped
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	*Microbacteriaceae*
	Genus	*Microbacterium*
	Species	**Microbacterium luticocti**
	Full Scientific Name (LPSN)	Microbacterium luticocti Vaz-Moreira et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32437]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #32437]	Cell length	1.6 µm

[Ref.: #32437]	Cell width	0.5 µm

[Ref.: #32437]	Cell shape	rod-shaped

[Ref.: #32437]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8101]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #8101]

Culture medium growth

[Ref.: #8101]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8101]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8101]	growth	28 °C
[Ref.: #32437]	growth	27-45 °C
[Ref.: #32437]	optimum	36 °C
[Ref.: #60221]	growth	37 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #8101]	Temperature range	mesophilic
[Ref.: #32437]	Temperature range	mesophilic
[Ref.: #60221]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32437]			optimum	8
[Ref.: #32437]			growth	5.5-9.7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32437]	Oxygen tolerance	aerobe
[Ref.: #60221]	Oxygen tolerance	microaerophile

[Ref.: #32437]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.94

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32437]		NaCl		growth	0-10	%
[Ref.: #32437]		NaCl		optimum	2	%

[Ref.: #67770]

Observation

quinones: MK-12, MK-11, MK-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32437]	arabinose ChEBI	+	carbon source
[Ref.: #32437]	cellobiose ChEBI	+	carbon source
[Ref.: #32437]	esculin ChEBI	+	hydrolysis
[Ref.: #32437]	fructose ChEBI	+	carbon source
[Ref.: #32437]	fucose ChEBI	+	carbon source
[Ref.: #32437]	galactose ChEBI	+	carbon source
[Ref.: #32437]	lactose ChEBI	+	carbon source
[Ref.: #32437]	maltose ChEBI	+	carbon source
[Ref.: #32437]	mannitol ChEBI	+	carbon source
[Ref.: #32437]	mannose ChEBI	+	carbon source
[Ref.: #32437]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #32437]	nitrate ChEBI	+	reduction
[Ref.: #32437]	rhamnose ChEBI	+	carbon source
[Ref.: #32437]	ribose ChEBI	+	carbon source
[Ref.: #32437]	salicin ChEBI	+	carbon source
[Ref.: #32437]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #32437]		gelatinase	+
[Ref.: #32437]		urease	+	3.5.1.5

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

[Ref.: #8101]	Sample type/isolated from	municipal sewage sludge compost
[Ref.: #8101]	Geographic location (country and/or sea, region)	Porto
[Ref.: #8101]	Country	Portugal
[Ref.: #8101]	Country ISO 3 Code	PRT
[Ref.: #8101]	Continent	Europe

[Ref.: #60221]	Sample type/isolated from	Compost,municipal sewage sludge
[Ref.: #60221]	Sampling date	2005
[Ref.: #60221]	Geographic location (country and/or sea, region)	Porto ?
[Ref.: #60221]	Country	Portugal
[Ref.: #60221]	Country ISO 3 Code	PRT
[Ref.: #60221]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Municipal sewage sludge compost
* marker position based on {}

Isolation sources categories

#Engineered	#Biodegradation	#Composting
#Engineered	#Waste	#Sewage sludge

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM747814 (>99% sequence identity) for Microbacterium luticocti subclade from Microbeatlas

Aquatic Samples	83
Soil Samples	53
Animal Samples	34
Plant Samples	28
Total Samples	198

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

[Ref.: #8101]

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.: #8101]	Microbacterium luticocti 16S rRNA gene, type strain SC-087BT	AM747814	1460	ENA	1122239 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Microbacterium luticocti DSM 19459	GCA_000422405	scaffold	GenBank	1122239 tax ID
[Ref.: #66792]	Microbacterium luticocti DSM 19459	1122239.3	wgs	PATRIC	1122239 tax ID	*
[Ref.: #66792]	Microbacterium luticocti DSM 19459	2585427556	draft	JGI IMG/M	1122239 tax ID	*

[Ref.: #8101]	GC-content	72 mol%
[Ref.: #67770]	GC-content	70.7 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	71.7-72.3 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 GenomeNet Sporulation v. 1 based on: Microbacterium luticocti DSM 19459 DSM 19459 NCBI: GCA_000422405.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Microbacterium luticocti DSM 19459 PATRIC: 1122239.3
[Ref.: #69480]	motile	no	90.955	no
[Ref.: #69480]	flagellated	no	98.3	no
[Ref.: #69480]	gram-positive	yes	91.959	yes
[Ref.: #69480]	anaerobic	no	99.17	yes
[Ref.: #69480]	aerobic	yes	87.906	no
[Ref.: #69480]	halophile	no	88.392	no
[Ref.: #69480]	spore-forming	no	92.009	no
[Ref.: #69480]	thermophile	no	94.228	yes
[Ref.: #69480]	glucose-util	yes	87.295	no
[Ref.: #69480]	glucose-ferment	no	87.181	no

Availability in culture collections External links

[Ref.: #8101]

Culture collection no.

DSM 19459, CCUG 54537, JCM 15576

[Ref.: #76882]

SI-ID 408295

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Microbacterium protaetiae sp. nov., isolated from gut of larva of Protaetia brevitarsis seulensis.	Heo J, Cho H, Kim MA, Hamada M, Tamura T, Saitou S, Kim SK, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijsem.0.003967	2020	*
Phylogeny	Microbacterium luticocti sp. nov., isolated from sewage sludge compost.	Vaz-Moreira I, Lopes AR, Falsen E, Schumann P, Nunes OC, Manaia CM	Int J Syst Evol Microbiol	10.1099/ijs.0.65494-0	2008	*

References

#8101

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19459

#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 )

#32437

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 #28659 (see below)

#60221 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54537

#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;

#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) .

#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 )

#76882

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-ID408295.1 )

#28659

IJSEM 1700 2008 ( DOI 10.1099/ijs.0.65494-0 , PubMed 18599719 )

* These data were automatically processed and therefore are not curated

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Microbacterium luticocti DSM 19459 DSM 19459

Microbacterium luticocti DSM 19459

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