Strain identifier

BacDive ID: 11620

Type strain: Yes

Species: Paenibacillus sabinae

Strain Designation: T27

Strain history: CIP <- 2007, DSMZ <- Y. Ma, Beijing Univ., Beijing, China: strain T27

NCBI tax ID(s): 365617 (species)

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General

@ref: 7136

BacDive-ID: 11620

DSM-Number: 17841

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

description: Paenibacillus sabinae T27 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from plant rhizosphere .

NCBI tax id

  • NCBI tax id: 365617
  • Matching level: species

strain history

@refhistory
7136<- Y. Ma; T27
122326CIP <- 2007, DSMZ <- Y. Ma, Beijing Univ., Beijing, China: strain T27

doi: 10.13145/bacdive11620.20230509.8.1

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 sabinae
  • full scientific name: Paenibacillus sabinae Ma et al. 2007

@ref: 7136

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus sabinae

full scientific name: Paenibacillus sabinae Ma et al. 2007

strain designation: T27

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31848positive2.95 µm0.75 µmrod-shapedyes
122326positiverod-shapedyes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7136CASO 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
37796MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122326CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7136positivegrowth30mesophilic
31848positivegrowth04-37
31848positiveoptimum30mesophilic
37796positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
31848positivegrowth4.2-10alkaliphile
31848positiveoptimum7.2

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31848anaerobe
122326facultative anaerobe

spore formation

  • @ref: 31848
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
31848NaClpositivegrowth0-3 %
31848NaClpositiveoptimum1.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3184817632nitrate+reduction
6837124265gluconate+builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose+builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen+builds acid from
6837128017starch+builds acid from
6837116634raffinose+builds acid from
683716731melezitose+builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose+builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837159640N-acetylglucosamine-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837116899D-mannitol+builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
12232617632nitrate-reduction
12232616301nitrite-reduction

metabolite production

  • @ref: 122326
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31848catalase+1.11.1.6
122326oxidase-
122326catalase+1.11.1.6
122326urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
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
122326--+---------+--++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122326---------++++----++/--+/--+/-+/-++++-++++/-++++-++------++/-+/-

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
7136plant rhizosphere (Sabina squamata)Sabina squamataBeijingChinaCHNAsia
122326Plant, RhizosphereChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere

taxonmaps

  • @ref: 69479
  • File name: preview.99_3344.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_863;97_1009;98_2564;99_3344&stattab=map
  • Last taxonomy: Paenibacillus sabinae
  • 16S sequence: DQ338444
  • Sequence Identity:
  • Total samples: 64
  • soil counts: 25
  • aquatic counts: 6
  • animal counts: 8
  • plant counts: 25

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
71361Risk group (German classification)
1223261Risk group (French classification)

Sequence information

16S sequences

  • @ref: 31848
  • description: Paenibacillus sabinae strain T27 16S ribosomal RNA gene, partial sequence
  • accession: DQ338444
  • length: 1519
  • database: nuccore
  • NCBI tax ID: 365617

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenibacillus sabinae T27GCA_000612505completencbi1268072
66792Paenibacillus sabinae T271268072.3completepatric1268072
66792Paenibacillus sabinae T272576861424completeimg1268072

GC content

  • @ref: 7136
  • GC-content: 51.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes89.212no
flagellatedyes88.001no
gram-positiveyes89.044yes
anaerobicno79.059no
halophileno95.982no
spore-formingyes95.596yes
thermophileno99.185yes
glucose-utilyes87.764no
aerobicno52.195yes
glucose-fermentno80.762no

External links

@ref: 7136

culture collection no.: DSM 17841, CCBAU 10202, CIP 109632, KCTC 13697

straininfo link

  • @ref: 80846
  • straininfo: 297290

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17220432Paenibacillus sabinae sp. nov., a nitrogen-fixing species isolated from the rhizosphere soils of shrubs.Ma Y, Xia Z, Liu X, Chen SInt J Syst Evol Microbiol10.1099/ijs.0.64519-02007Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Genes, rRNA, Gram-Positive Endospore-Forming Rods/chemistry/*classification/genetics/isolation & purification, Molecular Sequence Data, *Nitrogen Fixation, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees/*microbiologyGenetics
Phylogeny18218925Paenibacillus forsythiae sp. nov., a nitrogen-fixing species isolated from rhizosphere soil of Forsythia mira.Ma YC, Chen SFInt J Syst Evol Microbiol10.1099/ijs.0.65238-02008Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Forsythia/*microbiology, Genes, rRNA, Gram-Positive Endospore-Forming Rods/chemistry/*classification/genetics/isolation & purification, Molecular Sequence Data, *Nitrogen Fixation, Nucleic Acid Hybridization, Phenotype, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species SpecificityGenetics
Phylogeny20435753Paenibacillus sophorae sp. nov., a nitrogen-fixing species isolated from the rhizosphere of Sophora japonica.Jin HJ, Lv J, Chen SFInt J Syst Evol Microbiol10.1099/ijs.0.021709-02010Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, *Nitrogen Fixation, Nucleic Acid Hybridization, Oxidoreductases/genetics, Paenibacillus/*classification/genetics/*isolation & purification/physiology, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, Sophora/*microbiologyGenetics
Enzymology22717371Characterization and analysis of nifH genes from Paenibacillus sabinae T27.Hong Y, Ma Y, Wu L, Maki M, Qin W, Chen SMicrobiol Res10.1016/j.micres.2012.05.0032012Cloning, Molecular, DNA, Bacterial/*genetics, Gene Expression, *Genes, Bacterial, Klebsiella pneumoniae/genetics, Mutation, Nitrogen Fixation, Nitrogenase/genetics/metabolism, Oxidoreductases/*genetics, Paenibacillus/*genetics/metabolism, Promoter Regions, GeneticMetabolism
Phylogeny23180372Paenibacillus brassicae sp. nov., isolated from cabbage rhizosphere in Beijing, China.Gao M, Yang H, Zhao J, Liu J, Sun YH, Wang YJ, Sun JGAntonie Van Leeuwenhoek10.1007/s10482-012-9849-12012Bacterial Typing Techniques, Brassica/*microbiology, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/*isolation & purification/physiology, Phospholipids/analysis, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Rhizosphere, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology, Spores, Bacterial/cytology, Temperature, Vitamin K 2/analysisGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7136Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17841)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17841
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
31848Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2811228776041
37796Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7397
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)
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
80846Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297290.1StrainInfo: A central database for resolving microbial strain identifiers
122326Curators of the CIPCollection of Institut Pasteur (CIP 109632)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109632