Strain identifier

BacDive ID: 159746

Type strain: Yes

Species: Arenimonas caeni

Strain Designation: z29

Strain history: H. Liu; Anhui Normal Univ., China; z29.

NCBI tax ID(s): 2058085 (species)

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General

@ref: 66666

BacDive-ID: 159746

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped, colony-forming

description: Arenimonas caeni z29 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from activated sludge in a municipal wastewater treatment plant.

NCBI tax id

  • NCBI tax id: 2058085
  • Matching level: species

strain history

  • @ref: 67770
  • history: H. Liu; Anhui Normal Univ., China; z29.

doi: 10.13145/bacdive159746.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Lysobacterales
  • family: Lysobacteraceae
  • genus: Arenimonas
  • species: Arenimonas caeni
  • full scientific name: Arenimonas caeni Liu et al. 2018

@ref: 66666

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Lysobacterales

family: Lysobacteraceae

genus: Arenimonas

species: Arenimonas caeni

strain designation: z29

type strain: yes

Morphology

cell morphology

  • @ref: 66666
  • gram stain: negative
  • cell length: 1.3-2.2 µm
  • cell width: 0.2-0.5 µm
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 66666
  • colony color: yellowish
  • colony shape: circular
  • incubation period: 2 days
  • medium used: LB (Luria-Bertani) agar

Culture and growth conditions

culture medium

  • @ref: 66666
  • name: LB (Luria-Bertani) agar
  • growth: yes

culture temp

@refgrowthtypetemperature
66666nogrowth10
66666positiveoptimum30
66666nogrowth45
66666positivegrowth15-42
67770positivegrowth30

culture pH

@refabilitytypepHPH range
66666positivegrowth6-10alkaliphile
66666positiveoptimum7-8

Physiology and metabolism

oxygen tolerance

  • @ref: 66666
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
66666no
69481no100

halophily

@refsaltgrowthtested relationconcentration
66666NaClpositivegrowth0-3 %(w/v)
66666NaClpositiveoptimum0-1 %(w/v)
66666NaClnogrowth4 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6666616024D-mannose-assimilation
6666616899D-mannitol-assimilation
6666617128adipate-assimilation
6666617306maltose-assimilation
6666617634D-glucose-assimilation
6666618401phenylacetate-assimilation
6666625115malate-assimilation
6666627689decanoate-assimilation
6666630849L-arabinose-assimilation
6666632032potassium gluconate-assimilation
6666653258sodium citrate-assimilation
6666659640N-acetylglucosamine-assimilation
666666731melezitose-builds acid from
6666612936D-galactose-builds acid from
6666615443inulin-builds acid from
6666615824D-fructose-builds acid from
6666615963ribitol-builds acid from
6666616024D-mannose-builds acid from
6666616443D-tagatose-builds acid from
6666616634raffinose-builds acid from
6666616813galactitol-builds acid from
6666616899D-mannitol-builds acid from
6666616988D-ribose-builds acid from
6666617057cellobiose-builds acid from
6666617108D-arabinose-builds acid from
6666617113erythritol-builds acid from
6666617151xylitol-builds acid from
6666617266L-sorbose-builds acid from
6666617268myo-inositol-builds acid from
6666617306maltose-builds acid from
6666617634D-glucose-builds acid from
6666617716lactose-builds acid from
6666617754glycerol-builds acid from
6666617814salicin-builds acid from
6666617924D-sorbitol-builds acid from
6666617992sucrose-builds acid from
6666618287L-fucose-builds acid from
6666618305arbutin-builds acid from
6666618333D-arabitol-builds acid from
6666618403L-arabitol-builds acid from
6666627082trehalose-builds acid from
6666627613amygdalin-builds acid from
6666628017starch-builds acid from
6666628053melibiose-builds acid from
6666628066gentiobiose-builds acid from
6666628087glycogen-builds acid from
6666628847D-fucose-builds acid from
6666630849L-arabinose-builds acid from
6666632032potassium gluconate-builds acid from
6666632528turanose-builds acid from
6666643943methyl alpha-D-mannoside-builds acid from
6666659640N-acetylglucosamine-builds acid from
6666662318D-lyxose-builds acid from
6666662345L-rhamnose-builds acid from
6666665327D-xylose-builds acid from
6666665328L-xylose-builds acid from
6666674863methyl beta-D-xylopyranoside-builds acid from
66666320061methyl alpha-D-glucopyranoside-builds acid from
66666esculin ferric citrate-builds acid from
66666potassium 2-dehydro-D-gluconate-builds acid from
66666potassium 5-dehydro-D-gluconate-builds acid from
6666617634D-glucose-fermentation
6666616199urea-hydrolysis
6666617029chitin-hydrolysis
6666628017starch-hydrolysis
6666662968cellulose-hydrolysis
666665291gelatin+hydrolysis
6666616991dna+hydrolysis
6666617632nitrate-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6666615688acetoinno
6666635581indoleno

metabolite tests

  • @ref: 66666
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
66666alpha-fucosidase-3.2.1.51
66666alpha-galactosidase-3.2.1.22
66666alpha-glucosidase-3.2.1.20
66666alpha-mannosidase-3.2.1.24
66666arginine dihydrolase-3.5.3.6
66666beta-galactosidase-3.2.1.23
66666beta-glucosidase-3.2.1.21
66666beta-glucuronidase-3.2.1.31
66666cystine arylamidase-3.4.11.3
66666lipase (C 14)-
66666N-acetyl-beta-glucosaminidase-3.2.1.52
66666naphthol-AS-BI-phosphohydrolase-
66666urease-3.5.1.5
66666valine arylamidase-
66666acid phosphatase+3.1.3.2
66666alkaline phosphatase+3.1.3.1
66666alpha-chymotrypsin+3.4.21.1
66666catalase+1.11.1.6
66666cytochrome oxidase+1.9.3.1
66666esterase (C 4)+
66666esterase Lipase (C 8)+
66666leucine arylamidase+3.4.11.1
66666trypsin+3.4.21.4

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
66666activated sludge in a municipal wastewater treatment plantWuhu, AnhuiChinaCHNAsia
67770Activated sludge in a municipal wastewater treatment plant at WuhuAnhuiChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Waste#Activated sludge
#Engineered#Waste#Water treatment plant

taxonmaps

  • @ref: 69479
  • File name: preview.99_47266.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_3434;97_26804;98_34109;99_47266&stattab=map
  • Last taxonomy: Arenimonas caeni
  • 16S sequence: MG603321
  • Sequence Identity:
  • Total samples: 781
  • soil counts: 259
  • aquatic counts: 398
  • animal counts: 94
  • plant counts: 30

Sequence information

16S sequences

  • @ref: 66666
  • description: Arenimonas caeni strain z29 16S ribosomal RNA gene, partial sequence
  • accession: MG603321
  • length: 1506
  • database: nuccore
  • NCBI tax ID: 2058085

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Arenimonas caeni z292835097387draftimg2058085
67770Arenimonas caeni z29GCA_003024235scaffoldncbi2058085

GC content

  • @ref: 66666
  • GC-content: 70.2
  • method: genome sequence analysis

Genome-based predictions

predictions

  • @ref: 69481
  • trait: spore-forming
  • model: spore-forming
  • description: Ability to form endo- or exospores
  • prediction: no
  • confidence: 100
  • training_data: no

External links

@ref: 66666

culture collection no.: JCM 32091, CCTCC AB 2017067

literature

  • topic: Phylogeny
  • Pubmed-ID: 30040064
  • title: Arenimonas caeni sp. nov., isolated from activated sludge.
  • authors: Liu H, Ren L, Lu P, Sun L, Zhu G
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002937
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Ubiquinone/chemistry, Xanthomonadaceae/*classification/genetics/isolation & purification
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
66666Hongming Liu, Lei Ren, Peng Lu, Lina Sun, Guoping ZhuArenimonas caeni sp. nov., isolated from activated sludge10.1099/ijsem.0.002937IJSEM 68: 2996-3000 201830040064
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/
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