Strain identifier
BacDive ID: 1482
Type strain:
Species: Virgibacillus carmonensis
Strain Designation: mccs2332
Strain history: CIP <- 2004, DSMZ <- LMG: strain mccs2332 <- J. Heyrman, Univ. Ghent, Belgium
NCBI tax ID(s): 171692 (species)
General
@ref: 5587
BacDive-ID: 1482
DSM-Number: 14868
keywords: 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped, colony-forming
description: Virgibacillus carmonensis mccs2332 is an aerobe, spore-forming, mesophilic bacterium that forms circular colonies and was isolated from mural painting.
NCBI tax id
- NCBI tax id: 171692
- Matching level: species
strain history
@ref | history |
---|---|
5587 | <- D. Janssens, LMG; mccs2332 <- J. Heyrman, Univ. Ghent, Belgium |
67770 | DSM 14868 <-- D. Janssens mccs2332 <-- J. Heyrman R-5521. |
117185 | CIP <- 2004, DSMZ <- LMG: strain mccs2332 <- J. Heyrman, Univ. Ghent, Belgium |
doi: 10.13145/bacdive1482.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Virgibacillus
- species: Virgibacillus carmonensis
- full scientific name: Virgibacillus carmonensis Heyrman et al. 2003
@ref: 5587
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Bacillaceae
genus: Virgibacillus
species: Virgibacillus carmonensis
full scientific name: Virgibacillus carmonensis Heyrman et al. 2003
strain designation: mccs2332
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility |
---|---|---|---|---|---|
23062 | positive | 2.0-7.0 µm | 0.5-0.7 µm | rod-shaped | yes |
117185 | positive | rod-shaped | yes |
colony morphology
@ref | colony size | colony color | colony shape | incubation period | medium used |
---|---|---|---|---|---|
23062 | 0.5-1.0 mm | pink tint (larger colonies) | circular | 1 day | MA medium |
117185 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
5587 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water |
23062 | MA medium | yes | ||
33930 | Marine agar (MA) | yes | Distilled water make up to (1000.000 ml);Marine agar (55.100 g) | |
117185 | CIP Medium 13 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
5587 | positive | growth | 28 | mesophilic |
23062 | positive | growth | 10.0-40.0 | |
23062 | positive | optimum | 25.0-30.0 | mesophilic |
33930 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
117185 | positive | growth | 10-30 | |
117185 | no | growth | 37 | mesophilic |
117185 | no | growth | 45 | thermophilic |
117185 | no | growth | 55 | thermophilic |
culture pH
- @ref: 117185
- ability: no
- type: growth
- pH: 6
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
23062 | aerobe |
117185 | obligate aerobe |
spore formation
- @ref: 23062
- spore description: ellipsoidal, sometimes nearly spherical,subterminal,in swollen sporangia
- type of spore: endospore
- spore formation: yes
halophily
@ref | salt | tested relation | concentration | growth |
---|---|---|---|---|
23062 | NaCl | optimum | 5.0 % | |
23062 | NaCl | optimum | 10.0 % | |
23062 | NaCl | growth | 0.0 % | no |
117185 | NaCl | growth | 0-10 % | positive |
murein
- @ref: 23062
- murein short key: A31
- type: A1gamma m-Dpm-direct
observation
- @ref: 67770
- observation: quinones: MK-7
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23062 | 16808 | 2-dehydro-D-gluconate | - | builds acid from |
23062 | 27613 | amygdalin | - | builds acid from |
23062 | 18305 | arbutin | - | builds acid from |
23062 | 15963 | ribitol | - | builds acid from |
23062 | 17108 | D-arabinose | - | builds acid from |
23062 | 18333 | D-arabitol | - | builds acid from |
23062 | 17057 | cellobiose | - | builds acid from |
23062 | 15824 | D-fructose | - | builds acid from |
23062 | 28847 | D-fucose | - | builds acid from |
23062 | 12936 | D-galactose | - | builds acid from |
23062 | 17634 | D-glucose | - | builds acid from |
23062 | 17716 | lactose | - | builds acid from |
23062 | 62318 | D-lyxose | - | builds acid from |
23062 | 17306 | maltose | - | builds acid from |
23062 | 16899 | D-mannitol | - | builds acid from |
23062 | 16024 | D-mannose | - | builds acid from |
23062 | 6731 | melezitose | - | builds acid from |
23062 | 28053 | melibiose | - | builds acid from |
23062 | 16634 | raffinose | - | builds acid from |
23062 | 16988 | D-ribose | - | builds acid from |
23062 | 17992 | sucrose | - | builds acid from |
23062 | 17924 | D-sorbitol | - | builds acid from |
23062 | 16443 | D-tagatose | - | builds acid from |
23062 | 16551 | D-trehalose | - | builds acid from |
23062 | 32528 | turanose | - | builds acid from |
23062 | 65327 | D-xylose | - | builds acid from |
23062 | 16813 | galactitol | - | builds acid from |
23062 | 17113 | erythritol | - | builds acid from |
23062 | 4853 | esculin | - | builds acid from |
23062 | 28066 | gentiobiose | - | builds acid from |
23062 | 24265 | gluconate | - | builds acid from |
23062 | 17754 | glycerol | - | builds acid from |
23062 | 28087 | glycogen | - | builds acid from |
23062 | 17268 | myo-inositol | - | builds acid from |
23062 | 15443 | inulin | - | builds acid from |
23062 | 30849 | L-arabinose | - | builds acid from |
23062 | 18403 | L-arabitol | - | builds acid from |
23062 | 18287 | L-fucose | - | builds acid from |
23062 | 62345 | L-rhamnose | - | builds acid from |
23062 | 17266 | L-sorbose | - | builds acid from |
23062 | 65328 | L-xylose | - | builds acid from |
23062 | 320061 | methyl alpha-D-glucopyranoside | - | builds acid from |
23062 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
23062 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
23062 | 506227 | N-acetylglucosamine | - | builds acid from |
23062 | 17814 | salicin | - | builds acid from |
23062 | 28017 | starch | - | builds acid from |
23062 | 17151 | xylitol | - | builds acid from |
23062 | 17108 | D-arabinose | - | carbon source |
23062 | 15824 | D-fructose | - | carbon source |
23062 | 17634 | D-glucose | - | carbon source |
23062 | 65327 | D-xylose | - | carbon source |
23062 | 17716 | lactose | - | carbon source |
23062 | 27897 | tryptophan | - | energy source |
23062 | 17426 | 5-dehydro-D-gluconate | + | builds acid from |
23062 | 17057 | cellobiose | + | carbon source |
23062 | 28053 | melibiose | + | carbon source |
23062 | 16551 | D-trehalose | + | carbon source |
23062 | 16634 | raffinose | + | carbon source |
23062 | 17992 | sucrose | + | carbon source |
23062 | casein | + | hydrolysis | |
23062 | 4853 | esculin | + | hydrolysis |
23062 | 17632 | nitrate | + | reduction |
117185 | 16947 | citrate | - | carbon source |
117185 | 4853 | esculin | - | hydrolysis |
117185 | 606565 | hippurate | - | hydrolysis |
117185 | 17632 | nitrate | + | reduction |
117185 | 16301 | nitrite | - | reduction |
117185 | 17632 | nitrate | - | respiration |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
23062 | 35581 | indole | no |
23062 | 16136 | hydrogen sulfide | no |
23062 | 15688 | acetoin | no |
117185 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test | methylred-test |
---|---|---|---|---|---|
23062 | 15688 | acetoin | - | ||
23062 | 35581 | indole | - | ||
117185 | 15688 | acetoin | - | ||
117185 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
23062 | arginine dihydrolase | - | 3.5.3.6 |
23062 | beta-galactosidase | - | 3.2.1.23 |
23062 | catalase | + | 1.11.1.6 |
23062 | gelatinase | - | |
23062 | lysine decarboxylase | - | 4.1.1.18 |
23062 | ornithine decarboxylase | - | 4.1.1.17 |
23062 | tryptophan deaminase | - | 4.1.99.1 |
23062 | urease | - | 3.5.1.5 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
117185 | oxidase | - | |
117185 | beta-galactosidase | - | 3.2.1.23 |
117185 | alcohol dehydrogenase | - | 1.1.1.1 |
117185 | gelatinase | + | |
117185 | amylase | - | |
117185 | DNase | - | |
117185 | caseinase | + | 3.4.21.50 |
117185 | catalase | + | 1.11.1.6 |
117185 | tween esterase | - | |
117185 | gamma-glutamyltransferase | - | 2.3.2.2 |
117185 | lecithinase | - | |
117185 | lipase | - | |
117185 | lysine decarboxylase | - | 4.1.1.18 |
117185 | ornithine decarboxylase | - | 4.1.1.17 |
117185 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
117185 | - | + | + | + | - | + | - | - | - | + | + | + | - | - | - | + | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
5587 | mural painting | Seville, Carmona | Spain | ESP | Europe |
23062 | Servilia tomb of Roman necropolis of Carmona (Seville) | ||||
67770 | Biofilm formation on the mural paintings of the Servilia tomb | necropolis of Carmona | Spain | ESP | Europe |
117185 | Mural painting | Spain | ESP | Europe |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Built environment | |
#Engineered | #Other | #Painting |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
5587 | 1 | Risk group (German classification) |
117185 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Virgibacillus carmonensis genes for 16S ribosomal RNA, internal transcribed spacer 1 and 23S ribosomal RNA, partial and complete sequence, clone: 588 | AB367174 | 588 | ena | 171692 |
20218 | Virgibacillus carmonensis genes for 16S ribosomal RNA, internal transcribed spacer 1 and 23S ribosomal RNA, partial and complete sequence, clone: 505 | AB367175 | 505 | ena | 171692 |
23062 | Virgibacillus carmonensis partial 16S rRNA gene, type strain LMG 20964T | AJ316302 | 1518 | nuccore | 171692 |
GC content
- @ref: 23062
- GC-content: 38.9
- method: high performance liquid chromatography (HPLC)
External links
@ref: 5587
culture collection no.: DSM 14868, JCM 16508, LMG 20964, KCTC 3819, CIP 108266
straininfo link
- @ref: 71128
- straininfo: 85322
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 12710619 | Virgibacillus carmonensis sp. nov., Virgibacillus necropolis sp. nov. and Virgibacillus picturae sp. nov., three novel species isolated from deteriorated mural paintings, transfer of the species of the genus salibacillus to Virgibacillus, as Virgibacillus marismortui comb. nov. and Virgibacillus salexigens comb. nov., and emended description of the genus Virgibacillus. | Heyrman J, Logan NA, Busse HJ, Balcaen A, Lebbe L, Rodriguez-Diaz M, Swings J, De Vos P | Int J Syst Evol Microbiol | 10.1099/ijs.0.02371-0 | 2003 | Bacillus/*classification/genetics/isolation & purification/metabolism, Base Composition, Biodegradation, Environmental, Biofilms, DNA, Bacterial/analysis/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Paintings, Phenotype, Phylogeny, RNA, Ribosomal, 16S/*analysis/genetics, Sequence Analysis, DNA | Genetics |
Phylogeny | 19643886 | Virgibacillus salinus sp. nov., a moderately halophilic bacterium from sediment of a saline lake. | Carrasco IJ, Marquez MC, Ventosa A | Int J Syst Evol Microbiol | 10.1099/ijs.0.009530-0 | 2009 | Bacillaceae/*classification/genetics/*isolation & purification/metabolism, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fresh Water/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolism | Metabolism |
Phylogeny | 19651717 | Virgibacillus byunsanensis sp. nov., isolated from a marine solar saltern. | Yoon JH, Kang SJ, Jung YT, Lee KC, Oh HW, Oh TK | Int J Syst Evol Microbiol | 10.1099/ijs.0.009837-0 | 2009 | Bacillaceae/*classification/genetics/physiology, Base Composition, Base Sequence, DNA, Bacterial/chemistry/genetics, Korea, Molecular Sequence Data, Oceans and Seas, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Salts/chemistry, Seawater/*microbiology, Sequence Homology, Nucleic Acid, *Water Microbiology | Genetics |
Phylogeny | 21239563 | Virgibacillus alimentarius sp. nov., isolated from a traditional Korean food. | Kim J, Jung MJ, Roh SW, Nam YD, Shin KS, Bae JW | Int J Syst Evol Microbiol | 10.1099/ijs.0.028191-0 | 2011 | Animals, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Fishes, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seafood/*microbiology, Sodium Chloride/metabolism, Virgibacillus/*classification/genetics/*isolation & purification/metabolism | Metabolism |
Phylogeny | 24801155 | Pseudogracilibacillus auburnensis gen. nov., sp. nov., isolated from the rhizosphere of Zea mays. | Glaeser SP, McInroy JA, Busse HJ, Kampfer P | Int J Syst Evol Microbiol | 10.1099/ijs.0.064584-0 | 2014 | Alabama, Bacillaceae/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids, Molecular Sequence Data, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Polyamines/chemistry, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry, Zea mays/*microbiology | Genetics |
Phylogeny | 25062698 | Aquibacillus halophilus gen. nov., sp. nov., a moderately halophilic bacterium from a hypersaline lake, and reclassification of Virgibacillus koreensis as Aquibacillus koreensis comb. nov. and Virgibacillus albus as Aquibacillus albus comb. nov. | Amoozegar MA, Bagheri M, Didari M, Mehrshad M, Schumann P, Sproer C, Sanchez-Porro C, Ventosa A | Int J Syst Evol Microbiol | 10.1099/ijs.0.065375-0 | 2014 | Bacillaceae/classification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Iran, Lakes/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, Spores, Bacterial/genetics, Virgibacillus/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry, Water Microbiology | Genetics |
Phylogeny | 29465338 | Virgibacillus phasianinus sp. nov., a halophilic bacterium isolated from faeces of a Swinhoe's pheasant, Lophura swinhoii. | Tak EJ, Kim HS, Lee JY, Kang W, Sung H, Kim PS, Hyun DW, Shin NR, Roh JR, Park SD, Shim HE, Bae JW | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002650 | 2018 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry, Feces/*microbiology, Galliformes/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Virgibacillus/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Phylogeny | 32997153 | Lentibacillus saliphilus. sp. nov., a moderately halophilic bacterium isolated from a saltern in Korea. | Wang Y, Jiang GQ, Lin HP, Sun P, Zhang HY, Lu DM, Wang LY, Kim CJ, Tang SK | Arch Microbiol | 10.1007/s00203-020-02043-2 | 2020 | Bacillaceae/*classification/*drug effects/genetics/isolation & purification, Base Composition, Fatty Acids/analysis, Genome, Bacterial/genetics, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sodium Chloride/*pharmacology, Species Specificity | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
5587 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14868) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14868 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
23062 | Jeroen Heyrman,Niall A. Logan,Hans-Jürgen Busse,An Balcaen,Liesbeth Lebbe,Marina Rodriguez-Diaz,Jean Swings,Paul De Vos | 10.1099/ijs.0.02371-0 | Virgibacillus carmonensis sp. nov., Virgibacillus necropolis sp. nov. and Virgibacillus picturae sp. nov., three novel species isolated from deteriorated mural paintings, transfer of the species of the genus Salibacillus to Virgibacillus, as Virgibacillus marismortui comb. nov. and Virgibacillus salexigens comb. nov., and emended description of the genus Virgibacillus | IJSEM 53: 501-511 2003 | 12710619 | |
33930 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5869 | ||||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68382 | Automatically annotated from API zym | |||||
71128 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID85322.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
117185 | Curators of the CIP | Collection of Institut Pasteur (CIP 108266) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108266 |