| Accession | ARO:3005121 |
| Synonym(s) | lsa(D) |
| CARD Short Name | lsaD |
| Definition | The lsa(D) gene represents an ABC-F subfamily protein expressed in Lactococcus garvieae. It confers resistance to Streptogramins A, Pleuromutilins and Lincosamides. |
| AMR Gene Family | lsa-type ABC-F protein |
| Drug Class | streptogramin antibiotic, pleuromutilin antibiotic, streptogramin A antibiotic, lincosamide antibiotic |
| Resistance Mechanism | antibiotic target protection |
| Resistomes with Perfect Matches | Lactococcus garvieaewgs |
| Resistomes with Sequence Variants | Lactococcus garvieaeg+wgs |
| Classification | 11 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + determinant of antibiotic resistance + antibiotic molecule + antibiotic target protection [Resistance Mechanism] + antibiotic target protection protein + streptogramin antibiotic [Drug Class] + ABC-F ATP-binding cassette ribosomal protection protein + pleuromutilin antibiotic [Drug Class] + streptogramin A antibiotic [Drug Class] + lincosamide antibiotic [Drug Class] |
| Parent Term(s) | 5 ontology terms | Show + confers_resistance_to_antibiotic lincomycin [Antibiotic] + confers_resistance_to_antibiotic clindamycin [Antibiotic] + confers_resistance_to_antibiotic virginiamycin M1 [Antibiotic] + confers_resistance_to_antibiotic tiamulin [Antibiotic] + lsa-type ABC-F protein [AMR Gene Family] |
| Publications | Shi YZ, et al. 2020. Microb. Drug Resist. : Characterization of lsa(D), a Novel Gene Responsible for Resistance to Lincosamides, Streptogramins A, and Pleuromutilins in Fish Pathogenic Lactococcus garvieae Serotype II. (PMID 32706619) |
Prevalence of lsaD among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 413 important pathogens (see methodological details and complete list of analyzed pathogens). Values reflect percentage of genomes, plasmids, genome islands, or whole-genome shotgun assemblies that have at least one hit to the AMR detection model. Default view includes percentages calculated based on Perfect plus Strict RGI hits. Select the checkbox to view percentages based on only Perfect matches to AMR reference sequences curated in CARD (note: this excludes resistance via mutation as references in protein variant models are often wild-type, sensitive sequences).
| Species | NCBI Chromosome | NCBI Plasmid | NCBI WGS | NCBI GI |
|---|---|---|---|---|
| Lactococcus garvieae | 94.44% | 0% | 84.44% | 0% |
Model Type: protein homolog model
Model Definition: Protein Homolog Models (PHM) detect protein sequences based on their similarity to a curated reference sequence, using curated BLASTP bitscore cut-offs. Protein Homolog Models apply to all genes that confer resistance through their presence in an organism, such as the presence of a beta-lactamase gene on a plasmid. PHMs include a reference sequence and a bitscore cut-off for detection using BLASTP. A Perfect RGI match is 100% identical to the reference protein sequence along its entire length, a Strict RGI match is not identical but the bit-score of the matched sequence is greater than the curated BLASTP bit-score cutoff, Loose RGI matches have a bit-score less than the curated BLASTP bit-score cut-off.
Bit-score Cut-off (blastP): 900