Strain identifier

BacDive ID: 17466

Type strain: Yes

Species: Luteimonas mephitis

Strain Designation: B1953/27.1

Strain history: CIP <- 2001, A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain B1953/27.1 <- B. Bendinger

NCBI tax ID(s): 1122183 (strain), 83615 (species)

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General

@ref: 4679

BacDive-ID: 17466

DSM-Number: 12574

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

description: Luteimonas mephitis B1953/27.1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from experimental biofilter.

NCBI tax id

NCBI tax idMatching level
1122183strain
83615species

strain history

@refhistory
4679<- A. Lipski; B1953/27.1
120895CIP <- 2001, A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain B1953/27.1 <- B. Bendinger

doi: 10.13145/bacdive17466.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Lysobacterales
  • family: Lysobacteraceae
  • genus: Luteimonas
  • species: Luteimonas mephitis
  • full scientific name: Luteimonas mephitis Finkmann et al. 2000

@ref: 4679

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Luteimonas

species: Luteimonas mephitis

full scientific name: Luteimonas mephitis Finkmann et al. 2000 emend. Lin et al. 2016

strain designation: B1953/27.1

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.997
120895negativerod-shapedyes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_12574_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_12574_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_12574_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_12574_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_12574_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4679REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
40701MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120895CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
4679positivegrowth30mesophilic
40701positivegrowth30mesophilic
57960positivegrowth30-42
120895positivegrowth25-41
120895nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
57960aerobe
120895obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
120895NaClpositivegrowth0-4 %
120895NaClnogrowth6 %
120895NaClnogrowth8 %
120895NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12089516947citrate-carbon source
1208954853esculin+hydrolysis
12089517632nitrate-reduction
12089516301nitrite+reduction
12089517632nitrate-respiration

antibiotic resistance

  • @ref: 120895
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120895
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
120895oxidase+
120895beta-galactosidase+3.2.1.23
120895alcohol dehydrogenase-1.1.1.1
120895gelatinase+
120895amylase-
120895DNase+
120895caseinase+3.4.21.50
120895catalase+1.11.1.6
120895tween esterase+
120895lecithinase-
120895lipase-
120895lysine decarboxylase-4.1.1.18
120895ornithine decarboxylase-4.1.1.17
120895protease+
120895tryptophan deaminase-
120895urease-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
120895-+++-+--+-++----+---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120895-------------------+++-----------------+----------------------+--+--------------------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
4679experimental biofilterBrögbern/LingenGermanyDEUEurope
57960Experimental biofilterBrögbern/LingenGermanyDEUEurope
120895Experimental biofilterBrögbern, LingenGermanyDEUEurope

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Bioremediation
  • Cat3: #Biofilter

taxonmaps

  • @ref: 69479
  • File name: preview.99_4103.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_2080;97_2507;98_3101;99_4103&stattab=map
  • Last taxonomy: Luteimonas
  • 16S sequence: NR_025304
  • Sequence Identity:
  • Total samples: 1661
  • soil counts: 906
  • aquatic counts: 274
  • animal counts: 325
  • plant counts: 156

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
46791Risk group (German classification)
1208951Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Luteimonas mephitis 16S rRNA gene, strain B1953/27.1AJ0122281520ena83615
4679Luteimonas mephitis strain B1953/27.1 16S ribosomal RNA, partial sequenceNR_0253041520nuccore83615

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Luteimonas mephitis DSM 12574GCA_000422305scaffoldncbi1122183
66792Luteimonas mephitis DSM 125741122183.3wgspatric1122183
66792Luteimonas mephitis DSM 125742524023249draftimg1122183

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno79.396no
flagellatedno97.682no
gram-positiveno98.643no
anaerobicno99.053no
aerobicyes91.339no
halophileno92.465no
spore-formingno96.277no
thermophileno97.707yes
glucose-utilyes82.763no
glucose-fermentno92.416no

External links

@ref: 4679

culture collection no.: DSM 12574, ATCC BAA 11, CCUG 48040, CIP 107229

straininfo link

  • @ref: 86462
  • straininfo: 44252

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10826814Characterization of N2O-producing Xanthomonas-like isolates from biofilters as Stenotrophomonas nitritireducens sp. nov., Luteimonas mephitis gen. nov., sp. nov. and Pseudoxanthomonas broegbernensis gen. nov., sp. nov.Finkmann W, Altendorf K, Stackebrandt E, Lipski AInt J Syst Evol Microbiol10.1099/00207713-50-1-2732000DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Filtration/*instrumentation, Gammaproteobacteria/*classification/physiology, Gases, Industrial Waste, Molecular Sequence Data, Nitrites/metabolism, Nitrous Oxide/*metabolism, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Stenotrophomonas/*classification/physiology, Xanthomonas/chemistry/*classification/genetics/physiologyGenetics
Phylogeny18768603Luteimonas aquatica sp. nov., isolated from fresh water from Southern Taiwan.Chou JH, Cho NT, Arun AB, Young CC, Chen WMInt J Syst Evol Microbiol10.1099/ijs.0.65684-02008Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Microbial Sensitivity Tests, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/biosynthesis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Spores, Bacterial/cytology, Taiwan, Xanthomonadaceae/*classification/genetics/*isolation & purification/physiologyGenetics
Phylogeny18974953Luteimonas aestuarii sp. nov., isolated from tidal flat sediment.Roh SW, Kim KH, Nam YD, Chang HW, Kim MS, Yoon JH, Oh HM, Bae JWJ Microbiol10.1007/s12275-008-0189-92008DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Xanthomonadaceae/classification/genetics/*isolation & purification/metabolismMetabolism
Phylogeny21186291Luteimonas lutimaris sp. nov., isolated from a tidal flat.Park YJ, Park MS, Lee SH, Park W, Lee K, Jeon COInt J Syst Evol Microbiol10.1099/ijs.0.029173-02010Base Composition, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Xanthomonadaceae/*classification/genetics/*isolation & purification/metabolismMetabolism
Phylogeny26437920Luteimonas soli sp. nov., isolated from farmland soil.Wang X, Yang HX, Zhang YK, Zhu SJ, Liu XW, Zhang H, Zhang CF, Zhao CR, Hu G, Hong QInt J Syst Evol Microbiol10.1099/ijsem.0.0006522015*Agriculture, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, Xanthomonadaceae/*classification/genetics/isolation & purificationGenetics
Phylogeny26637822Luteimonas notoginsengisoli sp. nov., isolated from rhizosphere.Cheng J, Zhang MY, Wang WX, Manikprabhu D, Salam N, Zhang TY, Wu YY, Li WJ, Zhang YXInt J Syst Evol Microbiol10.1099/ijsem.0.0008162015
Phylogeny30826139Proposal of Lysobacter pythonis sp. nov. isolated from royal pythons (Python regius).Busse HJ, Huptas C, Baumgardt S, Loncaric I, Spergser J, Scherer S, Wenning M, Kampfer PSyst Appl Microbiol10.1016/j.syapm.2019.02.0022019Animals, Boidae/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal Spacer/genetics, Fatty Acids/analysis, Genes, Bacterial/genetics, Genome, Bacterial/genetics, Lipids/analysis, Lysobacter/chemistry/*classification/genetics, Nucleic Acid Hybridization, *Phylogeny, Polyamines/analysis, Quinones/analysis, Sequence Analysis, DNAGenetics
Phylogeny32140833Luteimonas cellulosilyticus sp. nov., Cellulose-Degrading Bacterium Isolated from Soil in Changguangxi National Wetland Park, China.Lin P, Yan ZF, Li CTCurr Microbiol10.1007/s00284-020-01934-32020China, Fatty Acids, Soil Microbiology, Wetlands, *Xanthomonadaceae/chemistry/classification/genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4679Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12574)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12574
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
40701Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4642
57960Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48040)https://www.ccug.se/strain?id=48040
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
68382Automatically annotated from API zym
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)
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
86462Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID44252.1StrainInfo: A central database for resolving microbial strain identifiers
120895Curators of the CIPCollection of Institut Pasteur (CIP 107229)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107229