Strain identifier
BacDive ID: 6083
Type strain:
Species: Kushneria avicenniae
Strain Designation: Mw2a
Strain history: CIP <- 2007, CECT <- 2006, A. Ventosa, Sevilla Univ., Sevilla, Spain <- R. Montalvo-Rodriguez, Puerto-Rico Univ., Puerto-Rico: strain MW2a
NCBI tax ID(s): 402385 (species)
General
@ref: 17211
BacDive-ID: 6083
DSM-Number: 23439
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Kushneria avicenniae Mw2a is an aerobe, mesophilic, Gram-negative bacterium that was isolated from leaves of the black mangrove Avicennia germinans.
NCBI tax id
- NCBI tax id: 402385
- Matching level: species
strain history
@ref | history |
---|---|
17211 | <- CECT <- A. Ventosa <- R. Montalvo-Rodríguez; Mw2a |
67770 | DSM 23439 <-- CECT 7193 <-- A. Ventosa <-- R. Montalvo-Rodríguez Mw2a. |
116663 | CIP <- 2007, CECT <- 2006, A. Ventosa, Sevilla Univ., Sevilla, Spain <- R. Montalvo-Rodriguez, Puerto-Rico Univ., Puerto-Rico: strain MW2a |
doi: 10.13145/bacdive6083.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Oceanospirillales
- family: Halomonadaceae
- genus: Kushneria
- species: Kushneria avicenniae
- full scientific name: Kushneria avicenniae (Soto-Ramírez et al. 2007) Sánchez-Porro et al. 2009
synonyms
- @ref: 20215
- synonym: Halomonas avicenniae
@ref: 17211
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Oceanospirillales
family: Halomonadaceae
genus: Kushneria
species: Kushneria avicenniae
full scientific name: Kushneria avicenniae (Soto-Ramírez et al. 2007) Sánchez-Porro et al. 2009
strain designation: Mw2a
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
32017 | negative | 2.3 µm | 1.5 µm | rod-shaped | ||
69480 | yes | 96.822 | ||||
69480 | negative | 99.973 | ||||
116663 | negative | oval-shaped | yes |
pigmentation
- @ref: 32017
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
17211 | 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 |
37819 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
116663 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 | |
116663 | CIP Medium 328 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
17211 | positive | growth | 28 | mesophilic |
32017 | positive | growth | 12-40 | |
32017 | positive | optimum | 32.5 | mesophilic |
37819 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
32017 | positive | growth | 05-09 | alkaliphile |
32017 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
32017 | aerobe |
116663 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
32017 | no | |
69481 | no | 100 |
69480 | no | 99.956 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32017 | NaCl | positive | growth | 0-25 % |
32017 | NaCl | positive | optimum | 5 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32017 | 22599 | arabinose | + | carbon source |
32017 | 16947 | citrate | + | carbon source |
32017 | 28757 | fructose | + | carbon source |
32017 | 28260 | galactose | + | carbon source |
32017 | 5291 | gelatin | + | carbon source |
32017 | 17234 | glucose | + | carbon source |
32017 | 17754 | glycerol | + | carbon source |
32017 | 17306 | maltose | + | carbon source |
32017 | 29864 | mannitol | + | carbon source |
32017 | 17992 | sucrose | + | carbon source |
32017 | 18222 | xylose | + | carbon source |
32017 | 4853 | esculin | + | hydrolysis |
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 | 16443 | D-tagatose | - | 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 | 28053 | melibiose | - | builds acid from |
68371 | 17814 | salicin | - | 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 | 17266 | L-sorbose | - | 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 | 17108 | D-arabinose | - | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
68371 | 17754 | glycerol | - | builds acid from |
116663 | 17632 | nitrate | - | reduction |
116663 | 16301 | nitrite | - | reduction |
metabolite production
- @ref: 116663
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
32017 | catalase | + | 1.11.1.6 |
32017 | gelatinase | + | |
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 |
116663 | oxidase | - | |
116663 | catalase | + | 1.11.1.6 |
116663 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116663 | - | + | + | - | - | - | - | - | - | - | + | + | - | - | - | + | + | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116663 | - | - | - | +/- | +/- | +/- | - | - | - | +/- | +/- | +/- | +/- | - | +/- | - | - | - | - | - | - | - | - | - | +/- | - | +/- | +/- | +/- | - | +/- | - | - | - | - | - | - | - | - | +/- | +/- | - | +/- | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | geographic location | country | origin.country | continent |
---|---|---|---|---|---|---|
17211 | leaves of the black mangrove Avicennia germinans | Avicennia germinans | Cape Red | Puerto Rico | PRI | Middle and South America |
67770 | Leaf surface of Avicennia germinans (black mangrove) | Avicennia germinans | ||||
116663 | Plant, Leaves, Avicennia germinans | Cape Red, Puerto Rico | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Tree |
#Host Body-Site | #Plant | #Leaf (Phyllosphere) |
taxonmaps
- @ref: 69479
- File name: preview.99_13502.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_48;96_6462;97_7747;98_10197;99_13502&stattab=map
- Last taxonomy: Kushneria avicenniae
- 16S sequence: DQ888315
- Sequence Identity:
- Total samples: 36
- soil counts: 3
- aquatic counts: 14
- animal counts: 18
- plant counts: 1
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
17211 | 1 | Risk group (German classification) |
116663 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 17211
- description: Halomonas avicenniae strain MW2a 16S ribosomal RNA gene, partial sequence
- accession: DQ888315
- length: 1433
- database: ena
- NCBI tax ID: 402385
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Kushneria avicenniae strain DSM 23439 | 402385.4 | wgs | patric | 402385 |
66792 | Kushneria avicenniae DSM 23439 | 2684623008 | draft | img | 402385 |
67770 | Kushneria avicenniae DSM 23439 | GCA_900112585 | contig | ncbi | 402385 |
GC content
@ref | GC-content | method |
---|---|---|
32017 | 61.5 | |
67770 | 61.4 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | no | 98.162 | yes |
anaerobic | no | 98.833 | no |
halophile | yes | 85.938 | no |
spore-forming | no | 96.235 | yes |
glucose-util | yes | 95.706 | yes |
aerobic | yes | 95.436 | yes |
flagellated | no | 70.103 | no |
thermophile | no | 99.176 | yes |
motile | yes | 89.291 | no |
glucose-ferment | no | 54.478 | no |
External links
@ref: 17211
culture collection no.: DSM 23439, CECT 7193, CIP 109711, JCM 18993, CCM 7396
straininfo link
- @ref: 75571
- straininfo: 308612
literature
- topic: Phylogeny
- Pubmed-ID: 17473230
- title: Halomonas avicenniae sp. nov., isolated from the salty leaves of the black mangrove Avicennia germinans in Puerto Rico.
- authors: Soto-Ramirez N, Sanchez-Porro C, Rosas S, Gonzalez W, Quinones M, Ventosa A, Montalvo-Rodriguez R
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64818-0
- year: 2007
- mesh: Avicennia/*microbiology, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Environmental Microbiology, Fatty Acids/analysis, Genes, rRNA/genetics, Gentian Violet, Halomonas/chemistry/*classification/*isolation & purification/physiology, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Phenazines, Phylogeny, Plant Leaves/*microbiology, Puerto Rico, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Temperature
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
17211 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23439) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23439 | |||
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 | |||
32017 | 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 | 28269 | 28776041 | |
37819 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/7485 | ||||
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) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
75571 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID308612.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
116663 | Curators of the CIP | Collection of Institut Pasteur (CIP 109711) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109711 |