Strain identifier

BacDive ID: 7783

Type strain: Yes

Species: Rothia terrae

Strain Designation: L-143

Strain history: BCRC 17588 <-- W.-M. Chen L-143.

NCBI tax ID(s): 396015 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 16173

BacDive-ID: 7783

DSM-Number: 22277

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

description: Rothia terrae L-143 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from wasteland soil.

NCBI tax id

  • NCBI tax id: 396015
  • Matching level: species

strain history

@refhistory
16173<- LMG; LMG 23708 <- W.-M. Chen; L-143; Dep. of Seafood Science Nat. Kaohsiung Marine University, Taiwan, Province of China
67770BCRC 17588 <-- W.-M. Chen L-143.

doi: 10.13145/bacdive7783.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Rothia
  • species: Rothia terrae
  • full scientific name: Rothia terrae Chou et al. 2008

@ref: 16173

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Rothia

species: Rothia terrae

full scientific name: Rothia terrae Chou et al. 2008

strain designation: L-143

type strain: yes

Morphology

cell morphology

  • @ref: 32234
  • gram stain: positive
  • cell length: 1 µm
  • cell width: 0.75 µm
  • cell shape: ovoid-shaped
  • motility: no

pigmentation

  • @ref: 32234
  • production: no

Culture and growth conditions

culture medium

  • @ref: 16173
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/92
  • composition: Name: 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
16173positivegrowth28mesophilic
32234positivegrowth15-40
32234positiveoptimum35mesophilic
60760positivegrowth37mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
32234positivegrowth05-10alkaliphile
32234positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32234facultative anaerobe
60760aerobe

spore formation

  • @ref: 32234
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
32234NaClpositivegrowth0-7 %
32234NaClpositiveoptimum0.25 %

observation

  • @ref: 67770
  • observation: quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3223423652dextrin+carbon source
3223428757fructose+carbon source
3223417234glucose+carbon source
3223417754glycerol+carbon source
3223428087glycogen+carbon source
3223424996lactate+carbon source
3223417306maltose+carbon source
3223437684mannose+carbon source
3223451850methyl pyruvate+carbon source
3223417822serine+carbon source
3223417992sucrose+carbon source
3223427082trehalose+carbon source
322344853esculin+hydrolysis
3223417632nitrate+reduction
6837516199urea+hydrolysis
6837529016arginine-hydrolysis
6837518257ornithine-degradation
683754853esculin+hydrolysis
6837517634D-glucose+fermentation
6837515824D-fructose+fermentation
6837516024D-mannose+fermentation
6837517306maltose+fermentation
6837517716lactose+fermentation
6837527082trehalose+fermentation
6837516899D-mannitol-fermentation
6837516634raffinose-fermentation
6837516988D-ribose-fermentation
6837517057cellobiose-fermentation
6837517632nitrate+reduction
6837517992sucrose+fermentation
6837559640N-acetylglucosamine-fermentation
6837532528turanose+fermentation
6837522599arabinose-fermentation

antibiotic resistance

  • @ref: 68375
  • ChEBI: 28368
  • metabolite: novobiocin
  • is antibiotic: yes
  • is sensitive: yes
  • sensitivity conc.: 1.8 µg

metabolite production

  • @ref: 68375
  • Chebi-ID: 15688
  • metabolite: acetoin
  • production: yes

metabolite tests

  • @ref: 68375
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
32234alkaline phosphatase+3.1.3.1
32234catalase+1.11.1.6
32234gelatinase+
32234pyrazinamidase+3.5.1.B15
68375beta-glucuronidase-3.2.1.31
68375alkaline phosphatase+3.1.3.1
68375beta-galactosidase+3.2.1.23
68375beta-glucosidase+3.2.1.21
68375ornithine decarboxylase-4.1.1.17
68375arginine dihydrolase-3.5.3.6
68375urease+3.5.1.5

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
16173+--+++++++----++++/-++/--+-+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16173wasteland soilTainan CountyTaiwanTWNAsia
60760SoilTainan CountyTaiwanTWNAsia
67770Wasteland soilTainan CountyTaiwanTWNAsia

isolation source categories

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

Safety information

risk assessment

  • @ref: 16173
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16173
  • description: Rothia terrae strain L-143 16S ribosomal RNA gene, partial sequence
  • accession: DQ822568
  • length: 1436
  • database: ena
  • NCBI tax ID: 396015

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rothia terrae strain LMG 23708396015.3wgspatric396015
67770Rothia terrae LMG 23708GCA_012396615contigncbi396015

GC content

@refGC-contentmethod
1617356.1
6777056.1high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveyes96.184yes
anaerobicno98.989no
halophileyes64.466no
spore-formingno94.597yes
glucose-utilyes87.631yes
aerobicyes66.263no
flagellatedno97.144yes
thermophileno96.895yes
motileno95.781yes
glucose-fermentyes60.358no

External links

@ref: 16173

culture collection no.: DSM 22277, BCRC 17588, LMG 23708, CCUG 55855, JCM 15158

straininfo link

  • @ref: 77226
  • straininfo: 291593

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18175688Rothia terrae sp. nov. isolated from soil in Taiwan.Chou YJ, Chou JH, Lin KY, Lin MC, Wei YH, Arun AB, Young CC, Chen WMInt J Syst Evol Microbiol10.1099/ijs.0.65172-02008Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Genes, rRNA, Micrococcaceae/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity, TaiwanGenetics
Phylogeny23710050Rothia endophytica sp. nov., an actinobacterium isolated from Dysophylla stellata (Lour.) Benth.Xiong ZJ, Zhang JL, Zhang DF, Zhou ZL, Liu MJ, Zhu WY, Zhao LX, Xu LH, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.052522-02013Bacterial Typing Techniques, Base Composition, Cardiolipins/chemistry, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lamiaceae/*microbiology, Micrococcaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny23793563Rothia marina sp. nov., isolated from an intertidal sediment of the South China Sea.Liu ZX, Yang LL, Huang Y, Zhao H, Liu H, Tang SK, Li WJ, Chen YGAntonie Van Leeuwenhoek10.1007/s10482-013-9955-82013Amino Acids/analysis, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, *Geologic Sediments, Gram-Positive Cocci/chemistry/*classification/genetics/*isolation & purification, Hydrogen-Ion Concentration, Micrococcaceae/chemistry/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Oceans and Seas, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride, TemperatureEnzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16173Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22277)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22277
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
32234Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2847628776041
60760Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 55855)https://www.ccug.se/strain?id=55855
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/
68375Automatically annotated from API ID32STA
77226Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID291593.1StrainInfo: A central database for resolving microbial strain identifiers