Strain identifier
BacDive ID: 134261
Type strain: 
Species: Longilinea arvoryzae
Strain Designation: KOME-1
NCBI tax ID(s): 360412 (species)
version 9.3 (current version)
General
@ref: 32190
BacDive-ID: 134261
keywords: genome sequence, 16S sequence, Bacteria, anaerobe
description: Longilinea arvoryzae KOME-1 is an anaerobe bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 360412
- Matching level: species
doi: 10.13145/bacdive134261.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/chloroflexota
- domain: Bacteria
- phylum: Chloroflexota
- class: Anaerolineae
- order: Anaerolineales
- family: Anaerolineaceae
- genus: Longilinea
- species: Longilinea arvoryzae
- full scientific name: Longilinea arvoryzae Yamada et al. 2007
@ref: 32190
domain: Bacteria
phylum: Chloroflexi
class: Anaerolineae
order: Anaerolineales
family: Anaerolineaceae
genus: Longilinea
species: Longilinea arvoryzae
strain designation: KOME-1
type strain: yes
Morphology
pigmentation
- @ref: 32190
- production: no
Culture and growth conditions
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 32190 | positive | growth | 30-40 |
| 32190 | positive | optimum | 37 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 32190 | positive | growth | 5-8.5 | alkaliphile |
| 32190 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 32190
- oxygen tolerance: anaerobe
spore formation
- @ref: 32190
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 32190 | NaCl | positive | growth | 0-0.2 % |
| 32190 | NaCl | positive | optimum | 0.1 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32190 | 28757 | fructose | + | carbon source |
| 32190 | 16634 | raffinose | + | carbon source |
| 32190 | 17992 | sucrose | + | carbon source |
| 32190 | 18222 | xylose | + | carbon source |
Isolation, sampling and environmental information
isolation
- @ref: 32190
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_5855.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_512;96_2808;97_3448;98_4355;99_5855&stattab=map
- Last taxonomy: Longilinea arvoryzae subclade
- 16S sequence: AB243673
- Sequence Identity:
- Total samples: 84
- soil counts: 31
- aquatic counts: 47
- animal counts: 6
Sequence information
16S sequences
- @ref: 32190
- description: Longilinea arvoryzae gene for 16S rRNA, partial sequence
- accession: AB243673
- length: 1422
- database: nuccore
- NCBI tax ID: 360412
Genome sequences
- @ref: 66792
- description: Longilinea arvoryzae KOME-1
- accession: GCA_001050235
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 360412
GC content
- @ref: 32190
- GC-content: 57.6
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 59.698 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 67.53 | yes |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 68.399 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 62.009 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 81.121 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 81 | no |
External links
@ref: 32190
culture collection no.: JCM 13670, KCTC 5380
straininfo link
- @ref: 91848
- straininfo: 310994
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 17911301 | Bellilinea caldifistulae gen. nov., sp. nov. and Longilinea arvoryzae gen. nov., sp. nov., strictly anaerobic, filamentous bacteria of the phylum Chloroflexi isolated from methanogenic propionate-degrading consortia. | Yamada T, Imachi H, Ohashi A, Harada H, Hanada S, Kamagata Y, Sekiguchi Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.65098-0 | 2007 | Anaerobiosis/physiology, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism/physiology, Chloroflexi/*classification/cytology/*isolation & purification/physiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Hydrogen-Ion Concentration, Locomotion/physiology, Molecular Sequence Data, Phylogeny, Proteins/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sewage/*microbiology, *Soil Microbiology, Temperature | Metabolism |
| Genetics | 26383658 | Draft Genome Sequences of Anaerolinea thermolimosa IMO-1, Bellilinea caldifistulae GOMI-1, Leptolinea tardivitalis YMTK-2, Levilinea saccharolytica KIBI-1, Longilinea arvoryzae KOME-1, Previously Described as Members of the Class Anaerolineae (Chloroflexi). | Matsuura N, Tourlousse DM, Ohashi A, Hugenholtz P, Sekiguchi Y | Genome Announc | 10.1128/genomeA.00975-15 | 2015 |
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 | |||
| 32190 | 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 | 28432 | 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/ | |||
| 91848 | Reimer, 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 identifiers | 10.60712/SI-ID310994.1 | |||
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 |