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Strain identifier

BacDive ID: 132644

Type strain: Yes

Species: Harryflintia acetispora

Strain Designation: V20-281a

Strain history: <- D. Petzoldt, Lohmann Animal Health GmbH, Hannover, Germany; V20-281a <- D. Petzoldt {2014}

NCBI tax ID(s): 1849041 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 24433

BacDive-ID: 132644

DSM-Number: 100433

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, Gram-negative, rod-shaped, colony-forming

description: Harryflintia acetispora V20-281a is an anaerobe, spore-forming, Gram-negative bacterium that forms circular colonies and was isolated from cecum of commercial broiler chicken.

NCBI tax id

  • NCBI tax id: 1849041
  • Matching level: species

strain history: <- D. Petzoldt, Lohmann Animal Health GmbH, Hannover, Germany; V20-281a <- D. Petzoldt {2014}

doi: 10.13145/bacdive132644.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Oscillospiraceae
  • genus: Harryflintia
  • species: Harryflintia acetispora
  • full scientific name: Harryflintia acetispora Petzoldt et al. 2016

@ref: 24433

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridia, not assigned to order

family: Oscillospiraceae

genus: Harryflintia

species: Harryflintia acetispora

full scientific name: Harryflintia acetispora Petzoldt et al. 2016

strain designation: V20-281a

type strain: yes

Morphology

cell morphology

  • @ref: 24927
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 24927
  • colony size: 1-3 mm
  • colony shape: circular
  • incubation period: 3 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
24433RCM MEDIUM (DSMZ Medium 634)yeshttps://mediadive.dsmz.de/medium/634Name: RCM MEDIUM (DSMZ Medium 634) Composition: Sodium resazurin 0.0005 g/l dehydrated RCM medium
24433WILKINS-CHALGREN ANAEROBE BROTH (N2/CO2) (DSMZ Medium 339a)yeshttps://mediadive.dsmz.de/medium/339aName: WILKINS-CHALGREN ANAEROBE BROTH (N2/CO2) (DSMZ Medium 339a) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l D-Glucose 5.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
24927positivegrowth20-25
24927positiveoptimum37-41
24433positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
24927positivegrowth4.0-9.0alkaliphile
24927positiveoptimum7.0-8.5

Physiology and metabolism

oxygen tolerance

  • @ref: 24927
  • oxygen tolerance: anaerobe

spore formation

  • @ref: 24927
  • type of spore: endospore
  • spore formation: yes

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2492722599arabinose-builds acid from
249274853esculin-hydrolysis
2492715443inulin-builds acid from
2492729864mannitol-builds acid from
2492716634raffinose-builds acid from
2492717814salicin-builds acid from
2492717992sucrose-builds acid from
2492716199urea-hydrolysis
2492728757fructose+builds acid from
2492728260galactose+builds acid from
2492717306maltose+builds acid from
2492727082trehalose+builds acid from

enzymes

  • @ref: 24927
  • value: cytochrome oxidase
  • activity: -
  • ec: 1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 24433
  • sample type: cecum of commercial broiler chicken
  • geographic location: Lower Saxony
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Host#Birds#Chicken
#Host Body-Site#Gastrointestinal tract#Large intestine

taxonmaps

  • @ref: 69479
  • File name: preview.99_5810.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_154;96_2784;97_3422;98_4322;99_5810&stattab=map
  • Last taxonomy: Oscillospiraceae
  • 16S sequence: KU999999
  • Sequence Identity:
  • Total samples: 40963
  • soil counts: 178
  • aquatic counts: 386
  • animal counts: 40300
  • plant counts: 99

Safety information

risk assessment

  • @ref: 24433
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24433
  • description: Harryflintia acetispora strain V20-281a 16S ribosomal RNA gene, partial sequence
  • accession: KU999999
  • length: 1363
  • database: ena
  • NCBI tax ID: 1849041

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Harryflintia acetispora strain DSM 1004331849041.17wgspatric1849041
66792Harryflintia acetispora DSM 1004332788499847draftimg1849041
66792uncultured Methylococcaceae bacterium Loc090402-8-9m_bin-0121GCA_903939015contigpatric181674

GC content

  • @ref: 24433
  • GC-content: 62.2
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 24433

culture collection no.: DSM 100433, CECT 8892

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27432404Harryflintia acetispora gen. nov., sp. nov., isolated from chicken caecum.Petzoldt D, Breves G, Rautenschlein S, Taras DInt J Syst Evol Microbiol10.1099/ijsem.0.0013172016Animals, Bacterial Typing Techniques, Base Composition, Cecum/*microbiology, Chickens/*microbiology, Clostridiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome
Phylogeny28901896Paludicola psychrotolerans gen. nov., sp. nov., a novel psychrotolerant chitinolytic anaerobe of the family Ruminococcaceae.Li Y, Zhang LL, Liu L, Tian YQ, Liu XF, Li WJ, Dai YMInt J Syst Evol Microbiol10.1099/ijsem.0.0022602017Bacterial Typing Techniques, Base Composition, China, Chitin/metabolism, Clostridiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *WetlandsTranscriptome

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
24433Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100433Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100433)
24927D. B. Petzoldt, Gerhard,Rautenschlein, Silke,Taras, DavidHarryflintia acetispora gen. nov., sp. nov., isolated from chicken caecum10.1099/ijsem.0.001317IJSEM 66: 4099-4104 201627432404
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
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/