Silvibacterium dinghuense (DSM 103429, CGMCC 1.13007, KCTC 42631)

Name: Silvibacterium dinghuense (DSM 103429, CGMCC 1.13007, KCTC 42631)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132354

Type strain

Strain Designation DHOF10

Culture col. no. DSM 103429 CGMCC 1.13007 KCTC 42631 DHOF10

NCBI tax ID(s) 1560006

Special Collections DSMZ KCTC Literature strains

History DSMZ <- KCTC; KCTC 42631

Links

Silvibacterium dinghuense DHOF10 is an aerobe, chemoheterotroph, Gram-negative bacterium that forms circular colonies and was isolated from forest soil.

Gram-negative coccus-shaped colony-forming aerobe chemoheterotroph genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 397526

KCTC 42631,DSM 103429

@ref 20215

Last LPSN update 2026-05-29 08:37:50

Domain Bacteria

Phylum Acidobacteriota

Class Terriglobia

Order Terriglobales

Family Acidobacteriaceae

Genus Silvibacterium

Species Silvibacterium dinghuense

Full scientific name Silvibacterium dinghuense (Jiang et al. 2016) Zhang et al. 2022

Synonyms (1)

Acidipila dinghuensis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
43829	negative	1-1.4 µm	0.6-1.1 µm	coccus-shaped
125438	negative					93.436

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
43829	1.9-2.6 mm	White to light beige	circular	14 days	GYS agar

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
43829	GYS agar
24143	SSE/HD1:10 (DSMZ Medium 1426)		Medium recipe at MediaDive	Name: SSE/HD 1:10 MEDIUM (DSMZ Medium 1426) Composition: MES 1.95 g/l Peptone 0.5 g/l CaSO4 x 2 H2O 0.4303 g/l MgSO4 x 7 H2O 0.3695 g/l Yeast extract 0.25 g/l Na NO3 0.212 g/l CaCl2 x 2 H2O 0.1469 g/l Ca(NO3)2 x 4 H2O 0.118 g/l MgCl2 x 6 H2O 0.1018 g/l Glucose 0.1 g/l (NH4)2SO4 0.09915 g/l NH4Cl 0.05345 g/l K2SO4 0.0435 g/l FeSO4 x 7 H2O 0.00555 g/l KH2PO4 0.00340213 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l Pyridoxine hydrochloride 1e-05 g/l H3BO3 6e-06 g/l Lipoic acid 5e-06 g/l D-Calcium pantothenate 5e-06 g/l Nicotinic acid 5e-06 g/l Riboflavin 5e-06 g/l Thiamine-HCl x 2 H2O 5e-06 g/l p-Aminobenzoic acid 5e-06 g/l Folic acid 2e-06 g/l Biotin 2e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Vitamin B12 1e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
24143	positive	growth	30
43829	positive	growth	10-37
43829	positive	optimum	28-37

Culture pH

@ref	Ability	Type	PH	PH range
43829	positive	optimum	4-4.5
43829	positive	growth	3.5-8	acidophile

Physiology and metabolism

Oxygen tolerance

43829

Oxygen toleranceaerobe

Nutrition type

43829

Typechemoheterotroph

Spore formation

@ref	Spore formation	Confidence
125439		94.956

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43829	NaCl	positive	growth	0-1 %(w/v)

Observation

43829

ObservationCapsule forming

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43829	16808 ChEBI	2-dehydro-D-gluconate	-	carbon source
43829	58143 ChEBI	5-dehydro-D-gluconate	-	carbon source
43829	30089 ChEBI	acetate	-	carbon source
43829	17128 ChEBI	adipate	-	carbon source
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
43829	27613 ChEBI	amygdalin	+	carbon source
43829	18305 ChEBI	arbutin	+	carbon source
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
43829	35391 ChEBI	aspartate	-	carbon source
43829	16150 ChEBI	benzoate	-	carbon source
43829		casamino acids	+	carbon source
43829	17057 ChEBI	cellobiose	+	carbon source
43829	16947 ChEBI	citrate	-	carbon source
43829	17108 ChEBI	D-arabinose	-	carbon source
43829	18333 ChEBI	D-arabitol	-	carbon source
43829	15824 ChEBI	D-fructose	+	carbon source
43829	28847 ChEBI	D-fucose	-	carbon source
43829	12936 ChEBI	D-galactose	+	carbon source
43829	17634 ChEBI	D-glucose	+	carbon source
68369	17634 ChEBI	D-glucose	-	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
43829	15748 ChEBI	D-glucuronate	-	carbon source
43829	62318 ChEBI	D-lyxose	-	carbon source
43829	16899 ChEBI	D-mannitol	+	carbon source
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
43829	16024 ChEBI	D-mannose	+	carbon source
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
43829	16988 ChEBI	D-ribose	-	carbon source
43829	17924 ChEBI	D-sorbitol	-	carbon source
43829	65327 ChEBI	D-xylose	+	carbon source
43829	27689 ChEBI	decanoate	+	carbon source
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
43829	17113 ChEBI	erythritol	-	carbon source
43829	4853 ChEBI	esculin	+	carbon source
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
43829	16236 ChEBI	ethanol	-	carbon source
43829	16813 ChEBI	galactitol	-	carbon source
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
43829	28066 ChEBI	gentiobiose	+	carbon source
43829	24265 ChEBI	gluconate	+	carbon source
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
43829	17234 ChEBI	glucose	-	fermentation
43829	17754 ChEBI	glycerol	+	carbon source
43829	28087 ChEBI	glycogen	+	carbon source
43829	15443 ChEBI	inulin	+	carbon source
43829	16977 ChEBI	L-alanine	-	carbon source
43829	30849 ChEBI	L-arabinose	+	carbon source
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
43829	18403 ChEBI	L-arabitol	-	carbon source
43829	18287 ChEBI	L-fucose	+	carbon source
43829	29985 ChEBI	L-glutamate	-	carbon source
43829	15971 ChEBI	L-histidine	-	carbon source
43829	62345 ChEBI	L-rhamnose	+	carbon source
43829	17115 ChEBI	L-serine	+	carbon source
43829	17266 ChEBI	L-sorbose	-	carbon source
43829	65328 ChEBI	L-xylose	+	carbon source
43829	24996 ChEBI	lactate	-	carbon source
43829	17716 ChEBI	lactose	+	carbon source
43829	25115 ChEBI	malate	-	carbon source
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
43829	17306 ChEBI	maltose	+	carbon source
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
43829	6731 ChEBI	melezitose	+	carbon source
43829	28053 ChEBI	melibiose	+	carbon source
43829	17790 ChEBI	methanol	-	carbon source
43829	320061 ChEBI	methyl alpha-D-glucopyranoside	+	carbon source
43829	43943 ChEBI	methyl alpha-D-mannoside	+	carbon source
43829	74863 ChEBI	methyl beta-D-xylopyranoside	+	carbon source
43829	17268 ChEBI	myo-inositol	+	carbon source
43829	506227 ChEBI	N-acetylglucosamine	+	carbon source
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
43829	17632 ChEBI	nitrate	-	reduction
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
43829	18257 ChEBI	ornithine	+	carbon source
43829	30623 ChEBI	oxalate	-	carbon source
43829	18401 ChEBI	phenylacetate	-	carbon source
43829	15361 ChEBI	pyruvate	+	carbon source
43829	16634 ChEBI	raffinose	+	carbon source
43829	15963 ChEBI	ribitol	-	carbon source
43829	17814 ChEBI	salicin	+	carbon source
43829	28017 ChEBI	starch	+	carbon source
43829	30031 ChEBI	succinate	+	carbon source
43829	17992 ChEBI	sucrose	+	carbon source
43829	30929 ChEBI	tartrate	+	carbon source
43829	27082 ChEBI	trehalose	+	carbon source
43829		tryptone	+	carbon source
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
43829	32528 ChEBI	turanose	+	carbon source
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE
43829	17151 ChEBI	xylitol	+	carbon source
43829		yeast extract	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43829	35581 ChEBI	indole
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
43829	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	+	3.1.3.2	from API zym
43829	alkaline phosphatase	+	3.1.3.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
43829	alpha-chymotrypsin	-	3.4.21.1
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
43829	alpha-fucosidase	+	3.2.1.51
68382	alpha-fucosidase	+	3.2.1.51	from API zym
43829	alpha-galactosidase	+	3.2.1.22
43829	alpha-glucosidase	+	3.2.1.20
68382	alpha-glucosidase	-	3.2.1.20	from API zym
43829	alpha-mannosidase	-	3.2.1.24
68382	alpha-mannosidase	-	3.2.1.24	from API zym
43829	arginine dihydrolase	-	3.5.3.6
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
43829	beta-galactosidase	+	3.2.1.23
68382	beta-galactosidase	+	3.2.1.23	from API zym
43829	beta-glucosidase	+	3.2.1.21
68382	beta-glucosidase	+	3.2.1.21	from API zym
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
43829	beta-glucuronidase	-	3.2.1.31
68382	beta-glucuronidase	-	3.2.1.31	from API zym
43829	catalase	-	1.11.1.6
43829	cystine arylamidase	+	3.4.11.3
68382	cystine arylamidase	-	3.4.11.3	from API zym
43829	cytochrome oxidase	-	1.9.3.1
68369	cytochrome oxidase	-	1.9.3.1	from API 20NE
43829	esterase (C 4)	+
43829	esterase Lipase (C 8)	+
68369	gelatinase	-		from API 20NE
43829	leucine arylamidase	+	3.4.11.1
68382	leucine arylamidase	+	3.4.11.1	from API zym
43829	lipase (C 14)	-
68382	lipase (C 14)	-		from API zym
43829	N-acetyl-beta-glucosaminidase	+	3.2.1.52
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
43829	naphthol-AS-BI-phosphohydrolase	+
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
43829	protease	-
43829	trypsin	+	3.4.21.4
68382	trypsin	+	3.4.21.4	from API zym
43829	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
43829	valine arylamidase	+
68382	valine arylamidase	+		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	starch degradation	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	glycogen metabolism	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	L-lactaldehyde degradation	100	3 of 3
66794	valine metabolism	100	9 of 9
66794	acetate fermentation	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	ribulose monophosphate pathway	100	2 of 2
66794	cellulose degradation	100	5 of 5
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	phenylalanine metabolism	92.31	12 of 13
66794	pentose phosphate pathway	90.91	10 of 11
66794	threonine metabolism	90	9 of 10
66794	Entner Doudoroff pathway	90	9 of 10
66794	lipid A biosynthesis	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	chorismate metabolism	88.89	8 of 9
66794	d-mannose degradation	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	pyrimidine metabolism	84.44	38 of 45
66794	purine metabolism	82.98	78 of 94
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	peptidoglycan biosynthesis	80	12 of 15
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	histidine metabolism	79.31	23 of 29
66794	photosynthesis	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	serine metabolism	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	degradation of hexoses	77.78	14 of 18
66794	vitamin B1 metabolism	76.92	10 of 13
66794	alanine metabolism	75.86	22 of 29
66794	glycogen biosynthesis	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	biotin biosynthesis	75	3 of 4
66794	metabolism of disaccharids	72.73	8 of 11
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	tyrosine metabolism	71.43	10 of 14
66794	arginine metabolism	70.83	17 of 24
66794	glycolysis	70.59	12 of 17
66794	methionine metabolism	69.23	18 of 26
66794	leucine metabolism	69.23	9 of 13
66794	degradation of sugar alcohols	68.75	11 of 16
66794	tryptophan metabolism	68.42	26 of 38
66794	degradation of sugar acids	68	17 of 25
66794	degradation of pentoses	67.86	19 of 28
66794	1,4-dihydroxy-6-naphthoate biosynthesis	66.67	4 of 6
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	cyanate degradation	66.67	2 of 3
66794	flavin biosynthesis	66.67	10 of 15
66794	formaldehyde oxidation	66.67	2 of 3
66794	citric acid cycle	64.29	9 of 14
66794	d-xylose degradation	63.64	7 of 11
66794	proline metabolism	63.64	7 of 11
66794	ketogluconate metabolism	62.5	5 of 8
66794	isoleucine metabolism	62.5	5 of 8
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	lipid metabolism	61.29	19 of 31
66794	gallate degradation	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	non-pathway related	57.89	22 of 38
66794	glutathione metabolism	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	cysteine metabolism	55.56	10 of 18
66794	lysine metabolism	54.76	23 of 42
66794	vitamin B6 metabolism	54.55	6 of 11
66794	cholesterol biosynthesis	54.55	6 of 11
66794	urea cycle	53.85	7 of 13
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	lactate fermentation	50	2 of 4
66794	carotenoid biosynthesis	50	11 of 22
66794	myo-inositol biosynthesis	50	5 of 10
66794	kanosamine biosynthesis II	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	selenocysteine biosynthesis	50	3 of 6
66794	phenylmercury acetate degradation	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	catecholamine biosynthesis	50	2 of 4
66794	sphingosine metabolism	50	3 of 6
66794	vitamin B12 metabolism	47.06	16 of 34
66794	oxidative phosphorylation	46.15	42 of 91
66794	sulfate reduction	46.15	6 of 13
66794	ascorbate metabolism	45.45	10 of 22
66794	glycine betaine biosynthesis	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	4-hydroxyphenylacetate degradation	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	chlorophyll metabolism	38.89	7 of 18
66794	arachidonic acid metabolism	38.89	7 of 18
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	carnitine metabolism	37.5	3 of 8
66794	enterobactin biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	octane oxidation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	phenol degradation	30	6 of 20
66794	coenzyme M biosynthesis	30	3 of 10
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	3-phenylpropionate degradation	26.67	4 of 15
66794	vitamin E metabolism	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	androgen and estrogen metabolism	25	4 of 16
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	nitrate assimilation	22.22	2 of 9

Fatty acid profile

Metadata FA analysis

@ref

43829

Fatty acid	Percentage
C15:0 iso	48.6
C18:1ω9c	17
C16:1ω7c / C16:1ω6c	11.5
C16:0	8.6
C18:0	3.7
C17:0	2.7
C17:1 iso ω9c / C16:0 10-methyl	2.3
C14:0	1.7
C17:1ω8c	1.5
C15:1H iso / C13:0 3OH	1.1

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
24143	-	+	+/-	+/-	-	+	+	-	+	-	+	+	+/-	+	-	-	+	+	-	+

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
24143	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Condition	#Acidic	-
#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Isolation date
24143	forest soil	Dinghushan biosphere reserve (DHSBR), Guangdong Province	China	CHN	Asia	23.1667	112.517 23.1667/112.517
43829	An acidic soil sample collected from the forest of Dinghushan Biosphere Reserve	Guangdong Province	China	CHN	Asia	23.1667	112.517 23.1667/112.517	2013-09

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24143	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1464035v1 assembly for Silvibacterium dinghuense CGMCC 1.13007	contig	GCA_014640355	1560006.5	8063091398	1560006	77.38
66792	ASM412329v1 assembly for Silvibacterium dinghuense DHOF10	contig	GCA_004123295	1560006.3	2882000052	1560006	77.18

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24143	Silvibacterium dinghuense 16S ribosomal RNA gene, partial sequence	KM083127	1461		1560006

GC content

@ref	GC-content (mol%)	Method
43829	56.3	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1464035v1 assembly for Silvibacterium dinghuense CGMCC 1.13007
BV-BRC: 1560006.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	88.92	no
125439	gram_stain	BacteriaNetⓘ	negative	83.40	no
125439	motility	BacteriaNetⓘ	yes	51.92	no
125439	spore_formation	BacteriaNetⓘ	no	94.96	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Acidipila dinghuensis strain CGMCC 1.13007
PATRIC: 1560006.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	93.44	no
125438	anaerobic	anaerobicⓘ	no	86.32	yes
125438	spore-forming	spore-formingⓘ	no	80.30	no
125438	aerobic	aerobicⓘ	yes	81.43	no
125438	thermophilic	thermophileⓘ	no	95.02	yes
125438	flagellated	motile2+ⓘ	no	54.73	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Acidipila dinghuensis sp. nov., an acidobacterium isolated from forest soil.	Jiang YW, Wang J, Chen MH, Lv YY, Qiu LH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000676	2015

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 )
#24143	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103429
#43829	Ya-wen Jiang, Jia Wang, Mei-hong Chen, Ying-ying Lv, Li-hong Qiu: Acidipila dinghuensis sp. nov., an acidobacterium isolated from forest soil. IJSEM 66: 76 - 83 2016 ( DOI 10.1099/ijsem.0.000676 , PubMed 26475169 )
#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 )
#68369	Automatically annotated from API 20NE .
#68382	Automatically annotated from API zym .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Silvibacterium dinghuense (DSM 103429, CGMCC 1.13007, KCTC 42631)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

Fatty acid profile

API zym

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014640355

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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