Bacillus tropicus (MCCC 1A01406, KCTC 33711, LMG 28874)

Name: Bacillus tropicus (MCCC 1A01406, KCTC 33711, LMG 28874)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140962

Type strain

Strain Designation N24

Culture col. no. MCCC 1A01406 KCTC 33711 LMG 28874 N24 NBRC 113916 2 more

NCBI tax ID(s) 2026188

Special Collections KCTC Literature strains CIP

History <- Yang Liu, The Third Institute of State Oceanic Administration(SOA) CIP <- 2017, LMG <- 2015, L. Yang, Third Inst. of Ocean., Fujian Province, Xiamen, China: strain N24 <- Z. Liu

Links

Bacillus tropicus N24 is a facultative anaerobe, spore-forming, Gram-positive prokaryote that forms circular colonies and was isolated from sediment of the South China Sea.

spore-forming Gram-positive motile rod-shaped colony-forming facultative anaerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 413310

LMG 28874,KCTC 33711,CIP 111455

@ref 20215

Last LPSN update 2026-02-09 11:33:46

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Bacillus

Species Bacillus tropicus

Full scientific name Bacillus tropicus Liu et al. 2017

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement
43860	positive	2.2-2.6 µm	1.3-1.6 µm	rod-shaped	peritrichous
67771	positive
123593	positive			rod-shaped

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
43860	2-3 mm	off-white	circular	2 days	Luria-Bertani agar

Culture and growth conditions

Culture medium

@ref	Name	Medium link
43860	LB (Luria-Bertani) MEDIUM
43860	Trypticase soy agar
123593	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
43860	positive	growth	15-45
43860	positive	optimum	30	mesophilic
67771	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
43860	positive	optimum	6
43860	positive	growth	5.0-9.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
43860	facultative anaerobe
67771	aerobe
125439	facultative anaerobe	90.2

Spore formation

@ref	Spore description	Type of spore	Spore formation
43860	central elliptical endospore	endospore

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43860	NaCl	positive	growth	0-9 %(w/v)
43860	NaCl	positive	optimum	0-0.5 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43860	16808 ChEBI	2-dehydro-D-gluconate	-	builds acid from
43860	58143 ChEBI	5-dehydro-D-gluconate	-	builds acid from
43860	27613 ChEBI	amygdalin	-	builds acid from
43860	22599 ChEBI	arabinose	-	builds acid from
43860	18305 ChEBI	arbutin	-	builds acid from
43860	85146 ChEBI	carboxymethylcellulose	+	hydrolysis
43860		casein	+	hydrolysis
43860	17057 ChEBI	cellobiose	+	builds acid from
43860	16947 ChEBI	citrate	+	carbon source
43860	17108 ChEBI	D-arabinose	-	builds acid from
43860	18333 ChEBI	D-arabitol	-	builds acid from
43860	15824 ChEBI	D-fructose	+	builds acid from
43860	28847 ChEBI	D-fucose	-	builds acid from
43860	12936 ChEBI	D-galactose	-	builds acid from
43860	17634 ChEBI	D-glucose	-	builds acid from
43860	62318 ChEBI	D-lyxose	-	builds acid from
43860	16899 ChEBI	D-mannitol	-	builds acid from
43860	16024 ChEBI	D-mannose	-	builds acid from
43860	16988 ChEBI	D-ribose	+	builds acid from
43860	17924 ChEBI	D-sorbitol	-	builds acid from
43860	16443 ChEBI	D-tagatose	-	builds acid from
43860	65327 ChEBI	D-xylose	-	builds acid from
43860	17113 ChEBI	erythritol	-	builds acid from
43860		esculin ferric citrate	+	builds acid from
43860	16813 ChEBI	galactitol	-	builds acid from
43860	28066 ChEBI	gentiobiose	-	builds acid from
43860	17234 ChEBI	glucose	-	builds acid from
43860	17754 ChEBI	glycerol	+	builds acid from
43860	28087 ChEBI	glycogen	+	builds acid from
43860	15443 ChEBI	inulin	-	builds acid from
43860	30849 ChEBI	L-arabinose	-	builds acid from
43860	18403 ChEBI	L-arabitol	-	builds acid from
43860	18287 ChEBI	L-fucose	-	builds acid from
43860	62345 ChEBI	L-rhamnose	-	builds acid from
43860	17266 ChEBI	L-sorbose	-	builds acid from
43860	65328 ChEBI	L-xylose	-	builds acid from
43860	17716 ChEBI	lactose	-	builds acid from
43860		maltose hydrate	+	builds acid from
43860	29864 ChEBI	mannitol	-	builds acid from
43860	6731 ChEBI	melezitose	-	builds acid from
43860	28053 ChEBI	melibiose	-	builds acid from
43860	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from
43860	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from
43860	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from
43860	17268 ChEBI	myo-inositol	-	builds acid from
43860	506227 ChEBI	N-acetylglucosamine	-	builds acid from
43860	32032 ChEBI	potassium gluconate	+	builds acid from
43860	16634 ChEBI	raffinose	-	builds acid from
43860	26546 ChEBI	rhamnose	-	builds acid from
43860	15963 ChEBI	ribitol	-	builds acid from
43860	17814 ChEBI	salicin	+	builds acid from
43860		skimmed milk	+	hydrolysis
43860	30911 ChEBI	sorbitol	-	builds acid from
43860	28017 ChEBI	starch	+	builds acid from
43860	28017 ChEBI	starch	+	hydrolysis
43860	17992 ChEBI	sucrose	-	builds acid from
43860	27082 ChEBI	trehalose	+	builds acid from
43860	32528 ChEBI	turanose	-	builds acid from
43860	17151 ChEBI	xylitol	-	builds acid from

Metabolite production

@ref	Chebi-ID	Metabolite
43860	15688 ChEBI	acetoin
43860	16136 ChEBI	hydrogen sulfide
43860	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
43860	15688 ChEBI	acetoin	+

Enzymes

@ref	Value	Activity	Ec
43860	arginine dihydrolase	+	3.5.3.6
43860	beta-galactosidase	-	3.2.1.23
43860	catalase	+	1.11.1.6
43860	cytochrome oxidase	+	1.9.3.1
43860	gelatinase	+
43860	lysine decarboxylase	-	4.1.1.18
43860	ornithine decarboxylase	-	4.1.1.17
43860	tryptophan deaminase	-	4.1.99.1
43860	urease	-	3.5.1.5

Fatty acid profile

Metadata FA analysis

@ref

43860

Fatty acid	Percentage
C15:0 iso	18.9
C16:0	12
C16:1ω7c / C15:0 iso 2OH	9.9
C16:0 iso	7.8
C13:0 iso	7.1
C14:0 iso	5.9
C14:0	5.5
C17:0 iso	5.2
C15:0 anteiso	4.4
C17:1 iso ω10c	3.5
C17:1 iso ω5c	2.6
C14:0 3OH / C16:1 iso I	1.9
C17:0 anteiso	1.7
C16:1ω7c alcohol	1.3
C16:1ω11c	1
C12:0	1
C13:0 anteiso	1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
43860	sediment of the South China Sea
67771	From sediments	the South China Sea	China	CHN	Asia
123593	Environment, Sediments	China Sea	China	CHN	Asia	2006-01-02

Taxonmaps

69479

Global distribution of 16S sequence KJ812435 (>99% sequence identity) for Bacillus from Microbeatlas

Aquatic Samples	446
Soil Samples	1920
Animal Samples	1524
Plant Samples	1079
Total Samples	4969

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
123593	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	IMG accession	NCBI tax ID	Score
66792	ASM188403v1 assembly for Bacillus tropicus N24	contig	GCA_001884035	8034131692	2026188	63.81

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
43860	Bacillus tropicus strain MCCC 1A01406 16S ribosomal RNA gene, partial sequence	KJ812435
124043	Bacillus tropicus strain MCCC 1A01406 16S ribosomal RNA gene, partial sequence.	MK351231	1397	2026188
124043	Bacillus tropicus strain MCCC 1A01406 16S ribosomal RNA gene, partial sequence.	MK332379	1280	2026188
124043	Bacillus tropicus strain MCCC 1A01406 16S ribosomal RNA gene, partial sequence.	OQ331046	953	2026188
124043	Bacillus tropicus strain MCCC 1A01406 16S ribosomal RNA gene, partial sequence.	OQ874665	767	2026188
124043	Bacillus tropicus strain MCCC 1A01406 16S ribosomal RNA gene, partial sequence.	MK182777	826	2026188
124043	Bacillus tropicus strain MCCC 1A01406 16S ribosomal RNA gene, partial sequence.	OR584185	879	2026188

GC content

@ref	GC-content (mol%)	Method
43860	35.2	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Bacillus tropicus N24
NCBI: GCA_001884035

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	68.50	no
125439	motility	BacteriaNetⓘ	yes	58.50	no
125439	gram_stain	BacteriaNetⓘ	positive	77.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	90.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Bacillus tropicus N24
NCBI: GCA_001884035.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	75.27	yes
125438	anaerobic	anaerobicⓘ	no	93.84	yes
125438	aerobic	aerobicⓘ	yes	51.54	no
125438	spore-forming	spore-formingⓘ	yes	86.40	no
125438	thermophilic	thermophileⓘ	no	94.33	yes
125438	flagellated	motile2+ⓘ	yes	82.93	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Reclassification of the first Bacillus tropicus phage calls for reclassification of other Bacillus temperate phages previously designated as plasmids.	Milase RN, Lin J, Mvubu NE, Hlengwa N.	BMC Genomics	10.1186/s12864-024-10937-4	2024
	Mechanistic evaluation of enhanced graphene toxicity to Bacillus induced by humic acid adsorption.	Zhang X, Zeng J, White JC, Li F, Xiong Z, Zhang S, Xu Y, Yang J, Tang W, Zhao Q, Wu F, Xing B.	Nat Commun	10.1038/s41467-024-55270-2	2025
Metabolism	Production and characterization of polyhydroxyalkanoates from industrial waste using soil bacterial isolates.	Shah S, Kumar A.	Braz J Microbiol	10.1007/s42770-021-00452-z	2021
	Comparative analysis between multi-strain probiotics and antibiotic as starter feed supplement of poultry on growth performance, serum metabolites and meat quality.	Hossain MT, Sardar D, Afsana S, Datta M, Habib MA.	Vet Anim Sci	10.1016/j.vas.2024.100346	2024
	Functionalized MoS₂ Nanoflowers with Excellent Near-Infrared Photothermal Activities for Scavenging of Antibiotic Resistant Bacteria.	Liu L, Wu W, Fang Y, Liu H, Chen F, Zhang M, Qin Y.	Nanomaterials (Basel)	10.3390/nano11112829	2021
	Finding the best combination of autochthonous microorganisms with the most effective biosorption ability for heavy metals removal from wastewater.	Jakovljevic V, Grujic S, Simic Z, Ostojic A, Radojevic I.	Front Microbiol	10.3389/fmicb.2022.1017372	2022
Phylogeny	Proposal of nine novel species of the Bacillus cereus group.	Liu Y, Du J, Lai Q, Zeng R, Ye D, Xu J, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.001821	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 )
#43860	Yang Liu, Juan Du, Qiliang Lai, Runying Zeng, Dezan Ye, Jun Xu, Zongze Shao: Proposal of nine novel species of the Bacillus cereus group. IJSEM 67: 2499 - 2508 2017 ( DOI 10.1099/ijsem.0.001821 , PubMed 28792367 )
#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) .
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#123593	Collection of Institut Pasteur ; Curators of the CIP; CIP 111455
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Bacillus tropicus (MCCC 1A01406, KCTC 33711, LMG 28874)

Name and taxonomic classification