Name: Sphingobacterium alkalisoli Y3L14
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140595

Type strain:

Species: Sphingobacterium alkalisoli

Strain Designation: Y3L14

Culture col. no.: CGMCC 1.15782, KCTC 52379

Strain history: <- SUN, Ji-Quan, Peking Univ.

NCBI tax ID(s): 1874115 (species)

Section

Sphingobacterium alkalisoli Y3L14 is an obligate aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from saline-alkaline soil collected from a farmland.

colony-forming
Gram-negative
rod-shaped
mesophilic
obligate 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	*Bacteroidota*
	Class	*Sphingobacteriia*
	Order	*Sphingobacteriales*
	Family	*Sphingobacteriaceae*
	Genus	*Sphingobacterium*
	Species	**Sphingobacterium alkalisoli**
	Full Scientific Name (LPSN)	Sphingobacterium alkalisoli Xu et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43249]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.989

[Ref.: #43249]	Cell length	1.0-1.6 µm

[Ref.: #43249]	Cell width	0.5-0.6 µm

[Ref.: #43249]	Cell shape	rod-shaped

[Ref.: #43249]	Motility	no

[Ref.: #43249]	Colony size	3-4 mm
[Ref.: #43249]	Colony color	yellow
[Ref.: #43249]	Colony shape	circular
[Ref.: #43249]	Incubation period	2 days
[Ref.: #43249]	Cultivation medium used	LB

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43249]

Culture medium

LB (Luria-Bertani) MEDIUM

[Ref.: #43249]

Culture medium growth

		Temperature
[Ref.: #43249]	optimum	30 °C
[Ref.: #43249]	growth	10-40 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #43249]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43249]			optimum	8
[Ref.: #43249]			growth	6.0-10.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43249]	Oxygen tolerance	obligate aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #43249]	Type of spore	spore
[Ref.: #43249]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43249]		NaCl		growth	0-6.0	%(w/v)
[Ref.: #43249]		NaCl		optimum	0-2.0	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43249]	acetate ChEBI	-	assimilation
[Ref.: #43249]	adipate ChEBI	-	assimilation
[Ref.: #43249]	aspartate ChEBI	-	assimilation
[Ref.: #43249]	butanol ChEBI	-	assimilation
[Ref.: #43249]	cellulose ChEBI	-	hydrolysis
[Ref.: #43249]	creatine ChEBI	-	assimilation
[Ref.: #43249]	D-fructose ChEBI	+	assimilation
[Ref.: #43249]	D-glucose ChEBI	+	assimilation
[Ref.: #43249]	D-mannose ChEBI	+	assimilation
[Ref.: #43249]	D-xylose ChEBI	+	assimilation
[Ref.: #43249]	decanoate ChEBI	-	assimilation
[Ref.: #43249]	esculin ChEBI	+	hydrolysis
[Ref.: #43249]	ethanol ChEBI	+	assimilation
[Ref.: #43249]	gelatin ChEBI	-	hydrolysis
[Ref.: #43249]	glucose ChEBI	+	fermentation
[Ref.: #43249]	L-arginine ChEBI	-	assimilation
[Ref.: #43249]	L-glutamate ChEBI	-	assimilation
[Ref.: #43249]	L-leucine ChEBI	-	assimilation
[Ref.: #43249]	L-malate ChEBI	-	assimilation
[Ref.: #43249]	L-phenylalanine ChEBI	+	assimilation
[Ref.: #43249]	L-proline ChEBI	+	assimilation
[Ref.: #43249]	L-rhamnose ChEBI	+	assimilation
[Ref.: #43249]	L-serine ChEBI	+	assimilation
[Ref.: #43249]	lactose ChEBI	+	assimilation
[Ref.: #43249]	malonate ChEBI	-	assimilation
[Ref.: #43249]	maltose ChEBI	+	assimilation
[Ref.: #43249]	methanol ChEBI	-	assimilation
[Ref.: #43249]	myo-inositol ChEBI	+	assimilation
[Ref.: #43249]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #43249]	nitrate ChEBI	-	reduction
[Ref.: #43249]	phenylacetate ChEBI	-	assimilation
[Ref.: #43249]	potassium gluconate ChEBI	-	assimilation
[Ref.: #43249]	sodium citrate ChEBI	-	assimilation
[Ref.: #43249]	starch ChEBI	+	hydrolysis
[Ref.: #43249]	sucrose ChEBI	+	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43249]	amoxicillin ChEBI				yes	10	µg (disc)
[Ref.: #43249]	ampicillin ChEBI	yes	10	µg (disc)
[Ref.: #43249]	bacitracin ChEBI				yes	0.04	Unit
[Ref.: #43249]	carbenicillin ChEBI	yes	100	µg (disc)
[Ref.: #43249]	cephradine ChEBI	yes	30	µg (disc)
[Ref.: #43249]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #43249]	erythromycin ChEBI	yes	15	µg (disc)
[Ref.: #43249]	gentamicin ChEBI	yes	10	µg (disc)
[Ref.: #43249]	kanamycin ChEBI				yes	30	µg (disc)
[Ref.: #43249]	lincomycin ChEBI	yes	2	µg (disc)
[Ref.: #43249]	novobiocin ChEBI	yes	30	µg (disc)
[Ref.: #43249]	penicillin g ChEBI	yes	10	Unit
[Ref.: #43249]	polymyxin ChEBI				yes	300	Unit
[Ref.: #43249]	rifampicin ChEBI	yes	5	µg (disc)
[Ref.: #43249]	roxithromycin ChEBI	yes	15	µg (disc)
[Ref.: #43249]	spectinomycin ChEBI	yes	100	µg (disc)
[Ref.: #43249]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #43249]	tetracycline ChEBI	yes	30	µg (disc)
[Ref.: #43249]	trimethoprim ChEBI	yes	5	µg (disc)
[Ref.: #43249]	vancomycin ChEBI	yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43249]		acetoin ChEBI	yes
[Ref.: #43249]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #43249]		acetoin ChEBI	+
[Ref.: #43249]		glucose ChEBI		+

	Enzyme	Enzyme activity	EC number
[Ref.: #43249]	acid phosphatase	+	3.1.3.2
[Ref.: #43249]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43249]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #43249]	alpha-fucosidase	+	3.2.1.51
[Ref.: #43249]	alpha-galactosidase	+	3.2.1.22
[Ref.: #43249]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43249]	alpha-mannosidase	+	3.2.1.24
[Ref.: #43249]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43249]	beta-galactosidase	+	3.2.1.23
[Ref.: #43249]	beta-glucosidase	+	3.2.1.21
[Ref.: #43249]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43249]	catalase	+	1.11.1.6
[Ref.: #43249]	cystine arylamidase	-	3.4.11.3
[Ref.: #43249]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43249]	esterase (C 4)	+
[Ref.: #43249]	esterase Lipase (C 8)	+
[Ref.: #43249]	leucine arylamidase	+	3.4.11.1
[Ref.: #43249]	lipase (C 14)	-
[Ref.: #43249]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43249]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43249]	trypsin	+	3.4.21.4
[Ref.: #43249]	urease	+	3.5.1.5
[Ref.: #43249]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43249]

Fatty acid	Percentage
C15:0 iso	42.7
C16:0	19.1
C17:0 iso 3OH	12.4
C16:1ω7c / C16:1ω6c	6.7
C17:1 iso ω9c / C16:0 10-methyl	4.7
C15:1 iso h / C13:0 3OH	2.8
C15:0 iso 3OH	1.7
C16:0 3OH	1.2

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

[Ref.: #43249]	Sample type/isolated from	saline-alkaline soil collected from a farmland
[Ref.: #43249]	Geographic location (country and/or sea, region)	Hangjin Banner, Ordors, Inner Mongolia, northern China
[Ref.: #43249]	Country	China
[Ref.: #43249]	Country ISO 3 Code	CHN
[Ref.: #43249]	Continent	Asia
[Ref.: #43249]	Geographic location	40.0000°/107.0000°

[Ref.: #67771]	Sample type/isolated from	From saline-alkaline soil, Farmland soil
[Ref.: #67771]	Geographic location (country and/or sea, region)	Ordos, Inner Mongolia
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Condition	#Alkaline	-
#Condition	#Saline	-
#Engineered	#Agriculture	-
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KX265579 (>99% sequence identity) for Sphingobacterium alkalisoli subclade from Microbeatlas

Aquatic Samples	389
Soil Samples	979
Animal Samples	782
Plant Samples	401
Total Samples	2551

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.: #43249]	16S rRNA gene sequences	KX265579	1489	ENA	1874115 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sphingobacterium alkalisoli Y3L14	GCA_005049105	scaffold	GenBank	1874115 tax ID	*
[Ref.: #66792]	Sphingobacterium alkalisoli CGMCC 1.15782	GCA_014643675	scaffold	GenBank	1874115 tax ID	*
[Ref.: #66792]	Sphingobacterium alkalisoli strain CGMCC 1.15782	1874115.4	wgs	PATRIC	1874115 tax ID	*
[Ref.: #66792]	Sphingobacterium alkalisoli Y3L14	2898716849	draft	JGI IMG/M	1874115 tax ID	*

[Ref.: #43249]

GC-content

36 mol%

Thermal denaturation, fluorometry

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: Sphingobacterium alkalisoli Y3L14 NCBI: GCA_005049105.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Sphingobacterium alkalisoli Y3L14 NCBI: GCA_005049105.1
[Ref.: #69480]	motile	no	91.031	yes
[Ref.: #69480]	flagellated	no	96.908	yes
[Ref.: #69480]	gram-positive	no	98.158	yes
[Ref.: #69480]	anaerobic	no	98.577	no
[Ref.: #69480]	aerobic	yes	85.155	yes
[Ref.: #69480]	halophile	no	93.429	no
[Ref.: #69480]	spore-forming	no	95.969	no
[Ref.: #69480]	glucose-util	yes	91.175	yes
[Ref.: #69480]	thermophile	no	99.296	no
[Ref.: #69480]	glucose-ferment	no	88.154	no

Availability in culture collections External links

[Ref.: #43249]

Culture collection no.

CGMCC 1.15782, KCTC 52379

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingobacterium olei sp. nov., isolated from oil-contaminated soil.	Liu B, Yang X, Sheng M, Yang Z, Qiu J, Wang C, He J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004000	2020	*
Phylogeny	Sphingobacterium alkalisoli sp. nov., isolated from a saline-alkaline soil.	Xu L, Sun JQ, Wang LJ, Gao ZW, Sun LZ, Wu XL	Int J Syst Evol Microbiol	10.1099/ijsem.0.001895	2017	*
Phylogeny	Sphingobacterium pedocola sp. nov. a novel halotolerant bacterium isolated from agricultural soil.	Toth A, Bata-Vidacs I, Kosztik J, Mate R, Kutasi J, Toth E, Boka K, Tancsics A, Nagy I, Kovacs G, Kukolya J	Antonie Van Leeuwenhoek	10.1007/s10482-021-01623-6	2021	*
Phylogeny	Sphingobacterium lumbrici sp. nov., a novel bacterium isolated from wormcast of Eisenia foetida.	Zhang XF, Shi R, Chen M, Zhou XK, Wei YQ, Cha QY, Li N, Su YX, Ma L, Mo MH, Cao Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.004823	2021	*

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 )

#43249

Lian Xu, Ji-Quan Sun, Li-Juan Wang, Zhi-Wei Gao, Li-Zhu Sun and Xiao-Lei Wu: Sphingobacterium alkalisoli sp. nov., isolated from a saline-alkaline soil. IJSEM 67: 1943 - 1948 2017 ( DOI 10.1099/ijsem.0.001895 , PubMed 28629491 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

* These data were automatically processed and therefore are not curated

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