Strain identifier

BacDive ID: 140817

Type strain: Yes

Species: Comamonas sediminis

Strain Designation: S3

Strain history: S.-S. Lee; KEMB, Kyonggi Univ., South Korea; S3.

NCBI tax ID(s): 1783360 (species)

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General

@ref: 43607

BacDive-ID: 140817

keywords: 16S sequence, Bacteria, aerobe, chemoorganoheterotroph, Gram-negative, rod-shaped

description: Comamonas sediminis S3 is an aerobe, chemoorganoheterotroph, Gram-negative bacterium that was isolated from lagoon sediments .

NCBI tax id

  • NCBI tax id: 1783360
  • Matching level: species

strain history

  • @ref: 67770
  • history: S.-S. Lee; KEMB, Kyonggi Univ., South Korea; S3.

doi: 10.13145/bacdive140817.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Comamonas
  • species: Comamonas sediminis
  • full scientific name: Comamonas sediminis Subhash et al. 2016

@ref: 43607

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Comamonas

species: Comamonas sediminis

strain designation: S3

type strain: yes

Morphology

cell morphology

  • @ref: 43607
  • gram stain: negative
  • cell length: 1.9-2.1 µm
  • cell width: 0.3-0.7 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43607
  • colony color: transparent
  • medium used: Agar plates

Culture and growth conditions

culture medium

  • @ref: 43607
  • name: Agar plates
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43607positivegrowth12-45
43607positiveoptimum30-35mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
43607positivegrowth6.1-8.8alkaliphile
43607positiveoptimum6.5-7.7

Physiology and metabolism

oxygen tolerance

  • @ref: 43607
  • oxygen tolerance: aerobe

nutrition type

  • @ref: 43607
  • type: chemoorganoheterotroph

halophily

@refsaltgrowthtested relationconcentration
43607NaClpositivegrowth0-3.5 %
43607NaClpositiveoptimum0-1.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4360717057cellobiose-builds acid from
4360715824D-fructose-builds acid from
4360762345L-rhamnose-builds acid from
4360717306maltose-builds acid from
4360716634raffinose-builds acid from
4360727897tryptophan-energy source
4360717057cellobiose-growth
4360715824D-fructose-growth
4360762345L-rhamnose-growth
4360717306maltose-growth
4360717029chitin-hydrolysis
436075291gelatin-hydrolysis
4360753426tween 80-hydrolysis
4360716199urea-hydrolysis
4360717634D-glucose+builds acid from
4360716899D-mannitol+builds acid from
4360728053melibiose+builds acid from
4360730849L-arabinose+builds acid from
4360717992sucrose+builds acid from
4360735391aspartate+growth
4360717634D-glucose+growth
4360716899D-mannitol+growth
4360717924D-sorbitol+growth
4360729985L-glutamate+growth
4360717992sucrose+growth
43607casein+hydrolysis
4360728017starch+hydrolysis
4360753424tween 20+hydrolysis

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
43607100147nalidixic acidyesyes100 µg (disc)
4360717698chloramphenicolyesyes100 µg
4360718208penicillin gyesyes100 µg
4360728077rifampicinyesyes100 µg
4360728971ampicillinyesyes100 µg

metabolite production

  • @ref: 43607
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 43607
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
43607catalase+1.11.1.6
43607cytochrome oxidase+1.9.3.1
43607esterase (C 4)+
43607esterase Lipase (C 8)+
43607cystine arylamidase+3.4.11.3
43607naphthol-AS-BI-phosphohydrolase+
43607beta-glucosidase+3.2.1.21
43607N-acetyl-beta-glucosaminidase+3.2.1.52
43607alpha-fucosidase+3.2.1.51
43607alkaline phosphatase-3.1.3.1
43607lipase (C 14)-
43607leucine arylamidase-3.4.11.1
43607trypsin-3.4.21.4
43607alpha-chymotrypsin-3.4.21.1
43607acid phosphatase-3.1.3.2
43607alpha-galactosidase-3.2.1.22
43607beta-galactosidase-3.2.1.23
43607beta-glucuronidase-3.2.1.31
43607alpha-glucosidase-3.2.1.20
43607alpha-mannosidase-3.2.1.24
43607tryptophan deaminase-4.1.99.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
43607lagoon sediments (pH 7.5)North CarolinaUSAUSANorth America
67770Lagoon sedimentsNCUSAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

Sequence information

16S sequences

  • @ref: 43607
  • description: 16S rRNA gene sequence
  • accession: LT009500
  • database: nuccore

GC content

  • @ref: 43607
  • GC-content: 68.3
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 43607

culture collection no.: KEMB 563-466, JCM 31169

literature

  • topic: Phylogeny
  • Pubmed-ID: 27117992
  • title: Description of Comamonas sediminis sp. nov., isolated from lagoon sediments.
  • authors: Subhash Y, Bang JJ, You TH, Lee SS
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001115
  • year: 2016
  • mesh: Bacterial Typing Techniques, Base Composition, Comamonas/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, North Carolina, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
43607Y. Subhash, John J. Bang, Taek H. You, Sang-Seob LeeDescription of Comamonas sediminis sp. nov., isolated from lagoon sediments10.1099/ijsem.0.001115IJSEM 66: 2735-2739 201627117992
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/