Strain identifier

BacDive ID: 133785

Type strain: Yes

Species: Arcicella rigui

Strain Designation: NSW-5

Strain history: <- W-M Chen, Nat Kaohsiung Marine Uinv., Taiwan

NCBI tax ID(s): 797020 (species)

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General

@ref: 30490

BacDive-ID: 133785

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

description: Arcicella rigui NSW-5 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from freshwater .

NCBI tax id

  • NCBI tax id: 797020
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- W-M Chen, Nat Kaohsiung Marine Uinv., Taiwan

doi: 10.13145/bacdive133785.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Cytophagia
  • order: Cytophagales
  • family: Spirosomataceae
  • genus: Arcicella
  • species: Arcicella rigui
  • full scientific name: Arcicella rigui Chen et al. 2013

@ref: 30490

domain: Bacteria

phylum: Bacteroidetes

class: Cytophagia

order: Cytophagales

family: Cytophagaceae

genus: Arcicella

species: Arcicella rigui

strain designation: NSW-5

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
30490negative4.5 µm0.6 µmrod-shapedno
67771rod-shapedno
67771spiral-shaped
67771pleomorphic-shaped
67771negative

pigmentation

  • @ref: 30490
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30490positivegrowth10-40
30490positiveoptimum25mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepH
30490positivegrowth06-08
30490positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30490aerobe
67771aerobe

halophily

  • @ref: 30490
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

observation

  • @ref: 67771
  • observation: quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3049040585alpha-cyclodextrin+carbon source
3049017057cellobiose+carbon source
3049023652dextrin+carbon source
3049028757fructose+carbon source
3049028260galactose+carbon source
3049017234glucose+carbon source
3049024996lactate+carbon source
3049017716lactose+carbon source
3049017306maltose+carbon source
3049037684mannose+carbon source
3049028053melibiose+carbon source
3049037657methyl D-glucoside+carbon source
3049051850methyl pyruvate+carbon source
3049016634raffinose+carbon source
3049030031succinate+carbon source
3049017992sucrose+carbon source
3049027082trehalose+carbon source
3049053425tween 60+carbon source
304904853esculin+hydrolysis

enzymes

@refvalueactivityec
30490acid phosphatase+3.1.3.2
30490alkaline phosphatase+3.1.3.1
30490alpha-galactosidase+3.2.1.22
30490catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
30490freshwater (river, lake, pond)
67771From wetland freshwaterthe Niao-Song Wetland Park, Kaohsiung CountyTaiwanTWNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Environmental#Aquatic#Lake (large)
#Environmental#Aquatic#Pond (small)
#Environmental#Aquatic#River (Creek)

taxonmaps

  • @ref: 69479
  • File name: preview.99_38322.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_200;96_14607;97_22353;98_28121;99_38322&stattab=map
  • Last taxonomy: Arcicella rigui
  • 16S sequence: HM357635
  • Sequence Identity:
  • Total samples: 811
  • soil counts: 10
  • aquatic counts: 708
  • animal counts: 76
  • plant counts: 17

Sequence information

16S sequences

  • @ref: 30490
  • description: Arcicella rigui strain NSW-5 16S ribosomal RNA gene, partial sequence
  • accession: HM357635
  • length: 1406
  • database: nuccore
  • NCBI tax ID: 797020

GC content

  • @ref: 30490
  • GC-content: 44.1

External links

@ref: 30490

culture collection no.: KCTC 23307, BCRC 80260

literature

  • topic: Phylogeny
  • Pubmed-ID: 22368167
  • title: Arcicella rigui sp. nov., isolated from water of a wetland, and emended descriptions of the genus Arcicella, Arcicella aquatica, Arcicella rosea and Arcicella aurantiaca.
  • authors: Chen WM, Yang SH, Young CC, Sheu SY
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.037242-0
  • year: 2012
  • mesh: Bacterial Typing Techniques, Base Composition, Cytophagaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan, *Water Microbiology, Wetlands
  • topic2: Genetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
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
30490Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172682328776041
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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/