Name: Halofilum ochraceum XJ16
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133412

Type strain:

Species: Halofilum ochraceum

Strain Designation: XJ16

Culture col. no.: KCTC 42259, MCCC 1H00120, CICC 23817

NCBI tax ID(s): 1611323 (species)

Section

Halofilum ochraceum XJ16 is a facultative anaerobe, halophilic, chemoheterotroph bacterium that was isolated from sediment samples from marine solar saltern.

Gram-negative
rod-shaped
chemoheterotroph
facultative anaerobe
halophilic
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	*Gammaproteobacteria*
	Order	*Chromatiales*
	Family	*Ectothiorhodospiraceae*
	Genus	*Halofilum*
	Species	**Halofilum ochraceum**
	Full Scientific Name (LPSN)	Halofilum ochraceum Xia et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #25265]	Gram stain	negative

[Ref.: #25265]	Cell length	2.0-10.0 µm

[Ref.: #25265]	Cell width	0.4-0.6 µm

[Ref.: #25265]	Cell shape	rod-shaped

[Ref.: #25265]	Motility	no

[Ref.: #25265]	Colony size	0.5 mm
[Ref.: #25265]	Colony color	ochre
[Ref.: #25265]	Incubation period	4 days
[Ref.: #25265]	Cultivation medium used	modified marine agar (modified MA)

Information on culture and growth conditions Culture and growth conditions

[Ref.: #25265]

Culture medium

modified marine agar (modified MA)

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #25265]			growth	20-45 °C
[Ref.: #25265]			optimum	33-37 °C

[Ref.: #25265]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #25265]			optimum	7.5-8.0
[Ref.: #25265]			growth	6.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #25265]

Oxygen tolerance

facultative anaerobe

[Ref.: #25265]

Nutrition type

chemoheterotroph

[Ref.: #25265]

Halophily / tolerance level

halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #25265]		NaCl		growth	2-20	%(w/v)
[Ref.: #25265]		NaCl		optimum	8-10	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #25265]	acetoacetate ChEBI	+	oxidation
[Ref.: #25265]	arbutin ChEBI	+	builds acid from
[Ref.: #25265]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #25265]	casein	-	hydrolysis
[Ref.: #25265]	cellobiose ChEBI	+	builds acid from
[Ref.: #25265]	D-arabinose ChEBI	+	builds acid from
[Ref.: #25265]	D-fructose ChEBI	+	builds acid from
[Ref.: #25265]	D-fructose 6-phosphate ChEBI	+	oxidation
[Ref.: #25265]	D-galactose ChEBI	+	builds acid from
[Ref.: #25265]	D-galacturonic acid ChEBI	+	oxidation
[Ref.: #25265]	D-glucose ChEBI	+	builds acid from
[Ref.: #25265]	D-glucuronate ChEBI	+	oxidation
[Ref.: #25265]	D-mannose ChEBI	+	builds acid from
[Ref.: #25265]	D-ribose ChEBI	+	builds acid from
[Ref.: #25265]	D-sorbitol ChEBI	+	builds acid from
[Ref.: #25265]	D-tagatose ChEBI	+	builds acid from
[Ref.: #25265]	D-xylose ChEBI	+	builds acid from
[Ref.: #25265]	dna ChEBI	-	hydrolysis
[Ref.: #25265]	esculin ChEBI	+	builds acid from
[Ref.: #25265]	gelatin ChEBI	+	hydrolysis
[Ref.: #25265]	gentiobiose ChEBI	+	builds acid from
[Ref.: #25265]	glucose ChEBI	-	fermentation
[Ref.: #25265]	glucose ChEBI	+	fermentation
[Ref.: #25265]	glucuronamide ChEBI	+	oxidation
[Ref.: #25265]	L-arabinose ChEBI	+	builds acid from
[Ref.: #25265]	L-fucose ChEBI	+	builds acid from
[Ref.: #25265]	L-fucose ChEBI	+	oxidation
[Ref.: #25265]	L-rhamnose ChEBI	+	builds acid from
[Ref.: #25265]	L-sorbose ChEBI	+	builds acid from
[Ref.: #25265]	lactose ChEBI	+	builds acid from
[Ref.: #25265]	maltose ChEBI	+	builds acid from
[Ref.: #25265]	melibiose ChEBI	+	builds acid from
[Ref.: #25265]	N-acetylgalactosamine ChEBI	+	builds acid from
[Ref.: #25265]	nitrate ChEBI	+	reduction
[Ref.: #25265]	nitrite ChEBI	-	reduction
[Ref.: #25265]	potassium 2-dehydro-D-gluconate	+	builds acid from
[Ref.: #25265]	potassium 5-dehydro-D-gluconate	+	builds acid from
[Ref.: #25265]	potassium gluconate ChEBI	+	builds acid from
[Ref.: #25265]	salicin ChEBI	+	builds acid from
[Ref.: #25265]	sodium alginate ChEBI	-	hydrolysis
[Ref.: #25265]	starch ChEBI	-	hydrolysis
[Ref.: #25265]	sucrose ChEBI	+	builds acid from
[Ref.: #25265]	trehalose ChEBI	+	builds acid from
[Ref.: #25265]	turanose ChEBI	+	builds acid from
[Ref.: #25265]	turanose ChEBI	+	oxidation
[Ref.: #25265]	tween 80 ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #25265]	acetoin ChEBI	yes
[Ref.: #25265]	hydrogen sulfide ChEBI	no
[Ref.: #25265]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #25265]		acetoin ChEBI	+
[Ref.: #25265]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #25265]	alkaline phosphatase	+	3.1.3.1
[Ref.: #25265]	arginine dihydrolase	+	3.5.3.6
[Ref.: #25265]	beta-glucosidase	+	3.2.1.21
[Ref.: #25265]	catalase	+	1.11.1.6
[Ref.: #25265]	cystine arylamidase	+	3.4.11.3
[Ref.: #25265]	cytochrome oxidase	-	1.9.3.1
[Ref.: #25265]	esterase (C 4)	+
[Ref.: #25265]	esterase Lipase (C 8)	+
[Ref.: #25265]	gelatinase	+
[Ref.: #25265]	leucine arylamidase	+	3.4.11.1
[Ref.: #25265]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #25265]	urease	+	3.5.1.5
[Ref.: #25265]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #25265]

Fatty acid	Percentage
C16:1ω7c / C15:0 2-OH	27.1
C18:0	24.4
10-Methyl C16:0	12.3
C16:0	9.8
C18:1ω7c	8
C12:0	6.3
C17:0 cyclo	4.6
C14:0	3.2
C17:0	2.2

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

[Ref.: #25265]	Sample type/isolated from	sediment samples from marine solar saltern
[Ref.: #25265]	Geographic location (country and/or sea, region)	coast of Weihai, Shandong Province
[Ref.: #25265]	Country	China
[Ref.: #25265]	Country ISO 3 Code	CHN
[Ref.: #25265]	Continent	Asia
[Ref.: #25265]	Geographic location	37.0000°/121.0000°
[Ref.: #25265]	Enrichment culture	modified marine agar 2216 (MA)
[Ref.: #25265]	Enrichment culture composition	sea salt (Sigma) 40 g/l; NaCl 50 g/l; yeast extract 1 g/l; peptone 5 g/l; ferric citrate 0.1 g/l; agar 18 g/l; pH 7.5
[Ref.: #25265]	Enrichment culture duration	5-7 days
[Ref.: #25265]	Enrichment culture temperature	37 ̊C
[Ref.: #25265]	Isolation/enrichment procedure	serial dilution method
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment
#Condition	#Saline	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KP052777 (>99% sequence identity) for Halofilum ochraceum subclade from Microbeatlas

Aquatic Samples	163
Soil Samples	131
Animal Samples	6
Plant Samples	1
Total Samples	301

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.: #25265]	Ectothiorhodospiraceae bacterium XJ16 16S ribosomal RNA gene, partial sequence	KP052777	1463	GenBank	1611323 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halofilum ochraceum XJ16	GCA_001614315	contig	GenBank	1611323 tax ID	*

[Ref.: #25265]

GC-content

65.9 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halofilum ochraceum XJ16 NCBI: GCA_001614315.1
[Ref.: #69480]	flagellated	no	91.632	yes
[Ref.: #69480]	gram-positive	no	99.028	yes
[Ref.: #69480]	anaerobic	no	97.83	yes
[Ref.: #69480]	halophile	yes	90.942	yes
[Ref.: #69480]	spore-forming	no	96.087	no
[Ref.: #69480]	glucose-util	yes	69.018	no
[Ref.: #69480]	motile	no	75.829	no
[Ref.: #69480]	aerobic	yes	66.071	yes
[Ref.: #69480]	thermophile	no	91.614	yes
[Ref.: #69480]	glucose-ferment	no	90.224	no
[Ref.: #69480]	flagellated	no	91.632	yes
[Ref.: #69480]	gram-positive	no	99.028	yes
[Ref.: #69480]	anaerobic	no	97.83	yes
[Ref.: #69480]	aerobic	yes	66.071	yes
[Ref.: #69480]	halophile	yes	90.942	yes
[Ref.: #69480]	spore-forming	no	96.087	no
[Ref.: #69480]	glucose-util	yes	69.018	no
[Ref.: #69480]	motile	no	75.829	no
[Ref.: #69480]	thermophile	no	91.614	yes
[Ref.: #69480]	glucose-ferment	no	90.224	no

Availability in culture collections External links

[Ref.: #25265]

Culture collection no.

KCTC 42259, MCCC 1H00120, CICC 23817

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halofilum ochraceum gen. nov., sp. nov., a gammaproteobacterium isolated from a marine solar saltern.	Xia J, Zhao JX, Sang J, Chen GJ, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001718	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 )

#25265

J. Z. Xia, J. X.,Sang, J.,Chen, G. J.,Du, Z. J.: Halofilum ochraceum gen. nov., sp. nov., a gammaproteobacterium isolated from a marine solar saltern. IJSEM 67: 932 - 938 2017 ( DOI 10.1099/ijsem.0.001718 , PubMed 27930270 )

#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) .

#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) .

* These data were automatically processed and therefore are not curated

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