Strain identifier

BacDive ID: 5831

Type strain: Yes

Species: Modestobacter versicolor

Strain Designation: CP153-2

Strain history: CIP <- 2008, DSMZ <- F. Garcia-Pichel <- G.S.N. Reddy, Arizona Univ., Tempe, USA: strain CP153-2

NCBI tax ID(s): 429133 (species)

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General

@ref: 6561

BacDive-ID: 5831

DSM-Number: 16678

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

description: Modestobacter versicolor CP153-2 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soil crust.

NCBI tax id

  • NCBI tax id: 429133
  • Matching level: species

strain history

@refhistory
6561<- F. Garcia-Pichel <- G.S.N. Reddy; CP153-2
67770DSM 16678 <-- F. Garcia-Pichel <-- G. S. N. Reddy CP153-2.
123824CIP <- 2008, DSMZ <- F. Garcia-Pichel <- G.S.N. Reddy, Arizona Univ., Tempe, USA: strain CP153-2

doi: 10.13145/bacdive5831.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Geodermatophilales
  • family: Geodermatophilaceae
  • genus: Modestobacter
  • species: Modestobacter versicolor
  • full scientific name: Modestobacter versicolor Reddy et al. 2007

@ref: 6561

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Geodermatophilaceae

genus: Modestobacter

species: Modestobacter versicolor

full scientific name: Modestobacter versicolor Reddy et al. 2007

strain designation: CP153-2

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32080positive2 µm0.75 µmrod-shapedyes
69480positive100
123824positiverod-shapedno

colony morphology

@refcolony colorincubation periodmedium used
18404Black grey (7021)10-14 daysISP 2
18404Olive drab10-14 daysISP 3
18404Yellow olive (6014)10-14 daysISP 4
1840410-14 daysISP 6
18404Pastel yellow (1034)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18404noISP 2
18404noISP 3
18404noISP 4
18404noISP 6

pigmentation

  • @ref: 32080
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6561R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
18404ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18404ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18404ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18404ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18404ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
37852MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
123824CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
6561positivegrowth28mesophilic
32080positivegrowth04-30
32080positiveoptimum25mesophilic
37852positivegrowth30mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
32080positivegrowth05-09alkaliphile
32080positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32080aerobe
123824obligate aerobe

spore formation

@refspore formationconfidence
32080no
69480no98.401

halophily

@refsaltgrowthtested relationconcentration
32080NaClpositivegrowth0-3 %
32080NaClpositiveoptimum1.5 %

observation

@refobservation
32080aggregates in clumps
67770quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1840417234glucose+
1840422599arabinose+
1840417992sucrose+
1840418222xylose+
1840417268myo-inositol+
1840429864mannitol+
1840428757fructose+
1840426546rhamnose+
1840416634raffinose+
1840462968cellulose+
3208017057cellobiose+carbon source
3208028053melibiose+carbon source
3208030911sorbitol+carbon source
3208027082trehalose+carbon source
320804853esculin+hydrolysis
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-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
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117306maltose-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
6837117268myo-inositol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
12382417632nitrate-reduction
12382416301nitrite-reduction

metabolite production

  • @ref: 123824
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
32080catalase+1.11.1.6
32080urease+3.5.1.5
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
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)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
123824oxidase-
123824catalase+1.11.1.6
123824urease+3.5.1.5

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18404+++++++--++---++---
123824+++-+++-------++----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123824+/---+/-+/-+/----+/-+/-+/----+/--+/-------+/-+/-+/--+/---+/------------+/-----+/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6561soil crustColorado plateuUSAUSANorth America
67770Biological soil crustColorado PlateauUSAUSANorth America
123824Environment, Soil, crustColoradoUnited States of AmericaUSANorth America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_10350.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_1096;97_1284;98_7718;99_10350&stattab=map
  • Last taxonomy: Modestobacter
  • 16S sequence: AJ871304
  • Sequence Identity:
  • Total samples: 8807
  • soil counts: 5591
  • aquatic counts: 624
  • animal counts: 1778
  • plant counts: 814

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184041German classification
65611Risk group (German classification)
1238241Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6561
  • description: Modestobacter versicolor 16S rRNA gene, type strain CP153-2T
  • accession: AJ871304
  • length: 1448
  • database: ena
  • NCBI tax ID: 429133

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Modestobacter versicolor DSM 16678GCA_014195485contigncbi429133
66792Modestobacter versicolor strain DSM 16678429133.6wgspatric429133
66792Modestobacter versicolor DSM 166782827613928draftimg429133
66792Modestobacter versicolor CP153-22839233032draftimg429133
67770Modestobacter versicolor CP153-2GCA_003226595contigncbi429133

GC content

@refGC-content
656169
3208071.5-75.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno54no
gram-positiveyes91.962yes
anaerobicno99.115no
halophileno92.248yes
spore-formingno82.349yes
glucose-utilyes88.284yes
aerobicyes94.024no
flagellatedno90.542no
thermophileno98.604no
motileyes78.616yes
glucose-fermentno90.509no

External links

@ref: 6561

culture collection no.: DSM 16678, ATCC BAA 1040, CIP 109814, JCM 15578, CGMCC 1.10729

straininfo link

  • @ref: 75313
  • straininfo: 309546

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17766865Modestobacter versicolor sp. nov., an actinobacterium from biological soil crusts that produces melanins under oligotrophy, with emended descriptions of the genus Modestobacter and Modestobacter multiseptatus Mevs et al. 2000.Reddy GSN, Potrafka RM, Garcia-Pichel FInt J Syst Evol Microbiol10.1099/ijs.0.64932-02007Actinomycetales/chemistry/*classification/*isolation & purification/physiology, Bacterial Typing Techniques, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Genes, rRNA, Hydrogen-Ion Concentration, Locomotion/physiology, Melanins/*biosynthesis, Molecular Sequence Data, Peptidoglycan/chemistry, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology, Southwestern United States, TemperatureGenetics
Phylogeny20802061Modestobacter marinus sp. nov., a psychrotolerant actinobacterium from deep-sea sediment, and emended description of the genus Modestobacter.Xiao J, Luo Y, Xu J, Xie S, Xu JInt J Syst Evol Microbiol10.1099/ijs.0.023085-02010Actinomycetales/*classification/genetics/isolation & purification, Atlantic Ocean, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny23148095Modestobacter roseus sp. nov., an endophytic actinomycete isolated from the coastal halophyte Salicornia europaea Linn., and emended description of the genus Modestobacter.Qin S, Bian GK, Zhang YJ, Xing K, Cao CL, Liu CH, Dai CC, Li WJ, Jiang JHInt J Syst Evol Microbiol10.1099/ijs.0.044412-02012Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Salt-Tolerant Plants/microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
6561Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16678)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16678
18404Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM16678.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
32080Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2832628776041
37852Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7599
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
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
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)
75313Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID309546.1StrainInfo: A central database for resolving microbial strain identifiers
123824Curators of the CIPCollection of Institut Pasteur (CIP 109814)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109814