Strain identifier

BacDive ID: 10434

Type strain: Yes

Species: Alysiella filiformis

Strain Designation: A1

Strain history: CIP <- 1989, NCTC <- 1962, P.D.M. Steed: strain A1

NCBI tax ID(s): 1120981 (strain), 194196 (species)

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General

@ref: 6632

BacDive-ID: 10434

DSM-Number: 16848

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, Gram-negative

description: Alysiella filiformis A1 is a microaerophile, Gram-negative bacterium that was isolated from sheep saliva.

NCBI tax id

NCBI tax idMatching level
194196species
1120981strain

strain history

@refhistory
6632<- CIP <- NCTC <- P. D. M. Steed; A1
67770IAM 14895 <-- NCTC 10282 <-- P. D. M. Steed strain A1.
119347CIP <- 1989, NCTC <- 1962, P.D.M. Steed: strain A1

doi: 10.13145/bacdive10434.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Neisseriales
  • family: Neisseriaceae
  • genus: Alysiella
  • species: Alysiella filiformis
  • full scientific name: Alysiella filiformis (Schmid 1922) Langeron 1923 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Simonsiella filiformis

@ref: 6632

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Neisseriales

family: Neisseriaceae

genus: Alysiella

species: Alysiella filiformis

full scientific name: Alysiella filiformis (Schmid 1922) Langeron 1923

strain designation: A1

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 98.554

multimedia

@refmultimedia contentintellectual property rightscaption
6632https://www.dsmz.de/microorganisms/photos/DSM_16848.jpg© Leibniz-Institut DSMZ
66793EM_DSM_16848_1.jpg© HZI/Manfred Rohdeelectron microscopic image
66793EM_DSM_16848_2.jpg© HZI/Manfred Rohdeelectron microscopic image
66793EM_DSM_16848_3.jpg© HZI/Manfred Rohdeelectron microscopic image
66793EM_DSM_16848_4.jpg© HZI/Manfred Rohdeelectron microscopic image
66793EM_DSM_16848_5.jpg© HZI/Manfred Rohdeelectron microscopic image

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
36852MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
6632COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693
6632TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)yesName: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled waterhttps://mediadive.dsmz.de/medium/545
6632BHI MEDIUM (DSMZ Medium 215)yesName: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/215
119347CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperature
6632positivegrowth37
36852positivegrowth37
44680positivegrowth37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

  • @ref: 44680
  • oxygen tolerance: microaerophile

spore formation

@refspore formationconfidence
69480no92.683
69481no100

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837717634D-glucose+builds acid from
6837715824D-fructose-builds acid from
6837717306maltose-builds acid from
6837717992sucrose+builds acid from
6837718257ornithine-degradation
6837716199urea-hydrolysis
6837727897tryptophan-energy source

metabolite production

  • @ref: 68377
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68377
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68377tryptophan deaminase-4.1.99.1
68377gamma-glutamyltransferase-2.3.2.2
68377proline-arylamidase-3.4.11.5
68377beta-galactosidase-3.2.1.23
68377alkaline phosphatase+3.1.3.1
68377lipase-
68377urease-3.5.1.5
68377ornithine decarboxylase-4.1.1.17
68377beta-lactamase-3.5.2.6

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
6632-+--+---+----

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6632sheep salivaAustraliaAUSAustralia and Oceania
44680Sheep saliva
67770Sheep saliva
119347Animal, Sheep, saliva

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Caprinae (Sheep/Goat)
#Host Body Product#Oral cavity and Airways#Saliva

taxonmaps

  • @ref: 69479
  • File name: preview.99_162278.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15355;96_528;97_609;98_700;99_162278&stattab=map
  • Last taxonomy: Alysiella filiformis
  • 16S sequence: AB087263
  • Sequence Identity:
  • Total samples: 904
  • soil counts: 4
  • aquatic counts: 32
  • animal counts: 866
  • plant counts: 2

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
66321Risk group (German classification)
1193471Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Alysiella filiformis gene for 16S rRNA, strain: IAM 14968AB0872621473nuccore194196
20218Alysiella filiformis ATCC 15532 16S ribosomal RNA gene, complete sequenceAF4877101511nuccore194196
20218Alysiella filiformis gene for 16S rRNA, partial sequence, strain: NBRC 102454AB6817961464nuccore194196
20218Alysiella filiformis gene for 16S rRNA, strain: IAM 14895AB0872631490nuccore194196

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Alysiella filiformis DSM 16848GCA_014054525completencbi194196
66792Alysiella filiformis DSM 16848GCA_020162295completencbi1120981
66792Alysiella filiformis DSM 168481120981.3wgspatric1120981
66792Alysiella filiformis strain DSM 16848194196.9completepatric194196
66792Alysiella filiformis DSM 168482574179727draftimg1120981
67770Alysiella filiformis DSM 16848GCA_900230205scaffoldncbi1120981
66792Alysiella filiformis DSM 168481120981.16completepatric1120981
66792Alysiella filiformis DSM 168481120981.14completepatric1120981
66792Alysiella filiformis DSM 168481120981.15completepatric1120981

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno98.554no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no93.563no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no56.02yes
69480spore-formingspore-formingAbility to form endo- or exosporesno92.683no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno98.462no
69480flagellatedmotile2+Ability to perform flagellated movementno82.896no

External links

@ref: 6632

culture collection no.: IAM 14895, DSM 16848, ATCC 15532, CCUG 3710, CIP 103342, LMG 6455, NCTC 10282, JCM 21385

straininfo link

  • @ref: 79715
  • straininfo: 884

literature

  • topic: Phylogeny
  • Pubmed-ID: 34797758
  • title: Paralysiella testudinis gen. nov., sp. nov., isolated from the cloaca of a toad-headed turtle (Mesoclemmys nasuta).
  • authors: Busse HJ, Kampfer P, Szostak MP, Ruckert C, Spergser J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.005114
  • year: 2021
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, Cloaca/microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Neisseriaceae/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Turtles/microbiology
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6632Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16848)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16848
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
36852Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15129
44680Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 3710)https://www.ccug.se/strain?id=3710
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68377Automatically annotated from API NH
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
79715Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID884.1StrainInfo: A central database for resolving microbial strain identifiers
119347Curators of the CIPCollection of Institut Pasteur (CIP 103342)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103342