Strain identifier

BacDive ID: 11908

Type strain: Yes

Species: Methylophaga lonarensis

Strain Designation: MPL

Strain history: <- C. P. Antony, NCCS; MPL

NCBI tax ID(s): 999151 (species)

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General

@ref: 17721

BacDive-ID: 11908

DSM-Number: 24656

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped

description: Methylophaga lonarensis MPL is an aerobe, Gram-negative, motile bacterium that was isolated from soda lake sediments of a meteorite impact lake.

NCBI tax id

  • NCBI tax id: 999151
  • Matching level: species

strain history

  • @ref: 17721
  • history: <- C. P. Antony, NCCS; MPL

doi: 10.13145/bacdive11908.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Beggiatoales
  • family: Piscirickettsiaceae
  • genus: Methylophaga
  • species: Methylophaga lonarensis
  • full scientific name: Methylophaga lonarensis Antony et al. 2012

@ref: 17721

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Thiotrichales

family: Piscirickettsiaceae

genus: Methylophaga

species: Methylophaga lonarensis

full scientific name: Methylophaga lonarensis Antony et al. 2012

strain designation: MPL

type strain: yes

Morphology

cell morphology

  • @ref: 30396
  • gram stain: negative
  • cell length: 1.6 µm
  • cell width: 0.2 µm
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 17721
  • incubation period: 2-3 days

pigmentation

  • @ref: 30396
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30396positivegrowth20-37
30396positiveoptimum29mesophilic

culture pH

@refabilitytypepHPH range
30396positivegrowth07-10alkaliphile
30396positiveoptimum9.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30396
  • oxygen tolerance: aerobe

spore formation

  • @ref: 30396
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
30396NaClpositivegrowth0.05-10 %
30396NaClpositiveoptimum1.50 %

metabolite utilization

  • @ref: 30396
  • Chebi-ID: 17632
  • metabolite: nitrate
  • utilization activity: +
  • kind of utilization tested: reduction

enzymes

@refvalueactivityec
30396catalase+1.11.1.6
30396cytochrome oxidase+1.9.3.1
30396urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 17721
  • sample type: soda lake sediments of a meteorite impact lake
  • geographic location: Maharashtra state, Buldhana district, Lonar Lake
  • country: India
  • origin.country: IND
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Aquatic#Sediment
#Condition#Alkaline

taxonmaps

  • @ref: 69479
  • File name: preview.99_5857.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_54;96_2809;97_3449;98_4357;99_5857&stattab=map
  • Last taxonomy: Methylophaga lonarensis subclade
  • 16S sequence: JF330773
  • Sequence Identity:
  • Total samples: 1317
  • soil counts: 192
  • aquatic counts: 723
  • animal counts: 366
  • plant counts: 36

Safety information

risk assessment

  • @ref: 17721
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17721
  • description: Methylophaga lonarensis strain MPL 16S ribosomal RNA gene, partial sequence
  • accession: JF330773
  • length: 1491
  • database: ena
  • NCBI tax ID: 1286106

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Methylophaga lonarensis MPLGCA_000349205contigncbi1286106
66792Methylophaga lonarensis MPL1286106.3wgspatric1286106
66792Methylophaga lonarensis MPL2527291626draftimg1286106

GC content

@refGC-contentmethod
1772150.0thermal denaturation, midpoint method (Tm)
3039650

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes84.689no
gram-positiveno98.87yes
anaerobicno96.937yes
aerobicyes76.159yes
halophileno86.236yes
spore-formingno97.659yes
thermophileno98.392yes
glucose-utilyes58.471no
flagellatedyes68.094no
glucose-fermentno85.412no

External links

@ref: 17721

culture collection no.: DSM 24656, MCC 1002, VKM B-2684

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21890731Methylophaga lonarensis sp. nov., a moderately haloalkaliphilic methylotroph isolated from the soda lake sediments of a meteorite impact crater.Antony CP, Doronina NV, Boden R, Trotsenko YA, Shouche YS, Murrell JCInt J Syst Evol Microbiol10.1099/ijs.0.035089-02011Base Composition, Carbon/metabolism, Carbonates/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Lakes, Locomotion, Metabolic Networks and Pathways, Meteoroids, Methane/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Pentoses/metabolism, Phospholipids/analysis, Phylogeny, Piscirickettsiaceae/*classification/genetics/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Ubiquinone/analysis, Vitamin B 12/metabolismMetabolism
Genetics23661481Draft Genome Sequence of Methylophaga lonarensis MPLT, a Haloalkaliphilic (Non-Methane-Utilizing) Methylotroph.Shetty SA, Marathe NP, Munot H, Antony CP, Dhotre DP, Murrell JC, Shouche YSGenome Announc10.1128/genomeA.00202-132013

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17721Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24656)https://www.dsmz.de/collection/catalogue/details/culture/DSM-24656
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
30396Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2673328776041
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