Strain identifier
BacDive ID: 1766
Type strain:
Species: Aeriscardovia aeriphila
Strain Designation: T6
Strain history: LMG 21773 <-- P. Simpson T6.
NCBI tax ID(s): 218139 (species)
General
@ref: 16187
BacDive-ID: 1766
DSM-Number: 22365
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive, rod-shaped
description: Aeriscardovia aeriphila T6 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from a pig caecum.
NCBI tax id
- NCBI tax id: 218139
- Matching level: species
strain history
@ref | history |
---|---|
16187 | <- LMG <- P. Simpson, Teagasc Dairy Products Res. Centre, Fermoy, Ireland |
67770 | LMG 21773 <-- P. Simpson T6. |
doi: 10.13145/bacdive1766.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Bifidobacteriales
- family: Bifidobacteriaceae
- genus: Aeriscardovia
- species: Aeriscardovia aeriphila
- full scientific name: Aeriscardovia aeriphila Simpson et al. 2004
@ref: 16187
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Bifidobacteriales
family: Bifidobacteriaceae
genus: Aeriscardovia
species: Aeriscardovia aeriphila
full scientific name: Aeriscardovia aeriphila Simpson et al. 2004
strain designation: T6
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
29919 | positive | 1.15 µm | 0.75 µm | rod-shaped | no | |
69480 | positive | 99.719 |
Culture and growth conditions
culture medium
- @ref: 16187
- name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)
- growth: yes
- link: https://mediadive.dsmz.de/medium/58
- composition: Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 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 Tween 80 Resazurin Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16187 | positive | growth | 37 | mesophilic |
29919 | positive | growth | 30-46 | |
29919 | positive | optimum | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
culture pH
- @ref: 29919
- ability: positive
- type: growth
- pH: 4.2-4.5
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
16187 | anaerobe | |
29919 | facultative aerobe | |
69480 | anaerobe | 98.865 |
spore formation
@ref | spore formation | confidence |
---|---|---|
29919 | no | |
69481 | no | 100 |
69480 | no | 99.998 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29919 | 22599 | arabinose | + | carbon source |
29919 | 17306 | maltose | + | carbon source |
29919 | 37684 | mannose | + | carbon source |
29919 | 16634 | raffinose | + | carbon source |
29919 | 17814 | salicin | + | carbon source |
29919 | 17992 | sucrose | + | carbon source |
29919 | 18222 | xylose | + | carbon source |
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | 24265 | gluconate | - | builds acid from |
68371 | 18403 | L-arabitol | - | builds acid from |
68371 | 18333 | D-arabitol | - | builds acid from |
68371 | 18287 | L-fucose | - | builds acid from |
68371 | 28847 | D-fucose | - | builds acid from |
68371 | 16443 | D-tagatose | - | builds acid from |
68371 | 62318 | D-lyxose | - | builds acid from |
68371 | 32528 | turanose | + | builds acid from |
68371 | 28066 | gentiobiose | + | builds acid from |
68371 | 17151 | xylitol | - | builds acid from |
68371 | 28087 | glycogen | + | builds acid from |
68371 | 28017 | starch | + | builds acid from |
68371 | 16634 | raffinose | + | builds acid from |
68371 | 6731 | melezitose | + | builds acid from |
68371 | 17992 | sucrose | + | builds acid from |
68371 | 28053 | melibiose | + | builds acid from |
68371 | 17306 | maltose | + | builds acid from |
68371 | 17057 | cellobiose | + | builds acid from |
68371 | 17814 | salicin | + | builds acid from |
68371 | 4853 | esculin | + | builds acid from |
68371 | 18305 | arbutin | + | builds acid from |
68371 | 27613 | amygdalin | + | builds acid from |
68371 | 59640 | N-acetylglucosamine | - | builds acid from |
68371 | 320061 | methyl alpha-D-glucopyranoside | + | builds acid from |
68371 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
68371 | 17924 | D-sorbitol | - | builds acid from |
68371 | 16899 | D-mannitol | - | builds acid from |
68371 | 17268 | myo-inositol | - | builds acid from |
68371 | 16813 | galactitol | - | builds acid from |
68371 | 62345 | L-rhamnose | - | builds acid from |
68371 | 16024 | D-mannose | + | builds acid from |
68371 | 15824 | D-fructose | + | builds acid from |
68371 | 17634 | D-glucose | + | builds acid from |
68371 | 12936 | D-galactose | + | builds acid from |
68371 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
68371 | 15963 | ribitol | - | builds acid from |
68371 | 65328 | L-xylose | - | builds acid from |
68371 | 65327 | D-xylose | + | builds acid from |
68371 | 16988 | D-ribose | - | builds acid from |
68371 | 30849 | L-arabinose | + | builds acid from |
68371 | 17108 | D-arabinose | - | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
68371 | 17754 | glycerol | - | builds acid from |
API 50CHac
@ref | Q | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
16187 | - | - | - | - | + | - | + | - | - | - | + | + | + | + | +/- | - | - | - | - | - | - | + | - | + | + | + | + | + | + | +/- | + | + | +/- | +/- | + | + | + | + | - | + | + | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
16187 | a pig caecum | Fermoy | Ireland | IRL | Europe |
67770 | Porcine caecum |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Mammals | #Suidae (Pig,Swine) |
#Host Body-Site | #Gastrointestinal tract |
taxonmaps
- @ref: 69479
- File name: preview.99_168669.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_63007;97_81713;98_110660;99_168669&stattab=map
- Last taxonomy: Aeriscardovia aeriphila subclade
- 16S sequence: LC483556
- Sequence Identity:
- Total samples: 5385
- soil counts: 149
- aquatic counts: 170
- animal counts: 4955
- plant counts: 111
Safety information
risk assessment
- @ref: 16187
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
16187 | Aeriscardovia aeriphila strain T6 16S ribosomal RNA gene, partial sequence | AY174107 | 1422 | ena | 218139 |
67770 | Aeriscardovia aeriphila gene for 16S ribosomal RNA, partial sequence | LC483556 | 1461 | ena | 218139 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Aeriscardovia aeriphila strain DSM 22365 | 218139.4 | wgs | patric | 218139 |
66792 | Aeriscardovia aeriphila strain LMG 21773 | 218139.3 | wgs | patric | 218139 |
66792 | Aeriscardovia aeriphila LMG 21773 | 2788500099 | draft | img | 218139 |
66792 | Aeriscardovia aeriphila DSM 22365 | 2824784629 | draft | img | 218139 |
67770 | Aeriscardovia aeriphila DSM 22365 | GCA_013408435 | contig | ncbi | 218139 |
67770 | Aeriscardovia aeriphila LMG 21773 | GCA_002259595 | contig | ncbi | 218139 |
GC content
@ref | GC-content | method |
---|---|---|
16187 | 54.7 | |
67770 | 54.7 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 93.722 | yes |
gram-positive | yes | 89.587 | yes |
anaerobic | yes | 93.87 | no |
aerobic | no | 97.877 | no |
halophile | no | 64.142 | no |
spore-forming | no | 97.485 | yes |
glucose-util | yes | 88.454 | no |
flagellated | no | 96.368 | yes |
thermophile | no | 95.82 | yes |
glucose-ferment | yes | 84.517 | no |
External links
@ref: 16187
culture collection no.: DSM 22365, LMG 21773, NCIMB 13939, JCM 15959
straininfo link
- @ref: 71413
- straininfo: 94700
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 15023951 | Bifidobacterium psychraerophilum sp. nov. and Aeriscardovia aeriphila gen. nov., sp. nov., isolated from a porcine caecum. | Simpson PJ, Ross RP, Fitzgerald GF, Stanton C | Int J Syst Evol Microbiol | 10.1099/ijs.0.02667-0 | 2004 | Actinobacteria/*classification/genetics/growth & development/isolation & purification, Animals, Base Composition, Bifidobacterium/*classification/genetics/growth & development/isolation & purification, Cecum/*microbiology, Chaperonin 60/genetics, DNA, Bacterial/chemistry/genetics, Molecular Sequence Data, Phylogeny, Swine/*microbiology | Enzymology |
Genetics | 28764658 | Comparative genomic and phylogenomic analyses of the Bifidobacteriaceae family. | Lugli GA, Milani C, Turroni F, Duranti S, Mancabelli L, Mangifesta M, Ferrario C, Modesto M, Mattarelli P, Jiri K, van Sinderen D, Ventura M | BMC Genomics | 10.1186/s12864-017-3955-4 | 2017 | Bifidobacterium/*genetics, Evolution, Molecular, *Genomics, *Phylogeny | Phylogeny |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
16187 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22365) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22365 | ||||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | ||||
29919 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26290 | 28776041 | ||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | ||||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |||||
68371 | Automatically annotated from API 50CH acid | ||||||
69479 | João 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 | ||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | ||||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | ||||
71413 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID94700.1 | StrainInfo: A central database for resolving microbial strain identifiers |