Parametric methods identify candidate HGT events

Association·arcadia

Parametric methods, such as analysis of GC content and codon/amino acid usage, identify candidate horizontally transferred genes.

Confidence

80%

active

Evidence Quote

“Parametric methods identify atypical genes as HGT candidates”

Relationship

Parametric methods for HGT detection identifies Horizontal gene transfer (HGT)

Arguments

Parametric methods for HGT detectionsubject

Horizontal gene transfer (HGT)object

Connections (2)

Trade-offs and limitations in HGT detectionInferenceChain

Plutella xylostella may acquire N protein via parasite-to-host HGTAssociation

Evidence

“Evidence line summarizing that comparative genomics approaches can uncover alien genes in bacterial genomes, as described by Sengupta and Azad (2023).”

Sengupta S & Azad RK (2023). Leveraging comparative genomics to uncover alien genes in bacterial genomes doi:10.1099/mgen.0.000939 ↗

“Evidence line summarizing that interpolated variable order motifs can identify horizontally acquired DNA, as applied to Salmonella pathogenicity islands.”

(2006). Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands doi:10.1093/bioinformatics/btl369 ↗

“Evidence summarizing that GIPSy software is used for genomic island prediction to facilitate detection of horizontally transferred genes.”

GIPSy: Genomic island prediction software. https://doi.org/10.1016/j.jbiotec.2015.09.008

“Evidence summarizing that HGT-DB is a database of putative horizontally transferred genes across prokaryotic genomes.”

HGT-DB: a database of putative horizontally transferred genes in prokaryotic complete genomes. https://doi.org/10.1093/nar/gkg004

“Evidence summarizing that HGT-Finder is a tool for discovering horizontal gene transfers, as applied to Aspergillus genomes.”

HGT-Finder: A New Tool for Horizontal Gene Transfer Finding and Application to Aspergillus genomes. https://doi.org/10.3390/toxins7104035

“Evidence summarizing that Islander is a database of precisely mapped genomic islands in tRNA and tmRNA genes for HGT studies.”

Islander: a database of precisely mapped genomic islands in tRNA and tmRNA genes. https://doi.org/10.1093/nar/gku1072