Strain identifier

BacDive ID: 133033

Type strain: Yes

Species: Acidobacterium ailaaui

Strain Designation: PMMR2

Strain history: <- G. King, Louisiana State Univ., Baton Rouge, USA; PMMR2 <- M. Russell

NCBI tax ID(s): 1382359 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 8.1 (current version)

General

@ref: 24821

BacDive-ID: 133033

DSM-Number: 27394

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

description: Acidobacterium ailaaui PMMR2 is an aerobe, chemoorganotroph, Gram-negative bacterium that forms circular colonies and was isolated from geothermally heated microbial mat.

NCBI tax id

  • NCBI tax id: 1382359
  • Matching level: species

strain history

  • @ref: 24821
  • history: <- G. King, Louisiana State Univ., Baton Rouge, USA; PMMR2 <- M. Russell

doi: 10.13145/bacdive133033.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/acidobacteriota
  • domain: Bacteria
  • phylum: Acidobacteriota
  • class: Terriglobia
  • order: Terriglobales
  • family: Acidobacteriaceae
  • genus: Acidobacterium
  • species: Acidobacterium ailaaui
  • full scientific name: Acidobacterium ailaaui Myers and King 2016

  • synonyms

    • @ref: 20215
    • synonym: Pseudacidobacterium ailaaui

@ref: 24821

domain: Bacteria

phylum: Acidobacteria

class: Acidobacteriia

order: Actinomycetales

family: Acidobacteriaceae

genus: Acidobacterium

species: Acidobacterium ailaaui

full scientific name: Acidobacterium ailaaui Myers and King 2016

strain designation: PMMR2

type strain: yes

Morphology

cell morphology

  • @ref: 25069
  • gram stain: negative
  • cell length: 1.3-1.7 µm
  • cell width: 0.7-0.9 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 25069
  • colony color: light beige
  • colony shape: circular
  • incubation period: 6 days
  • medium used: R2A agar (Reasoner's 2A agar; pH 5.5)

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
25069R2A agar (Reasoner's 2A agar; pH 5.5)yes
24821R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
25069positivegrowth15.0-55.0
25069positiveoptimum40thermophilic
24821positivegrowth40thermophilic

culture pH

@refabilitytypepH
25069positivegrowth4.5-7.0
25069positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

  • @ref: 25069
  • oxygen tolerance: aerobe

nutrition type

  • @ref: 25069
  • type: chemoorganotroph

spore formation

  • @ref: 25069
  • spore formation: no

halophily

  • @ref: 25069
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 1 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2506930089acetate-carbon source
2506915347acetone-carbon source
2506916449alanine-carbon source
2506935391aspartate-carbon source
2506917170dimethylamine-carbon source
2506916236ethanol-carbon source
2506929806fumarate-carbon source
2506917234glucose-fermentation
2506933871glycerate-carbon source
2506915428glycine-carbon source
2506917750betaine-carbon source
2506924996lactate-carbon source
2506925115malate-carbon source
2506915792malonate-carbon source
2506917790methanol-carbon source
2506916830methylamine-carbon source
2506917632nitrate-reduction
25069178242-propanol-carbon source
2506917272propionate-carbon source
2506915361pyruvate-carbon source
2506933942ribose-carbon source
2506917822serine-carbon source
25069132950tartrate-carbon source
2506918139trimethylamine-carbon source
2506927897tryptophan-energy source
2506927266valine-carbon source
2506928938ammonium+nitrogen source
2506922599arabinose+carbon source
250698391D-gluconate+carbon source
2506915748D-glucuronate+carbon source
250694853esculin+hydrolysis
2506928757fructose+carbon source
2506928260galactose+carbon source
250695291gelatin+hydrolysis
2506917234glucose+carbon source
2506917754glycerol+carbon source
2506917716lactose+carbon source
2506937684mannose+carbon source
2506917632nitrate+nitrogen source
2506926271proline+carbon source
2506930031succinate+carbon source
2506917992sucrose+carbon source
2506918222xylose+carbon source
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

@refChebi-IDmetaboliteproduction
2506935581indoleno
6836935581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
2506935581indole-
6836935581indole-

enzymes

@refvalueactivityec
25069arginine dihydrolase-3.5.3.6
25069beta-galactosidase-3.2.1.23
25069beta-glucosidase-3.2.1.21
25069catalase-1.11.1.6
25069cytochrome oxidase-1.9.3.1
25069tryptophan deaminase-4.1.99.1
25069urease+3.5.1.5
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382trypsin+3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382alpha-galactosidase-3.2.1.22
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase+3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
24821-+---+++/-+-+/-+/--+/-+/--++-+

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
24821-----+-+------------
24821-----+-+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture temperature
24821geothermally heated microbial matHawaii, Kilauea Volcano, Puhimau geothermal areaUSAUSANorth America
250691/10 R2A (pH 4) agar plates30

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Microbial community
  • Cat3: #Microbial mat

Safety information

risk assessment

  • @ref: 24821
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24821
  • description: Acidobacterium ailaaui strain PMMR2 16S ribosomal RNA gene, partial sequence
  • accession: KX306477
  • length: 1258
  • database: ena
  • NCBI tax ID: 1382359

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudacidobacterium ailaaui PMMR2GCA_000688455contigncbi1382359
66792Acidobacterium ailaaui PMMR22558860986draftimg1382359

GC content

@refGC-contentmethod
2506957.2high performance liquid chromatography (HPLC)
2506956.5genome sequence analysis
2482152.7high performance liquid chromatography (HPLC)

External links

@ref: 24821

culture collection no.: DSM 27394, LMG 28340

straininfo link

  • @ref: 91303
  • straininfo: 399004

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27692038Isolation and characterization of Acidobacterium ailaaui sp. nov., a novel member of Acidobacteria subdivision 1, from a geothermally heated Hawaiian microbial mat.Myers MR, King GMInt J Syst Evol Microbiol10.1099/ijsem.0.0015162016Acidobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hawaii, Hot Temperature, *Microbial Consortia, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAStress
Phylogeny35679110Paracidobacterium acidisoli gen. nov., sp. nov. and Alloacidobacterium dinghuense gen. nov., sp. nov., two acidobacteria isolated from forest soil, and reclassification of Acidobacterium ailaaui and Acidipila dinghuensis as Pseudacidobacterium ailaaui gen. nov., comb. nov. and Silvibacterium dinghuense comb. nov.Zhang QM, Fu JC, Chen ZQ, Qiu LHInt J Syst Evol Microbiol10.1099/ijsem.0.0054152022*Acidobacteria, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Forests, Glycolipids, *Phosphatidylethanolamines, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, Soil MicrobiologyTranscriptome

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
24821Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-27394Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27394)
25069M. R. K. Myers, G. M.Isolation and characterization of Acidobacterium ailaaui sp. nov., a novel member of Acidobacteria subdivision 1, from a geothermally heated Hawaiian microbial mat10.1099/ijsem.0.001516IJSEM 66: 5328-5335 201627692038
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
68382Automatically annotated from API zym
91303Reimer, 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-ID399004.1