Name: Amphritea atlantica M41
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11296

Type strain:

Species: Amphritea atlantica

Strain Designation: M41

Culture col. no.: DSM 18887, LMG 24143, JCM 14776

Strain history: J. Wiese M41.

NCBI tax ID(s): 355243 (species)

SI-ID 308714

LMG 24143, DSM 18887

Section

Amphritea atlantica M41 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from Bathymodiolus sp. specimen from hydrothermal sediment at 3000 m depth.

Gram-negative
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Oceanospirillales*
	Family	*Oceanospirillaceae*
	Genus	*Amphritea*
	Species	**Amphritea atlantica**
	Full Scientific Name (LPSN)	Amphritea atlantica Gärtner et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32270]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #32270]	Cell length	1.25 µm

[Ref.: #32270]	Cell width	0.5 µm

[Ref.: #32270]	Cell shape	rod-shaped

[Ref.: #32270]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %98.299

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7758]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #7758]

Culture medium growth

[Ref.: #7758]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7758]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7758]	growth	28 °C
[Ref.: #32270]	growth	04-40 °C
[Ref.: #32270]	optimum	32.5 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #7758]	Temperature range	mesophilic
[Ref.: #32270]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32270]			optimum	8
[Ref.: #32270]			growth	4.6-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32270]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.992

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32270]		NaCl		growth	0.3-9	%
[Ref.: #32270]		NaCl		optimum	3	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32270]	alanine ChEBI	+	carbon source
[Ref.: #32270]	asparagine ChEBI	+	carbon source
[Ref.: #32270]	aspartate ChEBI	+	carbon source
[Ref.: #32270]	fructose ChEBI	+	carbon source
[Ref.: #32270]	glucose ChEBI	+	carbon source
[Ref.: #32270]	glutamate ChEBI	+	carbon source
[Ref.: #32270]	histidine ChEBI	+	carbon source
[Ref.: #32270]	L-alaninamide ChEBI	+	carbon source
[Ref.: #32270]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #32270]	phenylalanine ChEBI	+	carbon source
[Ref.: #32270]	proline ChEBI	+	carbon source
[Ref.: #32270]	sucrose ChEBI	+	carbon source
[Ref.: #32270]	tween 40 ChEBI	+	carbon source
[Ref.: #32270]	tween 80 ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #32270]	catalase	+	1.11.1.6
[Ref.: #32270]	cytochrome oxidase	+	1.9.3.1
[Ref.: #32270]	urease	+	3.5.1.5

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

[Ref.: #7758]	Sample type/isolated from	Bathymodiolus sp. specimen from hydrothermal sediment at 3000 m depth
[Ref.: #7758]	Host species	Bathymodiolus
[Ref.: #7758]	Geographic location (country and/or sea, region)	Logatchev hydrothermal vent field at the Mid-Atlantic Ridge

[Ref.: #67770]	Sample type/isolated from	Bathymodiolus sp. mussel sample at the Logatchev hydrothermal vent field at the Mid-Atlantic Ridge (14° 45.199' N 44° 58.759' W) at a depth of about 3,000 m
[Ref.: #67770]	Host species	Bathymodiolus sp.
[Ref.: #67770]	Geographic location	14.7533°/-44.9793°
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Sediment
#Environmental	#Aquatic	#Thermal spring
#Host	#Invertebrates (Other)	#Mollusca
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM156910 (>99% sequence identity) for Amphritea atlantica subclade from Microbeatlas

Aquatic Samples	2869
Soil Samples	148
Animal Samples	109
Plant Samples	28
Total Samples	3154

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

[Ref.: #7758]

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.: #7758]	Amphritea atlantica partial 16S rRNA gene, type strain M41T	AM156910	1427	ENA	355243 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Amphritea atlantica DSM 18887	GCA_900111095	scaffold	GenBank	355243 tax ID
[Ref.: #66792]	Amphritea atlantica strain DSM 18887	355243.5	wgs	PATRIC	355243 tax ID	*
[Ref.: #66792]	Amphritea atlantica DSM 18887	2599185211	draft	JGI IMG/M	355243 tax ID	*
[Ref.: #66792]	Amphritea atlantica JCM 14776	GCA_024347255	complete	GenBank	355243 tax ID	*

[Ref.: #7758]

GC-content

52.2 mol%

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: Amphritea atlantica DSM 18887 NCBI: GCA_900111095.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Amphritea atlantica JCM 14776 NCBI: GCA_024347255.1
[Ref.: #69480]	flagellated	yes	86.487	no
[Ref.: #69480]	gram-positive	no	99.068	yes
[Ref.: #69480]	anaerobic	no	98.568	yes
[Ref.: #69480]	aerobic	yes	58.08	no
[Ref.: #69480]	halophile	yes	71.737	no
[Ref.: #69480]	spore-forming	no	96.052	no
[Ref.: #69480]	motile	yes	92.422	yes
[Ref.: #69480]	glucose-ferment	no	82.25	no
[Ref.: #69480]	thermophile	no	99.227	yes
[Ref.: #69480]	glucose-util	yes	86.897	yes

Availability in culture collections External links

[Ref.: #7758]

Culture collection no.

DSM 18887, LMG 24143, JCM 14776

[Ref.: #80529]

SI-ID 308714

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Amphritea atlantica gen. nov., sp. nov., a gammaproteobacterium from the Logatchev hydrothermal vent field.	Gartner A, Wiese J, Imhoff JF	Int J Syst Evol Microbiol	10.1099/ijs.0.65234-0	2008	*

References

#7758

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18887

#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 )

#32270

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 #28510 (see below)

#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 )

#80529

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-ID308714.1 )

#28510

IJSEM 34 2008 ( DOI 10.1099/ijs.0.65234-0 , PubMed 18175678 )

* These data were automatically processed and therefore are not curated

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Amphritea atlantica DSM 18887

Amphritea atlantica JCM 14776

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