Strain identifier
BacDive ID: 133989
Type strain: 
Species: Rudaibacter terrae
Strain Designation: 5GHs34-4
NCBI tax ID(s): 1162969 (species)
version 8.1 (current version)
General
@ref: 31014
BacDive-ID: 133989
keywords: 16S sequence, Bacteria, aerobe, Gram-positive, rod-shaped
description: Rudaibacter terrae 5GHs34-4 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 1162969
- Matching level: species
doi: 10.13145/bacdive133989.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Microbacteriaceae
- genus: Rudaibacter
- species: Rudaibacter terrae
- full scientific name: Rudaibacter terrae Kim et al. 2013
@ref: 31014
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Micrococcales
family: Microbacteriaceae
genus: Rudaibacter
species: Rudaibacter terrae
strain designation: 5GHs34-4
type strain: yes
Morphology
cell morphology
- @ref: 31014
- gram stain: positive
- cell length: 1.45 µm
- cell width: 0.6 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 31014
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 31014 | positive | growth | 10-37 | |
| 31014 | positive | optimum | 29 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 31014 | positive | growth | 5.0-9.0 | alkaliphile |
| 31014 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 31014
- oxygen tolerance: aerobe
spore formation
- @ref: 31014
- spore formation: no
halophily
- @ref: 31014
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-3 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31014 | 16808 | 2-dehydro-D-gluconate | + | carbon source |
| 31014 | 22599 | arabinose | + | carbon source |
| 31014 | 24265 | gluconate | + | carbon source |
| 31014 | 17234 | glucose | + | carbon source |
| 31014 | 17306 | maltose | + | carbon source |
| 31014 | 29864 | mannitol | + | carbon source |
| 31014 | 37684 | mannose | + | carbon source |
| 31014 | 28053 | melibiose | + | carbon source |
| 31014 | 33942 | ribose | + | carbon source |
| 31014 | 17992 | sucrose | + | carbon source |
| 31014 | 4853 | esculin | + | hydrolysis |
| 31014 | 17632 | nitrate | + | reduction |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 31014 | acid phosphatase | + | 3.1.3.2 |
| 31014 | alpha-galactosidase | + | 3.2.1.22 |
Isolation, sampling and environmental information
isolation
- @ref: 31014
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_76203.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_671;97_16986;98_53288;99_76203&stattab=map
- Last taxonomy: Leifsonia
- 16S sequence: JQ639054
- Sequence Identity:
- Total samples: 641
- soil counts: 394
- aquatic counts: 118
- animal counts: 70
- plant counts: 59
Sequence information
16S sequences
- @ref: 31014
- description: Rudaibacter terrae strain 5GHs34-4 16S ribosomal RNA gene, partial sequence
- accession: JQ639054
- length: 1466
- database: nuccore
- NCBI tax ID: 1162969
GC content
- @ref: 31014
- GC-content: 64
External links
@ref: 31014
culture collection no.: KACC 15523, NBRC 108754
literature
- topic: Phylogeny
- Pubmed-ID: 23728372
- title: Rudaibacter terrae gen. nov., sp. nov., isolated from greenhouse soil.
- authors: Kim SJ, Moon JY, Hamada M, Tamura T, Weon HY, Suzuki KI, Kwon SW
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.049817-0
- year: 2013
- mesh: Actinomycetales/*classification/genetics/isolation & purification, Aminobutyrates/chemistry, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Environment, Controlled, Fatty Acids/chemistry, Molecular Sequence Data, Peptidoglycan/chemistry, Phenotype, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistry
- topic2: Genetics
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed |
|---|---|---|---|---|---|
| 20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | ||
| 31014 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27344 | 28776041 |
| 69479 | João 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 beta | https://microbeatlas.org/ |