Domibacillus epiphyticus (KCTC 33830, MTCC 12575, DSM 100929)

Name: Domibacillus epiphyticus (KCTC 33830, MTCC 12575, DSM 100929)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140688

Type strain

Culture col. no. KCTC 33830 MTCC 12575 DSM 100929 SAB 38 JCM 32632

NCBI tax ID(s) 1714355

Special Collections DSMZ JCM KCTC Literature strains

History S. Krishnamurthi; MTCC, India; SAB 38.

Links

Domibacillus epiphyticus KCTC 33830 is an obligate aerobe, spore-forming, Gram-positive prokaryote that forms circular colonies and was isolated from surface of an intertidal macroalga growing in Anjuna Beach.

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

Name and taxonomic classification

SI-ID 286732

KCTC 33830

@ref 20215

Last LPSN update 2026-02-09 11:33:41

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Domibacillus

Species Domibacillus epiphyticus

Full scientific name Domibacillus epiphyticus Verma et al. 2017

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
43455	positive	2.2 µm	0.8 µm	rod-shaped

Colony morphology

@ref	Colony color	Colony shape	Incubation period	Medium used
43455	Ivory	circular	1 day	TSBA

Culture and growth conditions

Culture medium

@ref	Name	Growth
43455	TSBA

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
43455	positive	growth	20-45
43455	positive	optimum	35-40
67770	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
43455	positive	optimum	7-7.5
43455	positive	growth	5-9	alkaliphile

Physiology and metabolism

Oxygen tolerance

43455

Oxygen toleranceobligate aerobe

Spore formation

@ref	Spore description	Type of spore	Spore formation	Confidence
43455	central position, spherical or ellipsoidal in swollen sporangia	endospore
125438				91.401

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43455	NaCl	positive	growth	0-4 %(w/v)
43455	NaCl	positive	optimum	1 %(w/v)

Observation

67770

Observationquinones: MK-6

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43455	30089 ChEBI	acetate	+	oxidation
43455	13705 ChEBI	acetoacetate	+/-	oxidation
43455	17128 ChEBI	adipate	-	assimilation
43455	17128 ChEBI	adipate	+	growth
43455	22599 ChEBI	arabinose	-	builds acid from
43455	73706 ChEBI	bromosuccinate	+/-	oxidation
43455		casein	-	hydrolysis
43455	17057 ChEBI	cellobiose	-	builds acid from
43455	17634 ChEBI	D-glucose	+/-	builds acid from
43455	16899 ChEBI	D-mannitol	-	assimilation
43455	16024 ChEBI	D-mannose	-	assimilation
43455	27689 ChEBI	decanoate	+	assimilation
43455	23652 ChEBI	dextrin	+/-	oxidation
43455	4853 ChEBI	esculin	-	assimilation
43455	4853 ChEBI	esculin	-	hydrolysis
43455	15740 ChEBI	formate	+/-	oxidation
43455	28757 ChEBI	fructose	-	builds acid from
43455	16813 ChEBI	galactitol	-	builds acid from
43455	28260 ChEBI	galactose	-	builds acid from
43455	5291 ChEBI	gelatin	-	assimilation
43455	5291 ChEBI	gelatin	-	hydrolysis
43455	17234 ChEBI	glucose	-	fermentation
43455	17234 ChEBI	glucose	+	assimilation
43455	17234 ChEBI	glucose	+	growth
43455	15443 ChEBI	inulin	-	builds acid from
43455	30849 ChEBI	L-arabinose	-	assimilation
43455	24996 ChEBI	lactate	+	oxidation
43455	17716 ChEBI	lactose	-	builds acid from
43455	25115 ChEBI	malate	+	assimilation
43455	25115 ChEBI	malate	+	growth
43455	25115 ChEBI	malate	+	oxidation
43455	17306 ChEBI	maltose	-	builds acid from
43455	17306 ChEBI	maltose	+	assimilation
43455	17306 ChEBI	maltose	+	growth
43455	29864 ChEBI	mannitol	+	builds acid from
43455	29864 ChEBI	mannitol	+	growth
43455	37684 ChEBI	mannose	-	builds acid from
43455	28053 ChEBI	melibiose	-	builds acid from
43455	17268 ChEBI	myo-inositol	-	builds acid from
43455	506227 ChEBI	N-acetylglucosamine	-	assimilation
43455	17632 ChEBI	nitrate	-	reduction
43455	17309 ChEBI	pectin	+/-	oxidation
43455	18401 ChEBI	phenylacetate	-	assimilation
43455	18401 ChEBI	phenylacetate	+	growth
43455	32032 ChEBI	potassium gluconate	-	assimilation
43455	32032 ChEBI	potassium gluconate	+	growth
43455	17272 ChEBI	propionate	+/-	oxidation
43455	16634 ChEBI	raffinose	-	builds acid from
43455	26546 ChEBI	rhamnose	-	builds acid from
43455	17814 ChEBI	salicin	-	builds acid from
43455	53258 ChEBI	sodium citrate	-	assimilation
43455	30911 ChEBI	sorbitol	-	builds acid from
43455	28017 ChEBI	starch	-	hydrolysis
43455	17992 ChEBI	sucrose	+	builds acid from
43455	17992 ChEBI	sucrose	+/-	oxidation
43455	27082 ChEBI	trehalose	+	builds acid from
43455	27082 ChEBI	trehalose	+/-	oxidation
43455	16199 ChEBI	urea	-	hydrolysis
43455	18222 ChEBI	xylose	-	builds acid from

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.	Resistance conc.
43455		1 % sodium lactate
43455	2637	amikacin	30 µg (disc)
43455	2676	amoxicillin	10 µg (disc)
43455	28971	ampicillin	10 µg (disc)
43455	3479	cefadroxil	30 µg (disc)
43455	3493	cefoperazone	75 µg (disc)
43455	3508	ceftazidime	30 µg (disc)
43455	29007	ceftriaxone	30 µg (disc)
43455	17698	chloramphenicol	30 µg (disc)
43455	100241	ciprofloxacin	5 µg (disc)
43455	49566	cloxacillin	1 µg (disc)
43455	3770	co-trimoxazole	25 µg (disc)
43455	48923	erythromycin	15 µg (disc)
43455	17833	gentamicin	10 µg (disc)
43455	48607	lithium chloride
43455	100147	nalidixic acid		10 µg (disc)
43455	7528	netilmycin	10 µg (disc)
43455	71415	nitrofurantoin	300 µg (disc)
43455	100246	norfloxacin	10 µg (disc)
43455	17334	penicillin	60 µg (disc)
43455	75248	potassium tellurite
43455	64103	sodium butyrate
43455	26710	sodium chloride
43455	28864	tobramycin	10 µg (disc)
43455	28001	vancomycin	30 µg (disc)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43455	15688 ChEBI	acetoin
43455	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
43455	15688 ChEBI	acetoin	-
43455	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
43455	acid phosphatase	-	3.1.3.2
43455	alkaline phosphatase	+	3.1.3.1
43455	alpha-chymotrypsin	-	3.4.21.1
43455	beta-galactosidase	-	3.2.1.23
43455	catalase	+	1.11.1.6
43455	cystine arylamidase	-	3.4.11.3
43455	cytochrome oxidase	+	1.9.3.1
43455	esterase (C 4)	+
43455	esterase Lipase (C 8)	+
43455	leucine arylamidase	-	3.4.11.1
43455	naphthol-AS-BI-phosphohydrolase	-
43455	trypsin	-	3.4.21.4
43455	valine arylamidase	-

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	propionate fermentation	100	10 of 10
66794	methylglyoxal degradation	100	5 of 5
66794	enterobactin biosynthesis	100	3 of 3
66794	vitamin K metabolism	100	5 of 5
66794	aspartate and asparagine metabolism	100	9 of 9
66794	vitamin B1 metabolism	100	13 of 13
66794	cyanate degradation	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	ribulose monophosphate pathway	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	kanosamine biosynthesis II	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
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	tetrahydrofolate metabolism	100	14 of 14
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	pentose phosphate pathway	100	11 of 11
66794	citric acid cycle	92.86	13 of 14
66794	threonine metabolism	90	9 of 10
66794	starch degradation	90	9 of 10
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	methionine metabolism	88.46	23 of 26
66794	vitamin B12 metabolism	88.24	30 of 34
66794	gluconeogenesis	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	isoleucine metabolism	87.5	7 of 8
66794	propanol degradation	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	leucine metabolism	84.62	11 of 13
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	flavin biosynthesis	80	12 of 15
66794	gallate degradation	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	glycine betaine biosynthesis	80	4 of 5
66794	cellulose degradation	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	heme metabolism	78.57	11 of 14
66794	photosynthesis	78.57	11 of 14
66794	glycolysis	76.47	13 of 17
66794	glycogen biosynthesis	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	3-phenylpropionate degradation	73.33	11 of 15
66794	vitamin B6 metabolism	72.73	8 of 11
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	purine metabolism	70.21	66 of 94
66794	4-hydroxyphenylacetate degradation	70	7 of 10
66794	alanine metabolism	68.97	20 of 29
66794	pyrimidine metabolism	68.89	31 of 45
66794	degradation of sugar alcohols	68.75	11 of 16
66794	d-mannose degradation	66.67	6 of 9
66794	IAA biosynthesis	66.67	2 of 3
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	serine metabolism	66.67	6 of 9
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	NAD metabolism	66.67	12 of 18
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	non-pathway related	65.79	25 of 38
66794	tryptophan metabolism	63.16	24 of 38
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	coenzyme M biosynthesis	60	6 of 10
66794	arachidonate biosynthesis	60	3 of 5
66794	phenol degradation	60	12 of 20
66794	lipoate biosynthesis	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	oxidative phosphorylation	58.24	53 of 91
66794	lipid A biosynthesis	55.56	5 of 9
66794	cysteine metabolism	55.56	10 of 18
66794	histidine metabolism	55.17	16 of 29
66794	lipid metabolism	54.84	17 of 31
66794	arginine metabolism	54.17	13 of 24
66794	sulfate reduction	53.85	7 of 13
66794	Entner Doudoroff pathway	50	5 of 10
66794	pantothenate biosynthesis	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	proline metabolism	45.45	5 of 11
66794	glutathione metabolism	42.86	6 of 14
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	lysine metabolism	42.86	18 of 42
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	degradation of pentoses	42.86	12 of 28
66794	phenylacetate degradation (aerobic)	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	degradation of hexoses	38.89	7 of 18
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	carnitine metabolism	37.5	3 of 8
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	metabolism of disaccharids	36.36	4 of 11
66794	polyamine pathway	34.78	8 of 23
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	nitrate assimilation	33.33	3 of 9
66794	octane oxidation	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	sphingosine metabolism	33.33	2 of 6
66794	myo-inositol biosynthesis	30	3 of 10
66794	tyrosine metabolism	28.57	4 of 14
66794	d-xylose degradation	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	ascorbate metabolism	22.73	5 of 22
66794	allantoin degradation	22.22	2 of 9
66794	arachidonic acid metabolism	22.22	4 of 18

Fatty acid profile

Metadata FA analysis

@ref

43455

Fatty acid	Percentage
C15:0 iso	32
C16:0	14
C15:0 anteiso	10.2
C16:1ω7c / C16:1ω7c	8.6
C16:1ω11c	8
C14:0	6.6
C17:1isol / anteiso B	5.7
C16:0 iso	2.1
C17:0 iso	2.1
C14:0 iso	1.9
C17:0 anteiso	1.7

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Coast
#Environmental	#Terrestrial	#Tidal flat
#Host	#Algae	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
43455	surface of an intertidal macroalga (Dictyota) growing in Anjuna Beach	State of Goa	India	IND	Asia	15.567	73.733 15.567/73.733
67770	Surface of a macroalga from Anjuna beach	Goa	India	IND	Asia

Taxonmaps

69479

Global distribution of 16S sequence LN879432 (>99% sequence identity) for Domibacillus from Microbeatlas

Aquatic Samples	22
Soil Samples	89
Animal Samples	22
Plant Samples	26
Total Samples	159

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	IMG accession	NCBI tax ID	Score
67770	ASM197578v1 assembly for Domibacillus epiphyticus SAB 38	scaffold	GCA_001975785	2791354955	1714355	69.68

16S sequences

@ref	Description	Accession	Database
43455	Domibacillus sp. SAB 38 partial 16S rRNA gene, isolate SAB 38	LN879432

GC content

@ref	GC-content (mol%)	Method
43455	41.5	genome sequence analysis

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Domibacillus epiphyticus SAB 38
NCBI: GCA_001975785.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	80.92	no
125438	anaerobic	anaerobicⓘ	no	92.62	no
125438	aerobic	aerobicⓘ	yes	80.09	yes
125438	spore-forming	spore-formingⓘ	yes	91.40	yes
125438	thermophilic	thermophileⓘ	no	83.76	yes
125438	flagellated	motile2+ⓘ	yes	85.11	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Exploring Diversity and Polymer Degrading Potential of Epiphytic Bacteria Isolated from Marine Macroalgae.	Kumar P, Verma A, Sundharam SS, Ojha AK, Krishnamurthi S.	Microorganisms	10.3390/microorganisms10122513	2022
Phylogeny	Domibacillus mangrovi sp. nov. and Domibacillus epiphyticus sp. nov., isolated from marine habitats of the central west coast of India.	Verma A, Ojha AK, Dastager SG, Natarajan R, Mayilraj S, Krishnamurthi S	Int J Syst Evol Microbiol	10.1099/ijsem.0.002085	2017

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 )
#43455	Ashish Verma, Anup Kumar Ojha, Syed G. Dastager, Rameshkumar Natarajan, Shanmugam Mayilraj, Srinivasan Krishnamurthi: Domibacillus mangrovi sp. nov. and Domibacillus epiphyticus sp. nov., isolated from marine habitats of the central west coast of India. IJSEM 67: 3063 - 3070 2017 ( DOI 10.1099/ijsem.0.002085 , PubMed 28829034 )
#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 .
#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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Domibacillus epiphyticus (KCTC 33830, MTCC 12575, DSM 100929)

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

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

Fatty acid profile?

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_001975785

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

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Fatty acid profile