Name: Alkalimonas collagenimarina AC40
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134258

Type strain:

Species: Alkalimonas collagenimarina

Strain Designation: AC40

Culture col. no.: JCM 14267, NCIMB 14266, CIP 109634

Strain history: CIP <- 2007, NCIMB <- A. Kurata, JAMSTEC, Yokosuka, Japan: strain AC40

NCBI tax ID(s): 400390 (species)

SI-ID 309416

JCM 14267, NCIMB 14266, CIP 109634

Section

Alkalimonas collagenimarina AC40 is an aerobe, Gram-negative, motile bacterium that was isolated from Deep-sea sediment off Torishima Island.

Gram-negative
motile
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	[Gammaproteobacteria, not assigned to order]
	Family	[Gammaproteobacteria, not assigned to family]
	Genus	*Alkalimonas*
	Species	**Alkalimonas collagenimarina**
	Full Scientific Name (LPSN)	Alkalimonas collagenimarina Kurata et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32179]	Gram stain	negative
[Ref.: #118704]	Gram stain	negative

[Ref.: #32179]	Cell length	1.7 µm

[Ref.: #32179]	Cell width	0.7 µm

[Ref.: #32179]	Cell shape	rod-shaped
[Ref.: #118704]	Cell shape	rod-shaped

[Ref.: #32179]	Motility	yes
[Ref.: #118704]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #37797]

Culture medium

MEDIUM 695 - for Alkalimonas

[Ref.: #37797]

Culture medium growth

[Ref.: #118704]

Culture medium

CIP Medium 695

[Ref.: #118704]

Culture medium growth

[Ref.: #118704]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #32179]	growth	5.0-37 °C
[Ref.: #32179]	optimum	33 °C
[Ref.: #37797]	growth	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #32179]	Temperature range	mesophilic
[Ref.: #37797]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32179]			optimum	9.25
[Ref.: #32179]			growth	7.0-10.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32179]	Oxygen tolerance	aerobe
[Ref.: #118704]	Oxygen tolerance	obligate aerobe

[Ref.: #32179]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32179]		NaCl		growth	0.0-10	%
[Ref.: #32179]		NaCl		optimum	1	%

[Ref.: #67770]

Observation

quinones: Q-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32179]	cellobiose ChEBI	+	carbon source
[Ref.: #32179]	glucose ChEBI	+	carbon source
[Ref.: #32179]	maltose ChEBI	+	carbon source
[Ref.: #32179]	mannose ChEBI	+	carbon source
[Ref.: #118704]	nitrate ChEBI	-	reduction
[Ref.: #118704]	nitrite ChEBI	-	reduction
[Ref.: #32179]	sucrose ChEBI	+	carbon source
[Ref.: #32179]	tween 20 ChEBI	+	carbon source
[Ref.: #32179]	tween 40 ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #118704]		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.: #118704]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #32179]	gelatinase	+
[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.: #118704]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #118704]	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.: #118704]	12016	-	+	+	+	-	+	-	-	+	+	+	+	-	-	-	-	-	+	-	-

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

[Ref.: #67770]	Sample type/isolated from	Deep-sea sediment off Torishima Island
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia

[Ref.: #118704]	Sample type/isolated from	Environment, Deep-sea sediment
[Ref.: #118704]	Geographic location (country and/or sea, region)	Torishima Island
[Ref.: #118704]	Country	Japan
[Ref.: #118704]	Country ISO 3 Code	JPN
[Ref.: #118704]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AB270706 (>99% sequence identity) for Alkalimonas collagenimarina subclade from Microbeatlas

Aquatic Samples	34
Soil Samples	1
Animal Samples	24
Plant Samples
Total Samples	59

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

[Ref.: #118704]

Biosafety level

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.: #32179]	Alkalimonas collagenimarina gene for 16S rRNA, partial sequence	AB270706	1506	GenBank	400390 tax ID

[Ref.: #32179]	GC-content	49.3 mol%
[Ref.: #67770]	GC-content	49.3 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #32179]

Culture collection no.

JCM 14267, NCIMB 14266, CIP 109634

[Ref.: #91846]

SI-ID 309416

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Alkalimonas collagenimarina sp. nov., a psychrotolerant, obligate alkaliphile isolated from deep-sea sediment.	Kurata A, Miyazaki M, Kobayashi T, Nogi Y, Horikoshi K	Int J Syst Evol Microbiol	10.1099/ijs.0.65084-0	2007	*

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 )

#32179

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 #28421 (see below)

#37797 ; Curators of the CIP;
#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68382

Automatically annotated from API zym .

#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 .

#91846

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-ID309416.1 )

#118704 Collection of Institut Pasteur ; Curators of the CIP; CIP 109634

#28421

IJSEM 1549 2007 ( DOI 10.1099/ijs.0.65084-0 , PubMed 17625192 )

* These data were automatically processed and therefore are not curated

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