Strain identifier
BacDive ID: 134102
Type strain: 
Species: Mycoplasma amphoriforme
Strain Designation: A39
NCBI tax ID(s): 273136 (species)
version 9.3 (current version)
General
@ref: 31307
BacDive-ID: 134102
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic
description: Mycoplasma amphoriforme A39 is a facultative anaerobe, mesophilic bacterium that was isolated from human - mouth.
NCBI tax id
- NCBI tax id: 273136
- Matching level: species
doi: 10.13145/bacdive134102.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/mycoplasmatota
- domain: Bacteria
- phylum: Mycoplasmatota
- class: Mollicutes
- order: Mycoplasmatales
- family: Mycoplasmataceae
- genus: Mycoplasma
- species: Mycoplasma amphoriforme
- full scientific name: Mycoplasma amphoriforme Pitcher et al. 2005
synonyms
- @ref: 20215
- synonym: Mycoplasmoides amphoriforme
@ref: 31307
domain: Bacteria
phylum: Tenericutes
class: Mollicutes
order: Mycoplasmatales
family: Mycoplasmataceae
genus: Mycoplasma
species: Mycoplasma amphoriforme
strain designation: A39
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 125439 | negative | 99.6 | |
| 125438 | 94.538 | no |
Culture and growth conditions
culture temp
- @ref: 31307
- growth: positive
- type: optimum
- temperature: 37
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 31307 | facultative anaerobe | |
| 125439 | obligate aerobe | 97.5 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125439 | no | 99.1 |
| 125438 | no | 94.9 |
metabolite utilization
- @ref: 31307
- Chebi-ID: 17234
- metabolite: glucose
- utilization activity: +
- kind of utilization tested: carbon source
Isolation, sampling and environmental information
isolation
- @ref: 31307
- sample type: human - mouth
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Human | |
| #Host Body-Site | #Oral cavity and airways | #Mouth |
taxonmaps
- @ref: 69479
- File name: preview.99_78591.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_63;96_33162;97_42023;98_54856;99_78591&stattab=map
- Last taxonomy: Mycoplasma amphoriforme subclade
- 16S sequence: AY531655
- Sequence Identity:
- Total samples: 442
- soil counts: 4
- aquatic counts: 3
- animal counts: 433
- plant counts: 2
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 31307 | Mycoplasma amphoriforme strain A39 16S ribosomal RNA gene, partial sequence | AY531655 | 1511 | nuccore | 572419 |
| 124043 | Mycoplasma amphoriforme strain A39 16S ribosomal RNA gene, partial sequence. | HM235423 | 1504 | nuccore | 572419 |
| 124043 | Mycoplasma amphoriforme A39 16S-23S ribosomal RNA intergenic spacer, partial sequence. | HM235424 | 367 | nuccore | 572419 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Mycoplasma amphoriforme A39 | 572419.3 | complete | patric | 572419 |
| 66792 | Mycoplasma amphoriforme A39 | 572419.4 | complete | patric | 572419 |
| 66792 | Mycoplasma amphoriforme A39 | GCA_000723365 | complete | ncbi | 572419 |
GC content
- @ref: 31307
- GC-content: 34
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 66.637 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 76.792 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 94.9 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 88.449 | yes |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 96.525 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 94.538 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 99.1 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 65.2 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 99.6 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 97.5 |
External links
@ref: 31307
culture collection no.: NCTC 11740, ATCC BAA-992
literature
- topic: Phylogeny
- Pubmed-ID: 16280532
- title: Mycoplasma amphoriforme sp. nov., isolated from a patient with chronic bronchopneumonia.
- authors: Pitcher DG, Windsor D, Windsor H, Bradbury JM, Yavari C, Jensen JS, Ling C, Webster D
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.63269-0
- year: 2005
- mesh: Bronchopneumonia/*microbiology, Chronic Disease, Humans, Molecular Sequence Data, Mycoplasma/classification/genetics/*isolation & purification, RNA, Ribosomal, 16S/*analysis/genetics, Sequence Analysis, DNA, Sputum/microbiology
- topic2: Pathogenicity
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed |
|---|---|---|---|---|---|
| 20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | ||
| 31307 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27622 | 28776041 |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | ||
| 124043 | Isabel Schober, Julia Koblitz | Data extracted from sequence databases, automatically matched based on designation and taxonomy | |||
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | ||
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |