Name: Bacillus pacificus EB422
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140961

Type strain:

Species: Bacillus pacificus

Strain Designation: EB422

Culture col. no.: MCCC 1A06182, KCTC 33858, CIP 111542, NBRC 113915

Strain history: CIP <- 2017, KCTC <- Y. Liu, Third Inst. State Oceanic Admin.: strain EB422

NCBI tax ID(s): 2026187 (species)

SI-ID 413747

CIP 111542

Other strains from Bacillus pacificus

B. pacificus CIP 68.9, ATCC 25098, NCIMB 1862

Section

Bacillus pacificus EB422 is a facultative anaerobe, spore-forming, Gram-positive bacterium that forms circular colonies and was isolated from sediment of the Pacific Ocean.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Bacillus*
	Species	**Bacillus pacificus**
	Full Scientific Name (LPSN)	Bacillus pacificus Liu et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43860]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #121503]	Gram stain	positive

[Ref.: #43860]	Cell length	3.0-4.0 µm

[Ref.: #43860]	Cell width	1.2-1.6 µm

[Ref.: #43860]	Cell shape	rod-shaped
[Ref.: #121503]	Cell shape	rod-shaped

[Ref.: #43860]	Motility	no
[Ref.: #121503]	Motility	yes

[Ref.: #43860]	Colony size	2-3 mm
[Ref.: #43860]	Colony color	white
[Ref.: #43860]	Colony shape	circular
[Ref.: #43860]	Incubation period	2 days
[Ref.: #43860]	Cultivation medium used	Luria-Bertani agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43860]

Culture medium

LB (Luria-Bertani) MEDIUM

[Ref.: #43860]

Culture medium growth

[Ref.: #43860]

Culture medium

Trypticase soy agar

[Ref.: #43860]

Culture medium growth

[Ref.: #121503]

Culture medium

CIP Medium 72

[Ref.: #121503]

Culture medium growth

[Ref.: #121503]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #43860]	growth	15-45 °C
[Ref.: #43860]	optimum	30 °C
[Ref.: #67771]	growth	28 °C

[Ref.: #43860]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43860]			optimum	6
[Ref.: #43860]			growth	5.0-10.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43860]	Oxygen tolerance	facultative anaerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #43860]	Spore description	central elliptical endospore
[Ref.: #43860]	Type of spore	endospore
[Ref.: #43860]	Ability of spore formation	yes

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43860]		NaCl		growth	0-9	%(w/v)
[Ref.: #43860]		NaCl		optimum	1	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43860]	2-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #43860]	5-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #43860]	amygdalin ChEBI	-	builds acid from
[Ref.: #43860]	arabinose ChEBI	-	builds acid from
[Ref.: #43860]	arbutin ChEBI	+	builds acid from
[Ref.: #43860]	casein	+	hydrolysis
[Ref.: #43860]	cellobiose ChEBI	-	builds acid from
[Ref.: #43860]	citrate ChEBI	+	carbon source
[Ref.: #43860]	D-arabinose ChEBI	-	builds acid from
[Ref.: #43860]	D-arabitol ChEBI	-	builds acid from
[Ref.: #43860]	D-fructose ChEBI	+	builds acid from
[Ref.: #43860]	D-fucose ChEBI	-	builds acid from
[Ref.: #43860]	D-galactose ChEBI	-	builds acid from
[Ref.: #43860]	D-glucose ChEBI	+	builds acid from
[Ref.: #43860]	D-lyxose ChEBI	-	builds acid from
[Ref.: #43860]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43860]	D-mannose ChEBI	-	builds acid from
[Ref.: #43860]	D-ribose ChEBI	+	builds acid from
[Ref.: #43860]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43860]	D-tagatose ChEBI	-	builds acid from
[Ref.: #43860]	D-xylose ChEBI	+	builds acid from
[Ref.: #43860]	erythritol ChEBI	-	builds acid from
[Ref.: #43860]	esculin ferric citrate	+	builds acid from
[Ref.: #43860]	galactitol ChEBI	-	builds acid from
[Ref.: #43860]	gentiobiose ChEBI	-	builds acid from
[Ref.: #43860]	glucose ChEBI	-	builds acid from
[Ref.: #43860]	glycerol ChEBI	-	builds acid from
[Ref.: #43860]	glycogen ChEBI	-	builds acid from
[Ref.: #43860]	inulin ChEBI	-	builds acid from
[Ref.: #43860]	L-arabitol ChEBI	-	builds acid from
[Ref.: #43860]	L-fucose ChEBI	-	builds acid from
[Ref.: #43860]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #43860]	L-sorbose ChEBI	-	builds acid from
[Ref.: #43860]	L-xylose ChEBI	-	builds acid from
[Ref.: #43860]	lactose ChEBI	-	builds acid from
[Ref.: #43860]	maltose ChEBI	+	builds acid from
[Ref.: #43860]	mannitol ChEBI	-	builds acid from
[Ref.: #43860]	melezitose ChEBI	-	builds acid from
[Ref.: #43860]	melibiose ChEBI	-	builds acid from
[Ref.: #43860]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from
[Ref.: #43860]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #43860]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #43860]	myo-inositol ChEBI	-	builds acid from
[Ref.: #43860]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #43860]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #43860]	raffinose ChEBI	-	builds acid from
[Ref.: #43860]	rhamnose ChEBI	-	builds acid from
[Ref.: #43860]	ribitol ChEBI	-	builds acid from
[Ref.: #43860]	salicin ChEBI	-	builds acid from
[Ref.: #43860]	skimmed milk	+	hydrolysis
[Ref.: #43860]	sorbitol ChEBI	-	builds acid from
[Ref.: #43860]	starch ChEBI	-	builds acid from
[Ref.: #43860]	starch ChEBI	-	hydrolysis
[Ref.: #43860]	sucrose ChEBI	-	builds acid from
[Ref.: #43860]	sucrose ChEBI	+	builds acid from
[Ref.: #43860]	trehalose ChEBI	+	builds acid from
[Ref.: #43860]	turanose ChEBI	-	builds acid from
[Ref.: #43860]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #43860]	acetoin ChEBI	yes
[Ref.: #43860]	hydrogen sulfide ChEBI	no
[Ref.: #43860]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #43860]		acetoin ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #43860]	arginine dihydrolase	+	3.5.3.6
[Ref.: #43860]	beta-galactosidase	-	3.2.1.23
[Ref.: #43860]	catalase	+	1.11.1.6
[Ref.: #43860]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43860]	gelatinase	+
[Ref.: #43860]	lysine decarboxylase	-	4.1.1.18
[Ref.: #43860]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #43860]	tryptophan deaminase	-	4.1.99.1
[Ref.: #43860]	urease	-	3.5.1.5

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43860]

Fatty acid	Percentage
C16:0	19.9
C15:0 iso	13.8
C16:1ω7c / C15:0 iso 2OH	8
C14:0	6.8
C15:0 anteiso	6.7
C13:0 iso	6.4
C16:0 iso	5.3
C17:0 iso	5.2
C17:1 iso I /C17:1 anteiso B	4.6
C14:0 iso	3.5
C18:1ω9c	3
C17:0 anteiso	2.7
C13:0 anteiso	2
C18:0	2
C16:1ω11c	1.7
C12:0	1.7
C17:1 iso ω10c	1.7
C12:0 iso	1.2
C17:1 iso ω5c	1

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #43860]	Sample type/isolated from	sediment of the Pacific Ocean

[Ref.: #67771]	Sample type/isolated from	From bottom seawater, sediment
[Ref.: #67771]	Geographic location (country and/or sea, region)	the Pacific Ocean
[Ref.: #67771]	Country	Pacific Ocean

[Ref.: #121503]	Sample type/isolated from	Environment, Bottom seawater
[Ref.: #121503]	Country	Pacific Ocean
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KJ812450 (>99% sequence identity) for Bacillus from Microbeatlas

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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #121503]

Biosafety level

Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #43860]	16S rRNA gene sequence	KJ812450		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Bacillus pacificus EB422	GCA_001884025	contig	GenBank	2026187 tax ID	*

[Ref.: #43860]

GC-content

35.2 mol%

genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Bacillus pacificus EB422 NCBI: GCA_001884025.1
[Ref.: #69480]	flagellated	yes	70.291	yes
[Ref.: #69480]	gram-positive	yes	86.988	yes
[Ref.: #69480]	anaerobic	no	98.391	yes
[Ref.: #69480]	aerobic	yes	83.714	no
[Ref.: #69480]	halophile	no	93.232	no
[Ref.: #69480]	spore-forming	yes	92.179	yes
[Ref.: #69480]	thermophile	no	99.682	no
[Ref.: #69480]	glucose-util	yes	90.163	no
[Ref.: #69480]	motile	yes	60.769	yes
[Ref.: #69480]	glucose-ferment	no	91.083	no

Availability in culture collections External links

[Ref.: #43860]

Culture collection no.

MCCC 1A06182, KCTC 33858, CIP 111542, NBRC 113915

[Ref.: #96820]

SI-ID 413747

Literature:

Topic	Title	Authors	Journal	DOI	Year
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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#96820

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID413747.1 )

#121503 Collection of Institut Pasteur ; Curators of the CIP; CIP 111542
* These data were automatically processed and therefore are not curated

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