Name: Marinibaculum pumilum H2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133223

Type strain:

Species: Marinibaculum pumilum

Strain Designation: H2

Culture col. no.: MCCC 1K02279, KCTC 42964

NCBI tax ID(s): 1766165 (species)

Section

Marinibaculum pumilum H2 is a facultative anaerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from seawater.

colony-forming
Gram-negative
motile
rod-shaped
facultative anaerobe
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Sneathiellales*
	Family	*Sneathiellaceae*
	Genus	*Marinibaculum*
	Species	**Marinibaculum pumilum**
	Full Scientific Name (LPSN)	Marinibaculum pumilum Yu et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #25043]	Gram stain	negative

[Ref.: #25043]	Cell length	2.0-8.0 µm

[Ref.: #25043]	Cell width	0.4-0.8 µm

[Ref.: #25043]	Cell shape	rod-shaped

[Ref.: #25043]	Motility	yes

[Ref.: #25043]	Colony size	0.1-0.2 mm
[Ref.: #25043]	Colony color	pale yellow
[Ref.: #25043]	Colony shape	circular
[Ref.: #25043]	Incubation period	3 days
[Ref.: #25043]	Cultivation medium used	MA

Information on culture and growth conditions Culture and growth conditions

[Ref.: #25043]

Culture medium

Marine agar (MA)

[Ref.: #25043]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #25043]			growth	15-40 °C
[Ref.: #25043]			optimum	37 °C

[Ref.: #25043]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #25043]			optimum	6.5
[Ref.: #25043]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #25043]

Oxygen tolerance

facultative anaerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #25043]		NaCl		growth	1.0-10.0	%
[Ref.: #25043]		NaCl		optimum	2	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #25043]	2-hydroxybutyrate ChEBI	+	respiration
[Ref.: #25043]	3-hydroxybutyrate ChEBI	+	respiration
[Ref.: #25043]	acetate ChEBI	+	respiration
[Ref.: #25043]	adipate ChEBI	+	assimilation
[Ref.: #25043]	casein	-	hydrolysis
[Ref.: #25043]	D-mannitol ChEBI	-	assimilation
[Ref.: #25043]	D-mannose ChEBI	+	assimilation
[Ref.: #25043]	decanoate ChEBI	+	assimilation
[Ref.: #25043]	esculin ChEBI	-	hydrolysis
[Ref.: #25043]	gelatin ChEBI	+	hydrolysis
[Ref.: #25043]	glucose ChEBI	-	fermentation
[Ref.: #25043]	glucose ChEBI	+	assimilation
[Ref.: #25043]	L-alaninamide ChEBI	+	respiration
[Ref.: #25043]	L-arabinose ChEBI	-	assimilation
[Ref.: #25043]	L-glutamate ChEBI	+	respiration
[Ref.: #25043]	lactate ChEBI	+	respiration
[Ref.: #25043]	malate ChEBI	+	assimilation
[Ref.: #25043]	maltose ChEBI	+	assimilation
[Ref.: #25043]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #25043]	nitrate ChEBI	-	reduction
[Ref.: #25043]	phenylacetate ChEBI	-	assimilation
[Ref.: #25043]	potassium gluconate ChEBI	-	assimilation
[Ref.: #25043]	sodium chloride ChEBI	+	required for growth
[Ref.: #25043]	sodium citrate ChEBI	+	assimilation
[Ref.: #25043]	starch ChEBI	-	hydrolysis
[Ref.: #25043]	succinamate ChEBI	+	respiration
[Ref.: #25043]	succinate ChEBI	+	respiration
[Ref.: #25043]	trehalose ChEBI	+	respiration
[Ref.: #25043]	tryptophan ChEBI	-	energy source
[Ref.: #25043]	tween 20 ChEBI	+	hydrolysis
[Ref.: #25043]	tween 40 ChEBI	+	hydrolysis
[Ref.: #25043]	tween 40 ChEBI	+	respiration
[Ref.: #25043]	tween 60 ChEBI	+	hydrolysis
[Ref.: #25043]	tween 80 ChEBI	-	hydrolysis
[Ref.: #25043]	tween 80 ChEBI	+	respiration
[Ref.: #25043]	urea ChEBI	+	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #25043]		indole ChEBI	no

	Physiological tests	Metabolite	Methylred-test	Indole test
[Ref.: #25043]		glucose ChEBI	-
[Ref.: #25043]		indole ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #25043]	acid phosphatase	+	3.1.3.2
[Ref.: #25043]	alkaline phosphatase	+	3.1.3.1
[Ref.: #25043]	alpha-fucosidase	-	3.2.1.51
[Ref.: #25043]	alpha-galactosidase	-	3.2.1.22
[Ref.: #25043]	alpha-glucosidase	-	3.2.1.20
[Ref.: #25043]	alpha-mannosidase	-	3.2.1.24
[Ref.: #25043]	arginine dihydrolase	-	3.5.3.6
[Ref.: #25043]	beta-galactosidase	-	3.2.1.23
[Ref.: #25043]	beta-glucosidase	-	3.2.1.21
[Ref.: #25043]	beta-glucuronidase	-	3.2.1.31
[Ref.: #25043]	catalase	+	1.11.1.6
[Ref.: #25043]	chymotrypsin	+	3.4.4.5
[Ref.: #25043]	cystine arylamidase	+	3.4.11.3
[Ref.: #25043]	cytochrome oxidase	+	1.9.3.1
[Ref.: #25043]	esterase (C 4)	+
[Ref.: #25043]	esterase lipase (C 8)	+
[Ref.: #25043]	leucine arylamidase	+	3.4.11.1
[Ref.: #25043]	lipase (C 14)	+
[Ref.: #25043]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #25043]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #25043]	trypsin	+	3.4.21.4
[Ref.: #25043]	tryptophan deaminase	-	4.1.99.1
[Ref.: #25043]	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.: #25043]	Sample type/isolated from	seawater
[Ref.: #25043]	Geographic location (country and/or sea, region)	Pacific Ocean, Mariana Trench, depth of 500 m
[Ref.: #25043]	Geographic location	12.0000°/145.2070°
[Ref.: #25043]	Enrichment culture	marine agar 2216 medium
[Ref.: #25043]	Isolation/enrichment procedure	standard dilution-plating method (Williama & Davies, 1965)
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT265740 (>99% sequence identity) for Marinibaculum pumilum subclade from Microbeatlas

Aquatic Samples	1206
Soil Samples	535
Animal Samples	127
Plant Samples	148
Total Samples	2016

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.: #25043]	16S rRNA	KT265740		GenBank

[Ref.: #25043]

GC-content

75 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #25043]

Culture collection no.

MCCC 1K02279, KCTC 42964

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Marinibaculum pumilum gen. nov., sp. nov., isolated from seawater.	Yu XY, Tao TY, Fu GY, Su Y, Han SB, Wang RJ, Wu M, Sun C	Int J Syst Evol Microbiol	10.1099/ijsem.0.001439	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 )

#25043

X. Y. T. Yu, T. Y.,Fu, G. Y.,Su, Y.,Han, S. B.,Wang, R. J.,Wu, M.,Sun, C.: Marinibaculum pumilum gen. nov., sp. nov., isolated from seawater. IJSEM 66: 4844 - 4849 2016 ( DOI 10.1099/ijsem.0.001439 , PubMed 27550311 )

#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 .

* These data were automatically processed and therefore are not curated

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