Strain identifier

BacDive ID: 2497

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refgrowthtypetemperaturerange
16419positivegrowth28mesophilic
23076maximum37.0mesophilic
23076positiveoptimum28.0mesophilic

culture pH

@refabilitytypepH
23076positivegrowth6.8-7.6
23076positiveoptimum7.4

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
16419anaerobe
23076obligate anaerobe

halophily

@refsaltgrowthtested relationconcentration
23076NaClpositivegrowth0.10-0.75 M
23076NaCloptimum0.4 M

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2307635404chromate-electron acceptor
2307628262dimethyl sulfoxide-electron acceptor
2307633403elemental sulfur-electron acceptor
2307616301nitrite-electron acceptor
2307629806fumarate-electron donor
2307616136hydrogen sulfide-electron donor
2307625115malate-electron donor
2307617272propionate-electron donor
2307630031succinate-electron donor
2307615138sulfide-electron donor
2307615740formate-oxidation
2307649709chlorate-reduction
2307616947citrate-reduction
2307650819ferric oxide-reduction
2307629806fumarate-reduction
2307616189sulfate-reduction
2307616094thiosulfate-reduction
2307629125arsenate+electron acceptor
2307615075selenate+electron acceptor
2307618212selenite+electron acceptor
2307630089acetate+oxidation
2307624996lactate+oxidation
2307615361pyruvate+oxidation
2307617632nitrate+reduction

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture composition
16419river sedimentChennai, Buckingham Canal, ChepaukIndiaINDAsia
23076enrichment culture of sediments collected in an estuarine canalanaerobic mediumcontaining selenate as electron acceptor and pyruvate as carbon source and electron donor

isolation source categories

Cat1Cat2Cat3
#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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Desulfurispirillum indicum S5GCA_000177635completencbi653733
66792Desulfurispirillum indicum S5653733.4completepatric653733
66792Desulfurispirillum indicum S5, DSM 22839649633038completeimg653733

GC content

  • @ref: 16419
  • GC-content: 56.0
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes90.774yes
flagellatedno63.853no
gram-positiveno99.306yes
anaerobicyes98.71yes
aerobicno97.542yes
halophileno77.516no
spore-formingno92.178no
thermophileno93.272yes
glucose-utilno70.686no
glucose-fermentno88.376no

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

@idauthorscataloguedoi/urltitlejournalpubmed
16419Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22839)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22839
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
23076Ines Rauschenbach,Priya Narasingarao,Max M. Häggblom10.1099/ijs.0.022392-0Desulfurispirillum indicum sp. nov., a selenate- and selenite-respiring bacterium isolated from an estuarine canalIJSEM 61: 654-658 201120400664
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479João 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
72034Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID396748.1StrainInfo: A central database for resolving microbial strain identifiers