Strain identifier

BacDive ID: 23833

Type strain: Yes

Species: Cellulomonas pakistanensis

Strain history: <- I Ahmed, NCCP, Pakistan

NCBI tax ID(s): 992287 (species)

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General

@ref: 20497

BacDive-ID: 23833

DSM-Number: 24792

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive

description: Cellulomonas pakistanensis DSM 24792 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from paddy grain of stored rice seeds.

NCBI tax id

  • NCBI tax id: 992287
  • Matching level: species

strain history

@refhistory
20497<- I. Ahmed, National Institute for Genomics and Advanced Biotechnology, Pakistan; NCCP-11
67770I. Ahmed NCCP-11.
67771<- I Ahmed, NCCP, Pakistan

doi: 10.13145/bacdive23833.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Cellulomonadaceae
  • genus: Cellulomonas
  • species: Cellulomonas pakistanensis
  • full scientific name: Cellulomonas pakistanensis Ahmed et al. 2014

@ref: 20497

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Cellulomonadaceae

genus: Cellulomonas

species: Cellulomonas pakistanensis

full scientific name: Cellulomonas pakistanensis Ahmed et al. 2014

type strain: yes

Morphology

cell morphology

@refgram stainconfidence
67771positive
69480positive100

Culture and growth conditions

culture medium

  • @ref: 20497
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/92
  • composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
20497positivegrowth28mesophilic
67770positivegrowth28mesophilic
67771positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.685

observation

@refobservation
67770quinones: MK-9(H4)
67771quinones: MK-9(H4)

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
20497paddy grain of stored rice seedsIslamabad, National Agricultural Research Centre, GenBank of the Plant Genetic Resources Institute (PGRI)PakistanPAKAsia
67770Paddy seedIslamabadPakistanPAKAsia
67771From rice seed stored in PGRI Gene BankPakistanPAKAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Host#Plants#Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_20855.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_432;97_493;98_12225;99_20855&stattab=map
  • Last taxonomy: Cellulomonas
  • 16S sequence: AB618146
  • Sequence Identity:
  • Total samples: 220
  • soil counts: 60
  • aquatic counts: 65
  • animal counts: 69
  • plant counts: 26

Safety information

risk assessment

  • @ref: 20497
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20497
  • description: Cellulomonas pakistanensis gene for 16S rRNA, partial sequence
  • accession: AB618146
  • length: 1421
  • database: ena
  • NCBI tax ID: 992287

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cellulomonas pakistanensis NBRC 110800GCA_016862755contigncbi992287
66792Cellulomonas pakistanensis JCM 18755GCA_001315505contigncbi992287
66792Cellulomonas pakistanensis strain JCM 18755992287.3wgspatric992287
66792Cellulomonas pakistanensis strain NBRC 110800992287.4wgspatric992287
66792Cellulomonas pakistanensis JCM 187552734481991draftimg992287

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes88no
motileno73.844no
flagellatedno90.995no
gram-positiveyes71.138no
anaerobicno96.624yes
halophileno85.999no
spore-formingno94.977no
thermophileno97.064yes
glucose-utilyes88.655no
aerobicyes68.364yes
glucose-fermentyes71.069no

External links

@ref: 20497

culture collection no.: DSM 24792, JCM 18755, KCTC 19798, NCCP 11, NBRC 110800

straininfo link

  • @ref: 87858
  • straininfo: 401961

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24733176Cellulomonas pakistanensis sp. nov., a moderately halotolerant Actinobacteria.Ahmed I, Kudo T, Abbas S, Ehsan M, Iino T, Fujiwara T, Ohkuma MInt J Syst Evol Microbiol10.1099/ijs.0.059063-02014Bacterial Typing Techniques, Base Composition, Cellulomonas/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Oryza/*microbiology, Pakistan, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seeds/microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics
Stress34196062Morphological and elemental evaluation of biochar through analytical techniques and its combined effect along with plant growth promoting rhizobacteria on Vicia faba L. under induced drought stress.Nafees M, Ullah S, Ahmed IMicrosc Res Tech10.1002/jemt.238542021Cellulomonas, Charcoal, *Droughts, Sphingobacterium, *Vicia faba
34994497Modulation of drought adversities in Vicia faba by the application of plant growth promoting rhizobacteria and biochar.Nafees M, Ullah S, Ahmed IMicrosc Res Tech10.1002/jemt.240472022Charcoal, *Droughts, Ecosystem, *Vicia faba
Phylogeny35779121Cellulomonas triticagri sp. nov., isolated from the rhizosphere soil of wheat (Triticum aestivum L.).Han C, Zhang Y, Yu B, Shan Q, Zhao J, Shi H, Tian Y, Zhang Y, Zhu C, Xiang WArch Microbiol10.1007/s00203-022-03036-z2022Bacterial Typing Techniques, *Cellulomonas/genetics, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, Soil/chemistry, Soil Microbiology, TriticumTranscriptome

Reference

@idauthorstitledoi/urlcatalogue
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
20497Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-24792Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24792)
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
87858Reimer, 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-ID401961.1