Strain identifier
BacDive ID: 13486
Type strain: 
Species: Saccharothrix xinjiangensis
Strain Designation: PYX-6
Strain history: Y. Zhou PYX-6.
NCBI tax ID(s): 204798 (species)
version 8.1 (current version)
General
@ref: 12181
BacDive-ID: 13486
DSM-Number: 44896
keywords: 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive
description: Saccharothrix xinjiangensis PYX-6 is an aerobe, spore-forming, mesophilic bacterium that was isolated from water sample.
NCBI tax id
- NCBI tax id: 204798
- Matching level: species
strain history
| @ref | history |
|---|---|
| 12181 | <- AS |
| 67770 | Y. Zhou PYX-6. |
doi: 10.13145/bacdive13486.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Saccharothrix
- species: Saccharothrix xinjiangensis
- full scientific name: Saccharothrix xinjiangensis Hu et al. 2004
@ref: 12181
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Saccharothrix
species: Saccharothrix xinjiangensis
full scientific name: Saccharothrix xinjiangensis Hu et al. 2004
strain designation: PYX-6
type strain: yes
Morphology
cell morphology
- @ref: 31254
- gram stain: positive
pigmentation
- @ref: 31254
- production: yes
Culture and growth conditions
culture medium
- @ref: 12181
- 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 | range |
|---|---|---|---|---|
| 12181 | positive | growth | 28 | mesophilic |
| 31254 | positive | growth | 13-50 | |
| 31254 | positive | optimum | 31.5 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 31254
- oxygen tolerance: aerobe
spore formation
- @ref: 31254
- spore formation: yes
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31254 | NaCl | positive | growth | 1.5-3.0 % |
| 31254 | NaCl | positive | optimum | 2.25 % |
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-10(H4)
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31254 | 22599 | arabinose | + | carbon source |
| 31254 | 17057 | cellobiose | + | carbon source |
| 31254 | 17234 | glucose | + | carbon source |
| 31254 | 17716 | lactose | + | carbon source |
| 31254 | 28053 | melibiose | + | carbon source |
| 31254 | 16634 | raffinose | + | carbon source |
| 31254 | 26546 | rhamnose | + | carbon source |
| 31254 | 17992 | sucrose | + | carbon source |
| 31254 | 18222 | xylose | + | carbon source |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 12181 | water sample | Xinjiang Uygur Autonomous Region, Tianchi Lake | China | CHN | Asia |
| 67770 | Water of Tianchi Lake | Xinjiang Uygur Autonomous Region | China | CHN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
Safety information
risk assessment
- @ref: 12181
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 12181 | Saccharothrix xinjiangensis strain AS 4.1731 16S ribosomal RNA gene, partial sequence | AY135693 | 1430 | ena | 204798 |
| 67770 | Saccharothrix xinjiangensis gene for 16S rRNA, partial sequence, strain: NBRC 101911 | AB381939 | 1471 | ena | 204798 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 12181 | 70.4 | |
| 67770 | 70.4 | thermal denaturation, midpoint method (Tm) |
External links
@ref: 12181
culture collection no.: DSM 44896, AS 4.1731, JCM 12329, CGMCC 4.1731, NBRC 101911, NRRL B-24321
straininfo link
- @ref: 82678
- straininfo: 134460
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 15545440 | Saccharothrix xinjiangensis sp. nov., a pyrene-degrading actinomycete isolated from Tianchi Lake, Xinjiang, China. | Hu YT, Zhou PJ, Zhou YG, Liu ZH, Liu SJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.63143-0 | 2004 | Actinomycetales/chemistry/*classification/*isolation & purification/physiology, Bacterial Typing Techniques, Biodegradation, Environmental, Carbohydrate Metabolism, China, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis/isolation & purification, Fresh Water/*microbiology, Genes, rRNA, Hypertonic Solutions, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pyrenes/*metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Water Microbiology | Enzymology |
| Phylogeny | 21892613 | Saccharothrix yanglingensis sp. nov., an antagonistic endophytic actinomycete isolated from cucumber plant. | Yan X, Huang LL, Tu X, Gao XN, Kang ZS | Antonie Van Leeuwenhoek | 10.1007/s10482-011-9631-9 | 2011 | Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Cell Wall/chemistry, Cluster Analysis, Cucumis sativus/*microbiology, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analysis | Genetics |
| Phylogeny | 23645017 | Saccharothrix saharensis sp. nov., an actinomycete isolated from Algerian Saharan soil. | Boubetra D, Zitouni A, Bouras N, Mathieu F, Lebrihi A, Schumann P, Sproer C, Klenk HP, Sabaou N | Int J Syst Evol Microbiol | 10.1099/ijs.0.051839-0 | 2013 | Actinomycetales/*classification/genetics/isolation & purification, Algeria, Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysis | Genetics |
| Phylogeny | 25256705 | Saccharothrix carnea sp. nov., an actinobacterium isolated from soil. | Liu C, Guan X, Wang S, Zhao J, Wang H, He H, Xiang W, Wang X | Int J Syst Evol Microbiol | 10.1099/ijs.0.065557-0 | 2014 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Industrial Waste, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Pesticides, Phospholipids/chemistry, *Phylogeny, Pigments, Biological/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistry, Waste Water | Genetics |
| Phylogeny | 36268867 | Saccharothrix luteola sp. nov., a novel cellulose-degrading actinobacterium isolated from soil and emended description of the genus Saccharothrix. | He C, Sun X, Huang Z, Wang Z, Luo X, Song J, Wang X, Zhao J, Xiang W | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005572 | 2022 | RNA, Ribosomal, 16S/genetics, *Soil, *Phosphatidylethanolamines, Soil Microbiology, Vitamin K 2, Cellulose, Cardiolipins, Congo Red, Galactose, Mannose, Ribose, Base Composition, Phylogeny, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Sequence Analysis, DNA, Phosphatidylinositols, Phospholipids | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 12181 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44896) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44896 | |||
| 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 | |||
| 31254 | 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 | 27577 | 28776041 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 82678 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID134460.1 | StrainInfo: A central database for resolving microbial strain identifiers |