Strain identifier

BacDive ID: 133586

Type strain: Yes

Species: Paraburkholderia acidipaludis

Strain Designation: SA33

NCBI tax ID(s): 1218074 (strain), 660537 (species)

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General

@ref: 29666

BacDive-ID: 133586

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

description: Paraburkholderia acidipaludis SA33 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from Chinese water chestnut growing in acidic swamps.

NCBI tax id

NCBI tax idMatching level
660537species
1218074strain

doi: 10.13145/bacdive133586.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Paraburkholderia
  • species: Paraburkholderia acidipaludis
  • full scientific name: Paraburkholderia acidipaludis (Aizawa et al. 2010) Sawana et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Burkholderia acidipaludis

@ref: 29666

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Paraburkholderia

species: Paraburkholderia acidipaludis

strain designation: SA33

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29666negative1.3-1.7 µm0.6-0.7 µmrod-shapedno
69480negative98.5

pigmentation

  • @ref: 29666
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperature
29666positivegrowth17-37
29666positiveoptimum28-32

culture pH

@refabilitytypepHPH range
29666positivegrowth03-08acidophile
29666positiveoptimum04-07

Physiology and metabolism

oxygen tolerance

  • @ref: 29666
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29666no
69480no90.69
69481no100

observation

  • @ref: 29666
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2966615963ribitol+carbon source
2966622599arabinose+carbon source
2966618403L-arabitol+carbon source
2966622653asparagine+carbon source
2966635391aspartate+carbon source
2966628757fructose+carbon source
2966633984fucose+carbon source
2966628260galactose+carbon source
2966624265gluconate+carbon source
2966617234glucose+carbon source
2966629987glutamate+carbon source
2966627570histidine+carbon source
2966624996lactate+carbon source
2966629864mannitol+carbon source
2966637684mannose+carbon source
2966628044phenylalanine+carbon source
2966626271proline+carbon source
2966651850methyl pyruvate+carbon source
2966626546rhamnose+carbon source
2966630911sorbitol+carbon source
2966630031succinate+carbon source
2966626986threonine+carbon source
2966617632nitrate+reduction

enzymes

@refvalueactivityec
29666acid phosphatase+3.1.3.2
29666alkaline phosphatase+3.1.3.1
29666catalase+1.11.1.6
29666cytochrome oxidase+1.9.3.1
29666urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 29666
  • sample type: Chinese water chestnut growing in acidic swamps

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Wetland (Swamp)
#Host#Plants#Herbaceous plants (Grass,Crops)
#Condition#Acidic

taxonmaps

  • @ref: 69479
  • File name: preview.99_5433.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_153;97_164;98_4056;99_5433&stattab=map
  • Last taxonomy: Paraburkholderia acidipaludis subclade
  • 16S sequence: AB513180
  • Sequence Identity:
  • Total samples: 334
  • soil counts: 156
  • aquatic counts: 30
  • animal counts: 137
  • plant counts: 11

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
29666Burkholderia acidipaludis gene for 16S ribosomal RNA, partial sequence, strain: SA33AB5131801495nuccore1218074
124043Burkholderia acidipaludis gene for 16S ribosomal RNA, partial sequence, strain: NBRC 101816.AB5374851456nuccore1218074

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paraburkholderia acidipaludis NBRC 101816GCA_000684975contigncbi1218074
66792Burkholderia acidipaludis NBRC 1018161218074.4wgspatric1218074
66792Paraburkholderia acidipaludis NBRC 1018162582580767draftimg1218074

GC content

  • @ref: 29666
  • GC-content: 64

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno98.5yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.08no
69480spore-formingspore-formingAbility to form endo- or exosporesno90.69yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes86.205no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno97.986no
69480flagellatedmotile2+Ability to perform flagellated movementyes88.753no

External links

@ref: 29666

culture collection no.: NBRC 101816, VTCC D6-6

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19819996Burkholderia acidipaludis sp. nov., aluminum-tolerant bacteria isolated from Chinese water chestnut (Eleocharis dulcis) growing in highly acidic swamps in South-East Asia.Aizawa T, Bao Ve N, Vijarnsorn P, Nakajima M, Sunairi MInt J Syst Evol Microbiol10.1099/ijs.0.018283-02009Aluminum/*metabolism, Burkholderia/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Eleocharis/growth & development/*microbiology, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, WetlandsMetabolism
Phylogeny25472981Burkholderia monticola sp. nov., isolated from mountain soil.Baek I, Seo B, Lee I, Yi H, Chun JInt J Syst Evol Microbiol10.1099/ijs.0.066001-02014Bacterial Typing Techniques, Base Composition, Burkholderia/*classification/genetics/isolation & purification, Cardiolipins/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryGenetics
Phylogeny25575828Burkholderia susongensis sp. nov., a mineral-weathering bacterium isolated from weathered rock surface.Gu JY, Zang SG, Sheng XF, He LY, Huang Z, Wang QInt J Syst Evol Microbiol10.1099/ijs.0.0000592015Bacterial Typing Techniques, Base Composition, Burkholderia/*classification/genetics/isolation & purification, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Minerals, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryGenetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
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
29666Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172605328776041
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
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
124043Dr. Isabel Schober, Dr. Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy