Strain identifier
BacDive ID: 6246
Type strain:
Species: Intrasporangium chromatireducens
Strain Designation: Q5-1
Strain history: <- H Liu, Huzhong Agriculture Univ., China
NCBI tax ID(s): 1386088 (species)
General
@ref: 18112
BacDive-ID: 6246
DSM-Number: 25801
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-positive
description: Intrasporangium chromatireducens Q5-1 is an aerobe, Gram-positive bacterium that was isolated from subsurface soil of manganese mine.
NCBI tax id
- NCBI tax id: 1386088
- Matching level: species
strain history
@ref | history |
---|---|
18112 | <- KCTC; KCTC 19811 |
67770 | CGMCC 1.10750 <-- H. Liu et al. Q5-1. |
67771 | <- H Liu, Huzhong Agriculture Univ., China |
doi: 10.13145/bacdive6246.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Intrasporangiaceae
- genus: Intrasporangium
- species: Intrasporangium chromatireducens
- full scientific name: Intrasporangium chromatireducens Liu et al. 2012
@ref: 18112
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Intrasporangiaceae
genus: Intrasporangium
species: Intrasporangium chromatireducens
full scientific name: Intrasporangium chromatireducens Liu et al. 2012
strain designation: Q5-1
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell width | motility |
---|---|---|---|
30193 | positive | 0.3-0.5 µm | no |
67771 | positive |
pigmentation
- @ref: 30193
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
18112 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water |
18112 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water |
culture temp
@ref | growth | type | temperature |
---|---|---|---|
18112 | positive | growth | 28 |
30193 | positive | growth | 10-45 |
30193 | positive | optimum | 37 |
67770 | positive | growth | 37 |
67771 | positive | growth | 37 |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
30193 | positive | growth | 05-10 | alkaliphile |
30193 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
30193 | aerobe |
67771 | aerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
30193 | NaCl | positive | growth | 0-4 % |
30193 | NaCl | positive | optimum | 1 % |
observation
- @ref: 67770
- observation: quinones: MK-8(H4)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30193 | 16808 | 2-dehydro-D-gluconate | + | carbon source |
30193 | 37054 | 3-hydroxybutyrate | + | carbon source |
30193 | 30089 | acetate | + | carbon source |
30193 | 17128 | adipate | + | carbon source |
30193 | 16449 | alanine | + | carbon source |
30193 | 24265 | gluconate | + | carbon source |
30193 | 17234 | glucose | + | carbon source |
30193 | 27570 | histidine | + | carbon source |
30193 | 24996 | lactate | + | carbon source |
30193 | 25115 | malate | + | carbon source |
30193 | 17306 | maltose | + | carbon source |
30193 | 29864 | mannitol | + | carbon source |
30193 | 37684 | mannose | + | carbon source |
30193 | 33942 | ribose | + | carbon source |
30193 | 31011 | valerate | + | carbon source |
30193 | 4853 | esculin | + | hydrolysis |
30193 | 17632 | nitrate | + | reduction |
enzymes
@ref | value | activity | ec |
---|---|---|---|
30193 | catalase | + | 1.11.1.6 |
30193 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
18112 | subsurface soil of manganese mine | Hunan Province | China | CHN | Asia |
67770 | Subsurface soil of a manganese mine | Hunan Province, central-south China | China | CHN | Asia |
67771 | From chromium-manganese mine | Hunan | China | CHN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Other | #Mine |
#Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_5336.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_2582;97_3164;98_3976;99_5336&stattab=map
- Last taxonomy: Intrasporangium chromatireducens subclade
- 16S sequence: FJ487951
- Sequence Identity:
- Total samples: 383
- soil counts: 233
- aquatic counts: 25
- animal counts: 98
- plant counts: 27
Safety information
risk assessment
- @ref: 18112
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 18112
- description: Intrasporangium chromatireducens Q5-1 16S ribosomal RNA gene, partial sequence
- accession: FJ487951
- length: 1449
- database: nuccore
- NCBI tax ID: 584657
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Intrasporangium chromatireducens Q5-1 | 584657.9 | wgs | patric | 584657 |
66792 | Intrasporangium chromatireducens Q5-1 | 2588253842 | draft | img | 584657 |
67770 | Intrasporangium chromatireducens Q5-1 | GCA_000576575 | contig | ncbi | 584657 |
GC content
@ref | GC-content | method |
---|---|---|
18112 | 71.5 | |
67770 | 71.5 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
@ref | trait | model | description | prediction | confidence | training_data |
---|---|---|---|---|---|---|
69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 89.167 | no |
69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 96.354 | yes |
69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 55.739 | no |
69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 89.275 | yes |
69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 93.033 | yes |
69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 87 | yes |
External links
@ref: 18112
culture collection no.: DSM 25801, CCTCC Aa 2010019, CGMCC 1.10750, KCTC 19811, NRRL B-59521, JCM 18316
straininfo link
- @ref: 75724
- straininfo: 397273
literature
- topic: Phylogeny
- Pubmed-ID: 21441371
- title: Intrasporangium chromatireducens sp. nov., a chromate-reducing actinobacterium isolated from manganese mining soil, and emended description of the genus Intrasporangium.
- authors: Liu H, Wang H, Wang G
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.030528-0
- year: 2011
- mesh: Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, China, Chromates/*metabolism, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Lipids/analysis, *Manganese, *Mining, Molecular Sequence Data, Oxidation-Reduction, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity, Vitamin K 2/analysis
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
18112 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25801) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25801 | |||
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 | |||
30193 | 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 | 26539 | 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) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
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) | |||
75724 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID397273.1 | StrainInfo: A central database for resolving microbial strain identifiers |