Strain identifier

BacDive ID: 140319

Type strain: Yes

Species: Treponema rectale

Strain Designation: CHPA

Strain history: <- G. Staton, Univ. Liverpool, United Kingdom; CHPA <- N.J. Evans {2006}

NCBI tax ID(s): 744512 (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 8.1 (current version)

General

@ref: 42926

BacDive-ID: 140319

DSM-Number: 103679

keywords: genome sequence, 16S sequence, Bacteria, obligate anaerobe, mesophilic, Gram-negative, motile, spiral-shaped, colony-forming

description: Treponema rectale CHPA is an obligate anaerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from rectum of a Holstein-Friesian cow.

NCBI tax id

  • NCBI tax id: 744512
  • Matching level: species

strain history

  • @ref: 42926
  • history: <- G. Staton, Univ. Liverpool, United Kingdom; CHPA <- N.J. Evans {2006}

doi: 10.13145/bacdive140319.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/spirochaetota
  • domain: Bacteria
  • phylum: Spirochaetota
  • class: Spirochaetia
  • order: Spirochaetales
  • family: Treponemataceae
  • genus: Treponema
  • species: Treponema rectale
  • full scientific name: Treponema rectale Staton et al. 2017

@ref: 42926

domain: Bacteria

phylum: Spirochaetes

class: Spirochaetia

order: Spirochaetales

family: Treponemataceae

genus: Treponema

species: Treponema rectale

full scientific name: Treponema rectale Staton et al. 2017

strain designation: CHPA

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43314negative1-5 µm0.15-0.25 µmspiral-shapedyes
69480negative99.968

colony morphology

@reftype of hemolysiscolony sizecolony shapeincubation periodmedium usedcolony color
43314gamma0.2 mmcircular10 daysfastidious anaerobe agar
43314punctiform
43314Oral Treponeme Enrichment Brothtranslucent
43314

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43314Fastidious anaerobe agaryes
43314Oral Treponeme Enrichment Brothyes
42926TREPONEMA RUMINIS MEDIUM (DSMZ Medium 212a)yeshttps://mediadive.dsmz.de/medium/212aName: TREPONEMA RUMINIS MEDIUM (DSMZ Medium 212a) Composition: Na2SO4 2.77778 g/l Trehalose 1.88492 g/l Maltose x H2O 1.78571 g/l Sucrose 1.68651 g/l Cellobiose 1.68651 g/l Na2CO3 1.4881 g/l Trypticase peptone 0.992061 g/l Ethanol 0.94246 g/l D-Glucose 0.793651 g/l D-Xylose 0.744048 g/l Na-pyruvate 0.496032 g/l KH2PO4 0.496031 g/l DL-Dithiothreitol 0.396825 g/l NaCl 0.396825 g/l NH4Cl 0.396825 g/l Starch 0.396825 g/l MgCl2 x 6 H2O 0.327381 g/l L-Cysteine HCl x H2O 0.297619 g/l CaCl2 x 2 H2O 0.0496031 g/l HCl 0.00248016 g/l FeCl2 x 4 H2O 0.0014881 g/l NaOH 0.000496032 g/l Sodium resazurin 0.000496031 g/l Pyridoxine hydrochloride 0.000297619 g/l Nicotinic acid 0.000198413 g/l Thiamine-HCl x 2 H2O 0.000198413 g/l CoCl2 x 6 H2O 0.000188492 g/l Vitamin B12 9.92064e-05 g/l Calcium pantothenate 9.92064e-05 g/l MnCl2 x 4 H2O 9.92064e-05 g/l p-Aminobenzoic acid 7.93651e-05 g/l ZnCl2 6.94444e-05 g/l Na2MoO4 x 2 H2O 3.57143e-05 g/l NiCl2 x 6 H2O 2.38095e-05 g/l D-(+)-biotin 1.98413e-05 g/l H3BO3 5.95238e-06 g/l Na2WO4 x 2 H2O 3.96825e-06 g/l Na2SeO3 x 5 H2O 2.97619e-06 g/l CuCl2 x 2 H2O 1.98413e-06 g/l iso-Valeric acid DL-2-Methylbutyric acid iso-Butyric acid n-Valeric acid Butyric acid Propionic acid Acetic acid Vitamin K1 Distilled water

culture temp

@refgrowthtypetemperaturerange
43314positivegrowth36mesophilic
42926positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
43314obligate anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
69481no100
69480no99.999

enzymes

@refvalueactivityec
43314esterase (C 4)+
43314alpha-galactosidase+3.2.1.22
43314beta-galactosidase+3.2.1.23
43314alkaline phosphatase-3.1.3.1
43314esterase Lipase (C 8)-
43314lipase (C 14)-
43314leucine arylamidase-3.4.11.1
43314trypsin-3.4.21.4
43314chymotrypsin-3.4.4.5
43314acid phosphatase-3.1.3.2
43314naphthol-AS-BI-phosphohydrolase-
43314beta-glucuronidase-3.2.1.31
43314alpha-glucosidase-3.2.1.20
43314beta-glucosidase-3.2.1.21
43314N-acetyl-beta-glucosaminidase-3.2.1.52
43314alpha-mannosidase-3.2.1.24
43314alpha-fucosidase-3.2.1.51

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
42926rectum of a Holstein-Friesian cowCheshire, dairy farmUnited KingdomGBREurope
43314rectal tissue of a Holstein-Friesian cow form diary farm in Cheshire, UKCheshireUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body-Site#Gastrointestinal tract#Rectum

taxonmaps

  • @ref: 69479
  • File name: preview.99_90118.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3582;96_37286;97_47412;98_62173;99_90118&stattab=map
  • Last taxonomy: Treponema rectale subclade
  • 16S sequence: GU566699
  • Sequence Identity:
  • Total samples: 3166
  • soil counts: 80
  • aquatic counts: 53
  • animal counts: 2945
  • plant counts: 88

Safety information

risk assessment

  • @ref: 42926
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 42926
  • description: Treponema rectale strain CHPA 16S ribosomal RNA gene, partial sequence
  • accession: GU566699
  • length: 1309
  • database: ena
  • NCBI tax ID: 744512

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Treponema rectale DSM 103679GCA_014202035scaffoldncbi744512
66792Treponema rectale CHPAGCA_014984185completencbi744512
66792Treponema rectale strain CHPA744512.4completepatric744512
66792Treponema rectale strain DSM 103679744512.3wgspatric744512
66792Treponema rectale DSM 1036792861313337draftimg744512

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes79.424yes
flagellatedno88.651no
gram-positiveno89.516yes
anaerobicyes96.803no
aerobicno98.101yes
halophileno85.432no
spore-formingno93.181no
glucose-utilyes71.105no
thermophileno92.58no
glucose-fermentyes70.461no

External links

@ref: 42926

culture collection no.: DSM 103679, NCTC 13848

straininfo link

  • @ref: 96623
  • straininfo: 402794

literature

  • topic: Phylogeny
  • Pubmed-ID: 28721843
  • title: Treponema rectale sp. nov., a spirochete isolated from the bovine rectum.
  • authors: Staton GJ, Newbrook K, Clegg SR, Birtles RJ, Evans NJ, Carter SD
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002051
  • year: 2017
  • mesh: Animals, Bacterial Typing Techniques, Cattle/*microbiology, DNA, Bacterial/genetics, Esterases/genetics, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rectum/*microbiology, Sequence Analysis, DNA, Treponema/*classification/genetics/isolation & purification, United Kingdom, alpha-Galactosidase/genetics, beta-Galactosidase/genetics
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
42926Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103679Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103679)
43314Gareth J. Staton, Kerry Newbrook, Simon R. Clegg, Richard J. Birtles, Nicholas J. Evans, Stuart D. CarterTreponema rectale sp. nov., a spirochete isolated from the bovine rectum10.1099/ijsem.0.002051IJSEM 67: 2470-2475 201728721843
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
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
96623Reimer, 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-ID402794.1