Strain identifier

BacDive ID: 6028

Type strain: Yes

Species: Halomonas desiderata

Strain Designation: FB 2, FB2

Strain history: CIP <- 1998, DSM <- F. Berendes: strain FB2

NCBI tax ID(s): 52021 (species)

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General

@ref: 3615

BacDive-ID: 6028

DSM-Number: 9502

keywords: 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Halomonas desiderata FB 2 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from sewage treatment plant.

NCBI tax id

  • NCBI tax id: 52021
  • Matching level: species

strain history

@refhistory
3615<- F. Berendes
118918CIP <- 1998, DSM <- F. Berendes: strain FB2

doi: 10.13145/bacdive6028.20230509.8.1

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 desiderata
  • full scientific name: Halomonas desiderata Berendes et al. 1997

  • synonyms

    @refsynonym
    20215Billgrantia desiderata
    20215Halomonas daqingensis

@ref: 3615

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Halomonadaceae

genus: Halomonas

species: Halomonas desiderata

full scientific name: Halomonas desiderata Berendes et al. 1997

strain designation: FB 2, FB2

type strain: yes

Morphology

cell morphology

  • @ref: 118918
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 118918

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3615MEDIUM 514 PLUS ADDITIONAL SALT (DSMZ Medium 514b)yeshttps://mediadive.dsmz.de/medium/514bName: MEDIUM 514 plus additional salt (DSMZ Medium 514b) Composition: NaCl 19.45 g/l Agar 17.5 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
3615BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
3615HALOMONAS DESIDERATA MEDIUM (DSMZ Medium 762)yeshttps://mediadive.dsmz.de/medium/762Name: HALOMONAS DESIDERATA MEDIUM (DSMZ Medium 762) Composition: Na2CO3 5.4 g/l Glucose 5.0 g/l NaHCO3 4.2 g/l KNO3 2.0 g/l KH2PO4 1.0 g/l MgCl2 x 6 H2O 0.2 g/l Distilled water
32735MEDIUM 285 - for Halomonas desideratayesSolution A - M0445 (900.000 ml);Solution B - M0445 (100.000 ml)
118918CIP Medium 285yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=285

culture temp

@refgrowthtypetemperaturerange
3615positivegrowth28mesophilic
32735positivegrowth30mesophilic
118918positivegrowth15-45
118918nogrowth5psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118918
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
118918NaClpositivegrowth2-10 %
118918NaClnogrowth0 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose-builds acid from15824
68371D-glucose-builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
118918citrate-carbon source16947
118918esculin-hydrolysis4853
118918hippurate-hydrolysis606565
118918nitrate-builds gas from17632
118918nitrate+reduction17632
118918nitrite+builds gas from16301
118918nitrite+reduction16301
118918malonate-assimilation15792
118918glucose-degradation17234

antibiotic resistance

  • @ref: 118918
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 118918
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11891815688acetoin-
11891817234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
118918oxidase+
118918alcohol dehydrogenase-1.1.1.1
118918gelatinase-
118918amylase-
118918DNase-
118918caseinase-3.4.21.50
118918catalase+1.11.1.6
118918tween esterase-
118918gamma-glutamyltransferase+2.3.2.2
118918lecithinase-
118918lipase-
118918lysine decarboxylase-4.1.1.18
118918ornithine decarboxylase-4.1.1.17
118918phenylalanine ammonia-lyase+4.3.1.24
118918tryptophan deaminase-
118918urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118918--+--++---++---+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118918-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118918---+---+-++--------+++----+----+++-++--+-+------++----++--------+------++--+--+----+----+-++-+++++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
3615sewage treatment plantGöttingenGermanyDEUEurope
118918Environment, Sewage treatment plant

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Water treatment plant

taxonmaps

  • @ref: 69479
  • File name: preview.99_46777.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_48;96_2666;97_9055;98_33784;99_46777&stattab=map
  • Last taxonomy: Halomonas
  • 16S sequence: X92417
  • Sequence Identity:
  • Total samples: 154
  • soil counts: 63
  • aquatic counts: 35
  • animal counts: 11
  • plant counts: 45

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
36151Risk group (German classification)
1189181Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: H.desiderata 16S ribosomal RNA
  • accession: X92417
  • length: 1495
  • database: ena
  • NCBI tax ID: 52021

External links

@ref: 3615

culture collection no.: DSM 9502, CIP 105505

straininfo link

  • @ref: 75514
  • straininfo: 13199

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17473232Halomonas gudaonensis sp. nov., isolated from a saline soil contaminated by crude oil.Wang YN, Cai H, Yu SL, Wang ZY, Liu J, Wu XLInt J Syst Evol Microbiol10.1099/ijs.0.64826-02007Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flagella/ultrastructure, Genes, rRNA, Gentian Violet, Halomonas/chemistry/*classification/*isolation & purification/physiology, Hydrogen-Ion Concentration, Microscopy, Electron, Scanning, Microscopy, Electron, Transmission, Molecular Sequence Data, Nucleic Acid Hybridization, Petroleum/microbiology, Phenazines, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, *Soil Microbiology, TemperatureGenetics
Phylogeny19060072Halomonas daqingensis sp. nov., a moderately halophilic bacterium isolated from an oilfield soil.Wu G, Wu XQ, Wang YN, Chi CQ, Tang YQ, Kida K, Wu XL, Luan ZKInt J Syst Evol Microbiol10.1099/ijs.0.65746-02008Fatty Acids/analysis, Halomonas/*classification/genetics/*physiology/ultrastructure, Microscopy, Electron, Transmission, Molecular Sequence Data, *Petroleum, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Species SpecificityGenetics
Phylogeny26036672Halomonas heilongjiangensis sp. nov., a novel moderately halophilic bacterium isolated from saline and alkaline soil.Dou G, He W, Liu H, Ma YAntonie Van Leeuwenhoek10.1007/s10482-015-0493-42015Aerobiosis, 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, TemperatureGenetics
Phylogeny29458658Halomonas saliphila sp. nov., a moderately halophilic bacterium isolated from a saline soil.Gan L, Long X, Zhang H, Hou Y, Tian J, Zhang Y, Tian YInt J Syst Evol Microbiol10.1099/ijsem.0.0026442018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Halomonas/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny29561252Halomonas endophytica sp. nov., isolated from liquid in the stems of Populus euphratica.Chen C, Anwar N, Wu C, Fu G, Wang R, Zhang C, Wu Y, Sun C, Wu MInt J Syst Evol Microbiol10.1099/ijsem.0.0025852018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Halomonas/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Stems/microbiology, Populus/*microbiology, Quinones/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome
Phylogeny33136204Halomonas bachuensis sp. nov., Isolated from Gobi Soil.Xiao Z, Shen J, Wang Z, Dong F, Zhao JYCurr Microbiol10.1007/s00284-020-02268-w2020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids, *Halomonas/genetics, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, SoilTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3615Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9502)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9502
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
32735Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17531
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
69479João 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
75514Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13199.1StrainInfo: A central database for resolving microbial strain identifiers
118918Curators of the CIPCollection of Institut Pasteur (CIP 105505)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105505