Strain identifier

BacDive ID: 158454

Type strain: Yes

Species: Aquidulcibacter paucihalophilus

Strain Designation: TH1-2

Strain history: <- C. Vereecke, BCCM; LMG 28362 <- H. Cai, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences; TH1-2

NCBI tax ID(s): 1978549 (species)

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General

@ref: 65130

BacDive-ID: 158454

DSM-Number: 109892

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Aquidulcibacter paucihalophilus TH1-2 is a mesophilic bacterium that was isolated from freshwater lake, cyanobacterial aggregates.

NCBI tax id

  • NCBI tax id: 1978549
  • Matching level: species

strain history

  • @ref: 65130
  • history: <- C. Vereecke, BCCM; LMG 28362 <- H. Cai, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences; TH1-2

doi: 10.13145/bacdive158454.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Caulobacterales
  • family: Caulobacteraceae
  • genus: Aquidulcibacter
  • species: Aquidulcibacter paucihalophilus
  • full scientific name: Aquidulcibacter paucihalophilus Cai et al. 2018

@ref: 65130

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Caulobacterales

family: Caulobacteraceae

genus: Aquidulcibacter

species: Aquidulcibacter paucihalophilus

full scientific name: Aquidulcibacter paucihalophilus Cai et al. 2018

strain designation: TH1-2

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 65130
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

  • @ref: 65130
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
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
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase+3.1.3.1
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
68382alpha-galactosidase-3.2.1.22
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
65130-++/-+-+--+-+/-+/--+/-------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
65130-----+-+------------

Isolation, sampling and environmental information

isolation

  • @ref: 65130
  • sample type: freshwater lake, cyanobacterial aggregates
  • geographic location: Lake Taihu, Changjiang (Yangtze) River Delta China
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Host#Microbial#Bacteria
#Environmental#Aquatic#Freshwater

taxonmaps

  • @ref: 69479
  • File name: preview.99_7220.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_416;96_3374;97_4143;98_5300;99_7220&stattab=map
  • Last taxonomy: Alphaproteobacteria
  • 16S sequence: KJ862838
  • Sequence Identity:
  • Total samples: 20315
  • soil counts: 867
  • aquatic counts: 17270
  • animal counts: 1996
  • plant counts: 182

Safety information

risk assessment

  • @ref: 65130
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 65130
  • description: Aquidulcibacter paucihalophilus strain TH1-2 16S ribosomal RNA gene, partial sequence
  • accession: KJ862838
  • length: 1425
  • database: ena
  • NCBI tax ID: 1978549

Genome sequences

  • @ref: 66792
  • description: Aquidulcibacter paucihalophilus TH1-2
  • accession: GCA_002105465
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1978549

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno74.4no
gram-positiveno98.224no
anaerobicno98.396no
aerobicyes88.359no
halophileno93.17no
spore-formingno95.755no
glucose-utilyes65.154yes
thermophileno98.773yes
motileyes84.733no
glucose-fermentno92.765yes

External links

@ref: 65130

culture collection no.: DSM 109892, CGMCC 1.12979, LMG 28362

straininfo link

  • @ref: 111255
  • straininfo: 407963

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny28600685Aquidulcibacter paucihalophilus gen. nov., sp. nov., a novel member of family Caulobacteraceae isolated from cyanobacterial aggregates in a eutrophic lake.Cai H, Shi Y, Wang Y, Cui H, Jiang HAntonie Van Leeuwenhoek10.1007/s10482-017-0889-42017Base Composition, Caulobacteraceae/chemistry/*classification/*genetics/physiology, Cyanobacteria/physiology, *Eutrophication, Fatty Acids/chemistry, Genome, Bacterial, Lakes/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Species SpecificityGenetics
Genetics29213356High-quality draft genome sequence of Aquidulcibacter paucihalophilus TH1-2(T) isolated from cyanobacterial aggregates in a eutrophic lake.Cai H, Zeng YStand Genomic Sci10.1186/s40793-017-0284-92017
Phylogeny32134376Vitreimonas flagellata gen. nov., sp. nov., a novel member of the family Hyphomonadaceae isolated from an activated sludge sample.Asem MD, Salam N, Zheng W, Liao LH, Zhang XT, Han MX, Jiao JY, Guo F, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0040822020Alphaproteobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Ubiquinone/analogs & derivatives/chemistryTranscriptome
Phylogeny32762801Terricaulis silvestris gen. nov., sp. nov., a novel prosthecate, budding member of the family Caulobacteraceae isolated from forest soil.Vieira S, Pascual J, Boedeker C, Geppert A, Riedel T, Rohde M, Overmann JInt J Syst Evol Microbiol10.1099/ijsem.0.0043672020Bacterial Typing Techniques, Base Composition, Caulobacteraceae/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Germany, Glycolipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistryTranscriptome
Phylogeny35201974Pseudaquidulcibacter saccharophilus gen. nov., sp. nov., a novel member of family Caulobacteraceae, isolated from a water purification facility with supplement of starch as a carbon source.Liu Y, Li S, Lin J, Liu S, Wei H, Dai J, Qiu DInt J Syst Evol Microbiol10.1099/ijsem.0.0052642022Bacterial Typing Techniques, Base Composition, Carbon, *Caulobacteraceae/classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Starch, Ubiquinone/analogs & derivatives/chemistry, *Water PurificationEnzymology

Reference

@idauthorstitledoi/urlcatalogue
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
65130Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-109892Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 109892)
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
68369Automatically annotated from API 20NE
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/
111255Reimer, 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-ID407963.1