Strain identifier

BacDive ID: 2385

Type strain: Yes

Species: Actinotalea fermentans

Strain Designation: M

Strain history: CIP <- 1987, DSMZ <- J.P. Belaich

NCBI tax ID(s): 862422 (strain), 43671 (species)

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General

@ref: 1308

BacDive-ID: 2385

DSM-Number: 3133

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive

description: Actinotalea fermentans M is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from municipal dumping ground.

NCBI tax id

NCBI tax idMatching level
862422strain
43671species

strain history

@refhistory
1308<- J.P. Belaich, M
67770DSM 3133 <-- J. P. Belaich strain M.
119307CIP <- 1987, DSMZ <- J.P. Belaich

doi: 10.13145/bacdive2385.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Cellulomonadaceae
  • genus: Actinotalea
  • species: Actinotalea fermentans
  • full scientific name: Actinotalea fermentans (Bagnara et al. 1985) Yi et al. 2007

  • synonyms

    • @ref: 20215
    • synonym: Cellulomonas fermentans

@ref: 1308

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Cellulomonadaceae

genus: Actinotalea

species: Actinotalea fermentans

full scientific name: Actinotalea fermentans (Bagnara et al. 1985) Yi et al. 2007

strain designation: M

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shape
69480positive99.999
119307positiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
18460Colorless10-14 daysISP 2
18460Colorless10-14 daysISP 3

multicellular morphology

@refforms multicellular complexmedium name
18460noISP 2
18460noISP 3

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
18460ISP 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
18460ISP 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:
1308CELLULOMONAS FERMENTANS MEDIUM (DSMZ Medium 350)yesName: CELLULOMONAS FERMENTANS MEDIUM (DSMZ Medium 350) Composition: Cellulose 5.0 g/l Cellobiose 5.0 g/l Yeast extract 5.0 g/l K2HPO4 2.21 g/l KH2PO4 1.5 g/l (NH4)2SO4 1.3 g/l NaHCO3 0.8 g/l L-Cysteine HCl x H2O 0.5 g/l MgCl2 x 6 H2O 0.1 g/l CaCl2 x 2 H2O 0.02 g/l FeSO4 x 7 H2O 0.00125 g/l Resazurin 0.001 g/l Distilled waterhttps://mediadive.dsmz.de/medium/350
37986MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
1308PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yesName: PYG MEDIUM (modified) (DSMZ Medium 104; with strain-specific modifications) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l Cellobiose 3.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Vitamin K1 NaOH Tween 80 Distilled waterhttps://mediadive.dsmz.de/medium/104
119307CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
18460positiveoptimum28mesophilic
1308positivegrowth30mesophilic
37986positivegrowth30mesophilic
67770positivegrowth30mesophilic
119307positivegrowth30-41

Physiology and metabolism

oxygen tolerance

  • @ref: 119307
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no98
69480no99.997

halophily

  • @ref: 18460
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-10(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1846017234glucose-
1846022599arabinose-
1846017992sucrose-
1846018222xylose-
1846017268myo-inositol-
1846029864mannitol-
1846028757fructose-
1846026546rhamnose-
1846016634raffinose-
1846062968cellulose-
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
6837132528turanose+builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen+builds acid from
6837128017starch+builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+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
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
1193074853esculin+hydrolysis
11930717632nitrate+reduction
11930716301nitrite-reduction
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose+fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

antibiotic resistance

  • @ref: 119307
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836835581indoleno
6836816136hydrogen sulfideno
11930735581indoleno

metabolite tests

  • @ref: 68368
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
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
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase-3.1.3.2
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
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase+3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase+3.5.1.B15
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
119307oxidase-
119307alcohol dehydrogenase-1.1.1.1
119307amylase+
119307caseinase-3.4.21.50
119307catalase+1.11.1.6
119307lysine decarboxylase-4.1.1.18
119307ornithine decarboxylase-4.1.1.17
119307urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18460-++-+-----------+--

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18460-++-+-----------+--

API 20E

@refADH ArgLDC LysODCCITH2SURETDA TrpINDGEL
18460---------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119307---+-+---++++----++-----+/-+/-+++/--++--+/-++-+++/---------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
1308municipal dumping groundMonaubertFranceFRAEurope
67770Municipal dumping groundMontaubert, EssoneFranceFRAEurope
119307Other, Dumping groundMonaubertFranceFRAEurope

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Solid waste

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
13081Risk group (German classification)
184601
1193071Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Actinotalea fermentans ATCC 43279 strain DSM 3133 16S ribosomal RNA gene, partial sequenceJQ899213651ena862422
20218C.fermentans DSM 3133 16S rDNAX794581486ena862422
20218C.fermentans 16S rRNA geneX838051453ena862422
67770Actinotalea fermentans gene for 16S rRNA, partial sequenceAB6390141478ena43671

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinotalea fermentans NBRC 105374GCA_007991475contigncbi43671
66792Actinotalea fermentans ATCC 43279 = JCM 9966 = DSM 3133862422.8wgspatric862422
66792Actinotalea fermentans ATCC 43279 = JCM 9966 = DSM 3133862422.3wgspatric862422
66792Actinotalea fermentans ATCC 43279 = JCM 9966 = DSM 3133862422.7wgspatric862422
66792Actinotalea fermentans strain NBRC 10537443671.3wgspatric43671
66792Actinotalea fermentans ATCC 43279, JCM 9966, DSM 31332734481966draftimg862422
66792Actinotalea fermentans DSM 31332636415524draftimg862422
67770Actinotalea fermentans ATCC 43279 = JCM 9966 = DSM 3133GCA_000767215contigncbi862422
67770Actinotalea fermentans ATCC 43279 = JCM 9966 = DSM 3133GCA_001313965contigncbi862422
67770Actinotalea fermentans ATCC 43279 = JCM 9966 = DSM 3133GCA_004769145scaffoldncbi862422

GC content

@refGC-contentmethod
130875.8
6777075.8thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno98no
motileyes68.489no
flagellatedno90.028no
gram-positiveyes89.692no
anaerobicno99.261no
halophileno92.82no
spore-formingno86.021no
glucose-utilyes83.269yes
aerobicyes93.072no
thermophileno99.718yes
glucose-fermentno74.226yes

External links

@ref: 1308

culture collection no.: DSM 3133, ATCC 43279, CFBP 4259, CIP 103003, JCM 9966, LMG 16154, NBRC 105374, NBRC 15517, BCRC 14866, IFO 15517, KCTC 3251, LMG 17239

straininfo link

  • @ref: 71940
  • straininfo: 8220

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17220458Demequina aestuarii gen. nov., sp. nov., a novel actinomycete of the suborder Micrococcineae, and reclassification of Cellulomonas fermentans Bagnara et al. 1985 as Actinotalea fermentans gen. nov., comb. nov.Yi H, Schumann P, Chun JInt J Syst Evol Microbiol10.1099/ijs.0.64525-02007Actinomycetales/chemistry/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cellulomonas/chemistry/*classification/genetics, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny23524356Actinotalea ferrariae sp. nov., isolated from an iron mine, and emended description of the genus Actinotalea.Li Y, Chen F, Dong K, Wang GInt J Syst Evol Microbiol10.1099/ijs.0.048512-02013Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, *Iron, *Mining, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analysisGenetics
Phylogeny27902298Pseudactinotalea terrae gen. nov., sp. nov., isolated from greenhouse soil, and reclassification of Actinotalea suaedae as Pseudactinotalea suaedae comb. nov.Cho H, Hamada M, Ahn JH, Weon HY, Joa JH, Suzuki KI, Kwon SW, Kim SJInt J Syst Evol Microbiol10.1099/ijsem.0.0017012017Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny28036250Actinotalea caeni sp. nov., isolated from a sludge sample of a biofilm reactor.Jin L, Ko SR, Lee CS, Ahn CY, Lee JS, Lee KC, Oh HM, Lee HGInt J Syst Evol Microbiol10.1099/ijsem.0.0017692017Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, *Biofilms, Bioreactors/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Sewage/*microbiology, Ubiquinone/chemistryTranscriptome
Metabolism28751273Overexpression and characterization of a recombinant l-ribose isomerase from Actinotalea fermentans ATCC 43279.Tseng WC, Wu TJ, Chang YJ, Cheng HW, Fang TYJ Biotechnol10.1016/j.jbiotec.2017.07.0232017Actinobacteria/enzymology/*genetics, Aldose-Ketose Isomerases/chemistry/genetics/*metabolism, Chromatography, High Pressure Liquid, Enzyme Stability, Escherichia coli/genetics, Hydrogen-Ion Concentration, Metals, Heavy, Pentoses/metabolism, Recombinant Proteins/chemistry/genetics/*metabolism, Ribose/analysis/metabolism, TemperatureEnzymology
Phylogeny29458505Actinotalea solisilvae sp. nov., isolated from forest soil and emended description of the genus Actinotalea.Yan ZF, Lin P, Li CT, Kook M, Yi THInt J Syst Evol Microbiol10.1099/ijsem.0.0025842018Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Glycolipids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryTranscriptome
Metabolism31720977Isolation and subunit structure of the xylanosome complex produced by Actinotalea fermentans JCM9966.Dou TY, Chen J, Liu WJ, Wang LBiotechnol Lett10.1007/s10529-019-02761-82019Actinobacteria/*enzymology, Cellulosomes/*chemistry/*metabolism, Particle Size, Polysaccharides/*metabolism, Protein Subunits/*chemistry/*metabolism, Proteome/analysisPhylogeny
Enzymology32617845Characterization of an L-Arabinose Isomerase from Bacillus velezensis and Its Application for L-Ribulose and L-Ribose Biosynthesis.Guo Z, Long L, Ding SAppl Biochem Biotechnol10.1007/s12010-020-03380-02020Aldose-Ketose Isomerases/genetics/*metabolism, Bacillus/*enzymology/metabolism, Cloning, Molecular, Escherichia coli/genetics, Gene Expression, Hydrogen-Ion Concentration, Pentoses/*biosynthesis, Ribose/*biosynthesis, TemperatureMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1308Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3133)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3133
18460Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM3133.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
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
37986Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14751
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/
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
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
71940Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID8220.1StrainInfo: A central database for resolving microbial strain identifiers
119307Curators of the CIPCollection of Institut Pasteur (CIP 103003)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103003