Neobacillus novalis (DSM 15603, CIP 108805, LMG 21837)

Name: Neobacillus novalis (DSM 15603, CIP 108805, LMG 21837)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1216

Type strain

Strain Designation IDA 3307, R-15439

Culture col. no. DSM 15603 CIP 108805 LMG 21837 IDA 3307 R-15439 3 more

NCBI tax ID(s) 1349756 220687

Special Collections DSMZ JCM CIP Literature strains

History DSMZ <- J. Heyrman; R-15439 <- A. Felske; IDA 3307 JCM <-- IAM 15258 <-- LMG 21837 <-- J. Heyrman <-- A. Felske. CIP <- 2005, DSMZ <- J. Heyrman: strain R-15439 <- A. Felske: strain IDA 3307

Links

Neobacillus novalis IDA 3307 is a facultative anaerobe, spore-forming, Gram-positive bacterium that forms irregular colonies and has a light brown pigmentation.

spore-forming Gram-positive motile colony-forming pigmented facultative anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 85521

LMG 21837,DSM 15603,CIP 108805,JCM 21709,NBRC 102450,IAM 15258

@ref 20215

Last LPSN update 2026-05-29 08:25:12

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Cytobacillaceae

Genus Neobacillus

Species Neobacillus novalis

Full scientific name Neobacillus novalis (Heyrman et al. 2004) Patel and Gupta 2020

Synonyms (1)

Bacillus novalis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Motility	Cell shape
23312	positive	0.6-1.2 µm
121363	positive			rod-shaped

Colony morphology

@ref	Colony color	Colony shape	Medium used	Hemolysis ability
23312	cream	irregular	TSA
121363				0

Pigmentation

@ref	Production	Color
23312		light brown

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5923	NUTRIENT AGAR (DSMZ Medium 1)	Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
23312	Trypticase Soy Agar (TSA)
38317	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121363	CIP Medium 72	Medium recipe at CIP
121363	CIP Medium 328	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
5923	positive	growth	30
23312	positive	maximum	50-55
23312	positive	optimum	30-40
38317	positive	growth	30
67770	positive	growth	28
121363	positive	growth	22-45
121363	negative	growth	10
121363	negative	growth	55

Culture pH

@ref	Ability	Type	PH	PH range
23312	positive	maximum	9.5-10.0
23312	positive	minimum	4.0-5.0	acidophile
23312	positive	optimum	7.0-9.0	alkaliphile
121363	positive	growth	6

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
23312	facultative anaerobe
121363	facultative anaerobe
125439	obligate aerobe	94.038

Spore formation

@ref	Spore description	Type of spore	Confidence
23312	ellispoidal, subterminal, occasionally paracentral, slightly swollen sporangia	endospore
121363
125438			93.633

Halophily

@ref	Salt	Growth	Tested relation	Concentration
121363	NaCl	positive	growth	0-10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23312	16808 ChEBI	2-dehydro-D-gluconate	-	builds acid from
23312	17426 ChEBI	5-dehydro-D-gluconate	-	builds acid from
23312	27613 ChEBI	amygdalin	+/-	builds acid from
68371	27613 ChEBI	amygdalin	+	builds acid from	from API 50CH acid
23312	18305 ChEBI	arbutin	-	builds acid from
23312		casein	+	hydrolysis
23312	17057 ChEBI	cellobiose	+/-	builds acid from
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
23312	16947 ChEBI	citrate	-	assimilation
121363	16947 ChEBI	citrate	-	carbon source
23312	17108 ChEBI	D-arabinose	-	builds acid from
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
23312	18333 ChEBI	D-arabitol	-	builds acid from
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
23312	15824 ChEBI	D-fructose	+	builds acid from
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
23312	28847 ChEBI	D-fucose	-	builds acid from
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
23312	12936 ChEBI	D-galactose	+/-	builds acid from
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
23312	17634 ChEBI	D-glucose	+	builds acid from
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
23312	62318 ChEBI	D-lyxose	-	builds acid from
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
23312	16899 ChEBI	D-mannitol	+/-	builds acid from
68371	16899 ChEBI	D-mannitol	+	builds acid from	from API 50CH acid
23312	16024 ChEBI	D-mannose	+	builds acid from
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
23312	16988 ChEBI	D-ribose	-	builds acid from
23312	17924 ChEBI	D-sorbitol	+	builds acid from
68371	17924 ChEBI	D-sorbitol	+	builds acid from	from API 50CH acid
23312	16443 ChEBI	D-tagatose	-	builds acid from
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
23312	16551 ChEBI	D-trehalose	+	builds acid from
23312	65327 ChEBI	D-xylose	+	builds acid from
68371	65327 ChEBI	D-xylose	+	builds acid from	from API 50CH acid
23312	17113 ChEBI	erythritol	-	builds acid from
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
23312	4853 ChEBI	esculin	+	hydrolysis
121363	4853 ChEBI	esculin	+	hydrolysis
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
23312	16813 ChEBI	galactitol	-	builds acid from
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
23312	5291 ChEBI	gelatin	+	hydrolysis
23312	28066 ChEBI	gentiobiose	+/-	builds acid from
68371	28066 ChEBI	gentiobiose	+	builds acid from	from API 50CH acid
23312	24265 ChEBI	gluconate	-	builds acid from
68371	24265 ChEBI	gluconate	+	builds acid from	from API 50CH acid
23312	17754 ChEBI	glycerol	-	builds acid from
68371	17754 ChEBI	glycerol	+	builds acid from	from API 50CH acid
23312	28087 ChEBI	glycogen	-	builds acid from
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
121363	606565 ChEBI	hippurate	+	hydrolysis
23312	15443 ChEBI	inulin	-	builds acid from
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
23312	30849 ChEBI	L-arabinose	-	builds acid from
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
23312	18403 ChEBI	L-arabitol	-	builds acid from
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
23312	18287 ChEBI	L-fucose	-	builds acid from
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
23312	62345 ChEBI	L-rhamnose	-	builds acid from
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
23312	17266 ChEBI	L-sorbose	-	builds acid from
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
23312	65328 ChEBI	L-xylose	-	builds acid from
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
23312	17716 ChEBI	lactose	-	builds acid from
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
23312	17306 ChEBI	maltose	+	builds acid from
68371	17306 ChEBI	maltose	+	builds acid from	from API 50CH acid
23312	6731 ChEBI	melezitose	-	builds acid from
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
23312	28053 ChEBI	melibiose	-	builds acid from
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
23312	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
23312	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
23312	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
23312	17268 ChEBI	myo-inositol	-	builds acid from
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
23312	506227 ChEBI	N-acetylglucosamine	+	builds acid from
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
23312	17632 ChEBI	nitrate	+	reduction
121363	17632 ChEBI	nitrate	+	reduction
121363	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
23312	16634 ChEBI	raffinose	-	builds acid from
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
23312	15963 ChEBI	ribitol	-	builds acid from
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
23312	17814 ChEBI	salicin	-	builds acid from
23312	28017 ChEBI	starch	-	builds acid from
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
23312	17992 ChEBI	sucrose	-	builds acid from
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	+	builds acid from	from API 50CH acid
23312	32528 ChEBI	turanose	-	builds acid from
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
23312	17151 ChEBI	xylitol	-	builds acid from
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite
23312	15688 ChEBI	acetoin
23312	16136 ChEBI	hydrogen sulfide
23312	35581 ChEBI	indole
121363	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
23312	15688 ChEBI	acetoin	-
121363	15688 ChEBI	acetoin	-
121363	17234 ChEBI	glucose		+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121363	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
121363	amylase	-
23312	arginine dihydrolase	-	3.5.3.6
23312	beta-galactosidase	-	3.2.1.23
121363	beta-galactosidase	-	3.2.1.23
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
121363	caseinase	+	3.4.21.50
121363	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
121363	DNase	+
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
121363	gamma-glutamyltransferase	+	2.3.2.2
121363	gelatinase	+
121363	lecithinase	+
68382	leucine arylamidase	+	3.4.11.1	from API zym
121363	lipase	+
68382	lipase (C 14)	-		from API zym
23312	lysine decarboxylase	-	4.1.1.18
121363	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
23312	ornithine decarboxylase	-	4.1.1.17
121363	ornithine decarboxylase	-	4.1.1.17
121363	oxidase	+
68382	trypsin	-	3.4.21.4	from API zym
23312	tryptophan deaminase	-	4.1.99.1
121363	tween esterase	+
23312	urease	-	3.5.1.5
121363	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
121363	-	+	+	+	-	+	+	-	-	+	+	+	+	-	-	+	-	+	-	-

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
121363	not determinedn.d.	+	-	-	-	+/-	+	-	-	-	-	+	+	+	-	-	-	-	+	+	-	-	+	+	+/-	+	+/-	+	+	-	-	-	+	-	-	-	-	-	-	+	-	-	-	-	-	-	-	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	-
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
23312	soil, Drentse A agricultural research area	Anlooer Diepje brook	Netherlands	NLD	Europe	53.0333	6.68333 53.0333/6.68333
5923	soil	near Anloo	Netherlands	NLD	Europe
67770	Soil in the Drentse A agricultural research area along the Anlooër Diepje brook		Netherlands	NLD	Europe
121363	Environment, Soil		Netherlands	NLD	Europe

Taxonmaps

69479

Global distribution of 16S sequence AJ542512 (>99% sequence identity) for Neobacillus from Microbeatlas

Aquatic Samples	4
Soil Samples	72
Animal Samples	4
Plant Samples	5
Total Samples	85

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5923	1	Risk group (German classification) According to TRBA 466
121363	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
67770	ASM159180v1 assembly for Neobacillus novalis NBRC 102450	contig	GCA_001591805	1349756.3	2681812999	1349756	58.39

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Bacillus novalis gene for 16S rRNA, partial sequence, strain: NBRC 102450	AB681792	1475		220687
23312	Bacillus novalis partial 16S rRNA gene, strain LMG 21837	AJ542512	1503		220687

GC content

@ref	GC-content (mol%)	Method
23312	40.5	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM159180v1 assembly for Neobacillus novalis NBRC 102450
BV-BRC: 1349756.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.04	no
125439	gram_stain	BacteriaNetⓘ	variable	68.41	no
125439	motility	BacteriaNetⓘ	yes	69.03	no
125439	spore_formation	BacteriaNetⓘ	yes	80.67	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Bacillus novalis NBRC 102450
PATRIC: 1349756.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	63.19	no
125438	anaerobic	anaerobicⓘ	no	94.40	yes
125438	spore-forming	spore-formingⓘ	yes	93.63	no
125438	aerobic	aerobicⓘ	no	57.35	yes
125438	thermophilic	thermophileⓘ	no	92.06	yes
125438	flagellated	motile2+ⓘ	yes	60.72	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequences of Type Strains Bacillus drentensis DSM 15600T and Bacillus novalis DSM 15603T.	Liu B, Liu GH, Zhu YJ, Wang JP, Che JM, Chen QQ, Chen Z	Genome Announc	10.1128/genomeA.01423-16	2016
Phylogeny	Bacillus oryzisoli sp. nov., isolated from rice rhizosphere.	Zhang XX, Gao JS, Zhang L, Zhang CW, Ma XT, Zhang J	Int J Syst Evol Microbiol	10.1099/ijsem.0.001215	2016
Phylogeny	Bacillus rigiliprofundi sp. nov., an endospore-forming, Mn-oxidizing, moderately halophilic bacterium isolated from deep subseafloor basaltic crust.	Sylvan JB, Hoffman CL, Momper LM, Toner BM, Amend JP, Edwards KJ	Int J Syst Evol Microbiol	10.1099/ijs.0.000211	2015
Phylogeny	Bacillus mesonae sp. nov., isolated from the root of Mesona chinensis.	Liu B, Liu GH, Hu GH, Chen MC	Int J Syst Evol Microbiol	10.1099/ijs.0.059485-0	2014
Phylogeny	Bacillus abyssalis sp. nov., isolated from a sediment of the South China Sea.	You ZQ, Li J, Qin S, Tian XP, Wang FZ, Zhang S, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-013-9875-7	2013
Phylogeny	Bacillus ginsengisoli sp. nov., isolated from soil of a ginseng field.	Nguyen NL, Kim YJ, Hoang VA, Min JW, Liang ZQ, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.031740-0	2012
Phylogeny	Bacillus novalis sp. nov., Bacillus vireti sp. nov., Bacillus soli sp. nov., Bacillus bataviensis sp. nov. and Bacillus drentensis sp. nov., from the Drentse A grasslands.	Heyrman J, Vanparys B, Logan NA, Balcaen A, Rodriguez-Diaz M, Felske A, De Vos P	Int J Syst Evol Microbiol	10.1099/ijs.0.02723-0	2004

References

#5923	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15603
#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 )
#23312	Jeroen Heyrman, Bram Vanparys, Niall A. Logan, An Balcaen, Marina Rodríguez-Díaz, Andreas Felske, Paul De Vos: Bacillus novalis sp. nov., Bacillus vireti sp. nov., Bacillus soli sp. nov., Bacillus bataviensis sp. nov. and Bacillus drentensis sp. nov., from the Drentse A grasslands. IJSEM 54: 47 - 57 2004 ( DOI 10.1099/ijs.0.02723-0 , PubMed 14742458 )
#38317	; Curators of the CIP;
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#121363	Collection of Institut Pasteur ; Curators of the CIP; CIP 108805
#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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Neobacillus novalis (DSM 15603, CIP 108805, LMG 21837)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

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_001591805

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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