Strain identifier
BacDive ID: 133984
Type strain: 
Species: Algibacter luteus
Strain Designation: P7-3-5
NCBI tax ID(s): 1178825 (species)
version 8.1 (current version)
General
@ref: 30998
BacDive-ID: 133984
keywords: genome sequence, 16S sequence, Bacteria, facultative aerobe, Gram-negative, motile, rod-shaped
description: Algibacter luteus P7-3-5 is a facultative aerobe, Gram-negative, motile bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 1178825
- Matching level: species
doi: 10.13145/bacdive133984.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Algibacter
- species: Algibacter luteus
- full scientific name: Algibacter luteus (Zhang et al. 2013) Li et al. 2022
synonyms
- @ref: 20215
- synonym: Arenitalea lutea
@ref: 30998
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Arenitalea
species: Arenitalea lutea
strain designation: P7-3-5
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | flagellum arrangement | confidence |
|---|---|---|---|---|---|---|---|
| 30998 | negative | 1.1 µm | 0.45 µm | rod-shaped | yes | gliding | |
| 69480 | negative | 99.985 |
pigmentation
- @ref: 30998
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30998 | positive | growth | 04-40 | |
| 30998 | positive | optimum | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 30998 | positive | growth | 6.0-8.5 | alkaliphile |
| 30998 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 30998
- oxygen tolerance: facultative aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.999 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30998 | NaCl | positive | growth | 0.5-5 % |
| 30998 | NaCl | positive | optimum | 1.5 % |
observation
- @ref: 30998
- observation: aggregates in clumps
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30998 | 17234 | glucose | + | carbon source |
| 30998 | 17306 | maltose | + | carbon source |
| 30998 | 37684 | mannose | + | carbon source |
| 30998 | 4853 | esculin | + | hydrolysis |
| 30998 | 17632 | nitrate | + | reduction |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30998 | acid phosphatase | + | 3.1.3.2 |
| 30998 | alkaline phosphatase | + | 3.1.3.1 |
| 30998 | alpha-galactosidase | + | 3.2.1.22 |
| 30998 | catalase | + | 1.11.1.6 |
| 30998 | gelatinase | + |
Isolation, sampling and environmental information
isolation
- @ref: 30998
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_1304.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_756;97_881;98_1030;99_1304&stattab=map
- Last taxonomy: Arenitalea lutea subclade
- 16S sequence: JQ807811
- Sequence Identity:
- Total samples: 1236
- soil counts: 44
- aquatic counts: 1146
- animal counts: 42
- plant counts: 4
Sequence information
16S sequences
- @ref: 30998
- description: Arenitalea lutea strain P7-3-5 16S ribosomal RNA gene, partial sequence
- accession: JQ807811
- length: 1483
- database: nuccore
- NCBI tax ID: 1178825
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Algibacter luteus CGMCC 1.12213 | GCA_900141715 | scaffold | ncbi | 1178825 |
| 66792 | Algibacter luteus P7-3-5 | GCA_000283015 | contig | ncbi | 1178825 |
| 66792 | Arenitalea lutea strain CGMCC 1.12213 | 1178825.6 | wgs | patric | 1178825 |
| 66792 | Arenitalea lutea CGMCC 1.12213 | 2667528186 | draft | img | 1178825 |
GC content
- @ref: 30998
- GC-content: 32.1
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 90.601 | no |
| flagellated | no | 94.945 | yes |
| gram-positive | no | 97.893 | yes |
| anaerobic | no | 99.425 | yes |
| aerobic | yes | 82.124 | yes |
| halophile | no | 86.822 | yes |
| spore-forming | no | 97.241 | no |
| thermophile | no | 98.672 | yes |
| glucose-util | yes | 88.963 | yes |
| glucose-ferment | no | 88.467 | no |
External links
@ref: 30998
culture collection no.: CGMCC 1.12213, KACC 16457
literature
- topic: Phylogeny
- Pubmed-ID: 23315415
- title: Arenitalea lutea gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from intertidal sand.
- authors: Zhang XY, Liu A, Liu C, Li H, Li GW, Xu Z, Chen XL, Zhou BC, Zhang YZ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.049304-0
- year: 2013
- mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, *Silicon Dioxide, Vitamin K 2/analogs & derivatives/analysis, Water Microbiology
- topic2: Genetics
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|
| 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 | |||
| 30998 | 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 | 27328 | 28776041 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | |
| 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/ | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |