Name: Haloparvum sedimenti CGMCC 1.14998
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140835

Type strain:

Species: Haloparvum sedimenti

Culture col. no.: CGMCC 1.14998, JCM 30891, Dys DYS4

Strain history: H. Xiang; Inst. of Microbiol., CAS, China; DYS4.

NCBI tax ID(s): 1678448 (species)

Other strains from Haloparvum sedimenti

H. sedimenti JCM 30892, CGMCC 1.15000

Section

Haloparvum sedimenti CGMCC 1.14998 is an aerobe, chemoorganotroph, Gram-negative archaeon that forms circular colonies and was isolated from a rock salt, Jiangcheng Salt Mine.

colony-forming
Gram-negative
pleomorphic-shaped
aerobe
chemoorganotroph
16S sequence
Archaea
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Archaea"
	Phylum	*Methanobacteriota*
	Class	*Halobacteria*
	Order	*Haloferacales*
	Family	*Haloferacaceae*
	Genus	*Haloparvum*
	Species	**Haloparvum sedimenti**
	Full Scientific Name (LPSN)	Haloparvum sedimenti Chen et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43638]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.951

[Ref.: #43638]	Cell length	0.6-0.8 µm

[Ref.: #43638]	Cell width	0.3-0.4 µm

[Ref.: #43638]	Cell shape	pleomorphic-shaped

[Ref.: #43638]	Motility	no

[Ref.: #43638]	Colony size	1 mm
[Ref.: #43638]	Colony color	Light-red
[Ref.: #43638]	Colony shape	circular
[Ref.: #43638]	Incubation period	14-21 days
[Ref.: #43638]	Cultivation medium used	CM agar plates

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43638]

Culture medium

CM agar plates

[Ref.: #43638]

Culture medium growth

		Temperature
[Ref.: #43638]	growth	25-50 °C
[Ref.: #43638]	optimum	42-45 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #43638]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43638]			optimum	7.5
[Ref.: #43638]			growth	6.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43638]

Oxygen tolerance

aerobe

[Ref.: #43638]

Nutrition type

chemoorganotroph

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.984

[Ref.: #43638]

Halophily / tolerance level

halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43638]		NaCl		growth	1.7-5.1	M
[Ref.: #43638]		NaCl		optimum	3.4	M

[Ref.: #43638]

Observation

lyse in distilled water

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43638]	casein	-	hydrolysis
[Ref.: #43638]	citrate ChEBI	-	carbon source
[Ref.: #43638]	citrate ChEBI	-	energy source
[Ref.: #43638]	D-fructose ChEBI	+	carbon source
[Ref.: #43638]	D-fructose ChEBI	+	energy source
[Ref.: #43638]	D-glucose ChEBI	+	carbon source
[Ref.: #43638]	D-glucose ChEBI	+	energy source
[Ref.: #43638]	D-mannitol ChEBI	-	carbon source
[Ref.: #43638]	D-mannitol ChEBI	-	energy source
[Ref.: #43638]	D-mannose ChEBI	+	carbon source
[Ref.: #43638]	D-mannose ChEBI	+	energy source
[Ref.: #43638]	D-xylose ChEBI	+	carbon source
[Ref.: #43638]	D-xylose ChEBI	+	energy source
[Ref.: #43638]	gelatin ChEBI	-	hydrolysis
[Ref.: #43638]	glycerol ChEBI	-	carbon source
[Ref.: #43638]	glycerol ChEBI	-	energy source
[Ref.: #43638]	glycine ChEBI	-	carbon source
[Ref.: #43638]	glycine ChEBI	-	energy source
[Ref.: #43638]	L-alanine ChEBI	-	carbon source
[Ref.: #43638]	L-alanine ChEBI	-	energy source
[Ref.: #43638]	L-aspartate ChEBI	-	carbon source
[Ref.: #43638]	L-aspartate ChEBI	-	energy source
[Ref.: #43638]	L-glutamate ChEBI	+	carbon source
[Ref.: #43638]	L-glutamate ChEBI	+	energy source
[Ref.: #43638]	L-lysine ChEBI	-	carbon source
[Ref.: #43638]	L-lysine ChEBI	-	energy source
[Ref.: #43638]	L-ornithine ChEBI	+	carbon source
[Ref.: #43638]	L-ornithine ChEBI	+	energy source
[Ref.: #43638]	lactose ChEBI	-	carbon source
[Ref.: #43638]	lactose ChEBI	-	energy source
[Ref.: #43638]	maltose ChEBI	+	carbon source
[Ref.: #43638]	maltose ChEBI	+	energy source
[Ref.: #43638]	nitrate ChEBI	+	reduction
[Ref.: #43638]	pyruvate ChEBI	+	carbon source
[Ref.: #43638]	pyruvate ChEBI	+	energy source
[Ref.: #43638]	starch ChEBI	-	carbon source
[Ref.: #43638]	starch ChEBI	-	energy source
[Ref.: #43638]	starch ChEBI	-	hydrolysis
[Ref.: #43638]	sucrose ChEBI	+	carbon source
[Ref.: #43638]	sucrose ChEBI	+	energy source
[Ref.: #43638]	tween 20 ChEBI	-	hydrolysis
[Ref.: #43638]	tween 40 ChEBI	-	hydrolysis
[Ref.: #43638]	tween 60 ChEBI	-	hydrolysis
[Ref.: #43638]	tween 80 ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43638]	ampicillin ChEBI				yes	10	µg (disc)
[Ref.: #43638]	bacitracin ChEBI				yes	0.04	Unit (disc)
[Ref.: #43638]	chloramphenicol ChEBI				yes	30	µg (disc)
[Ref.: #43638]	ciprofloxacin ChEBI				yes	5	µg (disc)
[Ref.: #43638]	erythromycin ChEBI				yes	15	µg (disc)
[Ref.: #43638]	kanamycin ChEBI				yes	10	µg (disc)
[Ref.: #43638]	neomycin ChEBI				yes	30	µg (disc)
[Ref.: #43638]	norfloxacin ChEBI				yes	10	µg (disc)
[Ref.: #43638]	novobiocin ChEBI	yes	30	µg (disc)
[Ref.: #43638]	penicillin g ChEBI				yes	10	Unit (disc)
[Ref.: #43638]	rifampicin ChEBI	yes	5	µg (disc)
[Ref.: #43638]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #43638]	tetracycline ChEBI				yes	30	µg (disc)
[Ref.: #43638]	vancomycin ChEBI				yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43638]		hydrogen sulfide ChEBI	yes
[Ref.: #43638]		indole ChEBI	no

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #43638]		catalase	+	1.11.1.6
[Ref.: #43638]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #43638]	Sample type/isolated from	a rock salt, Jiangcheng Salt Mine
[Ref.: #43638]	Geographic location (country and/or sea, region)	Yunnan Province
[Ref.: #43638]	Country	China
[Ref.: #43638]	Country ISO 3 Code	CHN
[Ref.: #43638]	Continent	Asia
[Ref.: #43638]	Geographic location	22.6800°/101.6420°

[Ref.: #67770]	Sample type/isolated from	Rock salt of the Jiangcheng Salt Mine
[Ref.: #67770]	Geographic location (country and/or sea, region)	Yunnan Province
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Condition	#Saline	-
#Engineered	#Other	#Mine
#Environmental	#Terrestrial	#Geologic

What are isolation sources categories?

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.: #43638]	16S rRNA (rrnA) gene, partial sequence	KP202830		GenBank
[Ref.: #43638]	16S rRNA (rrnB) gene, partial sequence	KP202831		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Haloparvum sedimenti DYS4	GCA_001462205	scaffold	GenBank	1678448 tax ID

[Ref.: #67770]

GC-content

68.2 mol%

thermal denaturation, midpoint method (Tm)

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: Haloparvum sedimenti DYS4 NCBI: GCA_001462205.1
[Ref.: #69481]	spore-forming	no	60	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Haloparvum sedimenti DYS4 NCBI: GCA_001462205.1
[Ref.: #69480]	flagellated	no	96.775	no
[Ref.: #69480]	gram-positive	no	97.547	no
[Ref.: #69480]	anaerobic	no	95.138	no
[Ref.: #69480]	aerobic	yes	83.201	no
[Ref.: #69480]	halophile	yes	91.339	yes
[Ref.: #69480]	spore-forming	no	95.415	no
[Ref.: #69480]	glucose-util	yes	85.328	no
[Ref.: #69480]	motile	no	82.655	yes
[Ref.: #69480]	thermophile	no	83.262	no
[Ref.: #69480]	glucose-ferment	no	84.448	no

Availability in culture collections External links

[Ref.: #43638]

Culture collection no.

CGMCC 1.14998, JCM 30891, Dys DYS4

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Haloparvum sedimenti gen. nov., sp. nov., a member of the family Haloferacaceae.	Chen S, Liu HC, Zhou J, Xiang H	Int J Syst Evol Microbiol	10.1099/ijsem.0.001033	2016	*
Phylogeny	Haloparvum alkalitolerans sp. nov., alkali-tolerant haloarchaeon isolated from commercial salt.	Kondo Y, Minegishi H, Echigo A, Shimane Y, Kamekura M, Itoh T, Ohkuma M, Tanaka A, Takahashi-Ando N, Fukushima Y, Yoshida Y, Ihara K, Usami R	Int J Syst Evol Microbiol	10.1099/ijsem.0.001513	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 )

#43638

Shaoxing Chen, Hong-Can Liu, Jian Zhou, Hua Xiang: Haloparvum sedimenti gen. nov., sp. nov., a member of the family Haloferacaceae. IJSEM 66: 2327 - 2334 2016 ( DOI 10.1099/ijsem.0.001033 , PubMed 27001607 )

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

#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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Haloparvum sedimenti DYS4

Haloparvum sedimenti DYS4

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