Strain identifier

BacDive ID: 13071

Type strain: Yes

Species: Pseudomonas indica

Strain history: CIP <- 2002, DSMZ <- T. Chakrabarti, MTCC, Chandigarh, India

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

@ref: 5220

BacDive-ID: 13071

DSM-Number: 14015

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Pseudomonas indica DSM 14015 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from oil field soil.

NCBI tax id

NCBI tax idMatching level
1215103strain
137658species

strain history

@refhistory
5220<- T. Chakrabarti, MTCC, Chandigarh, India
67770IAM 15083 <-- MTCC 3713 <-- T. Chakrabarti IMT37.
120076CIP <- 2002, DSMZ <- T. Chakrabarti, MTCC, Chandigarh, India

doi: 10.13145/bacdive13071.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Pseudomonadaceae
  • genus: Pseudomonas
  • species: Pseudomonas indica
  • full scientific name: Pseudomonas indica Pandey et al. 2002

@ref: 5220

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas indica

full scientific name: Pseudomonas indica Pandey et al. 2002

type strain: yes

Morphology

cell morphology

  • @ref: 120076
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 120076
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5220CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
39930MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120076CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5220positivegrowth30mesophilic
39930positivegrowth30mesophilic
59221positivegrowth30mesophilic
67770positivegrowth30mesophilic
120076positivegrowth25-41
120076nogrowth5psychrophilic
120076nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
59221aerobe
120076obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
120076NaClpositivegrowth0-4 %
120076NaClnogrowth6 %
120076NaClnogrowth8 %
120076NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12007616947citrate+carbon source
1200764853esculin-hydrolysis
12007617632nitrate+reduction
12007616301nitrite+reduction
12007617632nitrate+respiration

antibiotic resistance

  • @ref: 120076
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120076
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
120076oxidase+
120076beta-galactosidase-3.2.1.23
120076alcohol dehydrogenase-1.1.1.1
120076gelatinase+
120076amylase+
120076caseinase-3.4.21.50
120076catalase+1.11.1.6
120076tween esterase-
120076lecithinase-
120076lipase-
120076lysine decarboxylase-4.1.1.18
120076ornithine decarboxylase-4.1.1.17
120076protease-
120076tryptophan deaminase-
120076urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120076-++++++-------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120076+++----+-++---------+----------+-+---------++---+++--+++----+-+++------+++-+++++++-+---++++++++++-+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5220oil field soilGujaratIndiaINDAsia
59221Soil,oil fieldIndiaINDAsia
67770Soil sample of oil field in Gujarat
120076Environment, Soil, oil fieldGujaratIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Oil reservoir
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_5211.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_36;97_3093;98_3884;99_5211&stattab=map
  • Last taxonomy: Pseudomonas indica subclade
  • 16S sequence: AF302795
  • Sequence Identity:
  • Total samples: 1371
  • soil counts: 241
  • aquatic counts: 578
  • animal counts: 409
  • plant counts: 143

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
52201Risk group (German classification)
1200761Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5220
  • description: Pseudomonas sp. IMT37 16S ribosomal RNA gene, partial sequence
  • accession: AF302795
  • length: 1509
  • database: ena
  • NCBI tax ID: 137658

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas indica NBRC 103045 strain NBRC 1030451215103.3wgspatric1215103
66792Pseudomonas indica strain JCM 21544137658.3wgspatric137658
66792Pseudomonas indica JCM 215442663762782draftimg137658
67770Pseudomonas indica NBRC 103045GCA_002091635contigncbi1215103
67770Pseudomonas indica JCM 21544GCA_900100285scaffoldncbi137658

GC content

@refGC-contentmethod
522072
6777072thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes88.406no
gram-positiveno98.798no
anaerobicno97.882no
aerobicyes87.847yes
halophileno84.702no
spore-formingno94.487no
thermophileno99.623yes
glucose-utilyes94.502no
glucose-fermentno90.255no
flagellatedyes75.77no

External links

@ref: 5220

culture collection no.: DSM 14015, CIP 107714, MTCC 3713, CCUG 51511, IMT 37, JCM 21544, DSM 23066, IAM 15083, NBRC 103045, TBRC 7233

straininfo link

  • @ref: 82281
  • straininfo: 100888

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12361258Pseudomonas indica sp. nov., a novel butane-utilizing species.Pandey KK, Mayilraj S, Chakrabarti TInt J Syst Evol Microbiol10.1099/00207713-52-5-15592002Base Sequence, Butanes/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry, Genome, Bacterial, Microscopy, Electron, Molecular Sequence Data, Phylogeny, Pseudomonas/*classification/genetics/*metabolism/ultrastructure, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Terminology as TopicGenetics
Phylogeny28984556Pseudomonas tarimensis sp. nov., an endophytic bacteria isolated from Populus euphratica.Anwar N, Rozahon M, Zayadan B, Mamtimin H, Abdurahman M, Kurban M, Abdurusul M, Mamtimin T, Abdukerim M, Rahman EInt J Syst Evol Microbiol10.1099/ijsem.0.0022952017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Stems/*microbiology, Populus/*microbiology, Pseudomonas/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny30950783Pseudomonas urumqiensis sp. nov., isolated from rhizosphere soil of Alhagi sparsifolia.Zou Y, He S, Sun Y, Zhang X, Liu Y, Cheng QInt J Syst Evol Microbiol10.1099/ijsem.0.0033902019Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fabaceae/*microbiology, Fatty Acids/chemistry, Genes, Bacterial, Phospholipids/chemistry, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome
Phylogeny31429815Pseudomonas mangiferae sp. nov., isolated from bark of mango tree in Thailand.Anurat P, Duangmal K, Srisuk NInt J Syst Evol Microbiol10.1099/ijsem.0.0036572019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Mangifera/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Bark/*microbiology, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5220Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14015)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14015
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
39930Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5180
59221Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 51511)https://www.ccug.se/strain?id=51511
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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
82281Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100888.1StrainInfo: A central database for resolving microbial strain identifiers
120076Curators of the CIPCollection of Institut Pasteur (CIP 107714)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107714