Strain identifier

BacDive ID: 11599

Type strain: Yes

Species: Paenibacillus assamensis

Strain history: CIP <- 2005, JCM <- T. Chakrabarti, Inst. Microbiol. Technol., Chandigarh, India: strain GPTSA 11

NCBI tax ID(s): 1122916 (strain), 311244 (species)

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General

@ref: 7425

BacDive-ID: 11599

DSM-Number: 18201

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

description: Paenibacillus assamensis DSM 18201 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from warm-spring water.

NCBI tax id

NCBI tax idMatching level
1122916strain
311244species

strain history

@refhistory
7425<- JCM <- T. Chakrabarti; GPTSA 11
67770T. Chakrabarti GPTSA 11.
116530CIP <- 2005, JCM <- T. Chakrabarti, Inst. Microbiol. Technol., Chandigarh, India: strain GPTSA 11

doi: 10.13145/bacdive11599.20230509.8.1

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 assamensis
  • full scientific name: Paenibacillus assamensis Saha et al. 2005

@ref: 7425

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus assamensis

full scientific name: Paenibacillus assamensis Saha et al. 2005

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31580positive1.75 µm0.55 µmrod-shapedyes
69480yes96.907
69480positive100
116530positiverod-shapedyes

colony morphology

  • @ref: 116530
  • hemolysis ability: 1

pigmentation

  • @ref: 31580
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
40095MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116530CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
31580positivegrowth20-37
31580positiveoptimum28.5mesophilic
40095positivegrowth30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
31580positivegrowth6.8-12.0alkaliphile
31580positiveoptimum9.4

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31580aerobe
116530obligate aerobe

spore formation

@refspore formationconfidence
31580yes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
31580NaClpositivegrowth<2.5 %
31580NaClpositiveoptimum1.25 %

observation

@refobservation
31580aggregates in clumps
67770quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3158017057cellobiose+carbon source
3158017234glucose+carbon source
3158017754glycerol+carbon source
3158028087glycogen+carbon source
3158017306maltose+carbon source
3158037684mannose+carbon source
3158033942ribose+carbon source
3158017992sucrose+carbon source
3158027082trehalose+carbon source
315804853esculin+hydrolysis
68371Potassium 2-ketogluconate-builds acid from
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
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837117716lactose+builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837118305arbutin+builds acid from
6837127613amygdalin+builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside+builds acid from
6837143943methyl alpha-D-mannoside+builds acid from
6837117924D-sorbitol+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
11653017632nitrate-reduction
11653016301nitrite-reduction

metabolite production

  • @ref: 116530
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31580catalase+1.11.1.6
31580gelatinase+
31580cytochrome oxidase+1.9.3.1
116530oxidase+
116530alcohol dehydrogenase-1.1.1.1
116530catalase+1.11.1.6
116530lysine decarboxylase-4.1.1.18
116530ornithine decarboxylase-4.1.1.17
116530urease-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
116530-+++++----++-+--+---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116530+--+++---++++---++++++++++++++/-++--+/-++-++-+--+-+-+/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7425warm-spring waterAssamIndiaINDAsia
67770Warm spring water sample from AssamIndiaINDAsia
116530Environment, Various ecological niches, soil, rhizospheres, water, diseased insect, larvae, food, cow faeces, bood cultures

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Thermal spring

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
74251Risk group (German classification)
1165301Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7425
  • description: Paenibacillus assamensis strain GPTSA 11 16S ribosomal RNA gene, partial sequence
  • accession: AY884046
  • length: 1466
  • database: ena
  • NCBI tax ID: 311244

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenibacillus assamensis DSM 182011122916.4wgspatric1122916
66792Paenibacillus assamensis DSM 182012524023086draftimg1122916
67770Paenibacillus assamensis DSM 18201GCA_000422445scaffoldncbi1122916

GC content

@refGC-contentmethod
742541.2
6777041.2thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes84.224no
flagellatedyes76.775no
gram-positiveyes87.143yes
anaerobicno98.639no
aerobicyes88.221yes
halophileno94.443yes
spore-formingyes97.157no
glucose-utilyes87.97yes
thermophileno99.679no
glucose-fermentno88.688no

External links

@ref: 7425

culture collection no.: DSM 18201, CIP 109026, JCM 13186, MTCC 6934, GPTSA 11, BCRC 17546, KCTC 13627

straininfo link

  • @ref: 80825
  • straininfo: 281460

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16280530Paenibacillus assamensis sp. nov., a novel bacterium isolated from a warm spring in Assam, India.Saha P, Mondal AK, Mayilraj S, Krishnamurthi S, Bhattacharya A, Chakrabarti TInt J Syst Evol Microbiol10.1099/ijs.0.63846-02005DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Gram-Positive Endospore-Forming Rods/classification/cytology/*isolation & purification/physiology, Hot Springs/*microbiology, India, Molecular Sequence Data, RNA, Ribosomal, 16S/analysis/genetics, Sequence Analysis, DNAGenetics
Phylogeny17551056Paenibacillus fonticola sp. nov., isolated from a warm spring.Chou JH, Chou YJ, Lin KY, Sheu SY, Sheu DS, Arun AB, Young CC, Chen WMInt J Syst Evol Microbiol10.1099/ijs.0.64872-02007Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Gram-Positive Endospore-Forming Rods/chemistry/*classification/*isolation & purification/physiology, Hot Springs/*microbiology, Lipids/analysis, Locomotion, Molecular Sequence Data, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, TaiwanGenetics
Phylogeny26310301Paenibacillus insulae sp. nov., isolated from soil.Cho SJ, Cho SH, Kim TS, Park SH, Kim SB, Lee GHJ Microbiol10.1007/s12275-015-4610-x2015Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, *Genome, Bacterial, Nucleic Acid Hybridization, Paenibacillus/chemistry/*genetics/growth & development/*isolation & purification, Peptidoglycan/chemistry, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, *Soil MicrobiologyGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7425Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18201)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18201
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
31580Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2786928776041
40095Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6722
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/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
80825Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID281460.1StrainInfo: A central database for resolving microbial strain identifiers
116530Curators of the CIPCollection of Institut Pasteur (CIP 109026)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109026