Strain identifier

BacDive ID: 4241

Type strain: Yes

Species: Dietzia maris

Strain Designation: AUCNM-A-593

Strain history: CIP <- 1996, DSM <- N. Agre: strain IMV 195 <- O.A. Nesterenko: strain AUCNM-A-593

NCBI tax ID(s): 37915 (species)

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General

@ref: 11235

BacDive-ID: 4241

DSM-Number: 43672

keywords: genome sequence, 16S sequence, Bacteria, aerobe, chemoorganotroph, mesophilic, coccus-shaped, colony-forming

description: Dietzia maris AUCNM-A-593 is an aerobe, chemoorganotroph, mesophilic bacterium that forms circular colonies and was isolated from soil.

NCBI tax id

  • NCBI tax id: 37915
  • Matching level: species

strain history

@refhistory
11235<- N. Agre, IMV 195 <- D.A. Nesterenko
67770VKM Ac-593 <-- IMV 195.
120822CIP <- 1996, DSM <- N. Agre: strain IMV 195 <- O.A. Nesterenko: strain AUCNM-A-593

doi: 10.13145/bacdive4241.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Dietziaceae
  • genus: Dietzia
  • species: Dietzia maris
  • full scientific name: Dietzia maris (Nesterenko et al. 1982 ex Harrison 1929) Rainey et al. 1995

  • synonyms

    @refsynonym
    20215Dietzia cinnamea
    20215Rhodococcus maris

@ref: 11235

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Dietziaceae

genus: Dietzia

species: Dietzia maris

full scientific name: Dietzia maris (Nesterenko et al. 1982) Rainey et al. 1995 emend. Nouioui et al. 2018

strain designation: AUCNM-A-593

type strain: yes

Morphology

cell morphology

@refcell shapegram stainmotilityconfidence
23231coccus-shaped
23231rod-shapedpositive
120822oval-shapedpositiveno
125438no90.6
125438positive91.054
125439positive96.5

colony morphology

@refcolony shape
23231circular
120822

multimedia

@refmultimedia contentintellectual property rightscaption
11235https://www.dsmz.de/microorganisms/photos/DSM_43672-1.jpg© Leibniz-Institut DSMZ
11235https://www.dsmz.de/microorganisms/photos/DSM_43672.jpg© Leibniz-Institut DSMZMedium 215 28°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11235BHI MEDIUM (DSMZ Medium 215)yeshttps://mediadive.dsmz.de/medium/215Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
11235TRYPTICASE 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
41038MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
120822CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperature
11235positivegrowth28
41038positivegrowth30
56338positivegrowth30
67770positivegrowth28
120822positivegrowth10-37
120822nogrowth41
120822nogrowth45

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23231aerobe
56338aerobe
120822obligate aerobe

nutrition type

  • @ref: 23231
  • type: chemoorganotroph

spore formation

  • @ref: 23231
  • spore formation: no

halophily

  • @ref: 120822
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

observation

  • @ref: 67770
  • observation: quinones: MK-8(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12082216947citrate-carbon source
1208224853esculin-hydrolysis
120822606565hippurate-hydrolysis
12082217632nitrate+reduction
12082216301nitrite-reduction
12082217632nitrate-respiration
68371Potassium 5-ketogluconate-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
68371320061methyl alpha-D-glucopyranoside-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
6837159640N-acetylglucosamine-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
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

metabolite production

  • @ref: 120822
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
23231catalase+1.11.1.6
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
120822oxidase-
120822beta-galactosidase-3.2.1.23
120822alcohol dehydrogenase-1.1.1.1
120822gelatinase-
120822amylase+
120822DNase-
120822caseinase-3.4.21.50
120822catalase+1.11.1.6
120822tween esterase+
120822gamma-glutamyltransferase-2.3.2.2
120822lecithinase-
120822lipase-
120822lysine decarboxylase-4.1.1.18
120822ornithine decarboxylase-4.1.1.17
120822phenylalanine ammonia-lyase-4.3.1.24
120822protease+
120822tryptophan deaminase-
120822urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120822-+++++++--++---+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120822+/----------+/-+/-+/-------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120822-+-----------------------------------------------------------------+----------------------------+--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
11235soil
23231soil and from skin and intestinal tracts of carp (Cyprinus carpio)
56338SoilUkraineUKREurope
67770Soil
120822Environment, SoilUkraineUKREurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Fishes
#Host Body-Site#Gastrointestinal tract
#Host Body-Site#Organ#Skin, Nail, Hair

taxonmaps

  • @ref: 69479
  • File name: preview.99_4509.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_611;97_2732;98_3390;99_4509&stattab=map
  • Last taxonomy: Dietzia
  • 16S sequence: X81920
  • Sequence Identity:
  • Total samples: 11008
  • soil counts: 1292
  • aquatic counts: 2957
  • animal counts: 6479
  • plant counts: 280

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
11235yes, in single cases1Risk group (German classification)
1208221Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218D.maris 16S rRNA gene (ATCC 35013T)X819201316nuccore37915
20218Dietzia maris strain DSM 43672 16S ribosomal RNA gene, partial sequenceFJ4683331439nuccore37915
20218Dietzia maris strain DSM 43672 16S ribosomal RNA gene, partial sequenceKF4103361365nuccore37915
20218D.maris (DSM 43672) 16S rRNA geneX792901475nuccore37915

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Dietzia maris strain DSM 4367237915.4wgspatric37915
66792Dietzia maris DSM 436722834342532draftimg37915
67770Dietzia maris DSM 43672GCA_001630765contigncbi37915

GC content

@refGC-contentmethod
1123573
6777073.2
6777070.9genome sequence analysis

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes91.054yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.333yes
125438spore-formingspore-formingAbility to form endo- or exosporesno66.966yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes87.385yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno95yes
125438motile2+flagellatedAbility to perform flagellated movementno90.6no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno71.1
125439BacteriaNetmotilityAbility to perform movementno74.1
125439BacteriaNetgram_stainReaction to gram-stainingpositive96.5
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe79.9

External links

@ref: 11235

culture collection no.: DSM 43672, ATCC 35013, AUCNM A-593, CIP 104188, IFO 15801, JCM 6166, NBRC 15801, VKM Ac-593, CCUG 44488, NCIMB 11744, IMV 195, CECT 4617, IFO 15529, IMSNU 21250, KCTC 9950, LMG 5361, NBRC 15529, NRRL B-16941, PCM 2292

straininfo link

  • @ref: 73738
  • straininfo: 4881

literature

topicPubmed-IDtitleauthorsjournalyearmeshDOItopic2
Phylogeny6431238[Free mycolic acids of the cells of coryneform and Nocardia-like bacteria].Koronelli TV, Rozynov BV, Kvasnikov EI, Nogina TM, Nesterenko OAMikrobiologiia1984Actinomycetales/*analysis/classification, Chromatography, Thin Layer, Mass Spectrometry, Molecular Weight, Mycolic Acids/*analysis, Nocardiaceae/*analysis/classification
Phylogeny18984691Dietzia schimae sp. nov. and Dietzia cercidiphylli sp. nov., from surface-sterilized plant tissues.Li J, Zhao GZ, Zhang YQ, Klenk HP, Pukall R, Qin S, Xu LH, Li WJInt J Syst Evol Microbiol2008Actinomycetales/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Plant Roots/microbiology, Plant Stems/microbiology, Plants/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Sterilization/methods, Theaceae/*microbiology10.1099/ijs.0.2008/000919-0Genetics
Metabolism24707935Discovery of a cell wall porin in the mycolic-acid-containing actinomycete Dietzia maris DSM 43672.Mafakheri S, Barcena-Uribarri I, Abdali N, Jones AL, Sutcliffe IC, Benz RFEBS J2014Actinobacteria/chemistry/*metabolism, Cell Wall/chemistry/*metabolism, Lipid Bilayers/chemistry/metabolism, Mycolic Acids/chemistry/*metabolism, Porins/chemistry/*metabolism10.1111/febs.12758
Genetics27284155Draft Genome Sequence of Dietzia maris DSM 43672, a Gram-Positive Bacterium of the Mycolata Group.Ganguly S, Jimenez-Galisteo G, Pletzer D, Winterhalter M, Benz R, Vinas MGenome Announc201610.1128/genomeA.00542-16
Metabolism27671711Degradation of carbonyl sulfide by Actinomycetes and detection of clade D of beta-class carbonic anhydrase.Ogawa T, Kato H, Higashide M, Nishimiya M, Katayama YFEMS Microbiol Lett201610.1093/femsle/fnw223

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11235Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43672)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43672
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
23231F. A. RAINEY, S. KLATTE, R. M. KROPPENSTEDT, E. STACKEBRANDT10.1099/00207713-45-1-32Dietzia, New Genus Including Dietzia maris comb. nov., Formerly Rhodococcus marisIJSEM 45: 32-36 19957857805
41038Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16069
56338Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 44488)https://www.ccug.se/strain?id=44488
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
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
73738Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4881.1StrainInfo: A central database for resolving microbial strain identifiers
120822Curators of the CIPCollection of Institut Pasteur (CIP 104188)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104188
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1