Strain identifier
BacDive ID: 140961
Type strain:
Species: Bacillus pacificus
Strain Designation: EB422
Strain history: CIP <- 2017, KCTC <- Y. Liu, Third Inst. State Oceanic Admin.: strain EB422
NCBI tax ID(s): 2026187 (species)
General
@ref: 43860
BacDive-ID: 140961
keywords: gram-positive, spore-forming, facultative anaerobe, Bacteria, 16S sequence, genome sequence, rod-shaped, colony-forming
description: 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.
doi: 10.13145/bacdive140961.20201210.5
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/firmicutes
- domain: Bacteria
- phylum: Firmicutes
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Bacillus
- species: Bacillus pacificus
- full scientific name: Bacillus pacificus Liu et al. 2017
@ref: 43860
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Caryophanales
family: Bacillaceae
genus: Bacillus
species: Bacillus pacificus
strain designation: EB422
type strain: yes
Morphology
cell morphology
- @ref: 43860
- gram stain: positive
- cell length: 3.0-4.0 µm
- cell width: 1.2-1.6 µm
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 43860
- colony size: 2-3 mm
- colony color: white
- colony shape: circular
- incubation period: 2 days
- medium used: Luria-Bertani agar
Culture and growth conditions
culture medium
@ref | name | growth |
---|---|---|
43860 | LB (Luria-Bertani) MEDIUM | yes |
43860 | Trypticase soy agar | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
43860 | positive | growth | 15-45 | |
43860 | positive | optimum | 30 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
43860 | positive | growth | 5.0-10.0 |
43860 | positive | optimum | 6 |
Physiology and metabolism
oxygen tolerance
- @ref: 43860
- oxygen tolerance: facultative anaerobe
spore formation
- @ref: 43860
- spore description: central elliptical endospore
- type of spore: endospore
- spore formation: yes
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
43860 | NaCl | positive | growth | 0-9 %(w/v) |
43860 | NaCl | positive | optimum | 1 %(w/v) |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
43860 | 16808 | 2-dehydro-D-gluconate | - | builds acid from |
43860 | 58143 | 5-dehydro-D-gluconate | - | builds acid from |
43860 | 27613 | amygdalin | - | builds acid from |
43860 | 22599 | arabinose | - | builds acid from |
43860 | 17057 | cellobiose | - | builds acid from |
43860 | 15963 | ribitol | - | builds acid from |
43860 | 17108 | D-arabinose | - | builds acid from |
43860 | 18333 | D-arabitol | - | builds acid from |
43860 | 28847 | D-fucose | - | builds acid from |
43860 | 12936 | D-galactose | - | builds acid from |
43860 | 62318 | D-lyxose | - | builds acid from |
43860 | 16899 | D-mannitol | - | builds acid from |
43860 | 16024 | D-mannose | - | builds acid from |
43860 | 17924 | D-sorbitol | - | builds acid from |
43860 | 16443 | D-tagatose | - | builds acid from |
43860 | 16813 | galactitol | - | builds acid from |
43860 | 17113 | erythritol | - | builds acid from |
43860 | 28066 | gentiobiose | - | builds acid from |
43860 | 17234 | glucose | - | builds acid from |
43860 | 17754 | glycerol | - | builds acid from |
43860 | 28087 | glycogen | - | builds acid from |
43860 | 17268 | myo-inositol | - | builds acid from |
43860 | 15443 | inulin | - | builds acid from |
43860 | 18403 | L-arabitol | - | builds acid from |
43860 | 18287 | L-fucose | - | builds acid from |
43860 | 62345 | L-rhamnose | - | builds acid from |
43860 | 17266 | L-sorbose | - | builds acid from |
43860 | 65328 | L-xylose | - | builds acid from |
43860 | 17716 | lactose | - | builds acid from |
43860 | 29864 | mannitol | - | builds acid from |
43860 | 6731 | melezitose | - | builds acid from |
43860 | 28053 | melibiose | - | builds acid from |
43860 | 320061 | methyl alpha-D-glucopyranoside | - | builds acid from |
43860 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
43860 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
43860 | 32032 | potassium gluconate | - | builds acid from |
43860 | 16634 | raffinose | - | builds acid from |
43860 | 26546 | rhamnose | - | builds acid from |
43860 | 17814 | salicin | - | builds acid from |
43860 | 30911 | sorbitol | - | builds acid from |
43860 | 28017 | starch | - | builds acid from |
43860 | 17992 | sucrose | - | builds acid from |
43860 | 32528 | turanose | - | builds acid from |
43860 | 17151 | xylitol | - | builds acid from |
43860 | 28017 | starch | - | hydrolysis |
43860 | 18305 | arbutin | + | builds acid from |
43860 | 15824 | D-fructose | + | builds acid from |
43860 | 17634 | D-glucose | + | builds acid from |
43860 | 16988 | D-ribose | + | builds acid from |
43860 | 65327 | D-xylose | + | builds acid from |
43860 | esculin ferric citrate | + | builds acid from | |
43860 | 17306 | maltose | + | builds acid from |
43860 | 506227 | N-acetylglucosamine | + | builds acid from |
43860 | 17992 | sucrose | + | builds acid from |
43860 | 27082 | trehalose | + | builds acid from |
43860 | 16947 | citrate | + | carbon source |
43860 | casein | + | hydrolysis | |
43860 | skimmed milk | + | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
43860 | 16136 | hydrogen sulfide | no |
43860 | 35581 | indole | no |
43860 | 15688 | acetoin | yes |
metabolite tests
- @ref: 43860
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: +
enzymes
@ref | value | activity | ec |
---|---|---|---|
43860 | catalase | + | 1.11.1.6 |
43860 | cytochrome oxidase | + | 1.9.3.1 |
43860 | arginine dihydrolase | + | 3.5.3.6 |
43860 | gelatinase | + | |
43860 | beta-galactosidase | - | 3.2.1.23 |
43860 | lysine decarboxylase | - | 4.1.1.18 |
43860 | ornithine decarboxylase | - | 4.1.1.17 |
43860 | urease | - | 3.5.1.5 |
43860 | tryptophan deaminase | - | 4.1.99.1 |
fatty acid profile
fatty acids
@ref fatty acid percentage 43860 C13:0 anteiso 2 43860 C15:0 anteiso 6.7 43860 C17:0 anteiso 2.7 43860 C12:0 1.7 43860 C14:0 6.8 43860 C16:0 19.9 43860 C16:1ω11c 1.7 43860 C16:1ω7c / C15:0 iso 2OH 8 43860 C18:0 2 43860 C18:1ω9c 3 43860 C12:0 iso 1.2 43860 C13:0 iso 6.4 43860 C14:0 iso 3.5 43860 C15:0 iso 13.8 43860 C16:0 iso 5.3 43860 C17:0 iso 5.2 43860 C17:1 iso I /C17:1 anteiso B 4.6 43860 C17:1 iso ω10c 1.7 43860 C17:1 iso ω5c 1 - type of FA analysis: whole cell analysis
- incubation medium: Tripticase soy agar
- agar/liquid: agar
- incubation temperature: 28
- software version: Sherlock 6.0B
- library/peak naming table: TSBA 6.0
- system: MIS MIDI
- instrument: Agilent 6850 gas chromatograph
- cutoff value:
Isolation, sampling and environmental information
isolation
- @ref: 43860
- sample type: sediment of the Pacific Ocean
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Aquatic | #Sediment |
Sequence information
16S sequences
- @ref: 43860
- description: 16S rRNA gene sequence
- accession: KJ812450
- database: nuccore
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Bacillus pacificus SN4-1 | GCA_006349595 | contig | ncbi | 2026187 |
66792 | Bacillus pacificus NCCP 15909 | GCA_009884315 | complete | ncbi | 2026187 |
66792 | Bacillus pacificus EB422 | GCA_001884025 | contig | ncbi | 2026187 |
66792 | Bacillus pacificus TSAWB | GCA_011684125 | contig | ncbi | 2026187 |
66792 | Bacillus pacificus HD1.3 | GCA_013284485 | contig | ncbi | 2026187 |
66792 | Bacillus pacificus RC-1 | GCA_003858675 | contig | ncbi | 2026187 |
66792 | Bacillus pacificus 24-6 | GCA_010628775 | scaffold | ncbi | 2026187 |
66792 | Bacillus pacificus strain NCCP 15909 | 2026187.8 | complete | patric | 2026187 |
66792 | Bacillus pacificus strain RC-1 | 2026187.5 | wgs | patric | 2026187 |
66792 | Bacillus pacificus strain SN4-1 | 2026187.7 | wgs | patric | 2026187 |
GC content
- @ref: 43860
- GC-content: 35.2
- method: genome sequence analysis
External links
@ref: 43860
culture collection no.: MCCC 1A06182, KCTC 33858
Reference
@id | authors | title | doi/url | journal |
---|---|---|---|---|
20215 | D.Gleim, M.Kracht, N.Weiss et. al. | Prokaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes since | http://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.html | |
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 | 10.1099/ijsem.0.001821 | IJSEM 67: 2499-2508 2017 |
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) | https://diaspora-project.de/progress.html#genomes |