Strain identifier

BacDive ID: 3240

Type strain: Yes

Species: Corynebacterium humireducens

Strain Designation: MFC-5

Strain history: <- C. Wu,Guangdong Detection Center of Microbiolgy, China; CGMCC-2452

NCBI tax ID(s): 1223515 (strain), 1223514 (species)

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General

@ref: 16582

BacDive-ID: 3240

DSM-Number: 45392

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

description: Corynebacterium humireducens MFC-5 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from microbial fuel cell.

NCBI tax id

NCBI tax idMatching level
1223514species
1223515strain

strain history

  • @ref: 16582
  • history: <- C. Wu,Guangdong Detection Center of Microbiolgy, China; CGMCC-2452

doi: 10.13145/bacdive3240.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Corynebacteriaceae
  • genus: Corynebacterium
  • species: Corynebacterium humireducens
  • full scientific name: Corynebacterium humireducens Wu et al. 2011

@ref: 16582

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium humireducens

full scientific name: Corynebacterium humireducens Wu et al. 2011 emend. Nouioui et al. 2018

strain designation: MFC-5

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29785positive1.5 µm0.6 µmrod-shapedno
69480no92.568
69480positive100

colony morphology

@refcolony colormedium used
69392Golden yellow (1004), oyster white (1013)suter without tyrosine
69392Golden yellow (1004), oyster white (1013)suter with tyrosine
69392Ivory (1014)ISP 2
69392Oyster white (1013)ISP 3
69392Oyster white (1013)ISP 4
69392Oyster white (1013)ISP 5
69392Oyster white (1013), ivory (1014)ISP 7
69392Sand yellow (1002)ISP 6

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69392noAerial myceliumISP 2
69392noAerial myceliumISP 3
69392noAerial myceliumISP 4
69392noAerial myceliumISP 5
69392noAerial myceliumISP 6
69392noAerial myceliumISP 7
69392noAerial myceliumsuter with tyrosine
69392noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
69392noMelanin
69392nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
69392DSM_45392_image3.jpegPlates (535, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69392DSM_45392_image4.jpegPlates (535, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16582TRYPTICASE 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
16582TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a)yeshttps://mediadive.dsmz.de/medium/535aName: TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) Composition: None 50.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16582positivegrowth28mesophilic
29785positivegrowth25-45
29785positiveoptimum37mesophilic
62141positivegrowth4-45

culture pH

@refabilitytypepHPH range
29785positivegrowth07-11alkaliphile
29785positiveoptimum9

Physiology and metabolism

oxygen tolerance

  • @ref: 29785
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.921

halophily

@refsaltgrowthtested relationconcentrationhalophily level
29785NaClpositivegrowth0-13 %
29785NaClpositiveoptimum10 %
62141NaClpositivegrowth<13 %halotolerant
69392NaClpositivegrowth0-7.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2978530089acetate+carbon source
2978516236ethanol+carbon source
2978515740formate+carbon source
2978524996lactate+carbon source
2978517992sucrose+carbon source
6939222599arabinose-growth
6939262968cellulose-growth
6939228757fructose+growth
6939217234glucose+growth
6939217268inositol-growth
6939237684mannose-growth
6939216634raffinose-growth
6939226546rhamnose-growth
6939217992sucrose-growth
6939218222xylose-growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose+fermentation
6837916988D-ribose+fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
29785alkaline phosphatase+3.1.3.1
29785catalase+1.11.1.6
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
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68379catalase+1.11.1.6
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
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase+3.5.1.B15

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYGCAT
62141-+-+--------++--+---+
69392-+---------++------

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
62141-----+--------------
69392+/-++-++/-+/----+/---------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
16582microbial fuel cellChinaCHNAsia
62141MFC (fuel cell) fed with artificial wastewaterChinaCHNAsia

isolation source categories

  • Cat1: #Host
  • Cat2: #Microbial

taxonmaps

  • @ref: 69479
  • File name: preview.99_4711.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_2122;97_2557;98_3168;99_4711&stattab=map
  • Last taxonomy: Corynebacterium humireducens
  • 16S sequence: GQ421281
  • Sequence Identity:
  • Total samples: 3063
  • soil counts: 392
  • aquatic counts: 366
  • animal counts: 2082
  • plant counts: 223

Safety information

risk assessment

  • @ref: 16582
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16582
  • description: Corynebacterium humireducens NBRC 106098 strain MFC-5 16S ribosomal RNA gene, partial sequence
  • accession: GQ421281
  • length: 1401
  • database: ena
  • NCBI tax ID: 1223515

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium humireducens NBRC 106098 = DSM 45392GCA_001571025contigncbi1223515
66792Corynebacterium humireducens NBRC 106098 = DSM 45392GCA_000819445completencbi1223515
66792Corynebacterium humireducens NBRC 106098 = DSM 453921223515.4wgspatric1223515
66792Corynebacterium humireducens NBRC 106098 = DSM 453921223515.3completepatric1223515
66792Corynebacterium humireducens NBRC 106098 Genome sequencing2597490360completeimg1223515
66792Corynebacterium humireducens NBRC 1060982731957615draftimg1223515

GC content

@refGC-contentmethod
1658259.0high performance liquid chromatography (HPLC)
2978559

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.29yes
flagellatedno97.529yes
gram-positiveyes92.075yes
anaerobicno98.387no
aerobicno51.411yes
halophileyes78.308yes
spore-formingno86.714no
glucose-utilyes87.414yes
thermophileno98.852yes
glucose-fermentno53.318yes

External links

@ref: 16582

culture collection no.: CCUG 59866, CGMCC 2452, DSM 45392, NBRC 106098

straininfo link

  • @ref: 72754
  • straininfo: 401942

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20495037Corynebacterium humireducens sp. nov., an alkaliphilic, humic acid-reducing bacterium isolated from a microbial fuel cell.Wu CY, Zhuang L, Zhou SG, Li FB, He JInt J Syst Evol Microbiol10.1099/ijs.0.020909-02010Anaerobiosis, Anthraquinones/metabolism, Bacterial Typing Techniques, Base Composition, Bioelectric Energy Sources/*microbiology, Cluster Analysis, Corynebacterium/*classification/*isolation & purification/physiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureMetabolism
Metabolism23217085Humic substance-mediated reduction of iron(III) oxides and degradation of 2,4-D by an alkaliphilic bacterium, Corynebacterium humireducens MFC-5.Wu CY, Zhuang L, Zhou SG, Yuan Y, Yuan T, Li FBMicrob Biotechnol10.1111/1751-7915.1200320122,4-Dichlorophenoxyacetic Acid/*metabolism, Biodegradation, Environmental, Biotechnology/methods, Corynebacterium/classification/*metabolism, Ferric Compounds/*metabolism, *Humic Substances, Hydrogen-Ion Concentration, Oxidation-Reduction, Quinones/metabolism, Spectroscopy, Fourier Transform InfraredBiotechnology
Phylogeny26243302Corynebacterium tapiri sp. nov. and Corynebacterium nasicanis sp. nov., isolated from a tapir and a dog, respectively.Baumgardt S, Loncaric I, Kampfer P, Busse HJInt J Syst Evol Microbiol10.1099/ijsem.0.0005102015Animals, Bacterial Typing Techniques, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Dogs/*microbiology, Fatty Acids/chemistry, Glycolipids/chemistry, Molecular Sequence Data, Nose/microbiology, Nucleic Acid Hybridization, Palatine Tonsil/microbiology, Peptidoglycan/chemistry, Perissodactyla/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistryGenetics
Phylogeny27216930Corynebacterium guangdongense sp. nov., isolated from a contaminated plate.Li YX, Yang SZ, Feng GD, Wang YH, Zhu HHInt J Syst Evol Microbiol10.1099/ijsem.0.0011772016Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Laboratories, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny27267453Corynebacteriumpollutisoli sp. nov., isolated from hexachlorocyclohexane-contaminated soil.Negi V, Singh Y, Schumann P, Lal RInt J Syst Evol Microbiol10.1099/ijsem.0.0012282016Bacterial Typing Techniques, Base Composition, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Hexachlorocyclohexane/analysis, India, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants/*analysis, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny30688628Corynebacterium alimapuense sp. nov., an obligate marine actinomycete isolated from sediment of Valparaiso bay, Chile.Claverias F, Gonzales-Siles L, Salva-Serra F, Inganas E, Molin K, Cumsille A, Undabarrena A, Couve E, Moore ERB, Tindall BJ, Gomila M, Camara BInt J Syst Evol Microbiol10.1099/ijsem.0.0032372019Bacterial Typing Techniques, Base Composition, Bays, Chile, Corynebacterium/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Glycolipids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16582Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45392)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45392
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
29785Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2616528776041
62141Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 59866)https://www.ccug.se/strain?id=59866
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)
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69392Wink, J.https://cdn.dsmz.de/wink/DSM%2045392.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
72754Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401942.1StrainInfo: A central database for resolving microbial strain identifiers