Strain identifier

BacDive ID: 140228

Type strain: Yes

Species: Algoriphagus roseus

Strain Designation: W29

Strain history: <- Rup Lal, Univ. of Delhi

NCBI tax ID(s): 1649265 (species)

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General

@ref: 42835

BacDive-ID: 140228

DSM-Number: 100160

keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped, colony-forming

description: Algoriphagus roseus W29 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from hexachlorocyclohexane contaminated dumpsite soil.

NCBI tax id

  • NCBI tax id: 1649265
  • Matching level: species

strain history

@refhistory
42835<- R. Lal, Univ. Delhi, Dept. Zoology, India; W29 <- P. Kohli
67771<- Rup Lal, Univ. of Delhi

doi: 10.13145/bacdive140228.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Cytophagia
  • order: Cytophagales
  • family: Cyclobacteriaceae
  • genus: Algoriphagus
  • species: Algoriphagus roseus
  • full scientific name: Algoriphagus roseus Kohli et al. 2016

@ref: 42835

domain: Bacteria

phylum: Bacteroidetes

class: Cytophagia

order: Cytophagales

family: Cyclobacteriaceae

genus: Algoriphagus

species: Algoriphagus roseus

full scientific name: Algoriphagus roseus Kohli et al. 2016

strain designation: W29

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
43131negative0.8-1.5 µm0.3-0.5 µmrod-shapedno
67771rod-shapedno
67771negative

colony morphology

  • @ref: 43131
  • colony color: reddish-pink
  • colony shape: circular
  • medium used: LB agar

Culture and growth conditions

culture medium

@refnamegrowth
43131LB (Luria-Bertani) MEDIUMyes
43131Nutrient agar (NA)yes
43131Marine agar (MA)yes
43131Reasoner's 2A agar (R2A)yes
43131Trypticase Soy Agar (TSA)no
43131BHIno

culture temp

@refgrowthtypetemperaturerange
43131positiveoptimum28mesophilic
43131positivegrowth25-37mesophilic
67771positivegrowth28-30mesophilic

culture pH

@refabilitytypepHPH range
43131positivegrowth7.0-9.0alkaliphile
43131positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43131aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
43131NaClpositivegrowth0-5.0 %(w/v)
43131NaClpositiveoptimum1 %

observation

  • @ref: 67771
  • observation: quinones: MK-7

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
431314-nitrophenyl beta-D-galactopyranoside hydrolysate+assimilation
43131tween 20+hydrolysis53424
43131tween 80+hydrolysis53426
43131starch+hydrolysis28017
43131esculin+hydrolysis4853
43131xanthine+hydrolysis15318
43131hypoxanthine+hydrolysis17368
43131casein-hydrolysis
43131nitrate-reduction17632
43131glucose+fermentation17234
43131L-arabinose+builds acid from30849
43131D-glucose+builds acid from17634
43131D-xylose+builds acid from65327
43131D-fructose+builds acid from15824
43131D-mannose+builds acid from16024
43131D-galactose+builds acid from12936
43131sucrose+builds acid from17992
43131methyl alpha-D-mannoside+builds acid from43943
43131arbutin+builds acid from18305
43131salicin+builds acid from17814
43131cellobiose+builds acid from17057
43131N-acetylglucosamine+builds acid from506227
43131maltose+builds acid from17306
43131lactose+builds acid from17716
43131melibiose+builds acid from28053
43131trehalose+builds acid from27082
43131inulin+builds acid from15443
43131raffinose+builds acid from16634
43131D-arabinose-builds acid from17108
43131D-mannitol-builds acid from16899
43131D-fucose-builds acid from28847
43131L-fucose-builds acid from18287
43131L-xylose-builds acid from65328
43131L-sorbose-builds acid from17266
43131turanose-builds acid from32528
43131D-lyxose-builds acid from62318
43131xylitol-builds acid from17151
43131D-tagatose-builds acid from16443
43131glycerol-builds acid from17754
43131erythritol-builds acid from17113
43131melezitose-builds acid from6731
43131ribitol-builds acid from15963
43131L-rhamnose-builds acid from62345
43131galactitol-builds acid from16813
43131myo-inositol-builds acid from17268
43131glycogen-builds acid from28087
43131D-glucose+carbon source17634
43131lactose+carbon source17716
43131maltose+carbon source17306
43131gelatin-hydrolysis5291
43131D-galactose+assimilation12936
43131cellobiose+assimilation17057
43131L-arabitol-assimilation18403
43131D-mannose+assimilation16024
43131raffinose+assimilation16634
43131D-xylose+assimilation65327
43131D-mannitol-assimilation16899
43131sorbitol-assimilation30911
43131melibiose+assimilation28053
43131sucrose+assimilation17992
43131trehalose+assimilation27082

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
431312637amikacinyesyes30 µg (disc)
4313128971ampicillinyesyes10 µg (disc)
4313117698chloramphenicolyesyes30 µg (disc)
43131100241ciprofloxacinyesyes5 µg (disc)
4313117833gentamicinyesyes10 µg (disc)
43131100147nalidixic acidyesyes30 µg (disc)
4313127701oxytetracyclineyesyes30 µg (disc)
431318309polymyxin byesyes300 µg (disc)
4313128077rifampicinyesyes5 µg (disc)
4313127902tetracyclineyesyes30 µg (disc)
4313128001vancomycinyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
4313135581indoleno
4313116136hydrogen sulfideno

enzymes

@refvalueactivityec
43131cytochrome oxidase+1.9.3.1
43131catalase+1.11.1.6
43131arginine dihydrolase-3.5.3.6
43131urease-3.5.1.5
43131gelatinase-

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43131C14:00.3
    43131C16:01.1
    43131C10:0 iso0.7
    43131C11:0 iso1.2
    43131C11:0 anteiso5.4
    43131C14:0 iso2
    43131C15:0 anteiso5.6
    43131C15:0 iso17.9
    43131C15:1 iso G4.6
    43131C15:1 anteiso A1.1
    43131C16:0 iso3.5
    43131C16:1 iso H4.6
    43131anteiso-C17:1 H1.1
    43131C17:0 iso0.7
    43131C17:0 anteiso1
    43131C18:1 iso H0.3
    43131C15:0 iso 3OH4.4
    43131C15:0 2OH1
    43131C17:0 iso 3OH8.2
    43131C15:1ω6c1.8
    43131C17:1ω6c2.7
    43131C17:1ω8c1.1
    43131C16:1ω6c / C16:1ω7c12
    4313110-methyl C16:0 / iso-C17:1ω9c13
  • type of FA analysis: whole cell analysis
  • incubation medium: TSB
  • agar/liquid: agar
  • incubation temperature: 28
  • incubation_oxygen: aerobic
  • software version: Sherlock 6.0B
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
42835hexachlorocyclohexane contaminated dumpsite soilUttar Pradesh, Lucknow, Ummari VillageIndiaINDAsia27.006781.1493
43131HCH-contaminated dumpsiteUmmari Village, Lucknow, IndiaIndiaINDAsia
67771From hexachlorocyclohexane(HCH)-contaminated dumpsite soilUmmari Village, LucknowIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Engineered#Waste#Landfill
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_4649.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15774;96_1239;97_2809;98_3489;99_4649&stattab=map
  • Last taxonomy: Algoriphagus
  • 16S sequence: KP861852
  • Sequence Identity:
  • Total samples: 754
  • soil counts: 390
  • aquatic counts: 298
  • animal counts: 50
  • plant counts: 16

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
4313116S rRNA gene sequencesKP861852.21471ena1649265
42835Algoriphagus roseus strain W29 16S ribosomal RNA gene, partial sequenceKP8618521471ena1649265

GC content

@refGC-contentmethod
4313146.2Thermal denaturation, fluorometry
4283546.2fluorimetric
6777146.2

External links

@ref: 42835

culture collection no.: DSM 100160, KCTC 42940, MCC 2876

literature

  • topic: Phylogeny
  • Pubmed-ID: 27288008
  • title: Algoriphagus roseus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite.
  • authors: Kohli P, Nayyar N, Sharma A, Singh AK, Lal R
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001233
  • year: 2016
  • mesh: Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hexachlorocyclohexane/analysis, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Pollutants/*analysis, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
42835Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100160Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100160)
43131Puneet Kohli, Namita Nayyar, Anukriti Sharma, Amit Kumar Singh and Rup LalAlgoriphagus roseus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite10.1099/ijsem.0.001233IJSEM 66: 3558-3565 201627288008
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/