Strain identifier

BacDive ID: 11966

Type strain: Yes

Species: Planococcus plakortidis

Strain Designation: AS/ASP6(II)

Strain history: <- S. Mayilraj, MTCC; AS/ASP6(II) <- A. Sree, Institute of Minerals and Materials Technology, Bhubaneshwar, India; MTCC 8491

NCBI tax ID(s): 1038856 (species)

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General

@ref: 17473

BacDive-ID: 11966

DSM-Number: 23997

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-positive, motile, coccus-shaped

description: Planococcus plakortidis AS/ASP6 is an aerobe, Gram-positive, motile bacterium that was isolated from marine sponge Plakortis simplex .

NCBI tax id

  • NCBI tax id: 1038856
  • Matching level: species

strain history

  • @ref: 17473
  • history: <- S. Mayilraj, MTCC; AS/ASP6(II) <- A. Sree, Institute of Minerals and Materials Technology, Bhubaneshwar, India; MTCC 8491

doi: 10.13145/bacdive11966.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Caryophanaceae
  • genus: Planococcus
  • species: Planococcus plakortidis
  • full scientific name: Planococcus plakortidis Kaur et al. 2012

@ref: 17473

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Planococcaceae

genus: Planococcus

species: Planococcus plakortidis

full scientific name: Planococcus plakortidis Kaur et al. 2012

strain designation: AS/ASP6(II)

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
30147positivecoccus-shapedyes
69480yes94.907
69480positive100

pigmentation

  • @ref: 30147
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30147positivegrowth15-37
30147positiveoptimum30mesophilic

culture pH

  • @ref: 30147
  • ability: positive
  • type: growth
  • pH: 06-10
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 30147
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30147no
69480no99.311

halophily

  • @ref: 30147
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <7 %

murein

  • @ref: 17473
  • murein short key: A11.33
  • type: A4alpha L-Lys-D-Glu

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3014728757fructose+carbon source
3014717234glucose+carbon source
3014717306maltose+carbon source

enzymes

@refvalueactivityec
30147catalase+1.11.1.6
30147cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 17473
  • sample type: marine sponge Plakortis simplex (Schulze)
  • host species: Plakortis simplex
  • geographic location: Bay of Bengal, off the coast of Gopalpur at a depth of 30 m
  • country: India
  • origin.country: IND
  • continent: Asia
  • latitude: 19.2317
  • longitude: 84.7318

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Invertebrates (Other)#Porifera (Sponges)

taxonmaps

  • @ref: 69479
  • File name: preview.99_82.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_67;97_70;98_75;99_82&stattab=map
  • Last taxonomy: Planococcus
  • 16S sequence: JF775504
  • Sequence Identity:
  • Total samples: 37
  • soil counts: 15
  • aquatic counts: 9
  • animal counts: 9
  • plant counts: 4

Safety information

risk assessment

  • @ref: 17473
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17473
  • description: Planococcus plakortidis strain MTCC 8491 16S ribosomal RNA gene, partial sequence
  • accession: JF775504
  • length: 1449
  • database: ena
  • NCBI tax ID: 1038856

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Planococcus plakortidis DSM 23997GCA_001687605completencbi1038856
66792Planococcus plakortidis strain DSM 239971038856.4completepatric1038856
66792Planococcus plakortidis DSM 239972700988614completeimg1038856

GC content

@refGC-contentmethod
1747351.0thermal denaturation, midpoint method (Tm)
3014751

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes54no
flagellatedno54.184no
flagellatedno54.184no
gram-positiveyes93.786yes
gram-positiveyes93.786yes
anaerobicno99.313yes
anaerobicno99.313yes
aerobicyes95.87yes
halophileyes87.538no
halophileyes87.538no
spore-formingyes65.423yes
spore-formingyes65.423yes
glucose-utilyes87.532no
glucose-utilyes87.532no
aerobicyes95.87yes
thermophileno99.707yes
motileyes78.694yes
motileyes78.694yes
glucose-fermentno89.476no
glucose-fermentno89.476no
thermophileno99.707yes

External links

@ref: 17473

culture collection no.: DSM 23997, MTCC 8491

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21642486Planococcus plakortidis sp. nov., isolated from the marine sponge Plakortis simplex (Schulze).Kaur I, Das AP, Acharya M, Klenk HP, Sree A, Mayilraj SInt J Syst Evol Microbiol10.1099/ijs.0.029967-02011Animals, Bacterial Typing Techniques, Base Composition, Bays, DNA, Bacterial/genetics, Fatty Acids/chemistry, India, Indian Ocean, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plakortis/*microbiology, Planococcus Bacteria/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistryGenetics
Phylogeny31287396Indiicoccus explosivorum gen. nov., sp. nov., isolated from an explosives waste contaminated site.Pal Y, Mayilraj S, Paul M, Schumann P, Krishnamurthi SInt J Syst Evol Microbiol10.1099/ijsem.0.0035412019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Explosive Agents, Fatty Acids/chemistry, India, Peptidoglycan/chemistry, Phosphatidylethanolamines, *Phylogeny, Pigmentation, Planococcaceae/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Pollutants, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17473Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23997)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23997
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
30147Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2649828776041
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)
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
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)