Halalkalibacterium halodurans (DSM 497, ATCC 27557, NRRL B-3881)

Name: Halalkalibacterium halodurans (DSM 497, ATCC 27557, NRRL B-3881)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1112

Type strain

Strain Designation PN 80, B-3881

Culture col. no. DSM 497 ATCC 27557 NRRL B-3881 PN 80 CIP 105296 1 more

NCBI tax ID(s) 86665

Special Collections DSMZ CIP

History DSMZ <- NRRL <- E.W. Boyer (Bacillus alcalophilus subsp. halodurans) CIP <- 1997, DSMZ <- NRRL: strain B-3881 <- E.W. Boyer: strain PN 80, Bacillus alcalophilus subsp. halodurans

Links

Halalkalibacterium halodurans PN 80 is an obligate aerobe, Gram-positive, motile bacterium that was isolated from dried sewage sludge.

Gram-positive motile rod-shaped obligate aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 1092

LMG 7121,ATCC 27557,DSM 497,NRRL B-3881,CIP 105296,KCTC 3976

@ref 20215

Last LPSN update 2026-05-29 08:25:11

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Halalkalibacterium

Species Halalkalibacterium halodurans

Full scientific name Halalkalibacterium halodurans (Nielsen et al. 1995 ex Boyer et al. 1973) Joshi et al. 2022

Synonyms (5)

Alkalihalobacillus okuhidensis
Bacillus okuhidensis
Bacillus halodurans
"Bacillus alcalophilus subsp. halodurans"
Alkalihalobacillus halodurans

BacDive ID	Other strains from **Halalkalibacterium halodurans** (18)	Type strain
1113	H. halodurans A-59, DSM 2513, ATCC 21591, JCM 9148, CGMCC ...
1114	H. halodurans PN 61, C 367, DSM 6939, NCIB 10313
1115	H. halodurans PN 62, C 371, DSM 6940, NCIB 10316
1116	H. halodurans BB 16, DSM 6944
1117	H. halodurans PN 30, C 364, DSM 8718, NCIB 10310
1118	H. halodurans PN 39, C 378, DSM 9774, NCIMB 10323
1119	H. halodurans C-125, DSM 18197, ATCC BAA-125, JCM 9153, ...
1199	H. halodurans No. 44, 44, DSM 13666, CIP 107631, JCM 10945, ...
23692	H. halodurans PN 20, C 354, DSM 9757, NCIMB 10304
23693	H. halodurans PN 28, C 357, DSM 9758, NCIMB 10307
23694	H. halodurans PN 29, C 358, DSM 9759, NCIMB 10308
23695	H. halodurans PN 31, C 365, DSM 9760, NCIMB 10311
23696	H. halodurans PN 32, C 366, DSM 9761, NCIMB 10312
23697	H. halodurans PN 36, C 375, DSM 9762, NCIMB 10320
23698	H. halodurans PN 37, C 376, DSM 9773, NCIMB 10321
23699	H. halodurans PN 40, C 410, DSM 9775, NCIMB 10324
23700	H. halodurans PN 41, C 411, DSM 9776, NCIMB 10325
23701	H. halodurans PN 42, C 412, DSM 9777, NCIMB 10326

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
119803	positive	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
236	ALKALINE NUTRIENT AGAR (DSMZ Medium 31)	Medium recipe at MediaDive	Name: ALKALINE NUTRIENT AGAR (DSMZ Medium 31) Composition: Agar 15.0 g/l Na2CO3 anhydrous 5.3 g/l Peptone 5.0 g/l NaHCO3 4.2 g/l Meat extract 3.0 g/l Distilled water
38542	MEDIUM 113 - for Bacillus		Distilled water make up to (900.000 ml);Columbia agar (39.000 g);Solution 1 - M00343 (100.000 ml)
119803	CIP Medium 113	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
236	positive	growth	30
38542	positive	growth	30
119803	positive	growth	22-55
119803	negative	growth	10

Culture pH

@ref	Ability	Type	PH
119803		growth	6

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
119803	obligate aerobe
125439	facultative anaerobe	93.076

Compound production

236

Compoundß amylase, alkaline

Halophily

@ref	Salt	Growth	Tested relation	Concentration
119803	NaCl	positive	growth	2-10 %
119803	NaCl		growth	0 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
119803	16947 ChEBI	citrate	-	carbon source
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	+	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
119803	4853 ChEBI	esculin	-	hydrolysis
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	+	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	+	builds acid from	from API 50CH acid
119803	606565 ChEBI	hippurate	-	hydrolysis
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	+	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
119803	17632 ChEBI	nitrate	-	reduction
119803	17632 ChEBI	nitrate	-	respiration
119803	16301 ChEBI	nitrite	-	reduction
68371	0 ChEBI	Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371	0 ChEBI	Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	+	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	+	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	+	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
119803	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
119803	15688 ChEBI	acetoin	-
119803	17234 ChEBI	glucose		+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
119803	alcohol dehydrogenase	-	1.1.1.1
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
119803	amylase	-
68382	beta-galactosidase	+	3.2.1.23	from API zym
119803	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
119803	caseinase	-	3.4.21.50
119803	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
119803	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
119803	gamma-glutamyltransferase	-	2.3.2.2
119803	gelatinase	+
68382	leucine arylamidase	-	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
119803	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
119803	ornithine decarboxylase	-	4.1.1.17
119803	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
119803	tween esterase	-
119803	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

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
119803	-	-	+	+	-	-	-	-	-	-	-	+	-	+	-	+	+	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
119803	not determinedn.d.	+	-	-	-	+	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	+	+/-	-	+	+	+	+	-	-	+/-	+	-	-	-	+/-	+	-	-	+	-	-	-	-	-	-	+/-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Sewage sludge

Isolation

@ref	Sample type
236	dried sewage sludge
119803	Environment, Dried sewage sludge

Taxonmaps

69479

Global distribution of 16S sequence AJ302709 (>99% sequence identity) for Alkalihalobacillus halodurans from Microbeatlas

Aquatic Samples	1519
Soil Samples	1545
Animal Samples	3493
Plant Samples	429
Total Samples	6986

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
236	1	Risk group (German classification) According to TRBA 466
119803	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	ASM437617v1 assembly for Halalkalibacterium halodurans DSM 497	scaffold	GCA_004376175	86665.8	8117784106	86665	30.95

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Bacillus halodurans gene for 16S ribosomal RNA	AB021187	1508	86665
20218	Bacillus halodurans strain ATCC 27557 16S ribosomal RNA gene, partial sequence	KC884852	501	86665
20218	Bacillus halodurans 16S rRNA gene, strain DSM 497T	AJ302709	1509	86665

GC content

236

GC-content (mol%)42.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM437617v1 assembly for Halalkalibacterium halodurans DSM 497
BV-BRC: 86665.8

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	93.08	no
125439	gram_stain	BacteriaNetⓘ	variable	72.53	no
125439	motility	BacteriaNetⓘ	yes	83.00	no
125439	spore_formation	BacteriaNetⓘ	yes	83.47	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Alkalihalobacillus halodurans DSM 497
NCBI: GCA_004376175.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	80.90	no
125438	anaerobic	anaerobicⓘ	no	84.95	yes
125438	aerobic	aerobicⓘ	yes	76.85	yes
125438	spore-forming	spore-formingⓘ	yes	90.00	no
125438	thermophilic	thermophileⓘ	no	76.77	no
125438	flagellated	motile2+ⓘ	yes	84.86	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Improved methods for genetic manipulation of the alkaliphile Halalkalibacterium halodurans.	Wencker FDR, Lyon SE, Breaker RR.	Front Microbiol	10.3389/fmicb.2024.1465811	2024
	Improved genetic transformation methods for the model alkaliphile Bacillus halodurans C-125.	Wallace JG, Breaker RR.	Lett Appl Microbiol	10.1111/j.1472-765x.2011.03017.x	2011
Phylogeny	Genome-based reclassification of Bacillus okuhidensis as a later heterotypic synonym of Bacillus halodurans.	Liu GH, Narsing Rao MP, Dong ZY, Wang JP, Che JM, Chen QQ, Sengonca C, Liu B, Li WJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.003666	2019
Phylogeny	Bacterial treatment of alkaline cement kiln dust using Bacillus halodurans strain KG1.	Kunal, Rajor A, Siddique R	Braz J Microbiol	10.1016/j.bjm.2015.11.001	2016
Phylogeny	Starch hydrolysing Bacillus halodurans isolates from a Kenyan soda lake.	Hashim SO, Delgado O, Hatti-Kaul R, Mulaa FJ, Mattiasson B	Biotechnol Lett	10.1023/b:bile.0000025885.19910.d7	2004
Phylogeny	Revision of the taxonomic position of the xylanolytic Bacillus sp. MIR32 reidentified as Bacillus halodurans and plasmid-mediated transformation of B. halodurans.	Martinez MA, Delgado OD, Breccia JD, Baigori MD, Sineriz F	Extremophiles	10.1007/s00792-002-0269-4	2002
Phylogeny	Reidentification of the keratinase-producing facultatively alkaliphilic Bacillus sp. AH-101 as Bacillus halodurans.	Takami H, Nogi Y, Horikoshi K	Extremophiles	10.1007/s007920050130	1999
Phylogeny	Identification of Bacillus sp. FTU strain and the study of the caa3-type oxidase homology.	Grinkevich VA, Lysenko AM, Muntyan MS, Skripnikova EV, Afrikyan EK	Biochemistry (Mosc)		1997
	Alkalihalobacterium elongatum gen. nov. sp. nov.: An Antibiotic-Producing Bacterium Isolated From Lonar Lake and Reclassification of the Genus Alkalihalobacillus Into Seven Novel Genera.	Joshi A, Thite S, Karodi P, Joseph N, Lodha T.	Front Microbiol	10.3389/fmicb.2021.722369	2021
Phylogeny	Bacillus ligniniphilus sp. nov., an alkaliphilic and halotolerant bacterium isolated from sediments of the South China Sea.	Zhu D, Tanabe SH, Xie C, Honda D, Sun J, Ai L	Int J Syst Evol Microbiol	10.1099/ijs.0.058610-0	2014

References

#236	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 497
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#38542	; 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) .
#68371	Automatically annotated from API 50CH acid .
#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 .
#119803	Collection of Institut Pasteur ; Curators of the CIP; CIP 105296
#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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Halalkalibacterium halodurans (DSM 497, ATCC 27557, NRRL B-3881)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Compound production

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_004376175

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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