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http://hdl.handle.net/2445/207992
Title: | EvolClustDB: Exploring Eukaryotic Gene Clusters with Evolutionarily Conserved Genomic Neighbourhoods |
Author: | Marcet Houben, Marina Collado Cala, Ismael Fuentes Palacios, Diego Gómez, Alicia D. Molina, Manuel Garisoain Zafra, Andrés Chorostecki, Uciel Gabaldón, Toni |
Keywords: | Genomes Genòmica Genomes Genomics |
Issue Date: | 15-Jul-2023 |
Publisher: | Elsevier BV |
Abstract: | Conservation of gene neighbourhood over evolutionary distances is generally indicative of shared regulation or functional association among genes. This concept has been broadly exploited in prokaryotes but its use on eukaryotic genomes has been limited to specific functional classes, such as biosynthetic gene clusters. We here used an evolutionary-based gene cluster discovery algorithm (EvolClust) to pre-compute evolutionarily conserved gene neighbourhoods, which can be searched, browsed and downloaded in EvolClustDB. We inferred ∼35,000 cluster families in 882 different species in genome comparisons of five taxonomically broad clades: Fungi, Plants, Metazoans, Insects and Protists. EvolClustDB allows browsing through the cluster families, as well as searching by protein, species, identifier or sequence. Visualization allows inspecting gene order per species in a phylogenetic context, so that relevant evolutionary events such as gain, loss or transfer, can be inferred. EvolClustDB is freely available, without registration, at http://evolclustdb.org/.Copyright © 2023 The Author(s). Published by Elsevier Ltd.. All rights reserved. |
Note: | Reproducció del document publicat a: https://doi.org/10.1016/j.jmb.2023.168013 |
It is part of: | Journal Of Molecular Biology, 2023, vol. 435, num. 14, p. 168013-NA |
URI: | http://hdl.handle.net/2445/207992 |
Related resource: | https://doi.org/10.1016/j.jmb.2023.168013 |
ISSN: | 1089-8638 |
Appears in Collections: | Articles publicats en revistes (Institut de Recerca Biomèdica (IRB Barcelona)) |
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