Sediminibacillus albus (DSM 19340, CGMCC 1.6502, CIP 110033)

Name: Sediminibacillus albus (DSM 19340, CGMCC 1.6502, CIP 110033)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1556

Type strain

Strain Designation NHBX-5, NHBX5

Culture col. no. DSM 19340 CGMCC 1.6502 CIP 110033 NHBX-5 NHBX5

NCBI tax ID(s) 407036

Special Collections DSMZ CIP Literature strains

Links

Sediminibacillus albus NHBX-5 is an aerobe, spore-forming, mesophilic prokaryote that was isolated from sediment of a salt lake.

spore-forming Gram-positive motile rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 363432

CGMCC 1.6502,DSM 19340,CIP 110033

@ref 20215

Last LPSN update 2025-12-16 09:47:08

Domain Bacillati

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Sediminibacillus

Species Sediminibacillus albus

Full scientific name Sediminibacillus albus Wang et al. 2009

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
29021	positive	3 µm	0.5 µm	rod-shaped
116203	positive			rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
8057	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)	Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 100.0 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
37912	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
116203	CIP Medium 72	Medium recipe at CIP
116203	CIP Medium 13	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
8057	positive	growth	30	mesophilic
29021	positive	growth	10-45
29021	positive	optimum	37	mesophilic
37912	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
29021	positive	optimum	7.5
29021	positive	growth	5.5-9.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
29021	aerobe
116203	obligate aerobe
125439	obligate aerobe	95.4

Spore formation

@ref	Spore formation	Confidence
29021
125439		90.6
125438		91.896

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29021	NaCl	positive	growth	0-22 %
29021	NaCl	positive	optimum	7 %

Observation

29021

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29021	22599 ChEBI	arabinose	+	carbon source
29021	17057 ChEBI	cellobiose	+	carbon source
29021	16947 ChEBI	citrate	+	carbon source
29021	4853 ChEBI	esculin	+	hydrolysis
29021	28757 ChEBI	fructose	+	carbon source
29021	28260 ChEBI	galactose	+	carbon source
29021	5291 ChEBI	gelatin	+	carbon source
29021	5417 ChEBI	glucosamine	+	carbon source
29021	17234 ChEBI	glucose	+	carbon source
29021	17754 ChEBI	glycerol	+	carbon source
29021	17716 ChEBI	lactose	+	carbon source
29021	17306 ChEBI	maltose	+	carbon source
29021	29864 ChEBI	mannitol	+	carbon source
29021	37684 ChEBI	mannose	+	carbon source
29021	28053 ChEBI	melibiose	+	carbon source
29021	506227 ChEBI	N-acetylglucosamine	+	carbon source
116203	17632 ChEBI	nitrate	-	reduction
116203	16301 ChEBI	nitrite	-	reduction
29021	26546 ChEBI	rhamnose	+	carbon source
29021	17814 ChEBI	salicin	+	carbon source
29021	27082 ChEBI	trehalose	+	carbon source
29021	53426 ChEBI	tween 80	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite
29021	16136 ChEBI	hydrogen sulfide
29021	35581 ChEBI	indole
116203	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
29021	35581 ChEBI	indole	+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
29021	catalase	+	1.11.1.6
116203	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
29021	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
29021	gelatinase	+
68382	leucine arylamidase	-	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
116203	oxidase	+
68382	trypsin	-	3.4.21.4	from API zym
116203	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	lipoate biosynthesis	100	5 of 5
66794	methylglyoxal degradation	100	5 of 5
66794	aspartate and asparagine metabolism	100	9 of 9
66794	threonine metabolism	100	10 of 10
66794	gluconeogenesis	100	8 of 8
66794	formaldehyde oxidation	100	3 of 3
66794	pentose phosphate pathway	100	11 of 11
66794	ribulose monophosphate pathway	100	2 of 2
66794	vitamin K metabolism	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	adipate degradation	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	teichoic acid biosynthesis	100	1 of 1
66794	palmitate biosynthesis	95.45	21 of 22
66794	flavin biosynthesis	93.33	14 of 15
66794	vitamin B1 metabolism	92.31	12 of 13
66794	starch degradation	90	9 of 10
66794	Entner Doudoroff pathway	90	9 of 10
66794	valine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	photosynthesis	85.71	12 of 14
66794	3-chlorocatechol degradation	80	4 of 5
66794	pyrimidine metabolism	80	36 of 45
66794	purine metabolism	78.72	74 of 94
66794	tetrahydrofolate metabolism	78.57	11 of 14
66794	NAD metabolism	77.78	14 of 18
66794	serine metabolism	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	leucine metabolism	76.92	10 of 13
66794	acetate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	ketogluconate metabolism	75	6 of 8
66794	butanoate fermentation	75	3 of 4
66794	ppGpp biosynthesis	75	3 of 4
66794	glutamate and glutamine metabolism	75	21 of 28
66794	sulfopterin metabolism	75	3 of 4
66794	degradation of sugar alcohols	75	12 of 16
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	heme metabolism	71.43	10 of 14
66794	glycolysis	70.59	12 of 17
66794	enterobactin biosynthesis	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	cyanate degradation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	alanine metabolism	65.52	19 of 29
66794	d-xylose degradation	63.64	7 of 11
66794	metabolism of disaccharids	63.64	7 of 11
66794	arginine metabolism	62.5	15 of 24
66794	isoleucine metabolism	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	degradation of pentoses	60.71	17 of 28
66794	tryptophan metabolism	60.53	23 of 38
66794	non-pathway related	60.53	23 of 38
66794	glycine betaine biosynthesis	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	oxidative phosphorylation	59.34	54 of 91
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	lysine metabolism	57.14	24 of 42
66794	citric acid cycle	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	cysteine metabolism	55.56	10 of 18
66794	d-mannose degradation	55.56	5 of 9
66794	histidine metabolism	55.17	16 of 29
66794	proline metabolism	54.55	6 of 11
66794	methionine metabolism	53.85	14 of 26
66794	degradation of sugar acids	52	13 of 25
66794	lipid metabolism	51.61	16 of 31
66794	glycine metabolism	50	5 of 10
66794	myo-inositol biosynthesis	50	5 of 10
66794	degradation of hexoses	50	9 of 18
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	sphingosine metabolism	50	3 of 6
66794	quinate degradation	50	1 of 2
66794	glycogen biosynthesis	50	2 of 4
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	coenzyme M biosynthesis	50	5 of 10
66794	sulfate reduction	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	ginsenoside metabolism	43.75	7 of 16
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	ascorbate metabolism	40.91	9 of 22
66794	glycogen metabolism	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	carnitine metabolism	37.5	3 of 8
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	glutathione metabolism	35.71	5 of 14
66794	tyrosine metabolism	35.71	5 of 14
66794	polyamine pathway	34.78	8 of 23
66794	IAA biosynthesis	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	octane oxidation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	androgen and estrogen metabolism	31.25	5 of 16
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	reductive acetyl coenzyme A pathway	28.57	2 of 7
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	biotin biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	phenol degradation	25	5 of 20
66794	alginate biosynthesis	25	1 of 4
66794	lipid A biosynthesis	22.22	2 of 9
66794	nitrate assimilation	22.22	2 of 9
66794	4-hydroxymandelate degradation	22.22	2 of 9
66794	vitamin B12 metabolism	20.59	7 of 34

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
116203	-	+	+	-	-	-	-	-	-	-	-	+	-	+	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment
#Condition	#Saline	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
8057	sediment of a salt lake	Qinghai province, Lake Nanhuobuxun	China	CHN	Asia
116203	Environment, Salt lake, sediment	Beijing	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ989634 (>99% sequence identity) for Sediminibacillus albus from Microbeatlas

Aquatic Samples	13
Soil Samples	23
Animal Samples	23
Plant Samples	1
Total Samples	60

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
8057	1	Risk group (German classification) According to TRBA 466
116203	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2675902963 annotated assembly for Sediminibacillus albus CGMCC 1.6502	scaffold	GCA_900101125	407036.4	2675902963	407036	75.79

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
8057	Sediminibacillus albus strain NHBX5 16S ribosomal RNA gene, partial sequence	DQ989634	1478		407036

GC content

@ref	GC-content (mol%)	Method
8057	44.9	thermal denaturation, midpoint method (Tm)
29021	44.9

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Sediminibacillus albus CGMCC 1.6502
NCBI: GCA_900101125

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	90.60	no
125439	motility	BacteriaNetⓘ	yes	88.00	no
125439	gram_stain	BacteriaNetⓘ	variable	87.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Sediminibacillus albus CGMCC 1.6502
NCBI: GCA_900101125.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	84.29	no
125438	anaerobic	anaerobicⓘ	no	97.54	no
125438	aerobic	aerobicⓘ	yes	78.30	yes
125438	spore-forming	spore-formingⓘ	yes	91.90	no
125438	thermophilic	thermophileⓘ	no	94.23	yes
125438	flagellated	motile2+ⓘ	yes	88.45	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sediminibacillus albus sp. nov., a moderately halophilic, Gram-positive bacterium isolated from a hypersaline lake, and emended description of the genus Sediminibacillus Carrasco et al. 2008.	Wang X, Xue Y, Ma Y	Int J Syst Evol Microbiol	10.1099/ijs.0.004234-0	2009

References

#8057	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19340
#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 )
#25451	IJSEM 1640 2009 ( DOI 10.1099/ijs.0.004234-0 , PubMed 19542144 )
#29021	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 #25451
#37912	; Curators of the CIP;
#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 )
#68382	Automatically annotated from API zym .
#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 .
#116203	Collection of Institut Pasteur ; Curators of the CIP; CIP 110033
#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 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Sediminibacillus albus (DSM 19340, CGMCC 1.6502, CIP 110033)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900101125

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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