Strain identifier
BacDive ID: 23222
Type strain: 
Species: Actinophytocola xinjiangensis
Strain Designation: QAIII60
Strain history: CGMCC 4.4663 <-- Y. Huang QAIII60.
NCBI tax ID(s): 485602 (species)
version 9.3 (current version)
General
@ref: 19129
BacDive-ID: 23222
DSM-Number: 45854
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic
description: Actinophytocola xinjiangensis QAIII60 is an aerobe, mesophilic bacterium that was isolated from forest soil.
NCBI tax id
- NCBI tax id: 485602
- Matching level: species
strain history
| @ref | history |
|---|---|
| 19129 | <- NBRC; NBRC 106673 <- CGMCC; CGMCC 4.4663 |
| 67770 | CGMCC 4.4663 <-- Y. Huang QAIII60. |
doi: 10.13145/bacdive23222.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Actinophytocola
- species: Actinophytocola xinjiangensis
- full scientific name: Actinophytocola xinjiangensis Guo et al. 2011
@ref: 19129
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Actinophytocola
species: Actinophytocola xinjiangensis
full scientific name: Actinophytocola xinjiangensis Guo et al. 2011
strain designation: QAIII60
type strain: yes
Culture and growth conditions
culture medium
- @ref: 19129
- name: N-Z-AMINE-MEDIUM (DSMZ Medium 554)
- growth: yes
- link: https://mediadive.dsmz.de/medium/554
- composition: Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 19129 | positive | growth | 28 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
oxygen tolerance
- @ref: 125438
- oxygen tolerance: aerobe
- confidence: 91.027
observation
- @ref: 67770
- observation: quinones: MK-10(H2), MK-9(H4)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 19129 | forest soil | Xinjiang, Kanas Nature Reserve | China | CHN | Asia |
| 67770 | Virgin forest soil of Kanas Nature Reserve | Xinjiang, north-west China | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Forest |
| #Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_1329.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_770;97_898;98_1053;99_1329&stattab=map
- Last taxonomy: Actinophytocola xinjiangensis
- 16S sequence: EU274339
- Sequence Identity:
- Total samples: 573
- soil counts: 391
- aquatic counts: 23
- animal counts: 109
- plant counts: 50
Safety information
risk assessment
- @ref: 19129
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 19129
- description: Actinophytocola xinjiangensis strain QAIII60 16S ribosomal RNA gene, partial sequence
- accession: EU274339
- length: 1481
- database: nuccore
- NCBI tax ID: 485602
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Actinophytocola xinjiangensis strain CGMCC 4.4663 | 485602.3 | wgs | patric | 485602 |
| 66792 | Actinophytocola xinjiangensis strain CGMCC 4.4663 | 485602.4 | wgs | patric | 485602 |
| 66792 | Actinophytocola xinjiangensis CGMCC 4.4663 | 2681812964 | draft | img | 485602 |
| 67770 | Actinophytocola xinjiangensis CGMCC 4.4663 | GCA_001921215 | contig | ncbi | 485602 |
| 67770 | Actinophytocola xinjiangensis CGMCC 4.4663 | GCA_003664025 | scaffold | ncbi | 485602 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 19129 | 72.5 | |
| 67770 | 72.5 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 89.91 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.12 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 83.216 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 91.027 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 91.999 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 89.074 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 88.4 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 84.5 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | variable | 89 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 89 |
External links
@ref: 19129
culture collection no.: DSM 45854, CGMCC 4.4663, NBRC 106673, JCM 18840
straininfo link
- @ref: 87449
- straininfo: 402589
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21257681 | Actinophytocola xinjiangensis sp. nov., isolated from virgin forest soil. | Guo X, Qiu D, Ruan J, Huang Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.027722-0 | 2011 | Actinomycetales/*classification/genetics/*isolation & purification/metabolism, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Trees/growth & development | Metabolism |
| Phylogeny | 24867173 | Actinophytocola sediminis sp. nov., an actinomycete isolated from a marine sediment. | Zhang DF, Jiang Z, Zhang XM, Yang LL, Tian XP, Long LJ, Zhang S, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.062638-0 | 2014 | Actinomycetales/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Vitamin K 2/chemistry | Genetics |
| Phylogeny | 24944338 | Actinophytocola gilvus sp. nov., isolated from desert soil crusts, and emended description of the genus Actinophytocola Indananda et al. 2010. | Sun HM, Zhang T, Yu LY, Lu XX, Mou XZ, Zhang YQ | Int J Syst Evol Microbiol | 10.1099/ijs.0.061051-0 | 2014 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Desert Climate, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 28073395 | Actinophytocola xanthii sp. nov., an actinomycete isolated from rhizosphere soil of the plant Xanthium sibiricum. | Wang W, Wang B, Meng H, Xing Z, Lai Q, Yuan L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001781 | 2017 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry, Xanthium/*microbiology | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 19129 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45854) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45854 | |
| 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 | |
| 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) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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 | |
| 87449 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402589.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | 10.1101/2024.08.12.607695 | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |