Name: Microbacterium diaminobutyricum RZ63
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132664

Type strain:

Species: Microbacterium diaminobutyricum

Strain Designation: RZ63

Culture col. no.: DSM 27101, CECT 8355

Strain history: <- A. Alves, Univ. de Aveiro, Dep. de Biologie, Portugal; RZ63

NCBI tax ID(s): 1810851 (species)

SI-ID 404511

DSM 27101

Section

Microbacterium diaminobutyricum RZ63 is an aerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from roots of Halimione portulacoides .

colony-forming
Gram-positive
rod-shaped
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	*Micrococcales*
	Family	*Microbacteriaceae*
	Genus	*Microbacterium*
	Species	**Microbacterium diaminobutyricum**
	Full Scientific Name (LPSN)	Microbacterium diaminobutyricum Fidalgo et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #24968]	Gram stain	positive

[Ref.: #24968]	Cell shape	rod-shaped

[Ref.: #24968]	Colony color	yellowish
[Ref.: #24968]	Colony shape	circular
[Ref.: #24968]	Incubation period	3 days
[Ref.: #24968]	Cultivation medium used	TSA (Trypticase soy agar)

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24968]

Culture medium

TSA (Trypticase soy agar)

[Ref.: #24968]

Culture medium growth

[Ref.: #24453]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #24453]

Culture medium growth

[Ref.: #24453]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24453]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #24453]	growth	28 °C
[Ref.: #24968]	growth	10.0-37.0 °C
[Ref.: #24968]	optimum	28 °C

[Ref.: #24453]	Temperature range	mesophilic
[Ref.: #24968]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #24968]			optimum	7
[Ref.: #24968]			growth	6.5-11.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #24968]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #24968]		NaCl		growth	0.5-8.0	%(w/v)
[Ref.: #24968]		NaCl		optimum	2	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #24968]	2-dehydro-D-gluconate ChEBI	-	carbon source
[Ref.: #24968]	5-dehydro-D-gluconate ChEBI	-	carbon source
[Ref.: #24968]	adipate ChEBI	-	carbon source
[Ref.: #24968]	amygdalin ChEBI	+	carbon source
[Ref.: #24968]	arbutin ChEBI	+	carbon source
[Ref.: #24968]	casein	-	hydrolysis
[Ref.: #24968]	cellobiose ChEBI	+	carbon source
[Ref.: #24968]	D-arabinose ChEBI	-	carbon source
[Ref.: #24968]	D-arabitol ChEBI	-	carbon source
[Ref.: #24968]	D-fructose ChEBI	+	carbon source
[Ref.: #24968]	D-fucose ChEBI	-	carbon source
[Ref.: #24968]	D-galactose ChEBI	+	carbon source
[Ref.: #24968]	D-glucose ChEBI	-	fermentation
[Ref.: #24968]	D-glucose ChEBI	+	carbon source
[Ref.: #24968]	D-lyxose ChEBI	-	carbon source
[Ref.: #24968]	D-mannitol ChEBI	+	carbon source
[Ref.: #24968]	D-mannose ChEBI	+	carbon source
[Ref.: #24968]	D-ribose ChEBI	-	carbon source
[Ref.: #24968]	D-sorbitol ChEBI	-	carbon source
[Ref.: #24968]	D-tagatose ChEBI	-	carbon source
[Ref.: #24968]	D-trehalose ChEBI	+	carbon source
[Ref.: #24968]	D-xylose ChEBI	+	carbon source
[Ref.: #24968]	decanoate ChEBI	-	carbon source
[Ref.: #24968]	erythritol ChEBI	-	carbon source
[Ref.: #24968]	esculin ChEBI	-	hydrolysis
[Ref.: #24968]	esculin ferric citrate	+	carbon source
[Ref.: #24968]	galactitol ChEBI	-	carbon source
[Ref.: #24968]	gelatin ChEBI	+	hydrolysis
[Ref.: #24968]	gentiobiose ChEBI	-	carbon source
[Ref.: #24968]	glycerol ChEBI	+	carbon source
[Ref.: #24968]	glycogen ChEBI	-	carbon source
[Ref.: #24968]	inulin ChEBI	-	carbon source
[Ref.: #24968]	L-arabinose ChEBI	+	carbon source
[Ref.: #24968]	L-arabitol ChEBI	-	carbon source
[Ref.: #24968]	L-fucose ChEBI	-	carbon source
[Ref.: #24968]	L-rhamnose ChEBI	+	carbon source
[Ref.: #24968]	L-sorbose ChEBI	-	carbon source
[Ref.: #24968]	L-xylose ChEBI	-	carbon source
[Ref.: #24968]	lactose ChEBI	+	carbon source
[Ref.: #24968]	malate ChEBI	-	carbon source
[Ref.: #24968]	maltose ChEBI	+	carbon source
[Ref.: #24968]	melezitose ChEBI	-	carbon source
[Ref.: #24968]	melibiose ChEBI	-	carbon source
[Ref.: #24968]	methyl alpha-D-glucopyranoside ChEBI	+	carbon source
[Ref.: #24968]	methyl alpha-D-mannoside ChEBI	-	carbon source
[Ref.: #24968]	methyl beta-D-xylopyranoside ChEBI	-	carbon source
[Ref.: #24968]	myo-inositol ChEBI	-	carbon source
[Ref.: #24968]	N-acetylglucosamine ChEBI	+/-	carbon source
[Ref.: #24968]	nitrate ChEBI	-	reduction
[Ref.: #24968]	phenylacetate ChEBI	+	carbon source
[Ref.: #24968]	potassium gluconate ChEBI	+/-	carbon source
[Ref.: #24968]	raffinose ChEBI	-	carbon source
[Ref.: #24968]	ribitol ChEBI	-	carbon source
[Ref.: #24968]	salicin ChEBI	+	carbon source
[Ref.: #24968]	sodium citrate ChEBI	-	carbon source
[Ref.: #24968]	starch ChEBI	-	carbon source
[Ref.: #24968]	sucrose ChEBI	+	carbon source
[Ref.: #24968]	turanose ChEBI	+	carbon source
[Ref.: #24968]	tween 20 ChEBI	-	hydrolysis
[Ref.: #24968]	xylitol ChEBI	-	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #24968]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #24968]	acid phosphatase	+	3.1.3.2
[Ref.: #24968]	alkaline phosphatase	+	3.1.3.1
[Ref.: #24968]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #24968]	alpha-fucosidase	-	3.2.1.51
[Ref.: #24968]	alpha-galactosidase	-	3.2.1.22
[Ref.: #24968]	alpha-glucosidase	+	3.2.1.20
[Ref.: #24968]	alpha-mannosidase	-	3.2.1.24
[Ref.: #24968]	arginine dihydrolase	-	3.5.3.6
[Ref.: #24968]	beta-galactosidase	+	3.2.1.23
[Ref.: #24968]	beta-glucosidase	+	3.2.1.21
[Ref.: #24968]	beta-glucuronidase	+	3.2.1.31
[Ref.: #24968]	catalase	+	1.11.1.6
[Ref.: #24968]	cystine arylamidase	-	3.4.11.3
[Ref.: #24968]	cytochrome oxidase	+	1.9.3.1
[Ref.: #24968]	esterase (C 4)	-
[Ref.: #24968]	esterase Lipase (C 8)	+
[Ref.: #24968]	leucine arylamidase	-	3.4.11.1
[Ref.: #24968]	lipase (C 14)	+
[Ref.: #24968]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #24968]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #24968]	trypsin	-	3.4.21.4
[Ref.: #24968]	urease	+	3.5.1.5
[Ref.: #24968]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #24968]	Sample type/isolated from	roots of Halimione portulacoides (sea purslane)
[Ref.: #24968]	Geographic location (country and/or sea, region)	Ria de Aveiro, Largo do Laranjo, Murtosa
[Ref.: #24968]	Country	Portugal
[Ref.: #24968]	Country ISO 3 Code	PRT
[Ref.: #24968]	Continent	Europe
[Ref.: #24968]	Geographic location	40.0000°/-8.0000°
[Ref.: #24968]	Enrichment culture	TSA (Trypticase soy agar)
[Ref.: #24968]	Enrichment culture duration	3 days
[Ref.: #24968]	Enrichment culture temperature	28 ̊C

[Ref.: #24453]	Sample type/isolated from	roots of the salt-marsh plant Halimione portulacoides (sea purslane)
[Ref.: #24453]	Geographic location (country and/or sea, region)	Murtosa, Largo do Laranjo, Ria de Aveiro, (40° 43' 48.0'' N 8° 36' 45.5'' W)
[Ref.: #24453]	Country	Portugal
[Ref.: #24453]	Country ISO 3 Code	PRT
[Ref.: #24453]	Continent	Europe
[Ref.: #24453]	Geographic location	40.7300°/-8.6126°
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Shrub (Scrub)
#Host Body-Site	#Plant	#Root (Rhizome)

What are isolation sources categories?

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

[Ref.: #24453]

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.: #24453]	Microbacterium diaminobutyricum strain RZ63 16S ribosomal RNA gene, partial sequence	KU843548	1415	ENA	1810851 tax ID

[Ref.: #24968]	GC-content	68.9 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #24453]	GC-content	68.9 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #24453]

Culture collection no.

DSM 27101, CECT 8355

[Ref.: #90974]

SI-ID 404511

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Microbacterium diaminobutyricum sp. nov., isolated from Halimione portulacoides, which contains diaminobutyric acid in its cell wall, and emended description of the genus Microbacterium.	Fidalgo C, Riesco R, Henriques I, Trujillo ME, Alves A	Int J Syst Evol Microbiol	10.1099/ijsem.0.001379	2016	*

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 )

#24453

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27101

#24968

C. R. Fidalgo, Raúl,Henriques, Isabel,Trujillo, Martha E.,Alves, Artur: Microbacterium diaminobutyricum sp. nov., isolated from Halimione portulacoides, which contains diaminobutyric acid in its cell wall, and emended description of the genus Microbacterium. IJSEM 66: 4492 - 4500 2016 ( DOI 10.1099/ijsem.0.001379 , PubMed 27498827 )

#90974

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-ID404511.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Microbacterium diaminobutyricum in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF