Strain identifier

BacDive ID: 132397

Type strain: Yes

Species: Paenibacillus etheri

Strain Designation: SH7

Strain history: <- C. Pozo-Llorente, University of Granada, Spain; SH7

NCBI tax ID(s): 1306852 (species)

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General

@ref: 24186

BacDive-ID: 132397

DSM-Number: 29760

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, non-halophilic, spore-forming, Gram-positive, motile, rod-shaped, colony-forming

description: Paenibacillus etheri SH7 is a facultative anaerobe, non-halophilic, spore-forming bacterium that forms oval colonies and was isolated from hydrocarbon contaminated soil from a pilot plant.

NCBI tax id

  • NCBI tax id: 1306852
  • Matching level: species

strain history

  • @ref: 24186
  • history: <- C. Pozo-Llorente, University of Granada, Spain; SH7

doi: 10.13145/bacdive132397.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Paenibacillaceae
  • genus: Paenibacillus
  • species: Paenibacillus etheri
  • full scientific name: Paenibacillus etheri Guisado et al. 2016

@ref: 24186

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus etheri

full scientific name: Paenibacillus etheri Guisado et al. 2016

strain designation: SH7

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
43810positive3.2 µm0.6 µmrod-shapedyesperitrichous
69480yes96.581
69480positive100

colony morphology

  • @ref: 43810
  • colony size: 1.5-5 mm
  • colony color: Cream
  • colony shape: oval
  • incubation period: 3 days
  • medium used: TSA agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43810Trypticase Soy Agar (TSA)yes
24186CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43810positivegrowth5-50
43810positiveoptimum30mesophilic
24186positivegrowth30mesophilic

culture pH

@refabilitytypepH
43810positivegrowth7-8
43810positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 43810
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
43810Subterminal ellipsoidal endosporesendosporeyes
69481yes100
69480yes100

halophily

@refhalophily levelsaltgrowthtested relationconcentration
43810non-halophilicNaClpositivemaximum0.8 %(w/v)
43810non-halophilicNaClpositiveoptimum0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4381017128adipate-assimilation
4381017634D-glucose-assimilation
4381016899D-mannitol-assimilation
4381016024D-mannose-assimilation
4381030849L-arabinose-assimilation
4381025115malate-assimilation
4381018401phenylacetate-assimilation
4381032032potassium gluconate-assimilation
4381053258sodium citrate-assimilation
43810168082-dehydro-D-gluconate-builds acid from
43810581435-dehydro-D-gluconate-builds acid from
4381017108D-arabinose-builds acid from
4381018333D-arabitol-builds acid from
4381028847D-fucose-builds acid from
4381062318D-lyxose-builds acid from
4381017924D-sorbitol-builds acid from
4381016443D-tagatose-builds acid from
4381016813galactitol-builds acid from
4381017113erythritol-builds acid from
4381024265gluconate-builds acid from
4381015443inulin-builds acid from
4381018287L-fucose-builds acid from
4381062345L-rhamnose-builds acid from
4381017266L-sorbose-builds acid from
4381065328L-xylose-builds acid from
4381043943methyl alpha-D-mannoside-builds acid from
4381037657methyl D-glucoside-builds acid from
4381017268myo-inositol-builds acid from
4381026546rhamnose-builds acid from
43810casein-hydrolysis
438104853esculin-hydrolysis
438105291gelatin-hydrolysis
4381027613amygdalin+builds acid from
4381018305arbutin+builds acid from
4381017057cellobiose+builds acid from
4381015824D-fructose+builds acid from
4381065327D-xylose+builds acid from
4381028757fructose+builds acid from
4381028260galactose+builds acid from
4381028066gentiobiose+builds acid from
4381017754glycerol+builds acid from
4381028087glycogen+builds acid from
4381017716lactose+builds acid from
43810maltose hydrate+builds acid from
438106731melezitose+builds acid from
4381028053melibiose+builds acid from
43810320061methyl alpha-D-glucopyranoside+builds acid from
4381074863methyl beta-D-xylopyranoside+builds acid from
43810506227N-acetylglucosamine+builds acid from
4381016634raffinose+builds acid from
4381033942ribose+builds acid from
4381017814salicin+builds acid from
4381027082trehalose+builds acid from
4381028017starch+hydrolysis
4381017632nitrate+reduction
4381017151xylitol+/-builds acid from

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
24186hydrocarbon contaminated soil from a pilot plantGranadaSpainESPEurope
43810An artificial hydrocarbon-contaminated soil from a pilot plantGranadaSpainESPEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Engineered#Industrial#Plant (Factory)
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_2744.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_335;97_373;98_428;99_2744&stattab=map
  • Last taxonomy: Paenibacillus
  • 16S sequence: KC625558
  • Sequence Identity:
  • Total samples: 1451
  • soil counts: 669
  • aquatic counts: 154
  • animal counts: 571
  • plant counts: 57

Safety information

risk assessment

  • @ref: 24186
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24186
  • description: Paenibacillus etheri strain SH7 16S ribosomal RNA gene, partial sequence
  • accession: KC625558
  • length: 1335
  • database: ena
  • NCBI tax ID: 1306852

Genome sequences

  • @ref: 66792
  • description: Paenibacillus etheri SH7
  • accession: GCA_001012825
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 1306852

GC content

  • @ref: 24186
  • GC-content: 44.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes91.082yes
motileyes91.082yes
flagellatedyes85.023yes
flagellatedyes85.023yes
gram-positiveyes85.339yes
gram-positiveyes85.339yes
anaerobicno97.551no
anaerobicno97.551no
aerobicyes75.301yes
aerobicyes75.301yes
halophileno92.159yes
halophileno92.159yes
spore-formingyes96.382no
spore-formingyes96.382no
thermophileno99.908yes
thermophileno99.908yes
glucose-utilyes88.491yes
glucose-utilyes88.491yes
glucose-fermentno78.462no
glucose-fermentno78.462no

External links

@ref: 24186

culture collection no.: DSM 29760, CECT 8558

straininfo link

  • @ref: 90739
  • straininfo: 405677

literature

topicPubmed-IDtitleauthorsjournalDOIyeartopic2mesh
Phylogeny26611534Paenibacillus etheri sp. nov., able to grow on media supplemented with methyl tert-butyl ether (MTBE) and isolated from hydrocarbon-contaminated soil.Guisado IM, Purswani J, Gonzalez-Lopez J, Pozo CInt J Syst Evol Microbiol10.1099/ijsem.0.0008022015
Genetics26893420Draft Genome Sequence of Paenibacillus etheri sp. nov. SH7T, a Methyl Tert-Butyl Ether Degrader.Purswani J, Guisado IM, Gonzalez-Lopez J, Pozo CGenome Announc10.1128/genomeA.01696-152016Phylogeny
Cultivation27997398Toxicity and biofilm-based selection for methyl tert-butyl ether bioremediation technology.Guisado IM, Purswani J, Caton-Alcubierre L, Gonzalez-Lopez J, Pozo CWater Sci Technol10.2166/wst.2016.4612016MetabolismAgrobacterium/*physiology, Biodegradation, Environmental, *Biofilms, Culture Media, Methyl Ethers/*metabolism/toxicity, Paenibacillus/*physiology, Rhodococcus/*physiology
Phylogeny28950930Paenibacillus albidus sp. nov., isolated from grassland soil.Zhuang J, Xin D, Zhang YQ, Guo J, Zhang JInt J Syst Evol Microbiol10.1099/ijsem.0.0023562017TranscriptomeBacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Grassland, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/isolation & purification, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry

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
24186Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-29760Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29760)
43810Isabel M. Guisado, Jessica Purswani, Jesús González-López, Clementina PozoPaenibacillus etheri sp. nov., able to grow on media supplemented with methyl tert-butyl ether (MTBE) and isolated from hydrocarbon-contaminated soil10.1099/ijsem.0.000802IJSEM 66: 862-867 201626611534
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
90739Reimer, 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-ID405677.1