Strain identifier

BacDive ID: 134105

Type strain: Yes

Species: Asticcacaulis taihuensis

Strain Designation: T3-B7

Strain history: CIP <- 2005, JCM <- 2004, Y. Zhou: strain T3-B7

NCBI tax ID(s): 260084 (species)

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General

@ref: 31333

BacDive-ID: 134105

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

description: Asticcacaulis taihuensis T3-B7 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from Sediment of Taihu Lake.

NCBI tax id

  • NCBI tax id: 260084
  • Matching level: species

strain history

@refhistory
67770Y. Zhou T3-B7.
123417CIP <- 2005, JCM <- 2004, Y. Zhou: strain T3-B7

doi: 10.13145/bacdive134105.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Caulobacterales
  • family: Caulobacteraceae
  • genus: Asticcacaulis
  • species: Asticcacaulis taihuensis
  • full scientific name: Asticcacaulis taihuensis Liu et al. 2005

@ref: 31333

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Caulobacterales

family: Caulobacteraceae

genus: Asticcacaulis

species: Asticcacaulis taihuensis

strain designation: T3-B7

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
31333negativerod-shapedyes
69480negative99.986
123417negativerod-shapedyes

pigmentation

  • @ref: 123417
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
38311MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123417CIP Medium 368yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=368
123417CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29
123417CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
38311positivegrowth30mesophilic
67770positivegrowth30mesophilic
123417positivegrowth10-30
123417nogrowth37mesophilic
123417nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 31333
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31333no
69481no100
69480no100

halophily

  • @ref: 123417
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3133316449alanine+carbon source
3133322599arabinose+carbon source
3133317057cellobiose+carbon source
3133328757fructose+carbon source
3133328260galactose+carbon source
3133317234glucose+carbon source
3133317716lactose+carbon source
3133317306maltose+carbon source
3133337684mannose+carbon source
3133328053melibiose+carbon source
3133326271proline+carbon source
3133316634raffinose+carbon source
3133326546rhamnose+carbon source
3133317992sucrose+carbon source
3133327082trehalose+carbon source
3133318222xylose+carbon source
313334853esculin+hydrolysis
3133317632nitrate+reduction
12341716947citrate-carbon source
1234174853esculin+hydrolysis
12341717632nitrate+reduction
12341716301nitrite-reduction
12341717632nitrate-respiration

metabolite production

  • @ref: 123417
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
123417oxidase+
123417beta-galactosidase+3.2.1.23
123417alcohol dehydrogenase-1.1.1.1
123417gelatinase-
123417amylase-
123417DNase+
123417caseinase-3.4.21.50
123417catalase+1.11.1.6
123417tween esterase-
123417lecithinase-
123417lipase-
123417lysine decarboxylase-4.1.1.18
123417ornithine decarboxylase-4.1.1.17
123417protease-
123417tryptophan deaminase-
123417urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase+3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase+3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123417-+++-++-+-+++++-++-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123417++-+-----+--+-----+---+++---------++------------------++----------------------+----------++--+-----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
67770Sediment of Taihu LakeJiangsu ProvinceChinaCHNAsia
123417Environment, Sediment of Taihu LakeChinaCHNAsia

taxonmaps

  • @ref: 69479
  • File name: preview.99_18427.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_73;96_1736;97_2077;98_5601;99_18427&stattab=map
  • Last taxonomy: Asticcacaulis
  • 16S sequence: AY500141
  • Sequence Identity:
  • Total samples: 26673
  • soil counts: 14532
  • aquatic counts: 5071
  • animal counts: 1861
  • plant counts: 5209

Safety information

risk assessment

  • @ref: 123417
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 31333
  • description: Asticcacaulis taihuensis strain T3-B7 16S ribosomal RNA gene, partial sequence
  • accession: AY500141
  • length: 1424
  • database: nuccore
  • NCBI tax ID: 260084

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Asticcacaulis taihuensis strain CGMCC 1.3431260084.4wgspatric260084
66792Asticcacaulis taihuensis CGMCC 1.34312596583650draftimg260084
67770Asticcacaulis taihuensis CGMCC 1.3431GCA_900100255scaffoldncbi260084

GC content

@refGC-contentmethod
3133359
6777059thermal denaturation, midpoint method (Tm)
6777060.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes86.285no
gram-positiveno97.993yes
anaerobicno99.464yes
aerobicyes89.689yes
halophileno95.387no
spore-formingno95.773yes
glucose-utilyes89.539no
flagellatedno84.782no
thermophileno98.803yes
glucose-fermentno90.546no

External links

@ref: 31333

culture collection no.: AS 1.3431, JCM 12463, CGMCC 1.3431, CIP 108788

straininfo link

  • @ref: 91710
  • straininfo: 138971

literature

  • topic: Phylogeny
  • Pubmed-ID: 15879262
  • title: Asticcacaulis taihuensis sp. nov., a novel stalked bacterium isolated from Taihu Lake, China.
  • authors: Liu ZP, Wang BJ, Liu SJ, Liu YH
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63334-0
  • year: 2005
  • mesh: Bacterial Typing Techniques, Base Composition, Caulobacteraceae/*classification/cytology/*isolation & purification/physiology, China, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis/isolation & purification, Fresh Water/*microbiology, Genes, Bacterial, Genes, rRNA, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Water Microbiology
  • topic2: Enzymology

Reference

@idauthorstitledoi/urlID_cross_referencepubmedjournalcatalogue
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
31333Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172764728776041
38311Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6455
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.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
91710Reimer, 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-ID138971.1
123417Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108788Collection of Institut Pasteur (CIP 108788)