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Whole genome SNP-associated signatures of local adaptation in honeybees of the Iberian Peninsula
Polytech Inst Braganca, Mt Res Ctr CIMO, Campus Sta Apolonia, P-5300253 Braganca, Portugal;Univ Minho, Ctr Mol & Environm Biol CBMA, Campus Gualtar, P-4710057 Braga, Portugal.
Uppsala University, Science for Life Laboratory, SciLifeLab. Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Medical Biochemistry and Microbiology.
Inst Nacl Innovac Agr, Av La Molina 1981, Lima, Peru;Polytech Inst Braganca, Mt Res Ctr CIMO, Campus Sta Apolonia, P-5300253 Braganca, Portugal.
Texas A&M Univ, Dept Entomol, College Stn, TX 77843 USA.
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2018 (English)In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 8, article id 11145Article in journal (Refereed) Published
Abstract [en]

The availability of powerful high-throughput genomic tools, combined with genome scans, has helped identifying genes and genetic changes responsible for environmental adaptation in many organisms, including the honeybee. Here, we resequenced 87 whole genomes of the honeybee native to Iberia and used conceptually different selection methods (Sam beta ada, LFMM, PCAdapt, iHs) together with in sillico protein modelling to search for selection footprints along environmental gradients. We found 670 outlier SNPs, most of which associated with precipitation, longitude and latitude. Over 88.7% SNPs laid outside exons and there was a significant enrichment in regions adjacent to exons and UTRs. Enrichment was also detected in exonic regions. Furthermore, in silico protein modelling suggests that several non-synonymous SNPs are likely direct targets of selection, as they lead to amino acid replacements in functionally important sites of proteins. We identified genomic signatures of local adaptation in 140 genes, many of which are putatively implicated in fitness-related functions such as reproduction, immunity, olfaction, lipid biosynthesis and circadian clock. Our genome scan suggests that local adaptation in the Iberian honeybee involves variations in regions that might alter patterns of gene expression and in protein-coding genes, which are promising candidates to underpin adaptive change in the honeybee.

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NATURE PUBLISHING GROUP , 2018. Vol. 8, article id 11145
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Genetics
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URN: urn:nbn:se:uu:diva-361681DOI: 10.1038/s41598-018-29469-5ISI: 000439550200017PubMedID: 30042407OAI: oai:DiVA.org:uu-361681DiVA, id: diva2:1253575
Available from: 2018-10-05 Created: 2018-10-05 Last updated: 2018-10-05Bibliographically approved

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Wallberg, AndreasWebster, Matthew Thomas

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