Strain identifier
BacDive ID: 7783
Type strain:
Species: Rothia terrae
Strain Designation: L-143
Strain history: BCRC 17588 <-- W.-M. Chen L-143.
NCBI tax ID(s): 396015 (species)
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
@ref | history |
---|---|
16173 | <- LMG; LMG 23708 <- W.-M. Chen; L-143; Dep. of Seafood Science Nat. Kaohsiung Marine University, Taiwan, Province of China |
67770 | BCRC 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
@ref | growth | type | temperature | range |
---|---|---|---|---|
16173 | positive | growth | 28 | mesophilic |
32234 | positive | growth | 15-40 | |
32234 | positive | optimum | 35 | mesophilic |
60760 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
32234 | positive | growth | 05-10 | alkaliphile |
32234 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
32234 | facultative anaerobe |
60760 | aerobe |
spore formation
- @ref: 32234
- spore formation: no
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32234 | NaCl | positive | growth | 0-7 % |
32234 | NaCl | positive | optimum | 0.25 % |
observation
- @ref: 67770
- observation: quinones: MK-7
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32234 | 23652 | dextrin | + | carbon source |
32234 | 28757 | fructose | + | carbon source |
32234 | 17234 | glucose | + | carbon source |
32234 | 17754 | glycerol | + | carbon source |
32234 | 28087 | glycogen | + | carbon source |
32234 | 24996 | lactate | + | carbon source |
32234 | 17306 | maltose | + | carbon source |
32234 | 37684 | mannose | + | carbon source |
32234 | 51850 | methyl pyruvate | + | carbon source |
32234 | 17822 | serine | + | carbon source |
32234 | 17992 | sucrose | + | carbon source |
32234 | 27082 | trehalose | + | carbon source |
32234 | 4853 | esculin | + | hydrolysis |
32234 | 17632 | nitrate | + | reduction |
68375 | 16199 | urea | + | hydrolysis |
68375 | 29016 | arginine | - | hydrolysis |
68375 | 18257 | ornithine | - | degradation |
68375 | 4853 | esculin | + | hydrolysis |
68375 | 17634 | D-glucose | + | fermentation |
68375 | 15824 | D-fructose | + | fermentation |
68375 | 16024 | D-mannose | + | fermentation |
68375 | 17306 | maltose | + | fermentation |
68375 | 17716 | lactose | + | fermentation |
68375 | 27082 | trehalose | + | fermentation |
68375 | 16899 | D-mannitol | - | fermentation |
68375 | 16634 | raffinose | - | fermentation |
68375 | 16988 | D-ribose | - | fermentation |
68375 | 17057 | cellobiose | - | fermentation |
68375 | 17632 | nitrate | + | reduction |
68375 | 17992 | sucrose | + | fermentation |
68375 | 59640 | N-acetylglucosamine | - | fermentation |
68375 | 32528 | turanose | + | fermentation |
68375 | 22599 | arabinose | - | 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
@ref | value | activity | ec |
---|---|---|---|
32234 | alkaline phosphatase | + | 3.1.3.1 |
32234 | catalase | + | 1.11.1.6 |
32234 | gelatinase | + | |
32234 | pyrazinamidase | + | 3.5.1.B15 |
68375 | beta-glucuronidase | - | 3.2.1.31 |
68375 | alkaline phosphatase | + | 3.1.3.1 |
68375 | beta-galactosidase | + | 3.2.1.23 |
68375 | beta-glucosidase | + | 3.2.1.21 |
68375 | ornithine decarboxylase | - | 4.1.1.17 |
68375 | arginine dihydrolase | - | 3.5.3.6 |
68375 | urease | + | 3.5.1.5 |
API ID32STA
@ref | URE | ADH Arg | ODC | ESC | GLU | FRU | MNE | MAL | LAC | TRE | MAN | RAF | RIB | CEL | NIT | VP | beta GAL | ArgA | PAL | PyrA | NOVO | SAC | NAG | TUR | ARA | beta GUR |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
16173 | + | - | - | + | + | + | + | + | + | + | - | - | - | - | + | + | + | +/- | + | +/- | - | + | - | + | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
16173 | wasteland soil | Tainan County | Taiwan | TWN | Asia |
60760 | Soil | Tainan County | Taiwan | TWN | Asia |
67770 | Wasteland soil | Tainan County | Taiwan | TWN | Asia |
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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Rothia terrae strain LMG 23708 | 396015.3 | wgs | patric | 396015 |
67770 | Rothia terrae LMG 23708 | GCA_012396615 | contig | ncbi | 396015 |
GC content
@ref | GC-content | method |
---|---|---|
16173 | 56.1 | |
67770 | 56.1 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
gram-positive | yes | 96.184 | yes |
anaerobic | no | 98.989 | no |
halophile | yes | 64.466 | no |
spore-forming | no | 94.597 | yes |
glucose-util | yes | 87.631 | yes |
aerobic | yes | 66.263 | no |
flagellated | no | 97.144 | yes |
thermophile | no | 96.895 | yes |
motile | no | 95.781 | yes |
glucose-ferment | yes | 60.358 | no |
External links
@ref: 16173
culture collection no.: DSM 22277, BCRC 17588, LMG 23708, CCUG 55855, JCM 15158
straininfo link
- @ref: 77226
- straininfo: 291593
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 18175688 | Rothia terrae sp. nov. isolated from soil in Taiwan. | Chou YJ, Chou JH, Lin KY, Lin MC, Wei YH, Arun AB, Young CC, Chen WM | Int J Syst Evol Microbiol | 10.1099/ijs.0.65172-0 | 2008 | Bacterial 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, Taiwan | Genetics |
Phylogeny | 23710050 | Rothia 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 WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.052522-0 | 2013 | Bacterial 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/chemistry | Genetics |
Phylogeny | 23793563 | Rothia 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 YG | Antonie Van Leeuwenhoek | 10.1007/s10482-013-9955-8 | 2013 | Amino 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, Temperature | Enzymology |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
16173 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22277) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22277 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
32234 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28476 | 28776041 | |
60760 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 55855) | https://www.ccug.se/strain?id=55855 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68375 | Automatically annotated from API ID32STA | |||||
77226 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID291593.1 | StrainInfo: A central database for resolving microbial strain identifiers |