Name: Anaeromicrobium sediminis DY2726D
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140570

Type strain:

Species: Anaeromicrobium sediminis

Strain Designation: DY2726D

Culture col. no.: JCM 30224, MCCC 1A00776

NCBI tax ID(s): 1478221 (species)

Section

Anaeromicrobium sediminis DY2726D is an anaerobe, heterotroph, mesophilic bacterium that was isolated from deep-sea sediment sample of the West Pacific Ocean at a depth of 5445 m.

gram-variable
motile
rod-shaped
anaerobe
heterotroph
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	23-11-2020 (DD-MM-YYYY)
	Domain	Bacteria
	Phylum	Firmicutes
	Class	Clostridia
	Order	Eubacteriales
	Family	Clostridiaceae
	Genus	Anaeromicrobium
	Species	Anaeromicrobium sediminis
	Full Scientific Name (PNU)	Anaeromicrobium sediminis Zhang et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43340]	Gram stain	variable
[Ref.: #43340]	Cell length	4-15 µm
[Ref.: #43340]	Cell width	0.5-0.8 µm
[Ref.: #43340]	Cell shape	rod-shaped
[Ref.: #43340]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #43340]			optimum	37 °C
[Ref.: #43340]			growth	25-40 °C

[Ref.: #43340]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #43340]			optimum	7.5
[Ref.: #43340]			growth	6.5-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43340]

Oxygen tolerance

anaerobe

[Ref.: #43340]

Nutrition type

heterotroph

[Ref.: #43340]	Type of spore	endospore
[Ref.: #43340]	Ability of spore formation	no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43340]		Marine salts		growth	10-30	g/L
[Ref.: #43340]		Marine salts		optimum	20	g/L

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43340]	2-oxobutanoate ChEBI	+	carbon source
[Ref.: #43340]	2-oxopentanoate ChEBI	+	carbon source
[Ref.: #43340]	3-O-methyl-D-glucose ChEBI	+	carbon source
[Ref.: #43340]	acetate ChEBI	-	carbon source
[Ref.: #43340]	amorphous fe(iii) oxyhydroxid	+	reduction
[Ref.: #43340]	amorphous iron (iii) oxide	+	reduction
[Ref.: #43340]	cellobiose ChEBI	+	carbon source
[Ref.: #43340]	D-fructose ChEBI	+	carbon source
[Ref.: #43340]	D-galactose ChEBI	+	carbon source
[Ref.: #43340]	D-galacturonic acid ChEBI	+	carbon source
[Ref.: #43340]	D-glucosaminic acid ChEBI	+	carbon source
[Ref.: #43340]	D-glucose ChEBI	+	carbon source
[Ref.: #43340]	D-glucose 6-phosphate ChEBI	+	carbon source
[Ref.: #43340]	D-mannose ChEBI	+	carbon source
[Ref.: #43340]	dextrin ChEBI	+	carbon source
[Ref.: #43340]	elemental sulfur ChEBI	-	reduction
[Ref.: #43340]	formate ChEBI	-	carbon source
[Ref.: #43340]	fumarate ChEBI	-	carbon source
[Ref.: #43340]	gentiobiose ChEBI	+	carbon source
[Ref.: #43340]	glyoxylate ChEBI	-	carbon source
[Ref.: #43340]	goethite	+	reduction
[Ref.: #43340]	L-alaninamide ChEBI	-	carbon source
[Ref.: #43340]	L-fucose ChEBI	+	carbon source
[Ref.: #43340]	L-rhamnose ChEBI	+	carbon source
[Ref.: #43340]	lactate ChEBI	-	carbon source
[Ref.: #43340]	malate ChEBI	-	carbon source
[Ref.: #43340]	maltose ChEBI	-	carbon source
[Ref.: #43340]	melibiose ChEBI	+	carbon source
[Ref.: #43340]	nitrate ChEBI	-	reduction
[Ref.: #43340]	palatinose ChEBI	+	carbon source
[Ref.: #43340]	peptone	+	assimilation
[Ref.: #43340]	succinate ChEBI	-	carbon source
[Ref.: #43340]	sucrose ChEBI	-	carbon source
[Ref.: #43340]	sulfate ChEBI	-	reduction
[Ref.: #43340]	sulfite ChEBI	-	reduction
[Ref.: #43340]	tartrate ChEBI	-	carbon source
[Ref.: #43340]	thiosulfate ChEBI	-	reduction
[Ref.: #43340]	trehalose ChEBI	-	carbon source
[Ref.: #43340]	tryptone	+	assimilation
[Ref.: #43340]	yeast extract	+	assimilation
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43340]

Fatty acid	Percentage
C16:1	42
C14:0	31.9
C16:0	12.8

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	reductive acetyl coenzyme A pathway	100	7 of 7
[Ref.: #66794]	aminopropanol phosphate biosynthesis	100	2 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	vitamin B1 metabolism	100	13 of 13
[Ref.: #66794]	enterobactin biosynthesis	100	3 of 3
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	butanoate fermentation	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	citric acid cycle	92.86	13 of 14
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	glutamate and glutamine metabolism	89.29	25 of 28
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	alanine metabolism	86.21	25 of 29
[Ref.: #66794]	tetrahydrofolate metabolism	85.71	12 of 14
[Ref.: #66794]	ubiquinone biosynthesis	85.71	6 of 7
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	urea cycle	84.62	11 of 13
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	purine metabolism	80.85	76 of 94
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	myo-inositol biosynthesis	80	8 of 10
[Ref.: #66794]	phenylacetate degradation (aerobic)	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	pyrimidine metabolism	77.78	35 of 45
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	histidine metabolism	75.86	22 of 29
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	vitamin B12 metabolism	73.53	25 of 34
[Ref.: #66794]	methionine metabolism	73.08	19 of 26
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	non-pathway related	71.05	27 of 38
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	arginine metabolism	66.67	16 of 24
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	cysteine metabolism	66.67	12 of 18
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	lipid metabolism	64.52	20 of 31
[Ref.: #66794]	pentose phosphate pathway	63.64	7 of 11
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	oxidative phosphorylation	61.54	56 of 91
[Ref.: #66794]	tryptophan metabolism	60.53	23 of 38
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	3-chlorocatechol degradation	60	3 of 5
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	creatinine degradation	60	3 of 5
[Ref.: #66794]	lysine metabolism	59.52	25 of 42
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
[Ref.: #66794]	polyamine pathway	56.52	13 of 23
[Ref.: #66794]	d-xylose degradation	54.55	6 of 11
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	isoprenoid biosynthesis	53.85	14 of 26
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	acetate fermentation	50	2 of 4
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	ascorbate metabolism	45.45	10 of 22
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	allantoin degradation	44.44	4 of 9
[Ref.: #66794]	degradation of hexoses	44.44	8 of 18
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	degradation of sugar acids	44	11 of 25
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	degradation of pentoses	39.29	11 of 28
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	phenol degradation	35	7 of 20
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	glutathione metabolism	28.57	4 of 14
[Ref.: #66794]	arachidonic acid metabolism	27.78	5 of 18
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
		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.: #43340]	Sample type/isolated from	deep-sea sediment sample of the West Pacific Ocean at a depth of 5445 m
[Ref.: #43340]	Sampling date	2012-07
[Ref.: #43340]	Geographic location (country and/or sea, region)	Pacific Ocean
[Ref.: #43340]	Geographic location	16.0000°/154.0000°

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

* marker position based on {}

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.: #43340]	16S rRNA gene sequences	KJ137882	1414	ENA	1478221 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Anaeromicrobium sediminis DY2726D	GCA_002270055	scaffold	GenBank	1478221 tax ID	*
[Ref.: #66792]	Anaeromicrobium sediminis strain DY2726D	1478221.3	wgs	PATRIC	1478221 tax ID	*

[Ref.: #43340]

GC-content

33.4 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #43340]

Culture collection no.

JCM 30224, MCCC 1A00776

References

#20215

Leibniz Institute DSMZ D.Gleim, M.Kracht, N.Weiss et. al.: Prokaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes since .

#43340

Xiaobo Zhang, Xiang Zeng, Xi Li, Karine Alain, Mohamed Jebbar, Zongze Shao: Anaeromicrobium sediminis gen. nov., sp. nov., a fermentative bacterium isolated from deep-sea sediment. IJSEM 67: 1462 - 1467 2017 ( DOI 10.1099/ijsem.0.001739 )

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 )

* These References are textmined

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