Strain identifier
BacDive ID: 134201
Type strain: 
Species: Natrinema limicola
Strain Designation: AX-7
Strain history: S. Liu AX-7.
NCBI tax ID(s): 1230457 (strain), 370323 (species)
version 8.1 (current version)
General
@ref: 31816
BacDive-ID: 134201
keywords: genome sequence, 16S sequence, Archaea, aerobe, Gram-negative, rod-shaped
description: Natrinema limicola AX-7 is an aerobe, Gram-negative, rod-shaped archaeon that was isolated from salt lake.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 370323 | species |
| 1230457 | strain |
strain history
- @ref: 67770
- history: S. Liu AX-7.
doi: 10.13145/bacdive134201.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Halobacteria
- order: Natrialbales
- family: Natrialbaceae
- genus: Natrinema
- species: Natrinema limicola
- full scientific name: Natrinema limicola (Cui et al. 2006) de la Haba et al. 2022
synonyms
- @ref: 20215
- synonym: Haloterrigena limicola
@ref: 31816
domain: Archaea
phylum: Euryarchaeota
class: Halobacteria
order: Natrialbales
family: Natrialbaceae
genus: Haloterrigena
species: Haloterrigena limicola
strain designation: AX-7
type strain: yes
Morphology
cell morphology
- @ref: 31816
- gram stain: negative
- cell length: 1.8-3.6 µm
- cell width: 0.6-0.8 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 31816
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 31816 | positive | growth | 30-61 | |
| 31816 | positive | optimum | 45-50 | thermophilic |
| 67770 | positive | growth | 37 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 31816 | positive | growth | 6.5-9 | alkaliphile |
| 31816 | positive | optimum | 7-7.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 31816
- oxygen tolerance: aerobe
spore formation
- @ref: 31816
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31816 | NaCl | positive | growth | 0-4.06 % |
| 31816 | NaCl | positive | optimum | 0.29 % |
observation
- @ref: 31816
- observation: aggregates in chains
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31816 | 30089 | acetate | + | carbon source |
| 31816 | 15361 | pyruvate | + | carbon source |
| 31816 | 17632 | nitrate | + | reduction |
metabolite production
- @ref: 31816
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 31816 | catalase | + | 1.11.1.6 |
| 31816 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 31816 | salt lake | |||
| 67770 | Aibi salt lake in Xin-Jiang | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Condition | #Saline |
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 31816 | Haloterrigena limicola strain AX-7 16S ribosomal RNA gene, partial sequence | DQ367241 | 1474 | nuccore | 1230457 |
| 67770 | Haloterrigena limicola gene for 16S ribosomal RNA, partial sequence, strain: JCM 13563 | AB477224 | 1434 | ena | 1230457 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Natrinema longum JCM 13563 | GCA_020105915 | scaffold | ncbi | 370324 |
| 66792 | Haloterrigena limicola JCM 13563 | 2554235498 | draft | img | 1230457 |
| 67770 | Natrinema limicola JCM 13563 | GCA_000337475 | contig | ncbi | 1230457 |
| 66792 | Haloterrigena limicola JCM 13563 | 1230457.4 | wgs | patric | 1230457 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 31816 | 61.9 | |
| 67770 | 61.9 | thermal denaturation, midpoint method (Tm) |
External links
@ref: 31816
culture collection no.: CGMCC 1.5333, JCM 13563
straininfo link
- @ref: 91797
- straininfo: 297211
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16902017 | Haloterrigena longa sp. nov. and Haloterrigena limicola sp. nov., extremely halophilic archaea isolated from a salt lake. | Cui HL, Tohty D, Zhou PJ, Liu SJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.64372-0 | 2006 | Archaea/chemistry/*classification/genetics/growth & development/isolation & purification, China, Culture Media, DNA, Archaeal/genetics, Fresh Water/*microbiology, Lipids/analysis, Magnesium/analysis, Molecular Sequence Data, Oligosaccharides/analysis, Phylogeny, Sequence Homology, Nucleic Acid, Species Specificity, *Water Microbiology | Cultivation |
| Phylogeny | 19060076 | Haloterrigena salina sp. nov., an extremely halophilic archaeon isolated from a salt lake. | Gutierrez MC, Castillo AM, Kamekura M, Ventosa A | Int J Syst Evol Microbiol | 10.1099/ijs.0.2008/001602-0 | 2008 | Fatty Acids/analysis, Halobacteriaceae/chemistry/*classification/genetics/*physiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Salts, Species Specificity, *Water Microbiology | 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 | |||
| 31816 | 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 | 28084 | 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 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 91797 | 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-ID297211.1 |