Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila.
Animals
Behavior, Animal
/ physiology
DNA Transposable Elements
/ genetics
Drosophila melanogaster
/ genetics
Evolution, Molecular
Gene Expression Regulation, Developmental
/ genetics
Gene Frequency
/ genetics
Genome, Insect
/ genetics
Mutation
/ genetics
Polymorphism, Single Nucleotide
/ genetics
Selection, Genetic
/ genetics
Stress, Physiological
/ genetics
Journal
PLoS genetics
ISSN: 1553-7404
Titre abrégé: PLoS Genet
Pays: United States
ID NLM: 101239074
Informations de publication
Date de publication:
02 2019
02 2019
Historique:
received:
02
08
2018
accepted:
16
12
2018
entrez:
13
2
2019
pubmed:
13
2
2019
medline:
12
3
2019
Statut:
epublish
Résumé
Most of the current knowledge on the genetic basis of adaptive evolution is based on the analysis of single nucleotide polymorphisms (SNPs). Despite increasing evidence for their causal role, the contribution of structural variants to adaptive evolution remains largely unexplored. In this work, we analyzed the population frequencies of 1,615 Transposable Element (TE) insertions annotated in the reference genome of Drosophila melanogaster, in 91 samples from 60 worldwide natural populations. We identified a set of 300 polymorphic TEs that are present at high population frequencies, and located in genomic regions with high recombination rate, where the efficiency of natural selection is high. The age and the length of these 300 TEs are consistent with relatively young and long insertions reaching high frequencies due to the action of positive selection. Besides, we identified a set of 21 fixed TEs also likely to be adaptive. Indeed, we, and others, found evidence of selection for 84 of these reference TE insertions. The analysis of the genes located nearby these 84 candidate adaptive insertions suggested that the functional response to selection is related with the GO categories of response to stimulus, behavior, and development. We further showed that a subset of the candidate adaptive TEs affects expression of nearby genes, and five of them have already been linked to an ecologically relevant phenotypic effect. Our results provide a more complete understanding of the genetic variation and the fitness-related traits relevant for adaptive evolution. Similar studies should help uncover the importance of TE-induced adaptive mutations in other species as well.
Identifiants
pubmed: 30753202
doi: 10.1371/journal.pgen.1007900
pii: PGENETICS-D-18-01558
pmc: PMC6372155
doi:
Substances chimiques
DNA Transposable Elements
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e1007900Subventions
Organisme : NIGMS NIH HHS
ID : R01 GM089926
Pays : United States
Organisme : NIGMS NIH HHS
ID : R35 GM118165
Pays : United States
Déclaration de conflit d'intérêts
The authors have declared that no competing interests exist.
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