Strain identifier
BacDive ID: 24445
Type strain:
Species: Lentzea nigeriaca
Strain Designation: NJ2035
Strain history: <- Nevzat Sahin, Ondokuz Mayis Univ., Turkey
NCBI tax ID(s): 1128665 (species)
General
@ref: 20625
BacDive-ID: 24445
DSM-Number: 45680
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, rod-shaped
description: Lentzea nigeriaca NJ2035 is an aerobe, spore-forming, mesophilic bacterium that was isolated from arid soil.
NCBI tax id
- NCBI tax id: 1128665
- Matching level: species
strain history
@ref | history |
---|---|
20625 | <- N. Sahin, Ondokuz Mayis Univ., Dept. of Biology, Samsun, Turkey; NJ2035 <- M. Camas |
67770 | DSM 45680 <-- N. Sahin; Ondokuz Mayis Univ., Turkey; NJ2035. |
67771 | <- Nevzat Sahin, Ondokuz Mayis Univ., Turkey |
doi: 10.13145/bacdive24445.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Lentzea
- species: Lentzea nigeriaca
- full scientific name: Lentzea nigeriaca (Camas et al. 2013) Nouioui et al. 2018
synonyms
- @ref: 20215
- synonym: Lechevalieria nigeriaca
@ref: 20625
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Lentzea
species: Lentzea nigeriaca
full scientific name: Lentzea nigeriaca (Camas et al. 2013) Nouioui et al. 2018
strain designation: NJ2035
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility |
---|---|---|---|
31106 | positive | rod-shaped | no |
67771 | positive |
multimedia
- @ref: 20625
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45680.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 20625
- name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
- growth: yes
- link: https://mediadive.dsmz.de/medium/65
- composition: Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
20625 | positive | growth | 28 | mesophilic |
31106 | positive | growth | 20-45 | |
31106 | positive | optimum | 29 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
67771 | positive | growth | 28 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
31106 | positive | growth | 5.0-10.0 | alkaliphile |
31106 | positive | optimum | 7.2 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
31106 | aerobe |
67771 | aerobe |
spore formation
- @ref: 31106
- spore formation: yes
halophily
- @ref: 31106
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 1.0-5.0 %
observation
@ref | observation |
---|---|
67770 | quinones: MK-9(H4), MK-9(H2) |
67771 | quinones: MK-9(H4) |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31106 | 16449 | alanine | + | carbon source |
31106 | 22599 | arabinose | + | carbon source |
31106 | 29016 | arginine | + | carbon source |
31106 | 17057 | cellobiose | + | carbon source |
31106 | 23652 | dextrin | + | carbon source |
31106 | 28260 | galactose | + | carbon source |
31106 | 18240 | 4-hydroxy-L-proline | + | carbon source |
31106 | 17716 | lactose | + | carbon source |
31106 | 17306 | maltose | + | carbon source |
31106 | 29864 | mannitol | + | carbon source |
31106 | 37684 | mannose | + | carbon source |
31106 | 28044 | phenylalanine | + | carbon source |
31106 | 26271 | proline | + | carbon source |
31106 | 26546 | rhamnose | + | carbon source |
31106 | 17822 | serine | + | carbon source |
31106 | 17992 | sucrose | + | carbon source |
31106 | 26986 | threonine | + | carbon source |
31106 | 4853 | esculin | + | hydrolysis |
enzymes
- @ref: 31106
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
20625 | arid soil | Abuja | Nigeria | NGA | Africa |
67770 | Arid soil in Abuja | Nigeria | NGA | Africa | |
67771 | From soil | Arid estate, Abuja city | Nigeria | NGA | Africa |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Soil |
#Condition | #Xerophilic |
Safety information
risk assessment
- @ref: 20625
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20625
- description: Lechevalieria nigeriaca strain NJ2035 16S ribosomal RNA gene, partial sequence
- accession: JN989291
- length: 1473
- database: ena
- NCBI tax ID: 1128665
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Lentzea nigeriaca DSM 45680 | GCA_016907955 | contig | ncbi | 1128665 |
66792 | Lentzea nigeriaca strain DSM 45680 | 1128665.3 | wgs | patric | 1128665 |
66792 | Lentzea nigeriaca DSM 45680 | 2901015569 | draft | img | 1128665 |
GC content
@ref | GC-content | method |
---|---|---|
20625 | 68.4 | fluorimetric |
31106 | 68.4 | |
67770 | 68.4 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 89.925 | no |
flagellated | no | 95.785 | no |
gram-positive | yes | 88.868 | no |
anaerobic | no | 99.002 | yes |
aerobic | yes | 92.17 | yes |
halophile | no | 91.775 | no |
spore-forming | yes | 93.701 | yes |
thermophile | no | 98.587 | yes |
glucose-util | yes | 88.802 | no |
glucose-ferment | no | 92.097 | no |
External links
@ref: 20625
culture collection no.: DSM 45680, JCM 31207, KCTC 29057, NRRL B-24881
straininfo link
- @ref: 88322
- straininfo: 403146
literature
- topic: Phylogeny
- Pubmed-ID: 23645016
- title: Lechevalieria nigeriaca sp. nov., isolated from arid soil.
- authors: Camas M, Veyisoglu A, Tatar D, Saygin H, Cetin D, Sazak A, Guven K, Sahin N
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.052266-0
- year: 2013
- mesh: Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nigeria, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysis
- topic2: Genetics
Reference
@id | authors | title | doi/url | catalogue | 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 | |||
20625 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45680 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45680) | |||
31106 | 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 | 27435 | 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 | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
88322 | 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-ID403146.1 |