Strain identifier

BacDive ID: 130655

Type strain: Yes

Species: Thauera humireducens

Strain Designation: SgZ-1

Strain history: <- KACC <- G.-Q. Yang et al., Guangdong Institute of Eco-Environmental and Soil Science, Guangzhou

NCBI tax ID(s): 1134435 (species)

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General

@ref: 21841

BacDive-ID: 130655

DSM-Number: 100429

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

description: Thauera humireducens SgZ-1 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from anode biofilm of microbial fuel cell.

NCBI tax id

  • NCBI tax id: 1134435
  • Matching level: species

strain history

  • @ref: 21841
  • history: <- KACC <- G.-Q. Yang et al., Guangdong Institute of Eco-Environmental and Soil Science, Guangzhou

doi: 10.13145/bacdive130655.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Rhodocyclales
  • family: Zoogloeaceae
  • genus: Thauera
  • species: Thauera humireducens
  • full scientific name: Thauera humireducens Yang et al. 2013

@ref: 21841

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Rhizobiales

family: Zoogloeaceae

genus: Thauera

species: Thauera humireducens

full scientific name: Thauera humireducens Yang et al. 2013

strain designation: SgZ-1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30644negative2.15 µm0.7 µmrod-shapedyes
69480yes98.8
69480negative100

pigmentation

  • @ref: 30644
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 21841
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
21841positivegrowth28mesophilic
30644positivegrowth10-45
30644positiveoptimum31mesophilic

culture pH

@refabilitytypepHPH range
30644positivegrowth06-10alkaliphile
30644positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 30644
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
30644no
69481no100
69480no99.957

halophily

@refsaltgrowthtested relationconcentration
30644NaClpositivegrowth0-5.5 %
30644NaClpositiveoptimum0.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
30644161933-hydroxybenzoate+carbon source
30644370543-hydroxybutyrate+carbon source
30644178794-hydroxybenzoate+carbon source
3064430089acetate+carbon source
3064416449alanine+carbon source
3064424996lactate+carbon source
3064426271proline+carbon source
3064417272propionate+carbon source
3064417822serine+carbon source
3064431011valerate+carbon source
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
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

@refChebi-IDmetaboliteproduction
3064435581indoleyes
6836935581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
3064435581indole+
6836935581indole-

enzymes

@refvalueactivityec
30644urease+3.5.1.5
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
21841-----------------+--+

Isolation, sampling and environmental information

isolation

  • @ref: 21841
  • sample type: anode biofilm of microbial fuel cell
  • geographic location: Guangdong Province
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2
#Engineered
#Environmental#Biofilm
#Environmental#Microbial community

taxonmaps

  • @ref: 69479
  • File name: preview.99_4483.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_129;96_594;97_695;98_3369;99_4483&stattab=map
  • Last taxonomy: Thauera humireducens subclade
  • 16S sequence: JQ038037
  • Sequence Identity:
  • Total samples: 389
  • soil counts: 9
  • aquatic counts: 323
  • animal counts: 52
  • plant counts: 5

Safety information

risk assessment

  • @ref: 21841
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21841
  • description: Thauera humireducens strain SgZ-1 16S ribosomal RNA gene, partial sequence
  • accession: JQ038037
  • length: 1444
  • database: ena
  • NCBI tax ID: 1134435

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thauera humireducens SgZ-1GCA_001051995completencbi1134435
66792Thauera humireducens SgZ-12775507244completeimg1134435

GC content

  • @ref: 21841
  • GC-content: 65.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes92.291yes
motileyes92.291yes
flagellatedyes90.598no
flagellatedyes90.598no
gram-positiveno99.235yes
gram-positiveno99.235yes
anaerobicno92.932no
anaerobicno92.932no
aerobicyes66.227yes
aerobicyes66.227yes
halophileno87.964yes
halophileno87.964yes
spore-formingno95.715yes
spore-formingno95.715yes
glucose-utilno71.033yes
glucose-utilno71.033yes
thermophileno97.981yes
thermophileno97.981yes
glucose-fermentno87.401no
glucose-fermentno87.401no

External links

@ref: 21841

culture collection no.: DSM 100429, CCTCC M 2011497, KACC 16524

straininfo link

  • @ref: 89166
  • straininfo: 397409

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22634698Thauera humireducens sp. nov., a humus-reducing bacterium isolated from a microbial fuel cell.Yang GQ, Zhang J, Kwon SW, Zhou SG, Han LC, Chen M, Ma C, Zhuang LInt J Syst Evol Microbiol10.1099/ijs.0.040956-02012Bacterial Typing Techniques, Bioelectric Energy Sources/*microbiology, Biofilms, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, *Phylogeny, Putrescine/analogs & derivatives/analysis, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, Thauera/*classification/genetics/isolation & purificationGenetics
Metabolism25503315Anaerobic humus and Fe(III) reduction and electron transport pathway by a novel humus-reducing bacterium, Thauera humireducens SgZ-1.Ma C, Yu Z, Lu Q, Zhuang L, Zhou SGAppl Microbiol Biotechnol10.1007/s00253-014-6254-x2014Anaerobiosis, Carboxylic Acids/metabolism, Cytochromes c/metabolism, *Electron Transport, Iron/*metabolism, Oxidation-Reduction, Oxidoreductases/metabolism, Soil, *Soil Microbiology, Thauera/*metabolismEnzymology
Genetics27002232Complete genome of Thauera humireducens SgZ-1, a potential bacterium for environmental remediation and wastewater treatment.Ma C, Yang G, Zhang Q, Zhuang L, Zhou SJ Biotechnol10.1016/j.jbiotec.2016.03.0292016Base Composition, Environmental Restoration and Remediation, Genome Size, *Genome, Bacterial, Sequence Analysis, DNA, Thauera/*genetics, Water MicrobiologyTranscriptome
Phylogeny29185938Thauera propionica sp. nov., isolated from downstream sediment sample of the river Ganges, Kanpur, India.Pal D, Bhardwaj A, Sudan SK, Kaur N, Kumari M, Bisht B, Vyas B, Krishnamurthi S, Mayilraj SInt J Syst Evol Microbiol10.1099/ijsem.0.0025082017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Thauera/*classification/genetics/isolation & purification, Ubiquinone/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
21841Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100429Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100429)
30644Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172697528776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68369Automatically annotated from API 20NE
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
89166Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID397409.1