{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Koutsovoulos GD"],"funding":["Agence Nationale de la Recherche","AgreenSkills"],"pagination":["e1010686"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9678320"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["18(11)"],"pubmed_abstract":["Horizontal gene transfer (HGT) is the transfer of genes between species outside the transmission from parent to offspring. Due to their impact on the genome and biology of various species, HGTs have gained broader attention, but high-throughput methods to robustly identify them are lacking. One rapid method to identify HGT candidates is to calculate the difference in similarity between the most similar gene in closely related species and the most similar gene in distantly related species. Although metrics on similarity associated with taxonomic information can rapidly detect putative HGTs, these methods are hampered by false positives that are difficult to track. Furthermore, they do not inform on the evolutionary trajectory and events such as duplications. Hence, phylogenetic analysis is "],"journal":["PLoS computational biology"],"pubmed_title":["AvP: A software package for automatic phylogenetic detection of candidate horizontal gene transfers."],"pmcid":["PMC9678320"],"funding_grant_id":["ANR-15-IDEX-01","609398"],"pubmed_authors":["Koutsovoulos GD","Rancurel C","Danchin EGJ","Bailly-Bechet M","Granjeon Noriot S"],"additional_accession":[]},"is_claimable":false,"name":"AvP: A software package for automatic phylogenetic detection of candidate horizontal gene transfers.","description":"Horizontal gene transfer (HGT) is the transfer of genes between species outside the transmission from parent to offspring. Due to their impact on the genome and biology of various species, HGTs have gained broader attention, but high-throughput methods to robustly identify them are lacking. One rapid method to identify HGT candidates is to calculate the difference in similarity between the most similar gene in closely related species and the most similar gene in distantly related species. Although metrics on similarity associated with taxonomic information can rapidly detect putative HGTs, these methods are hampered by false positives that are difficult to track. Furthermore, they do not inform on the evolutionary trajectory and events such as duplications. Hence, phylogenetic analysis is ","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Nov","modification":"2025-04-19T16:10:43.096Z","creation":"2025-04-19T16:10:43.096Z"},"accession":"S-EPMC9678320","cross_references":{"pubmed":["36350852"],"doi":["10.1371/journal.pcbi.1010686"]}}