Strain identifier

BacDive ID: 5754

Type strain: Yes

Species: Fangia hongkongensis

Strain Designation: UST040201-002

Strain history: K. W. K. Lau UST040201-002.

NCBI tax ID(s): 1089439 (strain), 270495 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 15826

BacDive-ID: 5754

DSM-Number: 21703

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

description: Fangia hongkongensis UST040201-002 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seawater at outlet of sand filter.

NCBI tax id

NCBI tax idMatching level
270495species
1089439strain

strain history

@refhistory
15826<- JCM <- K. W. K. Lau, Hong Kong Univ. of Science and Techn.; UST040201-002
67770K. W. K. Lau UST040201-002.

doi: 10.13145/bacdive5754.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Beggiatoales
  • family: Fastidiosibacteraceae
  • genus: Fangia
  • species: Fangia hongkongensis
  • full scientific name: Fangia hongkongensis Lau et al. 2007

@ref: 15826

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Thiotrichales

family: Francisellaceae

genus: Fangia

species: Fangia hongkongensis

full scientific name: Fangia hongkongensis Lau et al. 2007

strain designation: UST040201-002

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32223negative1.1 µm0.525 µmrod-shapedno
69480negative99.954

pigmentation

  • @ref: 32223
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15826
  • name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514c
  • composition: Name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c) Composition: NaCl 19.45 g/l Agar 18.0 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 Na2CO3 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
15826positivegrowth28mesophilic
32223positivegrowth16-40
32223positiveoptimum31.5mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
32223positivegrowth4.9-8.8alkaliphile
32223positiveoptimum5.85

Physiology and metabolism

oxygen tolerance

  • @ref: 32223
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
32223no
69481no100
69480no99.996

halophily

@refsaltgrowthtested relationconcentration
32223NaClpositivegrowth0.4-7.5 %
32223NaClpositiveoptimum2.5 %

observation

@refobservation
32223aggregates in clumps
67770quinones: Q-8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
322235291gelatin+carbon source
3222317234glucose+carbon source
3222317306maltose+carbon source
3222317992sucrose+carbon source
3222353424tween 20+carbon source
3222353423tween 40+carbon source
3222353425tween 60+carbon source
3222353426tween 80+carbon source

enzymes

@refvalueactivityec
32223acid phosphatase+3.1.3.2
32223alkaline phosphatase+3.1.3.1
32223catalase+1.11.1.6
32223gelatinase+
32223cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15826seawater at outlet of sand filterPort Shelter, Hong KongChinaCHNAsia
67770Seawater at the outlet of a sandfilter in Port ShelterHong Kong SARChinaCHNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_2563.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_335;96_1375;97_1635;98_1986;99_2563&stattab=map
  • Last taxonomy: Fangia hongkongensis subclade
  • 16S sequence: AB176554
  • Sequence Identity:
  • Total samples: 3121
  • soil counts: 60
  • aquatic counts: 2915
  • animal counts: 139
  • plant counts: 7

Safety information

risk assessment

  • @ref: 15826
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15826
  • description: Fangia hongkongensis gene for 16S rRNA, partial sequence
  • accession: AB176554
  • length: 1515
  • database: ena
  • NCBI tax ID: 270495

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Fangia hongkongensis DSM 217031121876.3wgspatric1089439
66792Fangia hongkongensis DSM 217032515154119draftimg1089439
67770Fangia hongkongensis FSC776 = DSM 21703GCA_000379445scaffoldncbi1089439

GC content

@refGC-contentmethod
3222354
6777053.5-54.3high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno80.193no
flagellatedno93.518yes
gram-positiveno97.449yes
anaerobicno97.419no
halophileno58.719no
spore-formingno96.235yes
thermophileno97.615yes
glucose-utilyes90.091yes
aerobicno53.609no
glucose-fermentno71.183no

External links

@ref: 15826

culture collection no.: DSM 21703, JCM 14605, NRRL B-41860

straininfo link

  • @ref: 75233
  • straininfo: 319372

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17978237Fangia hongkongensis gen. nov., sp. nov., a novel gammaproteobacterium of the order Thiotrichales isolated from coastal seawater of Hong Kong.Lau KWK, Ren J, Fung MC, Woo PCY, Yuen KY, Chan KKM, Qian PY, Wong PK, Wu MInt J Syst Evol Microbiol10.1099/ijs.0.65156-02007Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Gammaproteobacteria/*classification/genetics/*isolation & purification/physiology, Genes, rRNA, Hong Kong, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny28671520Cysteiniphilum litorale gen. nov., sp. nov., isolated from coastal seawater.Liu L, Salam N, Jiao JY, E SM, Chen C, Fang BZ, Xiao M, Li M, Li WJ, Qu PHInt J Syst Evol Microbiol10.1099/ijsem.0.0019172017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny29185937Fastidiosibacter lacustris gen. nov., sp. nov., isolated from a lake water sample, and proposal of Fastidiosibacteraceae fam. nov. within the order Thiotrichales.Xiao M, Salam N, Liu L, Jiao JY, Zheng ML, Wang J, Li S, Chen C, Li WJ, Qu PHInt J Syst Evol Microbiol10.1099/ijsem.0.0025102017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, Lakes/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15826Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21703)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21703
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
32223Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2846528776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
75233Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID319372.1StrainInfo: A central database for resolving microbial strain identifiers