Strain identifier

BacDive ID: 11324

Type strain: Yes

Species: Massilia alkalitolerans

Strain history: CIP <- 2005, KCTC <- P. Xu, Shijiazhuang, China: strain YIM 31775

NCBI tax ID(s): 1111733 (strain), 286638 (species)

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General

@ref: 7001

BacDive-ID: 11324

DSM-Number: 17462

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

description: Massilia alkalitolerans DSM 17462 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
1111733strain
286638species

strain history

@refhistory
7001<- W.-J. Li, YIM
67771<- WJ Li, Yunnan Univ, China
116252CIP <- 2005, KCTC <- P. Xu, Shijiazhuang, China: strain YIM 31775

doi: 10.13145/bacdive11324.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Oxalobacteraceae
  • genus: Massilia
  • species: Massilia alkalitolerans
  • full scientific name: Massilia alkalitolerans (Xu et al. 2005) Kämpfer et al. 2011

  • synonyms

    @refsynonym
    20215Telluria alkalitolerans
    20215Naxibacter alkalitolerans

@ref: 7001

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Oxalobacteraceae

genus: Massilia

species: Massilia alkalitolerans

full scientific name: Massilia alkalitolerans (Xu et al. 2005) Kämpfer et al. 2011

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31364negative1.675 µm0.65 µmrod-shapedyes
67771negative
116252negativerod-shapedyes

colony morphology

@refincubation period
70011-2 days
590391 day
116252

pigmentation

  • @ref: 31364
  • production: yes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_17462_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17462_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17462_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17462_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17462_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7001TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
38315MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116252CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7001positivegrowth28mesophilic
31364positivegrowth04-55
31364positiveoptimum32.5mesophilic
38315positivegrowth30mesophilic
59039positivegrowth30-37mesophilic
67771positivegrowth28mesophilic
116252positivegrowth15-45
116252nogrowth5psychrophilic

culture pH

@refabilitytypepHPH range
31364positivegrowth6.5-12.0alkaliphile
31364positiveoptimum8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31364aerobe
59039aerobe
67771aerobe

spore formation

  • @ref: 31364
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
116252NaClpositivegrowth0-8 %
116252NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3136423652dextrin+carbon source
3136428757fructose+carbon source
3136428260galactose+carbon source
3136417234glucose+carbon source
3136417754glycerol+carbon source
3136417716lactose+carbon source
3136417306maltose+carbon source
3136429864mannitol+carbon source
3136437684mannose+carbon source
3136428053melibiose+carbon source
3136416634raffinose+carbon source
3136433942ribose+carbon source
3136417814salicin+carbon source
3136417151xylitol+carbon source
313644853esculin+hydrolysis
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch+builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837118305arbutin+builds acid from
6837127613amygdalin+builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose+builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose+builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose+builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin+hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
11625216947citrate+carbon source
1162524853esculin+hydrolysis
116252606565hippurate+hydrolysis
11625217632nitrate+reduction
11625216301nitrite-reduction
11625215792malonate+assimilation
11625217234glucose+/-degradation
11625217632nitrate-respiration

metabolite production

@refChebi-IDmetaboliteproduction
3136416136hydrogen sulfideyes
6836935581indoleno
11625235581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
11625215688acetoin-
11625217234glucose-

enzymes

@refvalueactivityec
31364alpha-galactosidase+3.2.1.22
31364gelatinase+
31364urease+3.5.1.5
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase+3.2.1.21
116252oxidase+
116252beta-galactosidase+3.2.1.23
116252alcohol dehydrogenase-1.1.1.1
116252gelatinase+/-
116252amylase+
116252DNase+
116252caseinase+3.4.21.50
116252catalase+1.11.1.6
116252tween esterase-
116252gamma-glutamyltransferase+2.3.2.2
116252lecithinase-
116252lipase-
116252lysine decarboxylase-4.1.1.18
116252ornithine decarboxylase-4.1.1.17
116252phenylalanine ammonia-lyase+4.3.1.24
116252protease+
116252tryptophan deaminase-
116252urease-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
116252-+++-+----++-+--+---

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
7001+---++++++---+---++++
7001+--+-+++++---+---++++

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
7001----+-+----+---+-------++++++-------+--+----------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116252+--------++----++++-++-+--------------+---------+++--+++--+--++++++++-++++++--+++---+-+-+++++++-+++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7001soilYunnan ProvinceChinaCHNAsia
67771From soilLijiang, Yunnan ProvinceChinaCHNAsia
59039SoilYunnan Province,LijiangChinaCHNAsia
116252Environment, SoilChinaCHNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
70011Risk group (German classification)
1162521Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7001
  • description: Naxibacter alkalitolerans 16S ribosomal RNA gene, partial sequence
  • accession: AY679161
  • length: 1526
  • database: ena
  • NCBI tax ID: 1111733

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Massilia alkalitolerans DSM 17462GCA_000427785scaffoldncbi1111733
66792Massilia alkalitolerans DSM 174621111733.3wgspatric1111733
66792Massilia alkalitolerans DSM 174622513237112completeimg1111733

GC content

  • @ref: 31364
  • GC-content: 62.4

External links

@ref: 7001

culture collection no.: DSM 17462, CCTCC AA 204003, KCTC 12194, YIM 31775, CCUG 50882, CIP 108793

straininfo link

  • @ref: 80557
  • straininfo: 134248

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15879247Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family 'Oxalobacteraceae' isolated from China.Xu P, Li WJ, Tang SK, Zhang YQ, Chen GZ, Chen HH, Xu LH, Jiang CLInt J Syst Evol Microbiol10.1099/ijs.0.63407-02005Aerobiosis, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis/isolation & purification, Flagella/physiology, Genes, rRNA, Gentian Violet, Hydrogen-Ion Concentration, Molecular Sequence Data, Movement, Organic Chemicals/metabolism, Oxalobacteraceae/*classification/cytology/*isolation & purification/physiology, Phenazines, Phylogeny, Quinones/analysis/isolation & purification, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, TemperatureEnzymology
Genetics17222395The O-chain structure from the LPS of the bacterium Naxibacter alkalitolerans YIM 31775T.Silipo A, Molinaro A, Jiang CL, Jiang Y, Xu P, Xu LH, Lanzetta R, Parrilli MCarbohydr Res10.1016/j.carres.2006.12.0122006Alkalies/chemistry, Carbohydrate Sequence, Chromatography, Gas, Lipopolysaccharides/*chemistry, Magnetic Resonance Spectroscopy, Molecular Sequence Data, Oxalobacteraceae/*chemistry, Polysaccharides, Bacterial/*chemistry
Phylogeny28809142Massilia agri sp. nov., isolated from reclaimed grassland soil.Chaudhary DK, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0020022017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Grassland, Nepal, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
7001Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17462)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17462
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
31364Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2767728776041
38315Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6460
59039Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 50882)https://www.ccug.se/strain?id=50882
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 life28604660 35: 676-683 2017
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68369Automatically annotated from API 20NE
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
80557Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID134248.1StrainInfo: A central database for resolving microbial strain identifiers
116252Curators of the CIPCollection of Institut Pasteur (CIP 108793)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108793