Strain identifier

BacDive ID: 23440

Type strain: Yes

Species: Cloacibacillus porcorum

Strain Designation: CL-84

Strain history: <- CCUG <- T Looft, USDA-ARS-NADC, Ames, Iowa, USA, CL-84 <- T Looft

NCBI tax ID(s): 1197717 (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: 19338

BacDive-ID: 23440

DSM-Number: 25858

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

description: Cloacibacillus porcorum CL-84 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from healthy pig cecum mucosa.

NCBI tax id

  • NCBI tax id: 1197717
  • Matching level: species

strain history

@refhistory
19338<- T. Looft, USDA-ARS-NADC, Ames, Iowa, USA; CL-84 <- T. Looft {2010}
67771<- CCUG <- T Looft, USDA-ARS-NADC, Ames, Iowa, USA, CL-84 <- T Looft

doi: 10.13145/bacdive23440.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/synergistota
  • domain: Bacteria
  • phylum: Synergistota
  • class: Synergistia
  • order: Synergistales
  • family: Synergistaceae
  • genus: Cloacibacillus
  • species: Cloacibacillus porcorum
  • full scientific name: Cloacibacillus porcorum Looft et al. 2013

@ref: 19338

domain: Bacteria

phylum: Synergistetes

class: Synergistia

order: Synergistales

family: Synergistaceae

genus: Cloacibacillus

species: Cloacibacillus porcorum

full scientific name: Cloacibacillus porcorum Looft et al. 2013

strain designation: CL-84

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30804negative4.25 µm1 µmrod-shapedno
67771rod-shapedno
67771curved-shaped
67771negative
69480negative99.845

colony morphology

  • @ref: 62859
  • incubation period: 2 days

pigmentation

  • @ref: 30804
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
19338CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://mediadive.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
19338PY + X MEDIUM (DSMZ Medium 104b)yeshttps://mediadive.dsmz.de/medium/104bName: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
19338positivegrowth37mesophilic
30804positivegrowth20-45
30804positiveoptimum39mesophilic
62859positivegrowth37mesophilic
67771positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
30804positivegrowth04-08acidophile
30804positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
19338anaerobe
30804anaerobe
62859anaerobe
67771anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
30804no
69481no99
69480no99.969

halophily

@refsaltgrowthtested relationconcentration
30804NaClpositivegrowth0-1.4 %
30804NaClpositiveoptimum0.7 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3080429016arginine+carbon source
3080433984fucose+carbon source
3080428260galactose+carbon source
3080427570histidine+carbon source
3080437684mannose+carbon source
30804506227N-acetylglucosamine+carbon source
3080426271proline+carbon source
3080417822serine+carbon source
3080426986threonine+carbon source
3080416296D-tryptophan+carbon source

enzymes

@refvalueactivityec
30804acid phosphatase+3.1.3.2
30804alkaline phosphatase+3.1.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
19338healthy pig cecum mucosaIowa, AmesUSAUSANorth America
62859Swine intestinal tract,caecal mucosaIowa,AmesUSAUSANorth America2010-01-01
67771From mucosal lining of a pig caecum in AmesIowaUSAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Suidae (Pig,Swine)
#Host Body-Site#Gastrointestinal tract#Large intestine

taxonmaps

  • @ref: 69479
  • File name: preview.99_2103.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_256;96_1154;97_1356;98_1645;99_2103&stattab=map
  • Last taxonomy: Cloacibacillus porcorum subclade
  • 16S sequence: NR_109636
  • Sequence Identity:
  • Total samples: 5156
  • soil counts: 44
  • aquatic counts: 97
  • animal counts: 5007
  • plant counts: 8

Safety information

risk assessment

  • @ref: 19338
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
19338Cloacibacillus porcorum strain CL-84 16S ribosomal RNA gene, partial sequenceJQ8096971447ena1197717
67771Cloacibacillus porcorum strain CL-84 16S ribosomal RNA, partial sequenceNR_1096361447nuccore1197717

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cloacibacillus porcorum CL-84 (T)GCA_001701045completencbi1197717
66792Cloacibacillus porcorum strain CL-841197717.12completepatric1197717
66792Cloacibacillus porcorum CL-842718217834completeimg1197717

GC content

@refGC-contentmethod
1933855.1sequence analysis
3080455.1
6777155.1genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
flagellatedno97.371no
gram-positiveno98.071yes
anaerobicyes99.596no
halophileno94.477yes
spore-formingno92.427yes
glucose-utilyes72.046no
aerobicno97.56no
thermophileno94.945no
motileno87.428yes
glucose-fermentno61.884no

External links

@ref: 19338

culture collection no.: DSM 25858, CCUG 62631, KCTC 15364

straininfo link

  • @ref: 87593
  • straininfo: 406813

literature

  • topic: Phylogeny
  • Pubmed-ID: 23041639
  • title: Cloacibacillus porcorum sp. nov., a mucin-degrading bacterium from the swine intestinal tract and emended description of the genus Cloacibacillus.
  • authors: Looft T, Levine UY, Stanton TB
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.044719-0
  • year: 2012
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Gram-Negative Anaerobic Straight, Curved, and Helical Rods/*classification/genetics/isolation & purification, Intestines/*microbiology, Molecular Sequence Data, Mucins/metabolism, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Swine/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
19338Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25858)https://www.dsmz.de/collection/catalogue/details/culture/DSM-25858
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
30804Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2713528776041
62859Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 62631)https://www.ccug.se/strain?id=62631
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)
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.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
87593Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID406813.1StrainInfo: A central database for resolving microbial strain identifiers