title: pATsi: Paralogs and Singleton Genes from Arabidopsis thaliana.
abstract: Arabidopsis thaliana is widely accepted as a model species in plant biology. Its genome, due to its small size and diploidy, was the first to be sequenced among plants, making this species also a reference for plant comparative genomics. Nevertheless, the evolutionary mechanisms that shaped the Arabidopsis genome are still controversial. Indeed, duplications, translocations, inversions, and gene loss events that contributed to the current organization are difficult to be traced. A reliable identification of paralogs and single-copy genes is essential to understand these mechanisms. Therefore, we implemented a dedicated pipeline to identify paralog genes and classify single-copy genes into opportune categories. PATsi, a web-accessible database, was organized to allow the straightforward access to the paralogs organized into networks and to the classification of single-copy genes. This permits to efficiently explore the gene collection of Arabidopsis for evolutionary investigations and comparative genomics.
authors.affiliation: Department of Agriculture, University of Naples Federico II, Portici, Italy.
authors.forename: Luca
authors.initials: L
authors.lastname: Ambrosino
authors.affiliation: Department of Agriculture, University of Naples Federico II, Portici, Italy.
authors.forename: Hamed
authors.initials: H
authors.lastname: Bostan
authors.affiliation: Department of Agriculture, University of Naples Federico II, Portici, Italy.
authors.forename: Pasquale
authors.initials: P
authors.lastname: di Salle
authors.affiliation: Department of Electrical Engineering and Information Technology, University of Naples Federico II, Naples, Italy.
authors.forename: Mara
authors.initials: M
authors.lastname: Sangiovanni
authors.affiliation: Department of Genetics, Evolution and Environment, UCL Genetics Institute, University College London, London, UK.; The Francis Crick Institute, Lincoln's Inn Fields Laboratories, London, UK.
authors.forename: Alessandra
authors.initials: A
authors.lastname: Vigilante
authors.affiliation: Department of Agriculture, University of Naples Federico II, Portici, Italy.
authors.forename: Maria L
authors.initials: ML
authors.lastname: Chiusano
keywords: Arabidopsis thaliana; paralogs; singletons