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Strain identifier

BacDive ID: 24801

Type strain: Yes

Species: Melioribacter roseus

Strain Designation: P3M-2

Strain history: O. A. Podosokorskaya P3M-2.

NCBI tax ID(s): 1134405 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 21273

BacDive-ID: 24801

DSM-Number: 23840

keywords: Gram-negative, thermophilic, organotroph, facultative anaerobe, Bacteria, 16S sequence, genome sequence, motile, rod-shaped

description: Melioribacter roseus P3M-2 is a facultative anaerobe, organotroph, thermophilic bacterium that was isolated from microbial mat from the wooden surface of a chute under the flow of thermal water coming out of a 2775-m-deep oil exploration well.

NCBI tax id

  • NCBI tax id: 1134405
  • Matching level: species

strain history

doi: 10.13145/bacdive24801.20220920.7

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/chlorobiota
  • domain: Bacteria
  • phylum: Chlorobiota
  • class: Ignavibacteria
  • order: Ignavibacteriales
  • family: Melioribacteraceae
  • genus: Melioribacter
  • species: Melioribacter roseus
  • full scientific name: Melioribacter roseus Podosokorskaya et al. 2013

@ref: 21273

domain: Bacteria

phylum: Chlorobi

class: Ignavibacteria

order: Melioribacteraceae, not assigned to order

family: Melioribacteraceae

genus: Melioribacter

species: Melioribacter roseus

full scientific name: Melioribacter roseus Podosokorskaya et al. 2013

strain designation: P3M-2

type strain: yes

Morphology

cell morphology

  • @ref: 43396
  • gram stain: negative
  • cell length: 0.65-10 µm
  • cell width: 0.25-0.35 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: polar

pigmentation

  • @ref: 43396
  • production: yes
  • name: carotenoid-type

Culture and growth conditions

culture medium

  • @ref: 21273
  • name: IGNAVIBACTERIA MEDIUM (DSMZ Medium 1374)
  • growth: yes
  • link: https://bacmedia.dsmz.de/medium/1374
  • composition: Name: IGNAVIBACTERIA MEDIUM (DSMZ Medium 1374) Composition: Na2SO4 3.9604 g/l Yeast extract 1.9802 g/l NaCl 0.990099 g/l KCl 0.49505 g/l MgCl2 x 6 H2O 0.39604 g/l Na2S x 9 H2O 0.29703 g/l NH4Cl 0.247525 g/l KH2PO4 0.19802 g/l NaHCO3 0.0990099 g/l CaCl2 x 2 H2O 0.0990099 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.000776238 g/l (NH4)2Ni(SO4)2 x 6 H2O 0.000391089 g/l CoCl2 x 6 H2O 0.000235644 g/l ZnSO4 x 7 H2O 0.000142178 g/l Pyridoxine hydrochloride 9.90099e-05 g/l MnCl2 x 4 H2O 9.80198e-05 g/l Na2SeO4 9.36634e-05 g/l D-Calcium pantothenate 4.95049e-05 g/l Thiamine-HCl x 2 H2O 4.95049e-05 g/l p-Aminobenzoic acid 4.95049e-05 g/l Nicotinic acid 4.95049e-05 g/l Riboflavin 4.95049e-05 g/l Lipoic acid 4.95049e-05 g/l Na2WO4 x 2 H2O 3.26733e-05 g/l Na2MoO4 x 2 H2O 2.37624e-05 g/l Folic acid 1.9802e-05 g/l Biotin 1.9802e-05 g/l H3BO3 5.94059e-06 g/l CuCl2 x 2 H2O 1.78218e-06 g/l Vitamin B12 9.90099e-07 g/l HCl Distilled water

culture temp

@refgrowthtypetemperaturerange
21273positivegrowth47thermophilic
43396positiveoptimum52-55thermophilic
43396positivegrowth35-60
67770positivegrowth55thermophilic

culture pH

@refabilitytypepH
43396positivegrowth6-8.7
43396positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 43396
  • oxygen tolerance: facultative anaerobe

nutrition type

  • @ref: 43396
  • type: organotroph

spore formation

  • @ref: 43396
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
43396NaClpositiveoptimum6 g/L
43396NaClnogrowth60 g/L

observation

  • @ref: 67770
  • observation: quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4339662968cellulose+assimilation
4339630089acetate+assimilation
433962511agarose+assimilation
4339622599arabinose+assimilation
4339629125arsenate+reduction
43396beef extract+assimilation
4339628885butanol-assimilation
4339685146carboxymethylcellulose+assimilation
4339617057cellobiose+assimilation
4339652071dextran+assimilation
4339615379dioxygen+reduction
4339624996lactate-assimilation
4339616236ethanol-assimilation
43396ferrihydrite+reduction
4339615740formate+assimilation
4339628757fructose+assimilation
4339628260galactose-assimilation
43396495056gamma-cyclodextrin+assimilation
433965291gelatin+assimilation
4339617234glucose+assimilation
4339628087glycogen+assimilation
4339617716lactose+assimilation
433966452lichenin+assimilation
433966457lignin-assimilation
4339617306maltose+assimilation
4339629864mannitol-assimilation
4339637684mannose+assimilation
4339616301nitrite+reduction
4339617309pectin-assimilation
43396peptone+assimilation
4339628831propanol-assimilation
4339617272propionate-assimilation
4339615361pyruvate-assimilation
4339626546rhamnose+assimilation
4339633942ribose+assimilation
4339630911sorbitol-assimilation
4339628017starch+assimilation
4339617992sucrose-assimilation
4339641253tetradecane-assimilation
4339627082trehalose+assimilation
4339610057xanthan+assimilation
4339637166xylan+assimilation
4339618222xylose+assimilation
43396yeast extract+required for growth
43396yeast extract+assimilation

metabolite production

@refChebi-IDmetaboliteproduction
4339630089acetateyes
4339616526carbon dioxideyes
4339618276dihydrogenyes
4339624996DL-lactateyes

enzymes

@refvalueactivityec
43396catalase+/-1.11.1.6
43396cytochrome oxidase+/-1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
21273microbial mat from the wooden surface of a chute under the flow of thermal water coming out of a 2775-m-deep oil exploration wellTomsk region, Parabel’ district, west bank of Ob RiverRussiaRUSAsia
67770Microbial mat developing on the wooden surface of a chute under the flow of hot water emerging from a 2775-m-deep oil exploration well in Tomsk regionWestern SiberiaRussiaRUS

isolation source categories

Cat1Cat2Cat3
#Engineered
#Environmental#Aquatic
#Environmental#Microbial community#Microbial mat

Safety information

risk assessment

  • @ref: 21273
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21273
  • description: Melioribacter roseus strain P3M-2 16S ribosomal RNA gene, partial sequence
  • accession: JQ292917
  • length: 1539
  • database: ena
  • NCBI tax ID: 1191523

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Melioribacter roseus P3M-2 P3M-2GCA_000279145completencbi1191523
66792Melioribacter roseus P3M-21191523.3completepatric1191523
67770Melioribacter roseus P3M, complete genomeCP003557ena1191523

GC content

@refGC-contentmethod
2127341.3sequence analysis
4339641
6777041genome sequence analysis

External links

@ref: 21273

culture collection no.: DSM 23840, JCM 17771, VKM B-2668

straininfo link

@refpassport
20218http://www.straininfo.net/strains/891112
20218http://www.straininfo.net/strains/891113

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23297868Characterization of Melioribacter roseus gen. nov., sp. nov., a novel facultatively anaerobic thermophilic cellulolytic bacterium from the class Ignavibacteria, and a proposal of a novel bacterial phylum Ignavibacteriae.Podosokorskaya OA, Kadnikov VV, Gavrilov SN, Mardanov AV, Merkel AY, Karnachuk OV, Ravin NV, Bonch-Osmolovskaya EA, Kublanov IVEnviron Microbiol10.1111/1462-2920.120672013Bacteria, Anaerobic/genetics, Chlorobi/*classification/genetics/*physiology/ultrastructure, Ferric Compounds, Genome, Bacterial/genetics, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, RNA, Ribosomal, 23S/genetics, Rec A Recombinases/genetics, Russia, Species SpecificityGenetics
Metabolism23301019Genomic analysis of Melioribacter roseus, facultatively anaerobic organotrophic bacterium representing a novel deep lineage within Bacteriodetes/Chlorobi group.Kadnikov VV, Mardanov AV, Podosokorskaya OA, Gavrilov SN, Kublanov IV, Beletsky AV, Bonch-Osmolovskaya EA, Ravin NVPLoS One10.1371/journal.pone.00530472013Bacteria, Anaerobic/genetics, Bacteroidetes/*genetics, Base Composition, Carbohydrate Metabolism, Electron Transport, *Genome, Bacterial, Genomics, Hydrolysis, Likelihood Functions, Metabolic Networks and Pathways, Photosynthesis, *Phylogeny, Polysaccharides/metabolism, Proteome/analysis, RNA, Ribosomal/metabolism, Ribosomes/metabolism, Transcription, GeneticGenetics

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.StrainInfo introduces electronic passports for microorganisms.10.1016/j.syapm.2013.11.002Syst Appl Microbiol. 37: 42-50 201424321274
21273Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-23840Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23840)
43396Olga A. Podosokorskaya, Vitaly V. Kadnikov, Sergey N. Gavrilov, Andrey V. Mardanov, Alexander Y. Merkel, Olga V. Karnachuk, Nikolay V. Ravin, Elizaveta A. Bonch-Osmolovskaya, Ilya V. KublanovCharacterization of Melioribacter roseus gen. nov., sp. nov., a novel facultatively anaerobic thermophilic cellulolytic bacterium from the class Ignavibacteria, and a proposal of a novel bacterial phylum Ignavibacteriae10.1111/1462-2920.12067Environ. Microbiol. 15: 1759-1771 201323297868
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/