Strain identifier

BacDive ID: 133259

Type strain: Yes

Species: Pontibacter aydingkolensis

Strain Designation: XAAS-1

Strain history: G. Osman; Inst. of Microbiol., Xinijang Acad. of Agric. Sci., China; XAAS-1.

NCBI tax ID(s): 1911536 (species)

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General

@ref: 64833

BacDive-ID: 133259

DSM-Number: 103222

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

description: Pontibacter aydingkolensis XAAS-1 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from soil of a salt lake named Aydingkol.

NCBI tax id

  • NCBI tax id: 1911536
  • Matching level: species

strain history

@refhistory
64833<- G. Osman, Xinjiang Acd. Agri. Sci., China; XAAS-1
67770G. Osman; Inst. of Microbiol., Xinijang Acad. of Agric. Sci., China; XAAS-1.

doi: 10.13145/bacdive133259.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Cytophagia
  • order: Cytophagales
  • family: Hymenobacteraceae
  • genus: Pontibacter
  • species: Pontibacter aydingkolensis
  • full scientific name: Pontibacter aydingkolensis Osman et al. 2016

@ref: 64833

domain: Bacteria

phylum: Bacteroidetes

class: Cytophagia

order: Cytophagales

family: Hymenobacteraceae

genus: Pontibacter

species: Pontibacter aydingkolensis

full scientific name: Pontibacter aydingkolensis Osman et al. 2016

strain designation: XAAS-1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shape
25053negative0.8-1.2 µm0.3-0.4 µmrod-shaped
25053oval-shaped

colony morphology

  • @ref: 25053
  • colony size: 1.0-2.0 mm
  • colony color: light red
  • colony shape: circular
  • incubation period: 5 days
  • medium used: 0.3 MB agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
250530.3 MB agaryes
64833BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
25053positivegrowth6-37
25053positiveoptimum28-30mesophilic
64833positivegrowth28mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
25053positivegrowth6.0-10.0alkaliphile
25053positiveoptimum7.0-8.0

Physiology and metabolism

oxygen tolerance

  • @ref: 25053
  • oxygen tolerance: aerobe

halophily

  • @ref: 25053
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5.0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2505315588D-malate-respiration
2505315589L-malate-respiration
25053645522-hydroxybutyrate-respiration
25053167632-oxobutanoate-respiration
25053370543-hydroxybutyrate-respiration
25053739183-O-methyl-D-glucose-respiration
25053181014-hydroxyphenylacetic acid-respiration
2505317128adipate-assimilation
2505336219alpha-lactose-respiration
2505317925alpha-D-glucose-respiration
2505373706bromosuccinate-respiration
2505329990D-aspartate-respiration
2505312936D-galactose-respiration
2505317634D-glucose-assimilation
2505316899D-mannitol-respiration
2505316899D-mannitol-assimilation
2505316024D-mannose-respiration
2505316024D-mannose-assimilation
2505316523D-serine-respiration
2505317924D-sorbitol-respiration
2505327689decanoate-assimilation
2505323652dextrin-respiration
2505315740formate-respiration
2505316865gamma-aminobutyric acid-respiration
2505328066gentiobiose-respiration
2505317234glucose-builds acid from
2505317596inosine-respiration
2505316977L-alanine-respiration
2505330849L-arabinose-assimilation
2505317464L-galactonic acid gamma-lactone-respiration
2505325115malate-assimilation
2505317306maltose-respiration
2505317306maltose-assimilation
2505351850methyl pyruvate-respiration
25053506227N-acetylglucosamine-respiration
25053506227N-acetylglucosamine-assimilation
2505317632nitrate-reduction
2505332032potassium gluconate-assimilation
2505317272propionate-respiration
2505316634raffinose-respiration
2505317814salicin-respiration
2505353258sodium citrate-assimilation
2505327082trehalose-respiration
2505327897tryptophan-energy source
2505317521(-)-quinic acid+respiration
2505316651(S)-lactate+respiration
25053309162-oxoglutarate+respiration
2505330089acetate+respiration
2505313705acetoacetate+respiration
25053casein+hydrolysis
2505317057cellobiose+respiration
2505316947citrate+respiration
2505318333D-arabitol+respiration
2505315824D-fructose+respiration
2505378697D-fructose 6-phosphate+respiration
2505328847D-fucose+respiration
2505318024D-galacturonic acid+respiration
250538391D-gluconate+respiration
2505314314D-glucose 6-phosphate+respiration
2505315748D-glucuronate+respiration
250534853esculin+hydrolysis
2505316537galactarate+respiration
250535291gelatin+hydrolysis
250535291gelatin+respiration
2505332323glucuronamide+respiration
2505317754glycerol+respiration
2505370744glycyl-L-proline+respiration
2505317268myo-inositol+respiration
2505316467L-arginine+respiration
2505329991L-aspartate+respiration
2505318287L-fucose+respiration
2505329985L-glutamate+respiration
2505315971L-histidine+respiration
2505318183L-pyroglutamic acid+respiration
2505362345L-rhamnose+respiration
2505317115L-serine+respiration
2505328053melibiose+respiration
2505374611methyl (R)-lactate+respiration
25053320055methyl beta-D-glucopyranoside+respiration
2505363154N-acetyl-beta-D-mannosamine+respiration
25053506227N-acetylglucosamine+respiration
2505335418n-acetylneuraminate+respiration
2505317309pectin+respiration
2505317164stachyose+respiration
2505328017starch+hydrolysis
2505317992sucrose+respiration
2505332528turanose+respiration
2505353423tween 40+respiration

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitiveis resistant
2505327902tetracyclineyesyes
2505317076streptomycinyesyes
2505328971ampicillinyesyes
2505317334penicillinyesyes
2505329007ceftriaxoneyesyes
250536472lincomycinyesyes
2505328077rifampicinyesyes
250533745clindamycinyesyes
250537507neomycinyesyes
2505317698chloramphenicolyesyes
2505348923erythromycinyesyes
25053100246norfloxacinyesyes
2505328001vancomycinyesyes
2505331168acetylspiramycinyesyes
25053204928cefotaximeyesyes
250537731ofloxacinyesyes
250536104kanamycinyesyes
2505317833gentamicinyesyes
2505328864tobramycinyesyes

metabolite production

@refChebi-IDmetaboliteproduction
2505315688acetoinno
2505335581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
2505315688acetoin-
2505335581indole-

enzymes

@refvalueactivityec
25053acid phosphatase+3.1.3.2
25053alkaline phosphatase+3.1.3.1
25053alpha-chymotrypsin+3.4.21.1
25053alpha-galactosidase-3.2.1.22
25053alpha-glucosidase-3.2.1.20
25053alpha-mannosidase-3.2.1.24
25053arginine dihydrolase-3.5.3.6
25053beta-D-fucosidase-3.2.1.38
25053beta-galactosidase-3.2.1.23
25053beta-glucosidase-3.2.1.21
25053beta-glucuronidase-3.2.1.31
25053catalase+1.11.1.6
25053cystine arylamidase+3.4.11.3
25053cytochrome oxidase+1.9.3.1
25053esterase (C 4)+
25053esterase lipase (C 8)+
25053leucine arylamidase+3.4.11.1
25053lipase (C 14)-
25053lysine decarboxylase-4.1.1.18
25053N-acetyl-beta-glucosaminidase-3.2.1.52
25053naphthol-AS-BI-phosphohydrolase+
25053ornithine decarboxylase-4.1.1.17
25053trypsin+3.4.21.4
25053tryptophan deaminase-4.1.99.1
25053valine arylamidase+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
25053soil of a salt lake named AydingkolXinjiang Uyghur Autonomous RegionChinaCHNAsia
64833soil of a salt lakeXinjiang Uyghur Autonomous Region, Aydingkol Lake near Turpan City (89° 16' 22.7'' E 42° 38' 55.7'' N)ChinaCHNAsia42.648889.273
67770Soil of Aydingkol Lake near the Turpan CityXinjiangChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Terrestrial#Soil
#Condition#Saline

Safety information

risk assessment

  • @ref: 64833
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 64833
  • description: Pontibacter sp. strain XAAS-1 16S ribosomal RNA gene, partial sequence
  • accession: KX530203
  • length: 1489
  • database: ena
  • NCBI tax ID: 1911536

Genome sequences

  • @ref: 66792
  • description: Pontibacter aydingkolensis DSM 103222
  • accession: 2928185967
  • assembly level: draft
  • database: img
  • NCBI tax ID: 1911536

GC content

  • @ref: 64833
  • GC-content: 52.1
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 64833

culture collection no.: CCTCC AB 2016134, JCM 31442, DSM 103222

straininfo link

  • @ref: 91399
  • straininfo: 401048

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27902191Pontibacter aydingkolensis sp. nov., isolated from soil of a salt lake.Osman G, Zhang T, Lou K, Gao Y, Chang W, Lin Q, Yang HM, Huo XD, Wang NInt J Syst Evol Microbiol10.1099/ijsem.0.0015512016Bacterial Typing Techniques, Base Composition, China, Cytophagaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lakes/*chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Sodium Chloride, Soil, *Soil Microbiology, Spermidine/analogs & derivatives/chemistry, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny34694986Pontibacter cellulosilyticus sp. nov., a carboxymethyl cellulose-hydrolysing bacterium isolated from coastal water.Kang M, Chhetri G, Kim J, Kim I, Seo TInt J Syst Evol Microbiol10.1099/ijsem.0.0050582021Bacterial Typing Techniques, Bacteroidetes/*classification/isolation & purification, Base Composition, *Carboxymethylcellulose Sodium/metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
25053G. Z. Osman, T.,Lou, K.,Gao, Y.,Chang, W.,Lin, Q.,Yang, H. M.,Huo, X. D.,Wang, N.Pontibacter aydingkolensis sp. nov., isolated from soil of a salt lake10.1099/ijsem.0.001551IJSEM 66: 5523-5528 201627902191
64833Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103222Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103222)
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
91399Reimer, 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-ID401048.1