Name: Sphingomonas crusticola MIMD3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140980

Type strain:

Species: Sphingomonas crusticola

Strain Designation: MIMD3

Culture col. no.: KCTC 42801, MCCC 1K01310

Strain history: <- Fu Ying Feng, Inner Mongolia agricultural Univ.

NCBI tax ID(s): 1697973 (species)

Section

Sphingomonas crusticola MIMD3 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from biological soil crusts, Liangcheng, north-western China.

colony-forming
Gram-negative
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Sphingomonadales*
	Family	*Sphingomonadaceae*
	Genus	*Sphingomonas*
	Species	**Sphingomonas crusticola**
	Full Scientific Name (LPSN)	Sphingomonas crusticola Zhang et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43869]	Gram stain	negative

[Ref.: #43869]	Cell length	1.07-1.46 µm

[Ref.: #43869]	Cell width	0.62-0.75 µm

[Ref.: #43869]	Cell shape	rod-shaped

[Ref.: #43869]	Colony color	yellow
[Ref.: #43869]	Colony shape	circular
[Ref.: #43869]	Cultivation medium used	R2A agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43869]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #43869]

Culture medium growth

		Temperature
[Ref.: #43869]	growth	10-37 °C
[Ref.: #43869]	optimum	25 °C
[Ref.: #67771]	growth	28 °C

[Ref.: #43869]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43869]			optimum	6.6
[Ref.: #43869]			growth	5-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43869]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43869]		NaCl		growth	0-1	%(w/v)
[Ref.: #43869]		NaCl		optimum	0	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43869]	cellobiose ChEBI	+/-	carbon source
[Ref.: #43869]	D-fructose ChEBI	+	carbon source
[Ref.: #43869]	D-galactose ChEBI	+	carbon source
[Ref.: #43869]	D-glucose ChEBI	-	assimilation
[Ref.: #43869]	D-glucose ChEBI	+/-	carbon source
[Ref.: #43869]	D-mannose ChEBI	+/-	assimilation
[Ref.: #43869]	D-xylose ChEBI	+	carbon source
[Ref.: #43869]	esculin ChEBI	+	carbon source
[Ref.: #43869]	gluconate ChEBI	+	assimilation
[Ref.: #43869]	L-arabinose ChEBI	-	assimilation
[Ref.: #43869]	L-arabinose ChEBI	+	assimilation
[Ref.: #43869]	L-rhamnose ChEBI	+	carbon source
[Ref.: #43869]	maltose ChEBI	+	assimilation
[Ref.: #43869]	nitrate ChEBI	+	reduction
[Ref.: #43869]	salicin ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43869]	ampicillin ChEBI	yes	10	µg (disc)
[Ref.: #43869]	carbenicillin ChEBI	yes	100	µg (disc)
[Ref.: #43869]	cefoperazone ChEBI	yes	75	µg (disc)
[Ref.: #43869]	ceftriaxone ChEBI				yes	30	µg (disc)
[Ref.: #43869]	cephalexin ChEBI	yes	30	µg (disc)
[Ref.: #43869]	chloramphenicol ChEBI				yes	30	µg (disc)
[Ref.: #43869]	ciprofloxacin ChEBI	yes	5	µg (disc)
[Ref.: #43869]	clindamycin ChEBI	yes	2	µg (disc)
[Ref.: #43869]	doxycycline ChEBI				yes	30	µg (disc)
[Ref.: #43869]	erythromycin ChEBI	yes	15	µg (disc)
[Ref.: #43869]	furazolidone ChEBI	yes	100	µg (disc)
[Ref.: #43869]	gentamicin ChEBI				yes	10	µg (disc)
[Ref.: #43869]	kanamycin ChEBI				yes	30	µg (disc)
[Ref.: #43869]	lincomycin ChEBI	yes	2	µg (disc)
[Ref.: #43869]	metronidazole ChEBI	yes	5	µg (disc)
[Ref.: #43869]	minocycline ChEBI	yes	30	µg (disc)
[Ref.: #43869]	neomycin ChEBI				yes	30	µg (disc)
[Ref.: #43869]	norfloxacin ChEBI	yes	10	µg (disc)
[Ref.: #43869]	ofloxacin ChEBI	yes	5	µg (disc)
[Ref.: #43869]	oxacillin ChEBI	yes	1	µg (disc)
[Ref.: #43869]	penicillin g ChEBI	yes	10	Unit (disc)
[Ref.: #43869]	piperacillin ChEBI	yes	100	µg (disc)
[Ref.: #43869]	polymyxin b ChEBI				yes	300	Unit (disc)
[Ref.: #43869]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #43869]	tetracycline ChEBI				yes	30	µg (disc)
[Ref.: #43869]	vancomycin ChEBI				yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Group ID of combined antibiotics	Metabolite	Antibiotic resistance	Concentration
[Ref.: #43869]		26	sulfamethoxazole ChEBI	yes	25	µg (disc)
[Ref.: #43869]		26	trimethoprim ChEBI	yes	25	µg (disc)

	Enzyme	Enzyme activity	EC number
[Ref.: #43869]	alpha-galactosidase	+	3.2.1.22
[Ref.: #43869]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43869]	beta-galactosidase	+	3.2.1.23
[Ref.: #43869]	beta-glucuronidase	+	3.2.1.31
[Ref.: #43869]	catalase	-	1.11.1.6
[Ref.: #43869]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43869]	N-acetyl-beta-glucosaminidase	+	3.2.1.52

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

[Ref.: #43869]	Sample type/isolated from	biological soil crusts, Liangcheng, north-western China
[Ref.: #43869]	Geographic location (country and/or sea, region)	Liangcheng
[Ref.: #43869]	Country	China
[Ref.: #43869]	Country ISO 3 Code	CHN
[Ref.: #43869]	Continent	Asia
[Ref.: #43869]	Enrichment culture	R2A agar
[Ref.: #43869]	Enrichment culture duration	1 wwek
[Ref.: #43869]	Enrichment culture temperature	25 ̊C

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

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT346426 (>99% sequence identity) for Sphingomonas crusticola subclade from Microbeatlas

Aquatic Samples	202
Soil Samples	503
Animal Samples	263
Plant Samples	179
Total Samples	1147

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.: #43869]	16S rRNA gene sequence	KT346426		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sphingomonas crusticola MIMD3	GCA_003391115	contig	GenBank	1697973 tax ID	*
[Ref.: #66792]	Sphingomonas crusticola MIMD3	2882589829	draft	JGI IMG/M	1697973 tax ID	*

[Ref.: #43869]

GC-content

65 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #43869]

Culture collection no.

KCTC 42801, MCCC 1K01310

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingomonas crusticola sp. nov., isolated from biological soil crusts.	Zhang K, Tang K, Feng F, Yuan B, Zhang X, Meng J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002074	2017	*

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 )

#43869

Kaishuai Zhang, Kai Tang, Fuying Feng, Bo Yuan, Xiaojun Zhang, Jianyu Meng: Sphingomonas crusticola sp. nov., isolated from biological soil crusts. IJSEM 67: 3033 - 3037 2017 ( DOI 10.1099/ijsem.0.002074 , PubMed 28837005 )

#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 .

* These data were automatically processed and therefore are not curated

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