Patterns of Nucleotide Deletion and Insertion Inferred from Bacterial Pseudogenes - INRAE - Institut national de recherche pour l’agriculture, l’alimentation et l’environnement Accéder directement au contenu
Article Dans Une Revue Genome Biology and Evolution Année : 2018

Patterns of Nucleotide Deletion and Insertion Inferred from Bacterial Pseudogenes

Résumé

Pseudogenes are a paradigm of neutral evolution and their study has the potential to reveal intrinsic mutational biases. However, this potential is mitigated by the fact that pseudogenes are quickly purged from bacterial genomes. Here, we assembled a large set of pseudogenes from genomes experiencing reductive evolution as well as functional references for which we could establish reliable phylogenetic relationships. Using this unique dataset, we identified 857 independent insertion and deletion mutations and discover a pervasive bias towards deletions, but not insertions, with sizes multiples of 3 nt. We further show that selective constraints for the preservation of gene frame are unlikely to account for the observed mutational bias and propose that a mechanistic bias in alternative end-joining repair, a recombination-independent double strand break DNA repair mechanism, is responsible for the accumulation of 3n deletions.
Fichier principal
Vignette du fichier
2018_danneels_GBE.pdf (473.73 Ko) Télécharger le fichier
Origine : Fichiers éditeurs autorisés sur une archive ouverte
Loading...

Dates et versions

hal-02962215 , version 1 (14-10-2020)

Licence

Paternité - Pas d'utilisation commerciale

Identifiants

Citer

Bram Danneels, Marta Pinto-Carbó, Aurélien Carlier. Patterns of Nucleotide Deletion and Insertion Inferred from Bacterial Pseudogenes. Genome Biology and Evolution, 2018, 10 (7), pp.1792-1802. ⟨10.1093/gbe/evy140⟩. ⟨hal-02962215⟩
22 Consultations
40 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More