Strain identifier
BacDive ID: 10618
Type strain: 
Species: Gordonia lacunae
Strain Designation: BS2
Strain history: DSM 45085 <-- P. R. Meyers <-- C. M. Goodwin BS2.
NCBI tax ID(s): 417102 (species)
version 8.1 (current version)
General
@ref: 12327
BacDive-ID: 10618
DSM-Number: 45085
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Gordonia lacunae BS2 is a mesophilic bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 417102
- Matching level: species
strain history
| @ref | history |
|---|---|
| 12327 | <- P. R. Meyers, Univ. Cape Town, South Africa <- C. M. Goodwin; BS2 |
| 67770 | DSM 45085 <-- P. R. Meyers <-- C. M. Goodwin BS2. |
doi: 10.13145/bacdive10618.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Mycobacteriales
- family: Gordoniaceae
- genus: Gordonia
- species: Gordonia lacunae
- full scientific name: Gordonia lacunae Le Roes et al. 2009
@ref: 12327
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Gordoniaceae
genus: Gordonia
species: Gordonia lacunae
full scientific name: Gordonia lacunae Le Roes et al. 2009 emend. Nouioui et al. 2018
strain designation: BS2
type strain: yes
Culture and growth conditions
culture medium
- @ref: 12327
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 12327 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 12327 | soil | Plettenberg Bay | South Africa | ZAF | Africa |
| 67770 | Sand from an estuary in Plettenberg Bay | Western Cape Province | South Africa | ZAF | Africa |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_2867.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_85;97_90;98_2221;99_2867&stattab=map
- Last taxonomy: Gordonia
- 16S sequence: LC072673
- Sequence Identity:
- Total samples: 979
- soil counts: 171
- aquatic counts: 234
- animal counts: 526
- plant counts: 48
Safety information
risk assessment
- @ref: 12327
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 12327 | Gordonia lacunae strain BS2 16S ribosomal RNA gene, partial sequence | EF151959 | 1433 | ena | 417102 |
| 67770 | Gordonia lacunae gene for 16S rRNA, partial sequence, strain: NRRL B-24551 | LC072673 | 1511 | ena | 417102 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Gordonia lacunae BS2 | 2834547273 | draft | img | 417102 |
| 67770 | Gordonia lacunae BS2 | GCA_002149015 | contig | ncbi | 417102 |
GC content
- @ref: 67770
- GC-content: 68.1
- method: genome sequence analysis
External links
@ref: 12327
culture collection no.: DSM 45085, JCM 18296, NRRL B-24551, IFM 10869, JCM 14873
straininfo link
- @ref: 79890
- straininfo: 343880
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 18022777 | Gordonia lacunae sp. nov., isolated from an estuary. | le Roes M, Goodwin CM, Meyers PR | Syst Appl Microbiol | 10.1016/j.syapm.2007.10.001 | 2007 | Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Antibiosis, Bacterial Typing Techniques, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Molecular Sequence Data, Mycobacterium/drug effects/growth & development, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Silicon Dioxide, *Soil Microbiology, South Africa | Genetics |
| Phylogeny | 26678782 | Gordonia didemni sp. nov. an actinomycete isolated from the marine ascidium Didemnum sp. | de Menezes CB, Afonso RS, de Souza WR, Parma M, de Melo IS, Zucchi TD, Fantinatti-Garboggini F | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0632-y | 2015 | Actinobacteria/classification/genetics/*isolation & purification, Animals, Brazil, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Urochordata/*microbiology | Genetics |
| Phylogeny | 27406710 | Gordonia hongkongensis sp. nov., isolated from blood culture and peritoneal dialysis effluent of patients in Hong Kong. | Tsang CC, Xiong L, Poon RWS, Chen JHK, Leung KW, Lam JYW, Wu AKL, Chan JFW, Lau SKP, Woo PCY | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001292 | 2016 | Bacterial Typing Techniques, *Blood Culture, Cluster Analysis, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Gordonia Bacterium/*classification/genetics/isolation & purification, Hong Kong, Humans, Infant, Male, Middle Aged, Nucleic Acid Hybridization, *Peritoneal Dialysis, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Pathogenicity |
| Genetics | 28982989 | Draft Genome Sequence of Gordonia lacunae BS2(T). | Durrell K, Prins A, Le Roes-Hill M | Genome Announc | 10.1128/genomeA.00959-17 | 2017 |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 12327 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45085) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45085 | |
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |
| 79890 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID343880.1 | StrainInfo: A central database for resolving microbial strain identifiers |