Strain identifier

BacDive ID: 1300

Type strain: Yes

Species: Alkalihalophilus marmarensis

Strain Designation: GMBAE72

Strain history: A. A. Denizci GMBE 72.

NCBI tax ID(s): 521377 (species)

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General

@ref: 15609

BacDive-ID: 1300

DSM-Number: 21297

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped

description: Alkalihalophilus marmarensis GMBAE72 is an aerobe, spore-forming, mesophilic bacterium that was isolated from mushroom compost.

NCBI tax id

  • NCBI tax id: 521377
  • Matching level: species

strain history

@refhistory
15609<- A. A. Denizci; Scientific and Technological Research Council of Turkey, Marmara Research Center; strain GMBE72
67770A. A. Denizci GMBE 72.

doi: 10.13145/bacdive1300.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Alkalihalophilus
  • species: Alkalihalophilus marmarensis
  • full scientific name: Alkalihalophilus marmarensis (Denizci et al. 2010) Joshi et al. 2022

  • synonyms

    @refsynonym
    20215Bacillus marmarensis
    20215Alkalihalobacillus marmarensis

@ref: 15609

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Bacillaceae

genus: Alkalihalophilus

species: Alkalihalophilus marmarensis

full scientific name: Alkalihalophilus marmarensis (Denizci et al. 2010) Joshi et al. 2022

strain designation: GMBAE72

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29401positive2-2.5 µm0.8-1.1 µmrod-shapedyes
69480yes96.953
69480positive100

pigmentation

  • @ref: 29401
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15609
  • name: ALKALINE NUTRIENT AGAR (DSMZ Medium 31)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/31
  • composition: Name: ALKALINE NUTRIENT AGAR (DSMZ Medium 31) Composition: Agar 15.0 g/l Na2CO3 anhydrous 5.3 g/l Peptone 5.0 g/l NaHCO3 4.2 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15609positivegrowth30mesophilic
29401positivegrowth15-45
29401positiveoptimum35mesophilic
67770positivegrowth35mesophilic

culture pH

@refabilitytypepHPH range
29401positivegrowth8-12.5alkaliphile
29401positiveoptimum10

Physiology and metabolism

oxygen tolerance

  • @ref: 29401
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29401yes
69481yes100
69480yes100

compound production

  • @ref: 67770
  • compound: Protease

halophily

@refsaltgrowthtested relationconcentration
29401NaClpositivegrowth0-12 %
29401NaClpositiveoptimum0-5 %

observation

  • @ref: 29401
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2940117057cellobiose+carbon source
2940137684mannose+carbon source
2940133942ribose+carbon source
2940153426tween 80+carbon source

enzymes

  • @ref: 29401
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15609mushroom compostMarmara regionTurkeyTUR
67770Mushroom compost from YalovaMarmara regionTurkeyTURAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Biodegradation#Composting
#Host#Fungi#Mushroom
#Engineered#Agriculture

Safety information

risk assessment

  • @ref: 15609
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15609
  • description: Bacillus marmarensis strain GMBE72 16S ribosomal RNA gene, partial sequence
  • accession: EU621902
  • length: 1309
  • database: ena
  • NCBI tax ID: 1188261

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacillus marmarensis DSM 212971188261.3wgspatric1188261
66792Bacillus marmarensis DSM 212972563367048draftimg1188261
67770Alkalihalophilus marmarensis DSM 21297GCA_000474275contigncbi1188261

GC content

@refGC-contentmethod
1560940.2high performance liquid chromatography (HPLC)
2940140.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes91.129yes
gram-positiveyes90.078yes
anaerobicno97.214no
aerobicyes89.323yes
halophileyes64.111no
spore-formingyes96.222no
flagellatedyes84.576no
glucose-utilyes91.372no
thermophileno99.008no
glucose-fermentno93.897no

External links

@ref: 15609

culture collection no.: DSM 21297, JCM 15719, GMBE 72

straininfo link

  • @ref: 70951
  • straininfo: 404195

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19700450Bacillus marmarensis sp. nov., an alkaliphilic, protease-producing bacterium isolated from mushroom compost.Denizci AA, Kazan D, Erarslan AInt J Syst Evol Microbiol10.1099/ijs.0.012369-02009*Agaricales, Bacillus/*classification/genetics/isolation & purification, Base Composition, Base Sequence, Fatty Acids/analysis, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *SoilGenetics
Genetics24285666Genome Sequence of the Extreme Obligate Alkaliphile Bacillus marmarensis Strain DSM 21297.Wernick DG, Choi KY, Tat CA, Lafontaine Rivera JG, Liao JCGenome Announc10.1128/genomeA.00967-132013
Phylogeny26604103Bacillus lindianensis sp. nov., a novel alkaliphilic and moderately halotolerant bacterium isolated from saline and alkaline soils.Dou G, Liu H, He W, Ma YAntonie Van Leeuwenhoek10.1007/s10482-015-0616-y2015Bacillus/*classification/genetics/*isolation & purification/metabolism, Base Sequence, Cell Wall/metabolism, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Diaminopimelic Acid/metabolism, Fatty Acids/metabolism, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/metabolism, Phospholipids/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism/pharmacology, Soil/chemistry, *Soil MicrobiologyMetabolism
Metabolism30092306Assessment of poly(3-hydroxybutyrate) synthesis from a novel obligate alkaliphilic Bacillus marmarensis and generation of its composite scaffold via electrospinning.Ozgoren T, Pinar O, Bozdag G, Denizci AA, Gunduz O, Cakir Hatir P, Kazan DInt J Biol Macromol10.1016/j.ijbiomac.2018.08.0142018Bacillus/*metabolism, Carbon/metabolism, Fermentation, Hydrogen-Ion Concentration, Hydroxybutyrates/*chemistry/isolation & purification/*metabolism, Magnetic Resonance Spectroscopy, Metabolic Networks and Pathways, Nanofibers/chemistry/ultrastructure, Polyesters/*chemistry/isolation & purification/*metabolism, Sodium Chloride/metabolism, Spectroscopy, Fourier Transform Infrared, Temperature, ThermogravimetryEnzymology
Transcriptome30457468What Are the Multi-Omics Mechanisms for Adaptation by Microorganisms to High Alkalinity? A Transcriptomic and Proteomic Study of a Bacillus Strain with Industrial Potential.Altinisik Kaya FE, Avci FG, Sayar NA, Kazan D, Sayar AA, Sariyar Akbulut BOMICS10.1089/omi.2018.01272018Adaptation, Physiological/*genetics, Bacillus/*genetics/metabolism, Bacterial Proteins/chemistry/genetics/isolation & purification, Hydrogen-Ion Concentration, *Proteome, Proteomics, Sequence Analysis, RNA, *TranscriptomeProteome
Physiology33672214Investigation of the Physiology of the Obligate Alkaliphilic Bacillus marmarensis GMBE 72(T) Considering Its Alkaline Adaptation Mechanism for Poly(3-hydroxybutyrate) Synthesis.Atakav Y, Pinar O, Kazan DMicroorganisms10.3390/microorganisms90204622021

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15609Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21297)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21297
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29401Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2580828776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
70951Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID404195.1StrainInfo: A central database for resolving microbial strain identifiers