Name: Halobellus limi TBN53
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 133720

Type strain:

Species: Halobellus limi

Strain Designation: TBN53

Culture col. no.: CGMCC 1.10331, JCM 16811

Strain history: H.-L. Cui TBN53.

NCBI tax ID(s): 699433 (species)

Special Collections

Section

Halobellus limi TBN53 is an aerobe, Gram-negative, motile archaeon that was isolated from marine sediment.

Gram-negative
motile
ovoid-shaped
aerobe
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	*Halobellus*
	Species	**Halobellus limi**
	Full Scientific Name (LPSN)	Halobellus limi Cui et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30271]	Gram stain	negative

[Ref.: #30271]	Cell shape	ovoid-shaped

[Ref.: #30271]	Motility	yes

[Ref.: #30271]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #30271]	growth	25-55 °C
[Ref.: #30271]	optimum	45 °C
[Ref.: #67770]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #30271]			optimum	7
[Ref.: #30271]			growth	5.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30271]

Oxygen tolerance

aerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30271]		NaCl		growth	8.12-29.58	%
[Ref.: #30271]		NaCl		optimum	17.40	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30271]	alanine ChEBI	+	carbon source
[Ref.: #30271]	galactose ChEBI	+	carbon source
[Ref.: #30271]	glucose ChEBI	+	carbon source
[Ref.: #30271]	glutamate ChEBI	+	carbon source
[Ref.: #30271]	glycerol ChEBI	+	carbon source
[Ref.: #30271]	glycine ChEBI	+	carbon source
[Ref.: #30271]	lactate ChEBI	+	carbon source
[Ref.: #30271]	lactose ChEBI	+	carbon source
[Ref.: #30271]	maltose ChEBI	+	carbon source
[Ref.: #30271]	mannitol ChEBI	+	carbon source
[Ref.: #30271]	mannose ChEBI	+	carbon source
[Ref.: #30271]	nitrate ChEBI	+	reduction
[Ref.: #30271]	pyruvate ChEBI	+	carbon source
[Ref.: #30271]	sorbitol ChEBI	+	carbon source
[Ref.: #30271]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #30271]		hydrogen sulfide ChEBI	yes

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30271]		catalase	+	1.11.1.6
[Ref.: #30271]		cytochrome oxidase	+	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	molybdenum cofactor biosynthesis	100	9 of 9
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	cyanate degradation	100	3 of 3
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	phenylmercury acetate degradation	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	87.5	7 of 8
[Ref.: #66794]	palmitate biosynthesis	86.36	19 of 22
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	ethylmalonyl-CoA pathway	80	4 of 5
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	gallate degradation	80	4 of 5
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	factor 420 biosynthesis	80	4 of 5
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	leucine metabolism	76.92	10 of 13
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	gluconeogenesis	75	6 of 8
[Ref.: #66794]	glutamate and glutamine metabolism	75	21 of 28
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	non-pathway related	73.68	28 of 38
[Ref.: #66794]	methionine metabolism	73.08	19 of 26
[Ref.: #66794]	proline metabolism	72.73	8 of 11
[Ref.: #66794]	histidine metabolism	72.41	21 of 29
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	photosynthesis	71.43	10 of 14
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	lipid metabolism	70.97	22 of 31
[Ref.: #66794]	vitamin B12 metabolism	70.59	24 of 34
[Ref.: #66794]	myo-inositol biosynthesis	70	7 of 10
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	lysine metabolism	66.67	28 of 42
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	pantothenate biosynthesis	66.67	4 of 6
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	alanine metabolism	65.52	19 of 29
[Ref.: #66794]	citric acid cycle	64.29	9 of 14
[Ref.: #66794]	oxidative phosphorylation	63.74	58 of 91
[Ref.: #66794]	carotenoid biosynthesis	63.64	14 of 22
[Ref.: #66794]	pentose phosphate pathway	63.64	7 of 11
[Ref.: #66794]	sulfate reduction	61.54	8 of 13
[Ref.: #66794]	NAD metabolism	61.11	11 of 18
[Ref.: #66794]	tryptophan metabolism	60.53	23 of 38
[Ref.: #66794]	3-chlorocatechol degradation	60	3 of 5
[Ref.: #66794]	3-phenylpropionate degradation	60	9 of 15
[Ref.: #66794]	phenylacetate degradation (aerobic)	60	3 of 5
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	phenol degradation	60	12 of 20
[Ref.: #66794]	creatinine degradation	60	3 of 5
[Ref.: #66794]	arginine metabolism	58.33	14 of 24
[Ref.: #66794]	degradation of pentoses	57.14	16 of 28
[Ref.: #66794]	heme metabolism	57.14	8 of 14
[Ref.: #66794]	androgen and estrogen metabolism	56.25	9 of 16
[Ref.: #66794]	degradation of sugar alcohols	56.25	9 of 16
[Ref.: #66794]	degradation of sugar acids	56	14 of 25
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	degradation of hexoses	55.56	10 of 18
[Ref.: #66794]	glutathione metabolism	50	7 of 14
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	ascorbate metabolism	50	11 of 22
[Ref.: #66794]	tyrosine metabolism	50	7 of 14
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	resorcinol degradation	50	1 of 2
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	50	1 of 2
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	46.15	6 of 13
[Ref.: #66794]	arachidonic acid metabolism	44.44	8 of 18
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	4-hydroxymandelate degradation	44.44	4 of 9
[Ref.: #66794]	mevalonate metabolism	42.86	3 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	42.86	6 of 14
[Ref.: #66794]	D-cycloserine biosynthesis	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	glycine betaine biosynthesis	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	cholesterol biosynthesis	36.36	4 of 11
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
[Ref.: #66794]	polyamine pathway	34.78	8 of 23
[Ref.: #66794]	isoprenoid biosynthesis	34.62	9 of 26
[Ref.: #66794]	methane metabolism	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	methanogenesis from CO2	33.33	4 of 12
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	chlorophyll metabolism	27.78	5 of 18
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	vitamin E metabolism	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	butanoate fermentation	25	1 of 4
[Ref.: #66794]	sulfopterin metabolism	25	1 of 4
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #30271]	Sample type/isolated from	marine sediment

[Ref.: #67770]	Sample type/isolated from	Taibei marine solar saltern near Lianyungang City
[Ref.: #67770]	Geographic location (country and/or sea, region)	Jiangsu
[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 GU208828 (>99% sequence identity) for Halobellus from Microbeatlas

Aquatic Samples	1
Soil Samples	2
Animal Samples
Plant Samples
Total Samples	3

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.: #30271]	Halobellus limi strain TBN53 16S ribosomal RNA gene, complete sequence	GU208828	1472	GenBank ENA	699433 tax ID
[Ref.: #124043]	Halobellus limi gene for 16S ribosomal RNA, partial sequence.	AB771429	1475	GenBank ENA	699433 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Halobellus limi CGMCC 1.10331	GCA_900108165	scaffold	GenBank ENA	699433 tax ID
[Ref.: #66792]	Halobellus limi CGMCC 1.10331	GCA_004799685	complete	GenBank ENA	699433 tax ID	*
[Ref.: #66792]	Halobellus limi CGMCC 1.10331	2619618869	draft	JGI IMG/M	699433 tax ID	*
[Ref.: #66792]	Halobellus limi CGMCC 1.10331	2914819717	complete	JGI IMG/M	699433 tax ID	*
[Ref.: #66792]	Halobellus limi strain CGMCC 1.10331	699433.4	wgs	PATRIC	699433 tax ID	*
[Ref.: #66792]	Halobellus limi strain CGMCC 1.10331	699433.8	complete	PATRIC	699433 tax ID	*

[Ref.: #30271]	GC-content	69.2 mol%
[Ref.: #67770]	GC-content	69.2 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Halobellus limi CGMCC 1.10331 NCBI: GCA_004799685.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halobellus limi CGMCC 1.10331 NCBI: GCA_004799685.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	76.733	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	81.48	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	75.629	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	87.499	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	81.681	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	82.5	no

Availability in culture collections External links

[Ref.: #30271]

Culture collection no.

CGMCC 1.10331, JCM 16811

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halobellus ramosii sp. nov., an extremely halophilic archaeon isolated from a saline-wetland wildfowl reserve.	Perez-Davo A, Aguilera M, Gonzalez-Paredes A, Lujan Jimenez-Pranteda M, Monteoliva-Sanchez M	Int J Syst Evol Microbiol	10.1099/ijsem.0.000503	2015	*
Phylogeny	Halobellus rarus sp. nov., a halophilic archaeon from an inland salt lake of China.	Zhang WJ, Han D, Qiu XX, Zhao ML, Mou YZ, Cui HL, Li ZR	Antonie Van Leeuwenhoek	10.1007/s10482-013-9960-y	2013	*
Phylogeny	Halobellus limi sp. nov. and Halobellus salinus sp. nov., isolated from two marine solar salterns.	Cui HL, Yang X, Zhou YG, Liu HC, Zhou PJ, Dyall-Smith ML	Int J Syst Evol Microbiol	10.1099/ijs.0.032169-0	2012	*

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 )

#30271

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26612 (see below)

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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 .

#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 )

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

#26612

IJSEM 1307 2012 ( DOI 10.1099/ijs.0.032169-0 , PubMed 22661071 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Halobellus limi in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Halobellus limi CGMCC 1.10331

Halobellus limi CGMCC 1.10331

Change proposal

Change proposal