Genomics of Ecological Adaptation in Cactophilic Drosophila
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Author
Guillén, Yolanda
Rius, Núria
Delprat, Alejandra
Williford, Anna
Muyas, Francesc
Puig, Marta
Casillas, Sònia
Ràmia, Miquel
Egea, Raquel
Negre, Barbara
Mir, Gisela
Camps, Jordi
Moncunill, Valentí
Ruiz-Ruano, Francisco J.
Cabrero, Josefa
de Lima, Leonardo G.
Dias, Guilherme B.
Ruiz, Jeronimo C.
Kapusta, Aurélie
Garcia-Mas, Jordi
Gut, Marta
Gut, Ivo G.
Torrents, David
Camacho, Juan P.
Kuhn, Gustavo C.S.
Feschotte, Cédric
Clark, Andrew G.
Betrán, Esther
Barbadilla, Antonio
Ruiz, Alfredo
Publication date
2014-12-31ISSN
1759-6653
Abstract
Cactophilic Drosophila species provide a valuable model to study gene–environment interactions and ecological adaptation. Drosophila buzzatii and Drosophila mojavensis are two cactophilic species that belong to the repleta group, but have very different geographical distributions and primary host plants. To investigate the genomic basis of ecological adaptation, we sequenced the genome and developmental transcriptome of D. buzzatii and compared its gene content with that of D. mojavensis and two other
noncactophilic Drosophila species in the same subgenus. The newly sequenced D. buzzatii genome (161.5 Mb) comprises 826 scaffolds (>3 kb) and contains 13,657 annotated protein-coding genes. Using RNA sequencing data of five life-stages we found expression of 15,026 genes, 80% protein-coding genes, and 20% noncoding RNA genes. In total, we detected 1,294 genes putatively under positive selection. Interestingly, among genes under positive selection in the D. mojavensis lineage, there is an
excess of genes involved in metabolism of heterocyclic compounds that are abundant in Stenocereus cacti and toxic to nonresident Drosophilaspecies.Wefound117orphangenesinthesharedD.buzzatii–D.mojavensislineage.Inaddition,geneduplicationanalysis identified lineage-specific expanded families with functional annotations associated with proteolysis, zinc ion binding, chitin binding, sensory perception, ethanol tolerance, immunity, physiology, and reproduction. In summary, we identified genetic signatures of adaptation in the shared D. buzzatii–D. mojavensis lineage, and in the two separate D. buzzatii and D. mojavensis lineages. Many of the novel lineage-specific genomic features are promising candidates for explaining the adaptation of these species to their distinct ecological niches.
Document Type
Article
Document version
Published version
Language
English
Subject (CDU)
633 - Field crops and their production
Pages
18
Publisher
Oxford University Press
Is part of
Genome Biology and Evolution
Citation
Guillén, Yolanda, Núria Rius, Alejandra Delprat, Anna Williford, Francesc Muyas, Marta Puig, and Sònia Casillas et al. 2014. "Genomics Of Ecological Adaptation In Cactophilic Drosophila". Genome Biology And Evolution 7 (1): 349-366. doi:10.1093/gbe/evu291.
Grant agreement number
MINECO/Programa Nacional de Proyectos de Investigación Fundamental/BFU2011-30476/ES/GENOMICA COMPARADA Y FUNCIONAL DE DROSOPHILA: BASE GENETICA DE LA ADAPTACION ECOLOGICA/
Program
Genòmica i Biotecnologia
This item appears in the following Collection(s)
- ARTICLES CIENTÍFICS [2555]
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Except where otherwise noted, this item's license is described as http://creativecommons.org/licenses/by/4.0/