Strain identifier

BacDive ID: 24522

Type strain: Yes

Species: Actibacterium mucosum

Strain Designation: R46

Strain history: <- CECT <- M. J. Pujalte; R46

NCBI tax ID(s): 1454373 (strain), 1087332 (species)

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General

@ref: 21241

BacDive-ID: 24522

DSM-Number: 28448

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, ovoid-shaped

description: Actibacterium mucosum R46 is an aerobe, mesophilic, ovoid-shaped bacterium that was isolated from surface water.

NCBI tax id

NCBI tax idMatching level
1454373strain
1087332species

strain history

  • @ref: 21241
  • history: <- CECT <- M. J. Pujalte; R46

doi: 10.13145/bacdive24522.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Actibacterium
  • species: Actibacterium mucosum
  • full scientific name: Actibacterium mucosum Lucena et al. 2012

@ref: 21241

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Actibacterium

species: Actibacterium mucosum

full scientific name: Actibacterium mucosum Lucena et al. 2012 emend. Park et al. 2014

strain designation: R46

type strain: yes

Morphology

cell morphology

@refcell lengthcell widthcell shapemotilitygram stainconfidence
305241 µm0.35 µmovoid-shapedno
69480negative99.997

colony morphology

  • @ref: 21241
  • incubation period: 1-2 days

pigmentation

  • @ref: 30524
  • production: no

Culture and growth conditions

culture medium

  • @ref: 21241
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: 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

culture temp

@refgrowthtypetemperaturerange
21241positivegrowth30mesophilic
30524positivegrowth15-37

Physiology and metabolism

oxygen tolerance

  • @ref: 30524
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.987

halophily

  • @ref: 30524
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 1.7-5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
30524370543-hydroxybutyrate+carbon source
3052430089acetate+carbon source
3052417057cellobiose+carbon source
3052416947citrate+carbon source
3052428757fructose+carbon source
3052428260galactose+carbon source
3052417234glucose+carbon source
3052417754glycerol+carbon source
3052424996lactate+carbon source
3052425115malate+carbon source
3052437684mannose+carbon source
3052417268myo-inositol+carbon source
3052417272propionate+carbon source
3052415361pyruvate+carbon source
3052433942ribose+carbon source
3052430031succinate+carbon source
3052418222xylose+carbon source
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin+hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
21241cytochrome-c oxidase+1.9.3.1
30524alkaline phosphatase+3.1.3.1
30524catalase+1.11.1.6
30524cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
21241------++------------

Isolation, sampling and environmental information

isolation

  • @ref: 21241
  • sample type: surface water
  • geographic location: Valencia, Malvarrosa Beach
  • country: Spain
  • origin.country: ESP
  • continent: Europe
  • latitude: 39.4747
  • longitude: -0.3231

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Surface water

taxonmaps

  • @ref: 69479
  • File name: preview.99_6365.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_1920;97_2310;98_4704;99_6365&stattab=map
  • Last taxonomy: Actibacterium mucosum subclade
  • 16S sequence: HE590855
  • Sequence Identity:
  • Total samples: 297
  • soil counts: 2
  • aquatic counts: 290
  • animal counts: 5

Safety information

risk assessment

  • @ref: 21241
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21241
  • description: Actibacterium mucosum partial 16S rRNA gene, type strain CECT 7668T
  • accession: HE590855
  • length: 1412
  • database: ena
  • NCBI tax ID: 1454373

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actibacterium mucosum KCTC 23349GCA_000647975contigncbi1454373
66792Actibacterium mucosum KCTC 233491454373.5wgspatric1454373
66792Actibacterium mucosum KCTC 233492576861736draftimg1454373
66792Actibacterium mucosum KCTC 233492667527933draftimg1454373

GC content

  • @ref: 21241
  • GC-content: 61.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno53.821no
gram-positiveno98.202no
anaerobicno99.401no
halophileyes63.735no
spore-formingno96.595no
glucose-utilyes68.122no
thermophileno89.11yes
aerobicyes95.913no
flagellatedno86.763no
glucose-fermentno90.939yes

External links

@ref: 21241

culture collection no.: DSM 28448, CECT 7668, KCTC 23349

straininfo link

  • @ref: 88377
  • straininfo: 382380

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22228661Actibacterium mucosum gen. nov., sp. nov., a marine alphaproteobacterium from Mediterranean seawater.Lucena T, Ruvira MA, Garay E, Macian MC, Arahal DR, Pujalte MJInt J Syst Evol Microbiol10.1099/ijs.0.038026-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Mediterranean Sea, Molecular Sequence Data, Phosphatidylglycerols/analysis, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, SpainGenetics
Genetics24855309Draft Genome Sequence of Actibacterium mucosum KCTC 23349, a Marine Alphaproteobacterium with Complex Ionic Requirements Isolated from Mediterranean Seawater at Malvarrosa Beach, Valencia, Spain.Arahal DR, Shao Z, Lai Q, Pujalte MJGenome Announc10.1128/genomeA.00486-142014Phylogeny
Phylogeny24929932Actibacterium atlanticum sp. nov., isolated from surface seawater of the Atlantic Ocean.Li G, Lai Q, Sun F, Du Y, Liu X, Li G, Xie Y, Shao ZAntonie Van Leeuwenhoek10.1007/s10482-014-0203-72014Atlantic Ocean, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureGenetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmedjournal
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
21241Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28448Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28448)
30524Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172685628776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
68369Automatically annotated from API 20NE
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88377Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID382380.1