Name: Sphingomonas jatrophae S5-249
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 141165

Type strain:

Species: Sphingomonas jatrophae

Strain Designation: S5-249

Culture col. no.: DSM 27345, KACC 17593

Strain history: <- M. Madhaiyan, Temasek Life Sciences Laboratory, Univ. Singapore; S5-249

NCBI tax ID(s): 1166337 (species)

SI-ID 405139

DSM 27345

Special Collections

Section

When using BacDive for research please cite our paper

Sphingomonas jatrophae S5-249 is an obligate aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from endophyte of surface-sterilized leaf tissue of Jatropha curcas.

colony-forming
Gram-negative
rod-shaped
obligate aerobe
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Sphingomonadales*
	Family	*Sphingomonadaceae*
	Genus	*Sphingomonas*
	Species	**Sphingomonas jatrophae**
	Full Scientific Name (LPSN)	Sphingomonas jatrophae Madhaiyan et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #44084]	Gram stain	negative
[Ref.: #125439]	Gram stain	negative Confidence in %98.1

[Ref.: #44084]	Cell length	1.8-2.1 µm

[Ref.: #44084]	Cell width	0.5-0.8 µm

[Ref.: #44084]	Cell shape	rod-shaped

[Ref.: #44084]	Colony size	1.1-1.4 mm
[Ref.: #44084]	Colony color	yellow
[Ref.: #44084]	Colony shape	circular
[Ref.: #44084]	Incubation period	2 days
[Ref.: #44084]	Cultivation medium used	2xYT

Multimedia content

[Ref.: #64987]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #44084]

Culture medium

2xYT

[Ref.: #44084]

Culture medium growth

[Ref.: #44084]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #44084]

Culture medium growth

[Ref.: #64987]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #64987]

Culture medium growth

[Ref.: #64987]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64987]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #44084]	growth	15-37 °C
[Ref.: #44084]	optimum	28-30 °C
[Ref.: #64987]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #44084]			optimum	6.0-7.0
[Ref.: #44084]			growth	5.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #44084]	Oxygen tolerance	obligate aerobe
[Ref.: #125439]	Oxygen tolerance	obligate aerobe Confidence in %98

[Ref.: #44084]	Ability of spore formation	no
[Ref.: #125439]	Ability of spore formation	no Confidence in %96.7

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #44084]		NaCl		growth	0-6	%(w/v)
[Ref.: #44084]		NaCl		optimum	4	%(w/v)

[Ref.: #44084]

Observation

sphingolipid-producing

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #44084]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #44084]	3-hydroxybutyrate ChEBI	+	assimilation
[Ref.: #44084]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #44084]	adipate ChEBI	-	assimilation
[Ref.: #44084]	amygdalin ChEBI	-	builds acid from
[Ref.: #44084]	arbutin ChEBI	-	builds acid from
[Ref.: #44084]	carboxymethylcellulose ChEBI	+	hydrolysis
[Ref.: #44084]	casein	+	hydrolysis
[Ref.: #44084]	cellobiose ChEBI	-	builds acid from
[Ref.: #44084]	D-arabinose ChEBI	-	builds acid from
[Ref.: #44084]	D-arabitol ChEBI	-	builds acid from
[Ref.: #44084]	D-fructose ChEBI	-	builds acid from
[Ref.: #44084]	D-fucose ChEBI	-	builds acid from
[Ref.: #44084]	D-galactose ChEBI	-	builds acid from
[Ref.: #44084]	D-glucose ChEBI	-	builds acid from
[Ref.: #44084]	D-glucose ChEBI	+	assimilation
[Ref.: #44084]	D-mannitol ChEBI	-	assimilation
[Ref.: #44084]	D-mannitol ChEBI	-	builds acid from
[Ref.: #44084]	D-mannose ChEBI	-	builds acid from
[Ref.: #44084]	D-mannose ChEBI	+	assimilation
[Ref.: #44084]	D-ribose ChEBI	-	assimilation
[Ref.: #44084]	D-ribose ChEBI	-	builds acid from
[Ref.: #44084]	D-sorbitol ChEBI	-	assimilation
[Ref.: #44084]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #44084]	D-tagatose ChEBI	-	builds acid from
[Ref.: #44084]	D-xylose ChEBI	-	builds acid from
[Ref.: #44084]	decanoate ChEBI	-	assimilation
[Ref.: #44084]	erythritol ChEBI	-	builds acid from
[Ref.: #44084]	esculin ChEBI	+	hydrolysis
[Ref.: #44084]	esculin ferric citrate	-	builds acid from
[Ref.: #44084]	galactitol ChEBI	-	builds acid from
[Ref.: #44084]	gelatin ChEBI	-	hydrolysis
[Ref.: #44084]	gentiobiose ChEBI	-	builds acid from
[Ref.: #44084]	glucose ChEBI	-	fermentation
[Ref.: #44084]	glycerol ChEBI	-	builds acid from
[Ref.: #44084]	glycogen ChEBI	-	assimilation
[Ref.: #44084]	glycogen ChEBI	-	builds acid from
[Ref.: #44084]	inulin ChEBI	-	builds acid from
[Ref.: #44084]	itaconate ChEBI	-	assimilation
[Ref.: #44084]	L-alanine ChEBI	-	assimilation
[Ref.: #44084]	L-arabinose ChEBI	+	assimilation
[Ref.: #44084]	L-arabinose ChEBI	+	builds acid from
[Ref.: #44084]	L-arabitol ChEBI	-	builds acid from
[Ref.: #44084]	L-fucose ChEBI	-	assimilation
[Ref.: #44084]	L-fucose ChEBI	-	builds acid from
[Ref.: #44084]	L-histidine ChEBI	-	assimilation
[Ref.: #44084]	L-proline ChEBI	+	assimilation
[Ref.: #44084]	L-rhamnose ChEBI	-	assimilation
[Ref.: #44084]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #44084]	L-serine ChEBI	-	assimilation
[Ref.: #44084]	L-sorbose ChEBI	-	builds acid from
[Ref.: #44084]	L-xylose ChEBI	-	builds acid from
[Ref.: #44084]	lactate ChEBI	-	assimilation
[Ref.: #44084]	lactose ChEBI	-	builds acid from
[Ref.: #44084]	malate ChEBI	-	assimilation
[Ref.: #44084]	maltose ChEBI	-	assimilation
[Ref.: #44084]	maltose ChEBI	-	builds acid from
[Ref.: #44084]	maltose ChEBI	+	assimilation
[Ref.: #44084]	melezitose ChEBI	-	builds acid from
[Ref.: #44084]	melibiose ChEBI	-	assimilation
[Ref.: #44084]	melibiose ChEBI	-	builds acid from
[Ref.: #44084]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from
[Ref.: #44084]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #44084]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #44084]	myo-inositol ChEBI	-	assimilation
[Ref.: #44084]	myo-inositol ChEBI	-	builds acid from
[Ref.: #44084]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #44084]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #44084]	nitrate ChEBI	-	reduction
[Ref.: #44084]	nitrite ChEBI	-	reduction
[Ref.: #44084]	phenylacetate ChEBI	-	assimilation
[Ref.: #44084]	potassium 2-dehydro-D-gluconate	-	assimilation
[Ref.: #44084]	potassium 2-dehydro-D-gluconate	-	builds acid from
[Ref.: #44084]	potassium 5-dehydro-D-gluconate	-	assimilation
[Ref.: #44084]	potassium 5-dehydro-D-gluconate	-	builds acid from
[Ref.: #44084]	potassium gluconate ChEBI	-	assimilation
[Ref.: #44084]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #44084]	propionate ChEBI	+	assimilation
[Ref.: #44084]	raffinose ChEBI	-	builds acid from
[Ref.: #44084]	ribitol ChEBI	-	builds acid from
[Ref.: #44084]	salicin ChEBI	-	assimilation
[Ref.: #44084]	salicin ChEBI	-	builds acid from
[Ref.: #44084]	sodium acetate ChEBI	-	assimilation
[Ref.: #44084]	sodium citrate ChEBI	-	assimilation
[Ref.: #44084]	sodium malonate ChEBI	-	assimilation
[Ref.: #44084]	starch ChEBI	-	builds acid from
[Ref.: #44084]	starch ChEBI	-	hydrolysis
[Ref.: #44084]	suberic acid ChEBI	-	assimilation
[Ref.: #44084]	sucrose ChEBI	-	assimilation
[Ref.: #44084]	sucrose ChEBI	-	builds acid from
[Ref.: #44084]	trehalose ChEBI	-	builds acid from
[Ref.: #44084]	turanose ChEBI	-	builds acid from
[Ref.: #44084]	tyrosine ChEBI	-	hydrolysis
[Ref.: #44084]	valerate ChEBI	+	assimilation
[Ref.: #44084]	xylan ChEBI	-	hydrolysis
[Ref.: #44084]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #44084]	ampicillin ChEBI	yes	25	µg/mL
[Ref.: #44084]	carbenicillin ChEBI				yes	100	µg/mL
[Ref.: #44084]	chloramphenicol ChEBI	yes	25	µg/mL
[Ref.: #44084]	hygromycin ChEBI				yes	50	µg/mL
[Ref.: #44084]	kanamycin ChEBI				yes	250	µg/mL
[Ref.: #44084]	nalidixic acid ChEBI	yes	25	µg/mL
[Ref.: #44084]	rifampicin ChEBI	yes	25	µg/mL
[Ref.: #44084]	spectinomycin ChEBI	yes	25	µg/mL
[Ref.: #44084]	tetracycline ChEBI	yes	25	µg/mL

	Metabolite production	Metabolite	Production
[Ref.: #44084]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #44084]	acid phosphatase	+	3.1.3.2
[Ref.: #44084]	alkaline phosphatase	+	3.1.3.1
[Ref.: #44084]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #44084]	alpha-fucosidase	-	3.2.1.51
[Ref.: #44084]	alpha-galactosidase	-	3.2.1.22
[Ref.: #44084]	alpha-glucosidase	-	3.2.1.20
[Ref.: #44084]	alpha-mannosidase	-	3.2.1.24
[Ref.: #44084]	arginine dihydrolase	-	3.5.3.6
[Ref.: #44084]	beta-galactosidase	+/-	3.2.1.23
[Ref.: #44084]	beta-glucosidase	-	3.2.1.21
[Ref.: #44084]	beta-glucuronidase	-	3.2.1.31
[Ref.: #44084]	catalase	+	1.11.1.6
[Ref.: #44084]	cystine arylamidase	-	3.4.11.3
[Ref.: #44084]	cytochrome oxidase	+	1.9.3.1
[Ref.: #44084]	esterase (C 4)	+
[Ref.: #44084]	esterase Lipase (C 8)	+
[Ref.: #44084]	leucine arylamidase	+	3.4.11.1
[Ref.: #44084]	lipase (C 14)	-
[Ref.: #44084]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #44084]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #44084]	trypsin	+	3.4.21.4
[Ref.: #44084]	urease	-	3.5.1.5
[Ref.: #44084]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #44084]

Fatty acid	Percentage
C18:1ω7c / C18:1ω9t / C18:1ω12t	66.5
C16:1	8.5
C16:1ω7t / iso-C15:0 2-OH /C16:1ω7c	7.5
C14:0 2OH	7.2
C17:1ω6c	3.2
C18:1ω6c	1.9
C16:1ω5c	1.8
C18:0	1.7
C14:0	1.2

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	ethylmalonyl-CoA pathway	100	5 of 5
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	taurine degradation	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	NAD metabolism	88.89	16 of 18
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	citric acid cycle	85.71	12 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	purine metabolism	80.85	76 of 94
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	phenylacetate degradation (aerobic)	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	factor 420 biosynthesis	80	4 of 5
[Ref.: #66794]	glutamate and glutamine metabolism	78.57	22 of 28
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	toluene degradation	75	3 of 4
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	cyclohexanol degradation	75	3 of 4
[Ref.: #66794]	methionine metabolism	73.08	19 of 26
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	leucine metabolism	69.23	9 of 13
[Ref.: #66794]	flavin biosynthesis	66.67	10 of 15
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	IAA biosynthesis	66.67	2 of 3
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	pyrimidine metabolism	66.67	30 of 45
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	tryptophan metabolism	65.79	25 of 38
[Ref.: #66794]	glutathione metabolism	64.29	9 of 14
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	vitamin B6 metabolism	63.64	7 of 11
[Ref.: #66794]	non-pathway related	63.16	24 of 38
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	61.54	8 of 13
[Ref.: #66794]	isoprenoid biosynthesis	61.54	16 of 26
[Ref.: #66794]	polyamine pathway	60.87	14 of 23
[Ref.: #66794]	myo-inositol biosynthesis	60	6 of 10
[Ref.: #66794]	3-phenylpropionate degradation	60	9 of 15
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	58.82	10 of 17
[Ref.: #66794]	histidine metabolism	58.62	17 of 29
[Ref.: #66794]	arginine metabolism	58.33	14 of 24
[Ref.: #66794]	lipid metabolism	58.06	18 of 31
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	androgen and estrogen metabolism	56.25	9 of 16
[Ref.: #66794]	degradation of sugar alcohols	56.25	9 of 16
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	phenol degradation	55	11 of 20
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	ascorbate metabolism	50	11 of 22
[Ref.: #66794]	vitamin E metabolism	50	2 of 4
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	lysine metabolism	47.62	20 of 42
[Ref.: #66794]	degradation of pentoses	46.43	13 of 28
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	degradation of hexoses	44.44	8 of 18
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	carotenoid biosynthesis	40.91	9 of 22
[Ref.: #66794]	oxidative phosphorylation	40.66	37 of 91
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	glycine betaine biosynthesis	40	2 of 5
[Ref.: #66794]	4-hydroxyphenylacetate degradation	40	4 of 10
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	vitamin B12 metabolism	35.29	12 of 34
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	chlorophyll metabolism	33.33	6 of 18
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of sugar acids	32	8 of 25
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	starch degradation	30	3 of 10
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	cholesterol biosynthesis	27.27	3 of 11
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
		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.: #44084]	Sample type/isolated from	endophyte of surface-sterilized leaf tissue of Jatropha curcas
[Ref.: #44084]	Sampling date	2009-09
[Ref.: #44084]	Geographic location (country and/or sea, region)	Agrotechnology Experimental Station
[Ref.: #44084]	Country	Singapore
[Ref.: #44084]	Country ISO 3 Code	SGP
[Ref.: #44084]	Continent	Asia
[Ref.: #44084]	Geographic location	1.4367°/103.7090°
[Ref.: #44084]	Enrichment culture	R2A/Nfb medium
[Ref.: #44084]	Enrichment culture composition	N-free semi-solid medium
[Ref.: #44084]	Enrichment culture duration	3 days
[Ref.: #44084]	Enrichment culture temperature	30 ̊C

[Ref.: #64987]	Sample type/isolated from	surface-sterilized stem tissue of the Jatropha curcas L. cultivar (‘B1-2')
[Ref.: #64987]	Geographic location (country and/or sea, region)	Agrotechnology Experimental Station (1° 26' 12'' N 103° 42' 34'' E)
[Ref.: #64987]	Country	Singapore
[Ref.: #64987]	Country ISO 3 Code	SGP
[Ref.: #64987]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Shrub (Scrub)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

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

[Ref.: #64987]

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.: #64987]	Sphingomonas jatrophae strain S5-249 16S ribosomal RNA gene, partial sequence	JQ660172	1412	GenBank ENA	1166337 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sphingomonas jatrophae S5-249	GCA_900113315	contig	GenBank ENA	1166337 tax ID	*
[Ref.: #66792]	Sphingomonas jatrophae S5-249	2654588199	draft	JGI IMG/M	1166337 tax ID	*

[Ref.: #44084]	GC-content	68.5 mol%	genome sequence analysis
[Ref.: #64987]	GC-content	66.9 mol%	sequence analysis

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

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Sphingomonas jatrophae S5-249 NCBI: GCA_900113315
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	96.7
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	73.2
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	98.1
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	98

Availability in culture collections External links

[Ref.: #64987]

Culture collection no.

DSM 27345, KACC 17593

[Ref.: #96875]

SI-ID 405139

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingomonas jatrophae sp. nov. and Sphingomonas carotinifaciens sp. nov., two yellow-pigmented endophytes isolated from stem tissues of Jatropha curcas L.	Madhaiyan M, Alex THH, Cho H, Kim SJ, Weon HY, Kwon SW, Whitman WB, Ji L	Int J Syst Evol Microbiol	10.1099/ijsem.0.002434	2017	*
Phylogeny	Sphingomonas montanisoli sp. nov., isolated from mountain soil.	Xu Z, Zhang Y, Muhammad Y, Wang G	Int J Syst Evol Microbiol	10.1099/ijsem.0.004187	2020	*

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 )

#44084

Munusamy Madhaiyan, Tan Hian Hwee Alex, Hayoung Cho, Soo-Jin Kim, Hang-Yeon Weon, Soon-Wo Kwon, William B. Whitman and Lianghui Ji: Sphingomonas jatrophae sp. nov. and Sphingomonas carotinifaciens sp. nov., two yellow-pigmented endophytes isolated from stem tissues of Jatropha curcas L.. IJSEM 67: 5150 - 5158 2017 ( DOI 10.1099/ijsem.0.002434 , PubMed 29087271 )

#64987

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27345

#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 )

#96875

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-ID405139.1 )

#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 .

* These data were automatically processed and therefore are not curated

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