Name: Salinigranum salinum YJ-50-S2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140643

Type strain:

Species: Salinigranum salinum

Strain Designation: YJ-50-S2

Culture col. no.: JCM 30033, CGMCC 1.12572

Strain history: H.-L. Cui; Jiangsu Univ., China; YJ-50-S2.

NCBI tax ID(s): 1364937 (species)

Special Collections

Section

When using BacDive for research please cite our paper

Salinigranum salinum YJ-50-S2 is an anaerobe, Gram-negative, motile archaeon that forms circular colonies and was isolated from sediment sample from Yangjiang marine solar saltern.

colony-forming
Gram-negative
motile
pleomorphic-shaped
anaerobe
16S sequence
Archaea
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Archaea*
	Phylum	*Methanobacteriota*
	Class	*Halobacteria*
	Order	*Halobacteriales*
	Family	*Haloferacaceae*
	Genus	*Salinigranum*
	Species	**Salinigranum salinum**
	Full Scientific Name (LPSN)	Salinigranum salinum Wang et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43079]	Gram stain	negative

[Ref.: #43079]	Cell width	1.0-4.0 µm

[Ref.: #43079]	Cell shape	pleomorphic-shaped

[Ref.: #43079]	Motility	yes

[Ref.: #43079]	Colony color	red
[Ref.: #43079]	Colony shape	circular
[Ref.: #43079]	Cultivation medium used	agar plates

Information on culture and growth conditions Culture and growth conditions

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Culture medium

agar plates

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Culture medium growth

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Culture medium composition

expand / minimize

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Culture medium

NHM liquid medium

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Culture medium growth

		Temperature
[Ref.: #43079]	growth	25-50 °C
[Ref.: #43079]	optimum	37 °C
[Ref.: #67770]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #43079]			optimum	7.5
[Ref.: #43079]			growth	5.0-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43079]

Oxygen tolerance

anaerobe

	Salt		Salt conc.
[Ref.: #43079]	NaCl	optimum	2.6	M
[Ref.: #43079]	NaCl	growth	0.9-4.8	M
[Ref.: #43079]	MgCl2	optimum	0.03	M
[Ref.: #43079]	MgCl2	growth	0-1.0	M

[Ref.: #43079]	Observation	lyse in distilled water
[Ref.: #43079]	Observation	lyse minimal NaCl concentration

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43079]	acetate ChEBI	+	carbon source
[Ref.: #43079]	bromosuccinate ChEBI	-	assimilation
[Ref.: #43079]	casein	-	hydrolysis
[Ref.: #43079]	citrate ChEBI	+	carbon source
[Ref.: #43079]	D-fructose ChEBI	-	assimilation
[Ref.: #43079]	D-galactose ChEBI	-	assimilation
[Ref.: #43079]	D-glucose ChEBI	-	assimilation
[Ref.: #43079]	D-mannitol ChEBI	-	assimilation
[Ref.: #43079]	D-mannose ChEBI	-	assimilation
[Ref.: #43079]	D-ribose ChEBI	-	assimilation
[Ref.: #43079]	D-sorbitol ChEBI	+	carbon source
[Ref.: #43079]	D-xylose ChEBI	-	assimilation
[Ref.: #43079]	dimethyl sulfoxide ChEBI	+	anaerobic growth
[Ref.: #43079]	fumarate ChEBI	-	assimilation
[Ref.: #43079]	gelatin ChEBI	-	hydrolysis
[Ref.: #43079]	glycerol ChEBI	+	carbon source
[Ref.: #43079]	glycine ChEBI	-	assimilation
[Ref.: #43079]	L-alanine ChEBI	-	assimilation
[Ref.: #43079]	L-arginine ChEBI	+	assimilation
[Ref.: #43079]	L-aspartate ChEBI	-	assimilation
[Ref.: #43079]	L-glutamate ChEBI	+	assimilation
[Ref.: #43079]	L-lysine ChEBI	-	assimilation
[Ref.: #43079]	L-ornithine ChEBI	-	assimilation
[Ref.: #43079]	L-sorbose ChEBI	-	assimilation
[Ref.: #43079]	lactate ChEBI	+	carbon source
[Ref.: #43079]	lactose ChEBI	-	assimilation
[Ref.: #43079]	malate ChEBI	-	assimilation
[Ref.: #43079]	maltose ChEBI	-	assimilation
[Ref.: #43079]	nitrate ChEBI	+	reduction
[Ref.: #43079]	nitrate ChEBI	-	builds gas from
[Ref.: #43079]	nitrate ChEBI	+	anaerobic growth
[Ref.: #43079]	pyruvate ChEBI	+	carbon source
[Ref.: #43079]	starch ChEBI	-	hydrolysis
[Ref.: #43079]	starch ChEBI	-	assimilation
[Ref.: #43079]	sucrose ChEBI	+	carbon source
[Ref.: #43079]	tween 80 ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43079]	ampicillin ChEBI				yes	10	µg (disc)
[Ref.: #43079]	bacitracin ChEBI	yes	0.04	Unit (disc)
[Ref.: #43079]	chloramphenicol ChEBI				yes	30	µg (disc)
[Ref.: #43079]	ciprofloxacin ChEBI	yes	5	µg (disc)
[Ref.: #43079]	erythromycin ChEBI				yes	15	µg (disc)
[Ref.: #43079]	gentamicin ChEBI				yes	10	µg (disc)
[Ref.: #43079]	kanamycin ChEBI				yes	30	µg (disc)
[Ref.: #43079]	nalidixic acid ChEBI				yes	30	µg (disc)
[Ref.: #43079]	neomycin ChEBI				yes	30	µg (disc)
[Ref.: #43079]	nitrofurantoin ChEBI	yes	300	µg (disc)
[Ref.: #43079]	norfloxacin ChEBI	yes	10	µg (disc)
[Ref.: #43079]	novobiocin ChEBI	yes	30	µg (disc)
[Ref.: #43079]	nystatin ChEBI				yes	100	µg (disc)
[Ref.: #43079]	penicillin g ChEBI				yes	10	Unit (disc)
[Ref.: #43079]	rifampicin ChEBI				yes	5	µg (disc)
[Ref.: #43079]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #43079]	tetracycline ChEBI				yes	30	µg (disc)
[Ref.: #43079]	trimethoprim ChEBI				yes	5	µg (disc)
[Ref.: #43079]	vancomycin ChEBI				yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43079]		hydrogen sulfide ChEBI	yes
[Ref.: #43079]		indole ChEBI	no

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #43079]		catalase	+	1.11.1.6
[Ref.: #43079]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #43079]	Sample type/isolated from	sediment sample from Yangjiang marine solar saltern
[Ref.: #43079]	Sampling date	2012
[Ref.: #43079]	Geographic location (country and/or sea, region)	Guangdong Province, China
[Ref.: #43079]	Country	China
[Ref.: #43079]	Country ISO 3 Code	CHN
[Ref.: #43079]	Continent	Asia
[Ref.: #43079]	Geographic location	21.0000°/111.0000°

[Ref.: #67770]	Sample type/isolated from	Yangjiang marine solar saltern
[Ref.: #67770]	Geographic location (country and/or sea, region)	Guangxi Province
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KC918822 (>99% sequence identity) for Salinigranum salinum subclade from Microbeatlas

Aquatic Samples	417
Soil Samples	53
Animal Samples	1
Plant Samples
Total Samples	471

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.: #43079]	Salinigranum salinum strain YJ-50-S2 16S ribosomal RNA gene, complete sequence	KC918822	1466	GenBank ENA	1364937 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Salinigranum salinum YJ-50-S2	GCA_009176545	contig	GenBank ENA	1364937 tax ID	*

[Ref.: #43079]

GC-content

65.2 mol%

thermal denaturation, midpoint method (Tm)

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Salinigranum salinum YJ-50-S2 NCBI: GCA_009176545.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	76.525	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	65.742	yes
[Ref.: #125438]	aerobic	aerobicⓘ	yes	64.828	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	84.56	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	82.243	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	84.5	no

Availability in culture collections External links

[Ref.: #43079]

Culture collection no.

JCM 30033, CGMCC 1.12572

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Salinigranum halophilum sp. nov., isolated from marine solar salterns.	Zhao YJ, Tao CQ, Zeng CL, Zhu L, Cui HL	Int J Syst Evol Microbiol	10.1099/ijsem.0.003951	2020	*
Phylogeny	Salinigranum salinum sp. nov., isolated from a marine solar saltern.	Wang Z, Xu JQ, Xu WM, Li Y, Zhou Y, Lu ZZ, Hou J, Zhu L, Cui HL	Int J Syst Evol Microbiol	10.1099/ijsem.0.001138	2016	*

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 )

#43079

Zhao Wang, Jia-Qi Xu, Wen-Mei Xu, Yang Li, Yao Zhou, Zhen-Zhen Lü, Jing Hou, Lin Zhu and Heng-Lin Cui: Salinigranum salinum sp. nov., isolated from a marine solar saltern. IJSEM 66: 3017 - 3021 2016 ( DOI 10.1099/ijsem.0.001138 , PubMed 27151192 )

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#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 )

* These data were automatically processed and therefore are not curated

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