Strain identifier

BacDive ID: 132379

Type strain: Yes

Species: Tessaracoccus rhinocerotis

Strain history: CCTCC AB 2013217 <-- Y. Jiang; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM 101269.

NCBI tax ID(s): 1689449 (species)

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General

@ref: 24168

BacDive-ID: 132379

DSM-Number: 27597

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

description: Tessaracoccus rhinocerotis DSM 27597 is a facultative anaerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from faeces of Rhinoceros unicornis.

NCBI tax id

  • NCBI tax id: 1689449
  • Matching level: species

strain history

@refhistory
24168<- Y. Jiang, YIM; YIM 101269
67770CCTCC AB 2013217 <-- Y. Jiang; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM 101269.

doi: 10.13145/bacdive132379.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Tessaracoccus
  • species: Tessaracoccus rhinocerotis
  • full scientific name: Tessaracoccus rhinocerotis Li et al. 2016

@ref: 24168

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Tessaracoccus

species: Tessaracoccus rhinocerotis

full scientific name: Tessaracoccus rhinocerotis Li et al. 2016

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43823positive1.2-1.5 µm0.6-0.7 µmrod-shapedno
69480no94.161
69480positive100

colony morphology

  • @ref: 43823
  • colony size: 1-2 mm
  • colony color: Brilliant yellow
  • colony shape: circular
  • incubation period: 4 days
  • medium used: TSA agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43823Trypticase Soy Agar (TSA)yes
24168TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43823positivegrowth10-35
43823positiveoptimum28mesophilic
24168positivegrowth28mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
43823positivegrowth6-12alkaliphile
43823positiveoptimum7-8

Physiology and metabolism

oxygen tolerance

  • @ref: 43823
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
43823no
69481no100
69480no99.972

halophily

@refsaltgrowthtested relationconcentration
43823NaClpositivegrowth0-9 %(w/v)
43823NaClpositiveoptimum1 %(w/v)

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4382317128adipate-assimilation
4382327613amygdalin-assimilation
4382327689decanoate-assimilation
4382317057cellobiose-assimilation
4382316947citrate-assimilation
4382316899D-mannitol-assimilation
4382317924D-sorbitol-assimilation
4382315443inulin-assimilation
438236731melezitose-assimilation
4382317268myo-inositol-assimilation
4382318401phenylacetate-assimilation
4382327082trehalose-assimilation
4382317924D-sorbitol-builds acid from
438235291gelatin-hydrolysis
4382328017starch-hydrolysis
4382353425tween 60-hydrolysis
4382353426tween 80-hydrolysis
4382315824D-fructose+assimilation
4382328847D-fucose+assimilation
4382312936D-galactose+assimilation
4382316024D-mannose+assimilation
4382365327D-xylose+assimilation
4382352071dextran+assimilation
4382325115malate+assimilation
4382324265gluconate+assimilation
4382317754glycerol+assimilation
4382317306maltose+assimilation
4382328053melibiose+assimilation
4382326546rhamnose+assimilation
4382330911sorbitol+assimilation
4382317992sucrose+assimilation
4382317108D-arabinose+builds acid from
4382312936D-galactose+builds acid from
4382316899D-mannitol+builds acid from
4382365327D-xylose+builds acid from
438234853esculin+degradation
4382317234glucose+fermentation
43823casein+hydrolysis
4382353424tween 20+hydrolysis
4382353423tween 40+hydrolysis
4382317632nitrate+reduction
4382317108D-arabinose+/-assimilation
4382317634D-glucose+/-assimilation
43823506227N-acetylglucosamine+/-assimilation

metabolite production

@refChebi-IDmetaboliteproduction
4382316136hydrogen sulfideno
4382335581indoleno
4382315688acetoinyes

metabolite tests

  • @ref: 43823
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
43823esterase (C 4)+
43823esterase Lipase (C 8)+
43823leucine arylamidase+3.4.11.1
43823alpha-glucosidase+3.2.1.20
43823beta-galactosidase+3.2.1.23
43823beta-glucosidase+3.2.1.21
43823beta-glucuronidase+3.2.1.31
43823beta-D-fucosidase+3.2.1.38
43823acid phosphatase-3.1.3.2
43823alkaline phosphatase-3.1.3.1
43823arginine dihydrolase-3.5.3.6
43823cystine arylamidase-3.4.11.3
43823lipase (C 14)-
43823lysine decarboxylase-4.1.1.18
43823N-acetyl-beta-glucosaminidase-3.2.1.52
43823ornithine decarboxylase-4.1.1.17
43823valine arylamidase-
43823trypsin-3.4.21.4
43823tryptophan deaminase-4.1.99.1
43823naphthol-AS-BI-phosphohydrolase-
43823urease-3.5.1.5
43823alpha-chymotrypsin-3.4.21.1
43823alpha-galactosidase-3.2.1.22
43823alpha-mannosidase-3.2.1.24
43823cytochrome oxidase-1.9.3.1
43823catalase+1.11.1.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43823C15:0 anteiso67.8
    43823C17:0 anteiso1.5
    43823C14:0 2OH8.8
    43823C16:1H4.3
    43823C14:0 iso 3OH5.5
    43823C15:0 iso7.4
    43823C15:1H iso / C13:0 3OH0.9
    43823C16:0 iso2.2
    43823C17:1 iso I / C17:1 anteiso B1.7
  • type of FA analysis: whole cell analysis
  • incubation medium: TSA
  • agar/liquid: agar
  • incubation temperature: 28
  • incubation time: 4
  • incubation_oxygen: aerobic
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
24168faeces of Rhinoceros unicornisRhinoceros unicornisYunnan province, Yunnan Wild Animal ParkChinaCHNAsia
43823The faeces of Rhinoceros unicornis living in Yunnan Wild Animal ParkYunnan ProvinceChinaCHNAsia
67770Faeces of Rhinoceros unicornis in Yunnan Wild Animal ParkRhinoceros unicornisYunnan Province, south-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Mammals
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_72427.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15360;96_30854;97_39026;98_50754;99_72427&stattab=map
  • Last taxonomy: Tessaracoccus
  • 16S sequence: KT215777
  • Sequence Identity:
  • Total samples: 834
  • soil counts: 153
  • aquatic counts: 98
  • animal counts: 574
  • plant counts: 9

Safety information

risk assessment

  • @ref: 24168
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24168
  • description: Tessaracoccus rhinocerotis strain YIM 101269 16S ribosomal RNA gene, partial sequence
  • accession: KT215777
  • length: 1525
  • database: ena
  • NCBI tax ID: 1689449

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Tessaracoccus rhinocerotis strain YIM 1012691689449.3wgspatric1689449
67770Tessaracoccus rhinocerotis YIM 101269GCA_007197885scaffoldncbi1689449

GC content

  • @ref: 24168
  • GC-content: 69.5
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno92.264yes
gram-positiveyes91.389yes
anaerobicno98.375yes
aerobicyes79.065no
halophileno91.329yes
spore-formingno93.831yes
glucose-utilyes86.646no
flagellatedno98.533yes
thermophileno96.171no
glucose-fermentno56.259yes

External links

@ref: 24168

culture collection no.: DSM 27597, CCTCC AB 2013217, YIM 101269, JCM 33580, DSM 27579

straininfo link

  • @ref: 90723
  • straininfo: 404286

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26621119Tessaracoccus rhinocerotis sp. nov., isolated from the faeces of Rhinoceros unicornis.Li GD, Chen X, Li QY, Xu FJ, Qiu SM, Jiang Y, Jiang CLInt J Syst Evol Microbiol10.1099/ijsem.0.0008122015
Phylogeny27639709Tessaracoccus defluvii sp. nov., isolated from an aeration tank of a sewage treatment plant.Srinivasan S, Sundararaman A, Lee SSAntonie Van Leeuwenhoek10.1007/s10482-016-0766-62016Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Phylogeny, Propionibacteriaceae/classification/genetics/*isolation & purification/metabolism, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sewage/*microbiologyMetabolism
Phylogeny29297849Tessaracoccus terricola sp. nov., isolated from oil-contaminated soil.Chaudhary DK, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0025372018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nepal, Nucleic Acid Hybridization, *Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, Pigmentation, Propionibacteriaceae/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/chemistry, Spermine/chemistry, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny30141771Aestuariimicrobium soli sp. nov., isolated from farmland soil, and emended description of the genus Aestuariimicrobium.Chen LL, Chen F, Zhao HZ, Feng ZZ, Zhang H, Huang XInt J Syst Evol Microbiol10.1099/ijsem.0.0029862018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, *Farms, Fatty Acids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Propionibacteriaceae/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny31860427Tessaracoccus antarcticus sp. nov., a rhodopsin-containing bacterium from an Antarctic environment and emended description of the genus Tessaracoccus.Zhou LY, Zhang JY, Chen XY, Du ZJ, Mu DSInt J Syst Evol Microbiol10.1099/ijsem.0.0039302020Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Phospholipids/chemistry, *Phylogeny, Propionibacteriaceae/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, *Rhodopsin, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
24168Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-27597Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27597)
43823Gui-Ding Li, Xiu Chen, Qin-Yuan Li, Fang-Ji Xu, Shu-Mei Qiu, Yi Jiang, Cheng-Lin JiangTessaracoccus rhinocerotis sp. nov., isolated from the faeces of Rhinoceros unicornis10.1099/ijsem.0.000812IJSEM 66: 922-927 201626621119
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
90723Reimer, 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-ID404286.1