Strain identifier
BacDive ID: 6042
Type strain:
Species: Halomonas ventosae
Strain Designation: Al12
Strain history: CIP <- 2004, CECT <- M. Martinez-Canovas, Spain: strain Al12
NCBI tax ID(s): 229007 (species)
General
@ref: 6179
BacDive-ID: 6042
DSM-Number: 15911
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Halomonas ventosae Al12 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil with high salt content.
NCBI tax id
- NCBI tax id: 229007
- Matching level: species
strain history
@ref | history |
---|---|
6179 | <- M. Martinez-Canovas; Al12 <- A. Valera |
123814 | CIP <- 2004, CECT <- M. Martinez-Canovas, Spain: strain Al12 |
doi: 10.13145/bacdive6042.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Oceanospirillales
- family: Halomonadaceae
- genus: Halomonas
- species: Halomonas ventosae
- full scientific name: Halomonas ventosae Martínez-Cánovas et al. 2004
@ref: 6179
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Oceanospirillales
family: Halomonadaceae
genus: Halomonas
species: Halomonas ventosae
full scientific name: Halomonas ventosae Martínez-Cánovas et al. 2004
strain designation: Al12
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility |
---|---|---|---|---|---|
30101 | negative | 1.3 µm | 0.75 µm | rod-shaped | yes |
123814 | negative | rod-shaped | yes |
pigmentation
- @ref: 30101
- production: no
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6179 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 30.0 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 |
36733 | MEDIUM 110 - for Halomonas meridiana | yes | Distilled water make up to (960.000 ml);Sodium chloride (30.000 g);Potassium chloride (5.000 g);Magnesium chloride hexahydrate (5.000 g);Magnesium sulphate heptahydrate (9.500 g);Calcium chloride dihydrate (0.200 g);Agar (15.000 g);Yeast extract (1.000g); | |
123814 | CIP Medium 110 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=110 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6179 | positive | growth | 28 | mesophilic |
30101 | positive | growth | 15-50 | |
30101 | positive | optimum | 32.5 | mesophilic |
36733 | positive | growth | 25 | mesophilic |
123814 | positive | growth | 25-37 | mesophilic |
123814 | no | growth | 5 | psychrophilic |
123814 | no | growth | 15 | psychrophilic |
123814 | no | growth | 41 | thermophilic |
123814 | no | growth | 45 | thermophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
30101 | positive | growth | 06-10 | alkaliphile |
30101 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
- @ref: 30101
- oxygen tolerance: aerobe
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
30101 | NaCl | positive | growth | 01-15 % |
30101 | NaCl | positive | optimum | 8 % |
123814 | NaCl | positive | growth | 2-10 % |
123814 | NaCl | no | growth | 0 % |
observation
- @ref: 30101
- observation: aggregates in clumps
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30101 | 30089 | acetate | + | carbon source |
30101 | 15963 | ribitol | + | carbon source |
30101 | 16947 | citrate | + | carbon source |
30101 | 28757 | fructose | + | carbon source |
30101 | 28260 | galactose | + | carbon source |
30101 | 24265 | gluconate | + | carbon source |
30101 | 17234 | glucose | + | carbon source |
30101 | 24996 | lactate | + | carbon source |
30101 | 17716 | lactose | + | carbon source |
30101 | 15792 | malonate | + | carbon source |
30101 | 17306 | maltose | + | carbon source |
30101 | 29864 | mannitol | + | carbon source |
30101 | 28044 | phenylalanine | + | carbon source |
30101 | 17272 | propionate | + | carbon source |
30101 | 30911 | sorbitol | + | carbon source |
30101 | 30031 | succinate | + | carbon source |
30101 | 27082 | trehalose | + | carbon source |
30101 | 53424 | tween 20 | + | carbon source |
30101 | 17632 | nitrate | + | reduction |
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | 24265 | gluconate | - | builds acid from |
68371 | 18403 | L-arabitol | - | builds acid from |
68371 | 18333 | D-arabitol | - | builds acid from |
68371 | 18287 | L-fucose | - | builds acid from |
68371 | 28847 | D-fucose | - | builds acid from |
68371 | 16443 | D-tagatose | - | builds acid from |
68371 | 62318 | D-lyxose | - | builds acid from |
68371 | 32528 | turanose | - | builds acid from |
68371 | 28066 | gentiobiose | - | builds acid from |
68371 | 17151 | xylitol | - | builds acid from |
68371 | 28087 | glycogen | - | builds acid from |
68371 | 28017 | starch | - | builds acid from |
68371 | 16634 | raffinose | - | builds acid from |
68371 | 6731 | melezitose | - | builds acid from |
68371 | 15443 | inulin | - | builds acid from |
68371 | 27082 | trehalose | - | builds acid from |
68371 | 17992 | sucrose | - | builds acid from |
68371 | 28053 | melibiose | - | builds acid from |
68371 | 17716 | lactose | - | builds acid from |
68371 | 17306 | maltose | - | builds acid from |
68371 | 17057 | cellobiose | - | builds acid from |
68371 | 17814 | salicin | - | builds acid from |
68371 | 4853 | esculin | - | builds acid from |
68371 | 18305 | arbutin | - | builds acid from |
68371 | 27613 | amygdalin | - | builds acid from |
68371 | 59640 | N-acetylglucosamine | - | builds acid from |
68371 | 320061 | methyl alpha-D-glucopyranoside | - | builds acid from |
68371 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
68371 | 17924 | D-sorbitol | - | builds acid from |
68371 | 16899 | D-mannitol | - | builds acid from |
68371 | 17268 | myo-inositol | - | builds acid from |
68371 | 16813 | galactitol | - | builds acid from |
68371 | 62345 | L-rhamnose | - | builds acid from |
68371 | 17266 | L-sorbose | - | builds acid from |
68371 | 16024 | D-mannose | - | builds acid from |
68371 | 15824 | D-fructose | - | builds acid from |
68371 | 17634 | D-glucose | - | builds acid from |
68371 | 12936 | D-galactose | - | builds acid from |
68371 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
68371 | 15963 | ribitol | - | builds acid from |
68371 | 65328 | L-xylose | - | builds acid from |
68371 | 65327 | D-xylose | - | builds acid from |
68371 | 16988 | D-ribose | - | builds acid from |
68371 | 30849 | L-arabinose | - | builds acid from |
68371 | 17108 | D-arabinose | - | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
68371 | 17754 | glycerol | - | builds acid from |
123814 | 16947 | citrate | - | carbon source |
123814 | 4853 | esculin | - | hydrolysis |
123814 | 606565 | hippurate | + | hydrolysis |
123814 | 17632 | nitrate | + | reduction |
123814 | 16301 | nitrite | - | reduction |
123814 | 15792 | malonate | - | assimilation |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
30101 | 16136 | hydrogen sulfide | yes |
123814 | 35581 | indole | no |
enzymes
@ref | value | activity | ec |
---|---|---|---|
30101 | catalase | + | 1.11.1.6 |
30101 | cytochrome oxidase | + | 1.9.3.1 |
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 |
123814 | oxidase | + | |
123814 | beta-galactosidase | - | 3.2.1.23 |
123814 | alcohol dehydrogenase | - | 1.1.1.1 |
123814 | gelatinase | - | |
123814 | amylase | - | |
123814 | DNase | - | |
123814 | caseinase | - | 3.4.21.50 |
123814 | catalase | + | 1.11.1.6 |
123814 | gamma-glutamyltransferase | + | 2.3.2.2 |
123814 | lecithinase | - | |
123814 | lipase | + | |
123814 | lysine decarboxylase | - | 4.1.1.18 |
123814 | ornithine decarboxylase | - | 4.1.1.17 |
123814 | phenylalanine ammonia-lyase | + | 4.3.1.24 |
123814 | protease | - | |
123814 | tryptophan deaminase | - | |
123814 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123814 | - | + | + | - | - | + | - | - | + | - | - | + | - | + | - | + | - | - | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123814 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
6179 | soil with high salt content | Jaen | Spain | ESP | Europe |
123814 | Environment, Soil with high salt content | Spain | ESP | Europe |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Soil |
#Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_1490.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_48;96_430;97_996;98_1176;99_1490&stattab=map
- Last taxonomy: Halomonas
- 16S sequence: AY268080
- Sequence Identity:
- Total samples: 2207
- soil counts: 202
- aquatic counts: 1169
- animal counts: 721
- plant counts: 115
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6179 | 1 | Risk group (German classification) |
123814 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 6179
- description: Halomonas ventosae 16S ribosomal RNA gene, partial sequence
- accession: AY268080
- length: 1395
- database: ena
- NCBI tax ID: 229007
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Halomonas ventosae CECT 5797 | GCA_004363555 | scaffold | ncbi | 229007 |
66792 | Halomonas ventosae strain CECT 5797 | 229007.12 | wgs | patric | 229007 |
66792 | Halomonas ventosae CECT 5797 | 2770939578 | draft | img | 229007 |
GC content
@ref | GC-content |
---|---|
6179 | 72.6 |
30101 | 74.3 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 88.837 | yes |
flagellated | yes | 61.598 | no |
gram-positive | no | 98.422 | yes |
anaerobic | no | 98.622 | yes |
aerobic | yes | 88.258 | yes |
halophile | yes | 93.258 | yes |
spore-forming | no | 96.338 | no |
glucose-util | yes | 92.012 | yes |
thermophile | no | 97.937 | yes |
glucose-ferment | no | 79.908 | no |
External links
@ref: 6179
culture collection no.: DSM 15911, CECT 5797, CIP 108433
straininfo link
- @ref: 75529
- straininfo: 354034
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 15143016 | Halomonas ventosae sp. nov., a moderately halophilic, denitrifying, exopolysaccharide-producing bacterium. | Martinez-Canovas MJ, Quesada E, Llamas I, Bejar V | Int J Syst Evol Microbiol | 10.1099/ijs.0.02942-0 | 2004 | Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Halomonas/*classification/genetics/isolation & purification/*metabolism, Microscopy, Electron, Scanning, Molecular Sequence Data, Nitrates/metabolism, Nitrites/metabolism, Phenotype, Polysaccharides, Bacterial/biosynthesis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics | Metabolism |
Phylogeny | 17551033 | Halomonas shengliensis sp. nov., a moderately halophilic, denitrifying, crude-oil-utilizing bacterium. | Wang YN, Cai H, Chi CQ, Lu AH, Lin XG, Jiang ZF, Wu XL | Int J Syst Evol Microbiol | 10.1099/ijs.0.64973-0 | 2007 | Aerobiosis, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flagella, Genes, rRNA, Halomonas/*classification/genetics/isolation & purification/*metabolism, Hydrogen-Ion Concentration, Microscopy, Electron, Transmission, Molecular Sequence Data, Nitrogen/*metabolism, Nucleic Acid Hybridization, Petroleum/*metabolism, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, *Soil Microbiology, Temperature | Metabolism |
Phylogeny | 21112990 | Halomonas stenophila sp. nov., a halophilic bacterium that produces sulphate exopolysaccharides with biological activity. | Llamas I, Bejar V, Martinez-Checa F, Martinez-Canovas MJ, Molina I, Quesada E | Int J Syst Evol Microbiol | 10.1099/ijs.0.026369-0 | 2010 | Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Halomonas/*classification/genetics/*isolation & purification/metabolism, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Polysaccharides, Bacterial/*metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Soil Microbiology, Sulfates/*metabolism, Temperature | Metabolism |
Phylogeny | 26036672 | Halomonas heilongjiangensis sp. nov., a novel moderately halophilic bacterium isolated from saline and alkaline soil. | Dou G, He W, Liu H, Ma Y | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0493-4 | 2015 | Aerobiosis, Base Composition, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Halomonas/*classification/genetics/*isolation & purification/physiology, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, Temperature | Genetics |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
6179 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15911) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15911 | |||
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 | |||
30101 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26457 | 28776041 | |
36733 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/6055 | ||||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
68371 | Automatically annotated from API 50CH acid | |||||
68382 | Automatically annotated from API zym | |||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
75529 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID354034.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123814 | Curators of the CIP | Collection of Institut Pasteur (CIP 108433) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108433 |