Name: Agromyces atrinae P27
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 7281

Type strain:

Species: Agromyces atrinae

Strain Designation: P27

Culture col. no.: DSM 23870, JCM 15913, KCTC 19593

Strain history: <- JW Bae, KRIBB

NCBI tax ID(s): 592376 (species)

SI-ID 399040

DSM 23870

Special Collections

Section

Agromyces atrinae P27 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from traditional fermented seafood.

Gram-positive
rod-shaped
aerobe
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Microbacteriaceae*
	Genus	*Agromyces*
	Species	**Agromyces atrinae**
	Full Scientific Name (LPSN)	Agromyces atrinae Park et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29397]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %90.412

[Ref.: #29397]	Cell length	1.5 µm

[Ref.: #29397]	Cell width	0.75 µm

[Ref.: #29397]	Cell shape	rod-shaped

[Ref.: #29397]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.5

[Ref.: #21416]	Colony color	Rape yellow (1021)
[Ref.: #21416]	Incubation period	10-14 days
[Ref.: #21416]	Cultivation medium used	ISP 2

[Ref.: #21416]	Colony color	Oyster white (1013)
[Ref.: #21416]	Incubation period	10-14 days
[Ref.: #21416]	Cultivation medium used	ISP 4

[Ref.: #21416]	Colony color	Rape yellow (1021)
[Ref.: #21416]	Incubation period	10-14 days
[Ref.: #21416]	Cultivation medium used	ISP 7

[Ref.: #21416]	Incubation period	10-14 days
[Ref.: #21416]	Cultivation medium used	ISP 3

[Ref.: #21416]	Incubation period	10-14 days
[Ref.: #21416]	Cultivation medium used	ISP 5

[Ref.: #29397]

Pigment production

yes

[Ref.: #21416]	Multicellular complex forming ability	no
[Ref.: #21416]	Medium Name (multicellularity)	ISP 2

[Ref.: #21416]	Multicellular complex forming ability	no
[Ref.: #21416]	Medium Name (multicellularity)	ISP 3

[Ref.: #21416]	Multicellular complex forming ability	no
[Ref.: #21416]	Medium Name (multicellularity)	ISP 4

[Ref.: #21416]	Multicellular complex forming ability	no
[Ref.: #21416]	Medium Name (multicellularity)	ISP 5

[Ref.: #21416]	Multicellular complex forming ability	no
[Ref.: #21416]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17418]

Culture medium

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

[Ref.: #17418]

Culture medium growth

[Ref.: #17418]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17418]

Culture medium composition

expand / minimize

[Ref.: #21416]

Culture medium

ISP 2

[Ref.: #21416]

Culture medium growth

[Ref.: #21416]

Culture medium composition

expand / minimize

[Ref.: #21416]

Culture medium

ISP 3

[Ref.: #21416]

Culture medium growth

[Ref.: #21416]

Culture medium composition

expand / minimize

[Ref.: #21416]

Culture medium

ISP 4

[Ref.: #21416]

Culture medium growth

[Ref.: #21416]

Culture medium composition

expand / minimize

[Ref.: #21416]

Culture medium

ISP 5

[Ref.: #21416]

Culture medium growth

[Ref.: #21416]

Culture medium composition

expand / minimize

[Ref.: #21416]

Culture medium

ISP 7

[Ref.: #21416]

Culture medium growth

[Ref.: #21416]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #17418]	growth	28 °C
[Ref.: #29397]	growth	10-37 °C
[Ref.: #29397]	optimum	30 °C
[Ref.: #67770]	growth	37 °C
[Ref.: #67771]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #29397]			optimum	6.5
[Ref.: #29397]			growth	06-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29397]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %92

	Salt		Salt conc.
[Ref.: #21416]	NaCl	maximum	2.5	%
[Ref.: #29397]	NaCl	growth	0-4	%
[Ref.: #29397]	NaCl	optimum	2	%

[Ref.: #67770]

Observation

quinones: MK-12, MK-11, MK-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29397]	acetate ChEBI	+	carbon source
[Ref.: #21416]	arabinose ChEBI	+
[Ref.: #29397]	cellobiose ChEBI	+	carbon source
[Ref.: #21416]	cellulose ChEBI	-
[Ref.: #68379]	D-glucose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #29397]	dextrin ChEBI	+	carbon source
[Ref.: #68379]	esculin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #21416]	fructose ChEBI	-
[Ref.: #29397]	fructose ChEBI	+	carbon source
[Ref.: #29397]	galactose ChEBI	+	carbon source
[Ref.: #68379]	gelatin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #29397]	gluconate ChEBI	+	carbon source
[Ref.: #21416]	glucose ChEBI	+
[Ref.: #29397]	glucose ChEBI	+	carbon source
[Ref.: #29397]	glycerol ChEBI	+	carbon source
[Ref.: #29397]	glycogen ChEBI	+	carbon source
[Ref.: #68379]	glycogen ChEBI	+	fermentation	* from API Coryne
[Ref.: #29397]	inosine ChEBI	+	carbon source
[Ref.: #29397]	lactose ChEBI	+	carbon source
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #29397]	maltose ChEBI	+	carbon source
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #29397]	mannitol ChEBI	+	carbon source
[Ref.: #21416]	mannose ChEBI	-
[Ref.: #29397]	mannose ChEBI	+	carbon source
[Ref.: #29397]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #21416]	myo-inositol ChEBI	-
[Ref.: #29397]	nitrate ChEBI	+	reduction
[Ref.: #68379]	nitrate ChEBI	-	reduction	* from API Coryne
[Ref.: #29397]	pyruvate ChEBI	+	carbon source
[Ref.: #21416]	raffinose ChEBI	+
[Ref.: #21416]	rhamnose ChEBI	-
[Ref.: #29397]	ribose ChEBI	+	carbon source
[Ref.: #29397]	salicin ChEBI	+	carbon source
[Ref.: #21416]	sucrose ChEBI	+
[Ref.: #29397]	sucrose ChEBI	+	carbon source
[Ref.: #68379]	sucrose ChEBI	+	fermentation	* from API Coryne
[Ref.: #29397]	thymidine ChEBI	+	carbon source
[Ref.: #29397]	trehalose ChEBI	+	carbon source
[Ref.: #29397]	tween 40 ChEBI	+	carbon source
[Ref.: #29397]	tween 80 ChEBI	+	carbon source
[Ref.: #68379]	urea ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #29397]	uridine ChEBI	+	carbon source
[Ref.: #21416]	xylose ChEBI	+
[Ref.: #29397]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #29397]	acid phosphatase	+	3.1.3.2
[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.: #29397]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym, API Coryne
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym, API Coryne
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym, API Coryne
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API Coryne
[Ref.: #29397]	catalase	+	1.11.1.6
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68379]	gelatinase	+		* from API Coryne
[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, API Coryne
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68379]	pyrazinamidase	-	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API Coryne
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68379]	urease	-	3.5.1.5	* from API Coryne
	Only first 10 entries are displayed. Click here to see all.

API® Coryne:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #21416]	533	-	-	-	+/-	-	+	+	-	+	-	+	not determinedn.d.	-	-	-	-	-	-	+	+	not determinedn.d.

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.: #21416]	1053	not determinedn.d.	+	+	+	-	+	+/-	+/-	-	-	+/-	+	-	+	-	+	+	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	lipoate biosynthesis	100	5 of 5
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	threonine metabolism	100	10 of 10
[Ref.: #66794]	pentose phosphate pathway	100	11 of 11
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	butanoate fermentation	100	4 of 4
[Ref.: #66794]	starch degradation	100	10 of 10
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[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]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	cellulose degradation	100	5 of 5
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	ketogluconate metabolism	87.5	7 of 8
[Ref.: #66794]	peptidoglycan biosynthesis	86.67	13 of 15
[Ref.: #66794]	flavin biosynthesis	86.67	13 of 15
[Ref.: #66794]	citric acid cycle	85.71	12 of 14
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	85.71	24 of 28
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	heme metabolism	85.71	12 of 14
[Ref.: #66794]	alanine metabolism	82.76	24 of 29
[Ref.: #66794]	pyrimidine metabolism	82.22	37 of 45
[Ref.: #66794]	factor 420 biosynthesis	80	4 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	80	4 of 5
[Ref.: #66794]	3-chlorocatechol degradation	80	4 of 5
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	purine metabolism	77.66	73 of 94
[Ref.: #66794]	leucine metabolism	76.92	10 of 13
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	cyclohexanol degradation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	degradation of sugar alcohols	75	12 of 16
[Ref.: #66794]	dTDPLrhamnose biosynthesis	75	6 of 8
[Ref.: #66794]	proline metabolism	72.73	8 of 11
[Ref.: #66794]	metabolism of disaccharids	72.73	8 of 11
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	degradation of hexoses	72.22	13 of 18
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	vitamin B1 metabolism	69.23	9 of 13
[Ref.: #66794]	oxidative phosphorylation	69.23	63 of 91
[Ref.: #66794]	histidine metabolism	68.97	20 of 29
[Ref.: #66794]	degradation of pentoses	67.86	19 of 28
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	tryptophan metabolism	65.79	25 of 38
[Ref.: #66794]	non-pathway related	65.79	25 of 38
[Ref.: #66794]	isoprenoid biosynthesis	65.38	17 of 26
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	62.5	5 of 8
[Ref.: #66794]	isoleucine metabolism	62.5	5 of 8
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	degradation of sugar acids	56	14 of 25
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	lysine metabolism	54.76	23 of 42
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	lipid metabolism	51.61	16 of 31
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	carotenoid biosynthesis	50	11 of 22
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	ascorbate metabolism	50	11 of 22
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	sphingosine metabolism	50	3 of 6
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	4-hydroxymandelate degradation	44.44	4 of 9
[Ref.: #66794]	benzoyl-CoA degradation	42.86	3 of 7
[Ref.: #66794]	mevalonate metabolism	42.86	3 of 7
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	androgen and estrogen metabolism	37.5	6 of 16
[Ref.: #66794]	vitamin B6 metabolism	36.36	4 of 11
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	polyamine pathway	30.43	7 of 23
[Ref.: #66794]	phenol degradation	30	6 of 20
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	arachidonic acid metabolism	27.78	5 of 18
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	3-phenylpropionate degradation	26.67	4 of 15
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	23.53	4 of 17
[Ref.: #66794]	sulfate reduction	23.08	3 of 13
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
		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.: #17418]	Sample type/isolated from	traditional fermented seafood
[Ref.: #17418]	Country	Republic of Korea
[Ref.: #17418]	Country ISO 3 Code	KOR
[Ref.: #17418]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Traditional fermented seafood
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From Jeotgal, fermented shellfisg
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Seafood
#Engineered	#Food production	#Fermented

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ607310 (>99% sequence identity) for Agromyces atrinae subclade from Microbeatlas

Aquatic Samples	136
Soil Samples	315
Animal Samples	246
Plant Samples	210
Total Samples	907

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

[Ref.: #17418]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #21416]	Biosafety level	L1	German 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.: #17418]	Agromyces atrinae strain P27 16S ribosomal RNA gene, partial sequence	FJ607310	1477	GenBank ENA	592376 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Agromyces atrinae DSM 23870	GCA_013407835	contig	GenBank ENA	592376 tax ID
[Ref.: #67770]	Agromyces atrinae DSM 23870	GCA_004134805	scaffold	GenBank ENA	592376 tax ID
[Ref.: #66792]	Agromyces atrinae strain DSM 23870	592376.3	wgs	PATRIC	592376 tax ID	*
[Ref.: #66792]	Agromyces atrinae strain DSM 23870	592376.5	wgs	PATRIC	592376 tax ID	*
[Ref.: #66792]	Agromyces atrinae DSM 23870	2844837950	draft	JGI IMG/M	592376 tax ID	*

[Ref.: #17418]	GC-content	69.0 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29397]	GC-content	69 mol%
[Ref.: #67770]	GC-content	69 mol%	thermal denaturation, midpoint method (Tm)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Agromyces atrinae DSM 23870 NCBI: GCA_004134805.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	92	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Agromyces atrinae strain DSM 23870 PATRIC: 592376.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	90.412	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	98.271	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	75.293	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.509	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	98	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	90.5	yes

Availability in culture collections External links

[Ref.: #17418]

Culture collection no.

DSM 23870, JCM 15913, KCTC 19593

[Ref.: #76732]

SI-ID 399040

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Agromyces atrinae sp. nov., isolated from fermented seafood.	Park EJ, Kim MS, Jung MJ, Roh SW, Chang HW, Shin KS, Bae JW	Int J Syst Evol Microbiol	10.1099/ijs.0.012294-0	2009	*

References

#17418

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23870

#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 )

#21416

Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#29397

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 #25804 (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) .

#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 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68379

Automatically annotated from API Coryne .

#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 .

#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 )

#76732

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-ID399040.1 )

#25804

IJSEM 1056 2010 ( DOI 10.1099/ijs.0.012294-0 , PubMed 19666805 )

* These data were automatically processed and therefore are not curated

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Agromyces atrinae DSM 23870

Agromyces atrinae strain DSM 23870

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