Peribacillus asahii (DSM 105779, JCM 12112, MA001)

Name: Peribacillus asahii (DSM 105779, JCM 12112, MA001)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 139988

Type strain

Strain Designation MA001

Culture col. no. DSM 105779 JCM 12112 MA001 NCIMB 13969 CIP 108638 1 more

NCBI tax ID(s) 228899

Special Collections DSMZ JCM CIP

History DSMZ <- JCM, RIKEN BioResource Center, Tsukuba; JCM 12112 <- K. Takizawa, Asahi Vet Japan Co., Ltd, Hokkaido, Japan; MA001 JCM <-- K. Takizawa MA001 <-- Asahi Kasei Co., Ltd.. CIP <- 2005, JCM <- 2003, K. Takizawa: strain MA001 <- A. Kasei Co Ltd

Links

Peribacillus asahii MA001 is an obligate aerobe, spore-forming, Gram-positive bacterium that was isolated from soil.

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

Name and taxonomic classification

SI-ID 134414

JCM 12112,NCIMB 13969,CIP 108638,LMG 24728,DSM 105779

@ref 20215

Last LPSN update 2026-05-29 08:39:37

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Peribacillus

Species Peribacillus asahii

Full scientific name Peribacillus asahii (Yumoto et al. 2004) Patel and Gupta 2020

Synonyms (1)

Bacillus asahii

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
116520	positive	rod-shaped

Colony morphology

116520

Hemolysis ability0

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
42596	CASO AGAR (MERCK 105458) (DSMZ Medium 220)	Medium recipe at MediaDive	Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
40044	MEDIUM 469 - for Pseudomonas psychrophila		Distilled water make up to (1000.000 ml);Sodium chloride (5.000 g);Agar(20.000 g);Yeast extract (10.000 g);Peptone (10.000 g)
116520	CIP Medium 469	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
42596	positive	growth	30
67770	positive	growth	30
116520	positive	growth	22-45
116520	negative	growth	10
116520	negative	growth	55

Culture pH

@ref	Ability	Type	PH
116520	positive	growth	6

Physiology and metabolism

Oxygen tolerance

116520

Oxygen toleranceobligate aerobe

Spore formation

@ref	Spore formation	Confidence
116520
125438		90.298

Halophily

@ref	Salt	Tested relation	Concentration
116520	NaCl	growth	0 %
116520	NaCl	growth	2 %
116520	NaCl	growth	4 %
116520	NaCl	growth	6 %
116520	NaCl	growth	8 %
116520	NaCl	growth	10 %

Observation

67770

ObservationDeodorizes bad smell

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
116520	16947 ChEBI	citrate	-	carbon source
116520	4853 ChEBI	esculin	-	hydrolysis
116520	606565 ChEBI	hippurate	+	hydrolysis
116520	17632 ChEBI	nitrate	-	reduction
116520	17632 ChEBI	nitrate	-	respiration
116520	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
116520	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
116520	15688 ChEBI	acetoin	-
116520	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
116520	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
116520	amylase	+
68382	beta-galactosidase	-	3.2.1.23	from API zym
116520	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
116520	caseinase	-	3.4.21.50
116520	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
116520	DNase	+
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
116520	gamma-glutamyltransferase	+	2.3.2.2
116520	gelatinase	+/-
116520	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
116520	lipase	-
68382	lipase (C 14)	-		from API zym
116520	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
116520	ornithine decarboxylase	-	4.1.1.17
116520	oxidase	+
68382	trypsin	-	3.4.21.4	from API zym
116520	tween esterase	-
116520	urease	+	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	lipoate biosynthesis	100	5 of 5
66794	ribulose monophosphate pathway	100	2 of 2
66794	pentose phosphate pathway	100	11 of 11
66794	methylglyoxal degradation	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	ethanol fermentation	100	2 of 2
66794	aspartate and asparagine metabolism	100	9 of 9
66794	palmitate biosynthesis	100	22 of 22
66794	propanol degradation	100	7 of 7
66794	ppGpp biosynthesis	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	biotin biosynthesis	100	4 of 4
66794	butanoate fermentation	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	vitamin K metabolism	100	5 of 5
66794	formaldehyde oxidation	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	aerobactin biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	teichoic acid biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	gluconeogenesis	100	8 of 8
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	glutamate and glutamine metabolism	92.86	26 of 28
66794	vitamin B1 metabolism	92.31	12 of 13
66794	leucine metabolism	92.31	12 of 13
66794	propionate fermentation	90	9 of 10
66794	threonine metabolism	90	9 of 10
66794	allantoin degradation	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	alanine metabolism	86.21	25 of 29
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	heme metabolism	85.71	12 of 14
66794	vitamin B12 metabolism	85.29	29 of 34
66794	proline metabolism	81.82	9 of 11
66794	gallate degradation	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycine betaine biosynthesis	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	purine metabolism	78.72	74 of 94
66794	glutathione metabolism	78.57	11 of 14
66794	citric acid cycle	78.57	11 of 14
66794	photosynthesis	78.57	11 of 14
66794	NAD metabolism	77.78	14 of 18
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	pyrimidine metabolism	75.56	34 of 45
66794	isoleucine metabolism	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	lactate fermentation	75	3 of 4
66794	flavin biosynthesis	73.33	11 of 15
66794	methionine metabolism	73.08	19 of 26
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	phenol degradation	70	14 of 20
66794	starch degradation	70	7 of 10
66794	urea cycle	69.23	9 of 13
66794	tryptophan metabolism	68.42	26 of 38
66794	enterobactin biosynthesis	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	arginine metabolism	66.67	16 of 24
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	non-pathway related	65.79	25 of 38
66794	oxidative phosphorylation	62.64	57 of 91
66794	androgen and estrogen metabolism	62.5	10 of 16
66794	degradation of sugar alcohols	62.5	10 of 16
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	lysine metabolism	61.9	26 of 42
66794	glycogen metabolism	60	3 of 5
66794	3-phenylpropionate degradation	60	9 of 15
66794	coenzyme M biosynthesis	60	6 of 10
66794	factor 420 biosynthesis	60	3 of 5
66794	histidine metabolism	58.62	17 of 29
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	lipid metabolism	58.06	18 of 31
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	tyrosine metabolism	57.14	8 of 14
66794	cysteine metabolism	55.56	10 of 18
66794	4-hydroxymandelate degradation	55.56	5 of 9
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	CMP-KDO biosynthesis	50	2 of 4
66794	pantothenate biosynthesis	50	3 of 6
66794	glycine metabolism	50	5 of 10
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	sulfate reduction	46.15	6 of 13
66794	cholesterol biosynthesis	45.45	5 of 11
66794	vitamin B6 metabolism	45.45	5 of 11
66794	d-mannose degradation	44.44	4 of 9
66794	degradation of sugar acids	44	11 of 25
66794	polyamine pathway	43.48	10 of 23
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	ascorbate metabolism	40.91	9 of 22
66794	arachidonate biosynthesis	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	myo-inositol biosynthesis	40	4 of 10
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	degradation of hexoses	33.33	6 of 18
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	nitrate assimilation	33.33	3 of 9
66794	lipid A biosynthesis	33.33	3 of 9
66794	degradation of pentoses	32.14	9 of 28
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	chlorophyll metabolism	27.78	5 of 18
66794	metabolism of disaccharids	27.27	3 of 11
66794	cyclohexanol degradation	25	1 of 4
66794	carnitine metabolism	25	2 of 8

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
116520	-	-	+	-	-	+	-	-	-	+	-	+	-	-	-	+	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
116520	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	+	-	+	-	-	-	+	+	+	-	+	-	-	-	-	+	+	+	-	-	+	-	-	-	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
42596	soil	Tagata-gun, Shizuoka	Japan	JPN	Asia
67770	Soil obtained from Tagata-gun	Shizuoka	Japan	JPN	Asia
116520	Environment, Soil	Shizuoka	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB109209 (>99% sequence identity) for Peribacillus from Microbeatlas

Aquatic Samples	790
Soil Samples	3392
Animal Samples	14335
Plant Samples	349
Total Samples	18866

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
42596	1	Risk group (German classification)
116520	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM357072v1 assembly for Peribacillus asahii MA001	contig	GCA_003570725	228899.7	8022921065	228899	61.36

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
42596	Bacillus asahii gene for 16S rRNA, partial sequence	AB109209	1504		228899

GC content

@ref	GC-content (mol%)	Method
67770	39.4	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Peribacillus asahii MA001
NCBI: GCA_003570725.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	77.08	no
125438	anaerobic	anaerobicⓘ	no	96.87	yes
125438	aerobic	aerobicⓘ	yes	79.04	yes
125438	spore-forming	spore-formingⓘ	yes	90.30	no
125438	thermophilic	thermophileⓘ	no	91.29	yes
125438	flagellated	motile2+ⓘ	yes	81.43	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Bacillus cavernae sp. nov. isolated from cave soil.	Feng L, Liu D, Sun X, Wang G, Li M	Int J Syst Evol Microbiol	10.1099/ijsem.0.000794	2015
Phylogeny	Bacillus huizhouensis sp. nov., isolated from a paddy field soil.	Li J, Yang G, Wu M, Zhao Y, Zhou S	Antonie Van Leeuwenhoek	10.1007/s10482-014-0208-2	2014
Phylogeny	Bacillus asahii sp. nov., a novel bacterium isolated from soil with the ability to deodorize the bad smell generated from short-chain fatty acids.	Yumoto I, Hirota K, Yamaga S, Nodasaka Y, Kawasaki T, Matsuyama H, Nakajima K	Int J Syst Evol Microbiol	10.1099/ijs.0.03014-0	2004
Phylogeny	Bacillus acanthi sp. nov., isolated from the rhizosphere soil of a mangrove plant Acanthus ilicifolius.	Ma K, Yin Q, Chen L, Lai Q, Xu Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.002950	2018

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 )
#40044	; Curators of the CIP;
#42596	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105779
#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;
#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 .
#116520	Collection of Institut Pasteur ; Curators of the CIP; CIP 108638
#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 )
#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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Peribacillus asahii (DSM 105779, JCM 12112, MA001)

Name and taxonomic classification

Morphology

Cell morphology

Colony 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

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003570725

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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