Strain identifier
BacDive ID: 2497
Type strain:
Species: Desulfurispirillum indicum
Strain Designation: S5
Strain history: <- M. M. Häggblom, Rutgers, State Univ. New Jersey, New Brunswick, USA; S5 <- P. Narasingarao {2003}
NCBI tax ID(s): 936456 (species)
General
@ref: 16419
BacDive-ID: 2497
DSM-Number: 22839
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, motile, spiral-shaped
description: Desulfurispirillum indicum S5 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from river sediment.
NCBI tax id
- NCBI tax id: 936456
- Matching level: species
strain history
- @ref: 16419
- history: <- M. M. Häggblom, Rutgers, State Univ. New Jersey, New Brunswick, USA; S5 <- P. Narasingarao {2003}
doi: 10.13145/bacdive2497.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/chrysiogenota
- domain: Bacteria
- phylum: Chrysiogenota
- class: Chrysiogenia
- order: Chrysiogenales
- family: Chrysiogenaceae
- genus: Desulfurispirillum
- species: Desulfurispirillum indicum
- full scientific name: Desulfurispirillum indicum Rauschenbach et al. 2011
@ref: 16419
domain: Bacteria
phylum: Chrysiogenetes
class: Chrysiogenetes
order: Chrysiogenales
family: Chrysiogenaceae
genus: Desulfurispirillum
species: Desulfurispirillum indicum
full scientific name: Desulfurispirillum indicum Rauschenbach et al. 2011
strain designation: S5
type strain: yes
Morphology
cell morphology
- @ref: 23076
- gram stain: negative
- cell length: 2.0-7.0 µm
- cell width: 0.10-0.15 µm
- cell shape: spiral-shaped
- motility: yes
Culture and growth conditions
culture medium
- @ref: 16419
- name: DESULFURISPIRILLUM INDICUM MEDIUM (DSMZ Medium 1294)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1294
- composition: Name: DESULFURISPIRILLUM INDICUM MEDIUM (DSMZ Medium 1294) Composition: NaCl 22.9084 g/l MgCl2 x 6 H2O 2.98805 g/l KCl 1.29482 g/l Na-pyruvate 1.09562 g/l Na2CO3 0.996016 g/l NaNO3 0.896414 g/l NH4Cl 0.498008 g/l KH2PO4 0.199203 g/l CaCl2 x 2 H2O 0.0996016 g/l Na2S x 9 H2O 0.0996016 g/l HCl 0.00249004 g/l FeCl2 x 4 H2O 0.00149402 g/l NaOH 0.000498008 g/l Sodium resazurin 0.000498008 g/l Pyridoxine hydrochloride 0.000298805 g/l Nicotinic acid 0.000199203 g/l Thiamine-HCl x 2 H2O 0.000199203 g/l CoCl2 x 6 H2O 0.000189243 g/l MnCl2 x 4 H2O 9.96016e-05 g/l Calcium pantothenate 9.96016e-05 g/l Vitamin B12 9.96016e-05 g/l p-Aminobenzoic acid 7.96813e-05 g/l ZnCl2 6.97211e-05 g/l (DL)-alpha-Lipoic acid 4.98008e-05 g/l Calcium D-(+)-pantothenate 4.98008e-05 g/l Riboflavin 4.98008e-05 g/l Thiamine HCl 4.98008e-05 g/l Na2MoO4 x 2 H2O 3.58566e-05 g/l NiCl2 x 6 H2O 2.39044e-05 g/l Biotin 1.99203e-05 g/l D-(+)-biotin 1.99203e-05 g/l Folic acid 1.99203e-05 g/l H3BO3 5.9761e-06 g/l Na2WO4 x 2 H2O 3.98406e-06 g/l Na2SeO3 x 5 H2O 2.98805e-06 g/l CuCl2 x 2 H2O 1.99203e-06 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16419 | positive | growth | 28 | mesophilic |
23076 | maximum | 37.0 | mesophilic | |
23076 | positive | optimum | 28.0 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
23076 | positive | growth | 6.8-7.6 |
23076 | positive | optimum | 7.4 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
16419 | anaerobe |
23076 | obligate anaerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
23076 | NaCl | positive | growth | 0.10-0.75 M |
23076 | NaCl | optimum | 0.4 M |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23076 | 35404 | chromate | - | electron acceptor |
23076 | 28262 | dimethyl sulfoxide | - | electron acceptor |
23076 | 33403 | elemental sulfur | - | electron acceptor |
23076 | 16301 | nitrite | - | electron acceptor |
23076 | 29806 | fumarate | - | electron donor |
23076 | 16136 | hydrogen sulfide | - | electron donor |
23076 | 25115 | malate | - | electron donor |
23076 | 17272 | propionate | - | electron donor |
23076 | 30031 | succinate | - | electron donor |
23076 | 15138 | sulfide | - | electron donor |
23076 | 15740 | formate | - | oxidation |
23076 | 49709 | chlorate | - | reduction |
23076 | 16947 | citrate | - | reduction |
23076 | 50819 | ferric oxide | - | reduction |
23076 | 29806 | fumarate | - | reduction |
23076 | 16189 | sulfate | - | reduction |
23076 | 16094 | thiosulfate | - | reduction |
23076 | 29125 | arsenate | + | electron acceptor |
23076 | 15075 | selenate | + | electron acceptor |
23076 | 18212 | selenite | + | electron acceptor |
23076 | 30089 | acetate | + | oxidation |
23076 | 24996 | lactate | + | oxidation |
23076 | 15361 | pyruvate | + | oxidation |
23076 | 17632 | nitrate | + | reduction |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | enrichment culture | enrichment culture composition |
---|---|---|---|---|---|---|---|
16419 | river sediment | Chennai, Buckingham Canal, Chepauk | India | IND | Asia | ||
23076 | enrichment culture of sediments collected in an estuarine canal | anaerobic medium | containing selenate as electron acceptor and pyruvate as carbon source and electron donor |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Built environment | |
#Engineered | #Laboratory | #Lab enrichment |
#Environmental | #Aquatic | #River (Creek) |
#Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_4692.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16434;96_2329;97_2832;98_3518;99_4692&stattab=map
- Last taxonomy: Desulfurispirillum
- 16S sequence: DQ991965
- Sequence Identity:
- Total samples: 4576
- soil counts: 166
- aquatic counts: 445
- animal counts: 3918
- plant counts: 47
Safety information
risk assessment
- @ref: 16419
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16419
- description: Desulfurispirillum indicum S5 16S ribosomal RNA gene, partial sequence
- accession: DQ991965
- length: 1530
- database: ena
- NCBI tax ID: 653733
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Desulfurispirillum indicum S5 | GCA_000177635 | complete | ncbi | 653733 |
66792 | Desulfurispirillum indicum S5 | 653733.4 | complete | patric | 653733 |
66792 | Desulfurispirillum indicum S5, DSM 22839 | 649633038 | complete | img | 653733 |
GC content
- @ref: 16419
- GC-content: 56.0
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 90.774 | yes |
flagellated | no | 63.853 | no |
gram-positive | no | 99.306 | yes |
anaerobic | yes | 98.71 | yes |
aerobic | no | 97.542 | yes |
halophile | no | 77.516 | no |
spore-forming | no | 92.178 | no |
thermophile | no | 93.272 | yes |
glucose-util | no | 70.686 | no |
glucose-ferment | no | 88.376 | no |
External links
@ref: 16419
culture collection no.: DSM 22839, ATCC BAA 1389
straininfo link
- @ref: 72034
- straininfo: 396748
literature
- topic: Phylogeny
- Pubmed-ID: 20400664
- title: Desulfurispirillum indicum sp. nov., a selenate- and selenite-respiring bacterium isolated from an estuarine canal.
- authors: Rauschenbach I, Narasingarao P, Haggblom MM
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.022392-0
- year: 2010
- mesh: Arsenates/metabolism, Bacteria/*classification/genetics/*isolation & purification/metabolism, Base Composition, Carboxylic Acids/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, India, Molecular Sequence Data, Nitrates/metabolism, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Selenic Acid, Selenium Compounds/*metabolism, Sequence Analysis, DNA, Sodium Selenite/*metabolism, *Water Microbiology
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
16419 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22839) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22839 | |||
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 | |||
23076 | Ines Rauschenbach,Priya Narasingarao,Max M. Häggblom | 10.1099/ijs.0.022392-0 | Desulfurispirillum indicum sp. nov., a selenate- and selenite-respiring bacterium isolated from an estuarine canal | IJSEM 61: 654-658 2011 | 20400664 | |
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) | |||
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 | |||
72034 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID396748.1 | StrainInfo: A central database for resolving microbial strain identifiers |