Strain identifier

BacDive ID: 158071

Type strain: No

Species: Cupriavidus sp.

Strain Designation: USMAHM13

Strain history: <- A. Al-Ashraf Abdullah, University Sains Malaysia, Minden, Penang; USMAHM13 <- H. Ramachandran

NCBI tax ID(s): 1873897 (species)

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General

@ref: 64645

BacDive-ID: 158071

DSM-Number: 25816

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Cupriavidus sp. USMAHM13 is a mesophilic bacterium that was isolated from paddy field soil.

NCBI tax id

  • NCBI tax id: 1873897
  • Matching level: species

strain history

  • @ref: 64645
  • history: <- A. Al-Ashraf Abdullah, University Sains Malaysia, Minden, Penang; USMAHM13 <- H. Ramachandran

doi: 10.13145/bacdive158071.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Cupriavidus
  • species: Cupriavidus sp.
  • full scientific name: Cupriavidus Makkar and Casida 1987

@ref: 64645

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Cupriavidus

species: Cupriavidus sp.

full scientific name: Cupriavidus sp.

strain designation: USMAHM13

type strain: no

Culture and growth conditions

culture medium

  • @ref: 64645
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

  • @ref: 64645
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate+assimilation
6836927689decanoate+assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
64645--------------+++++++

Isolation, sampling and environmental information

isolation

  • @ref: 64645
  • sample type: paddy field soil
  • geographic location: Sg. Manik, Perak
  • country: Malaysia
  • origin.country: MYS
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)
#Condition#Anoxic (anaerobic)
#Condition#Humid

Sequence information

16S sequences

  • @ref: 64645
  • description: Cupriavidus sp. USMAHM13 16S ribosomal RNA gene, complete sequence
  • accession: KF460028
  • length: 1522
  • database: ena
  • NCBI tax ID: 1389192

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cupriavidus sp. USMAHM13GCA_001854285completencbi1389192
66792Cupriavidus sp. USMAHM131389192.4plasmidpatric1389192
66792Cupriavidus sp. USMAHM131389192.3completepatric1389192
66792Cupriavidus sp. USMAHM132721755522completeimg1389192

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes53.55no
gram-positiveno98.656no
anaerobicno98.725no
aerobicyes95.063no
halophileno93.65no
spore-formingno92.919no
thermophileno99.28yes
glucose-utilno64.697yes
motileyes89.475no
glucose-fermentno89.305yes

External links

@ref: 64645

culture collection no.: DSM 25816

straininfo link

  • @ref: 110914
  • straininfo: 404411

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism24122705Bioconversion of glycerine pitch into a novel yellow-pigmented P(3HB-co-4HB) copolymer: synergistic effect of ammonium acetate and polymer characteristics.Ramachandran H, Amirul AAAppl Biochem Biotechnol10.1007/s12010-013-0552-02014Acetates/*pharmacology, Analysis of Variance, Batch Cell Culture Techniques, Biomass, Biopolymers/chemistry, Bioreactors/microbiology, Cupriavidus/drug effects/growth & development/physiology, Fermentation/drug effects, Glycerol/*metabolism, Hydroxybutyrates/*metabolism, Molecular Weight, *Pigmentation/drug effects, Polyesters/*metabolism, Polymers/*metabolism, Regression Analysis, Reproducibility of Results, Temperature, Time FactorsPathogenicity
Cultivation25099372Identification and characterization of the yellow pigment synthesized by Cupriavidus sp. USMAHM13.Ramachandran H, Iqbal MA, Amirul AAAppl Biochem Biotechnol10.1007/s12010-014-1080-22014Culture Media, Cupriavidus/*metabolism, Gram-Negative Bacteria/drug effects, Gram-Positive Bacteria/drug effects, Microbial Sensitivity Tests, Pigments, Biological/*biosynthesis/pharmacology, Spectrum Analysis/methodsPathogenicity
Metabolism27813824Enhanced production of poly(3-hydroxybutyrate-co-4-hydroxybutyrate) copolymer and antimicrobial yellow pigmentation from Cupriavidus sp. USMAHM13 with antibiofilm capability.Ismail I, Gurusamy TP, Ramachandran H, Al-Ashraf Amirul APrep Biochem Biotechnol10.1080/10826068.2016.12529252016Anti-Bacterial Agents/*metabolism/pharmacology, Bacillus subtilis/drug effects/physiology, Biofilms/drug effects, Cupriavidus/*metabolism, Hydroxybutyrates/*metabolism/pharmacology, Industrial Microbiology/*methods, Pigments, Biological/*metabolism/pharmacology, Polyesters/*metabolism/pharmacologyBiotechnology
Genetics28104662Complete Genome Sequences of Three Cupriavidus Strains Isolated from Various Malaysian Environments.Shafie NA, Lau NS, Ramachandran H, Amirul AAGenome Announc10.1128/genomeA.01498-162017Phylogeny

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
64645Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-25816Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25816)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68369Automatically annotated from API 20NE
110914Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID404411.1