THE INTENSITY OF SELECTION ACTING ON THE<i>COUCH POTATO</i>GENE-SPATIAL-TEMPORAL VARIATION IN A DIAPAUSE CLINE

Cogni, Rodrigo; Kuczynski, Caitlin A.; Koury, Spencer; Lavington, Erik; Behrman, Emily L.; O’Brien, Katherine R.; Schmidt, Paul S.; Eanes, Walter F.

doi:10.1111/evo.12291

Cited by 72 publications

(92 citation statements)

References 54 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…We find that the rate of parallelism increases with increasingly stringent seasonal and clinal significance thresholds ( Figure 4A). Parallel changes in allele frequency between seasons and clines is similar to previously published genome-wide and locus specific results (Cogni et al 2014;Bergland et al 2014;Kapun et al 2016). Parallelism rates are higher when assessing seasonal variation using the 'flipped' model as compared to when we use the 'original model'.…”

Section: Resultssupporting

confidence: 85%

“…Previous analyses of seasonal changes in allele frequency in D. melanogaster have focused on a single mid-latitude population (Linvilla, Pennsylvania; (Cogni et al 2014;Bergland et al 2014)). The generality of that work is necessarily limited because it is restricted to a single locale.…”

Section: Discussionmentioning

confidence: 99%

“…The Tep2/3 region contains 11 of the top seasonally variable SNPs, ranking this region among the top 0.1% genomic windows. The genomic window surrounding couch-potato (cpo), a seasonally variable gene (Cogni et al 2014) found to be associated with diapause (Schmidt et al 2008), has 7 of the top seasonally variable SNPs ranking it among the top 1% of windows genome-wide. Note that the enrichment of seasonal SNPs surrounding cpo is not significant after conservative, multiple testing correction (padjusted = 1) which would be appropriate for de novo discovery of such regions.…”

Section: Cc-by-nc-ndmentioning

confidence: 99%

See 2 more Smart Citations

Broad geographic sampling reveals predictable, pervasive, and strong seasonal adaptation inDrosophila

Taylor

et al. 2018

Preprint

173

View full text Add to dashboard Cite

Local adaptation in response to spatially varying selection pressures is widely recognized as a ubiquitous feature for many organisms. In contrast, our understanding of local adaptation to temporally varying selection pressures is limited. To advance our understanding of local adaptation to temporally varying selection pressures, we studied genomic signatures of seasonal adaptation in Drosophila melanogaster. We generated whole-genome estimates of allele frequencies from flies sampled during the spring and fall from 15 localities. We show that seasonal adaptation is a general feature fly populations and that the direction of seasonal adaptation can be predicted by weather conditions in the weeks prior to sampling. We find that seasonal changes in allele frequency are mirrored by spatial variation in allele frequency and that seasonal adaptation affects allele frequencies at ~1.0-2.5% of polymorphisms genomewide. Our work demonstrates that seasonal adaptation is a major evolutionary force affecting D. melanogaster populations living in temperate environments.

show abstract

Section: Resultssupporting

confidence: 85%

Section: Discussionmentioning

confidence: 99%

Section: Cc-by-nc-ndmentioning

confidence: 99%

See 1 more Smart Citation

Broad geographic sampling reveals predictable, pervasive, and strong seasonal adaptation inDrosophila

Taylor

et al. 2018

Preprint

173

View full text Add to dashboard Cite

show abstract

“…Supporting this idea, many latitudinal clines show co-variation between clock genes and diapause response (Mathias et al, 2005;Schmidt et al, 2008;Tauber et al, 2007;Cogni et al, 2013;Levy et al, 2015). In addition to the possible involvement of Per, we found the circadian gene PAR-domain protein 1 (Pdp1) to be significantly differently expressed between the strains (e.g.…”

Section: The Circadian Clocksupporting

confidence: 64%

Transcriptome profiling reveals mechanisms for the evolution of insect seasonality

Wadsworth

Dopman

2015

Journal of Experimental Biology

View full text Add to dashboard Cite

Rapid evolutionary change in seasonal timing can facilitate ecological speciation and resilience to climate warming. However, the molecular mechanisms behind shifts in animal seasonality are still unclear. Evolved differences in seasonality occur in the European corn borer moth (Ostrinia nubilalis), in which early summer emergence in E-strain adults and later summer emergence in Z-strain adults is explained by a shift in the length of the termination phase of larval diapause. Here, we sample from the developmental time course of diapause in both strains and use transcriptome sequencing to profile regulatory and amino acid changes associated with timing divergence. Within a previously defined quantitative trait locus (QTL), we nominate 48 candidate genes, including several in the insulin signaling and circadian rhythm pathways. Genome-wide transcriptional activity is negligible during the extended Z-strain termination, whereas shorter E-strain termination is characterized by a rapid burst of regulatory changes involved in resumption of the cell cycle, hormone production and stress response. Although gene expression during diapause termination in Ostrinia is similar to that found previously in flies, nominated genes for shifts in timing are species specific. Hence, across distant relatives the evolution of insect seasonality appears to involve unique genetic switches that direct organisms into distinct phases of the diapause pathway through wholesale restructuring of conserved gene regulatory networks.

show abstract

“…In this report, we specifically address this hypothesis by studying these associations in enzymes representing the central metabolic pathway for which we possess detailed data on latitudinal variation [14], as well as seasonal collections from the same temperate population in Pennsylvania studied previously [13]. For 128 SNPs embedded in 46 genes, we pair for each SNP the correlation of latitudinal variation with the correlation of seasonal monthly change and test the overall aggregate rank correlation by random permutation.…”

Section: Introductionmentioning

confidence: 99%

Variation inDrosophila melanogastercentral metabolic genes appears driven by natural selection both within and between populations

et al. 2015

Self Cite

View full text Add to dashboard Cite

In this report, we examine the hypothesis that the drivers of latitudinal selection observed in the eastern US Drosophila melanogaster populations are reiterated within seasons in a temperate orchard population in Pennsylvania, USA. Specifically, we ask whether alleles that are apparently favoured in northern populations are also favoured early in the spring, and decrease in frequency from the spring to autumn with the population expansion. We use SNP data collected for 46 metabolic genes and 128 SNPs representing the central metabolic pathway and examine for the aggregate SNP allele frequencies whether the association of allele change with latitude and that with increasing days of spring-autumn season are reversed. Testing by random permutation, we observe a highly significant negative correlation between these associations that is consistent with this expectation. This correlation is stronger when we confine our analysis to only those alleles that show significant latitudinal changes. This pattern is not caused by association with chromosomal inversions. When data are resampled using SNPs for amino acid change the relationship is not significant but is supported when SNPs associated with cis-expression are only considered. Our results suggest that climate factors driving latitudinal molecular variation in a metabolic pathway are related to those operating on a seasonal level within populations.

show abstract

THE INTENSITY OF SELECTION ACTING ON THECOUCH POTATOGENE-SPATIAL-TEMPORAL VARIATION IN A DIAPAUSE CLINE

Abstract: Cosmopolitan populations of

Cited by 72 publications

References 54 publications

Broad geographic sampling reveals predictable, pervasive, and strong seasonal adaptation inDrosophila

Broad geographic sampling reveals predictable, pervasive, and strong seasonal adaptation inDrosophila

Transcriptome profiling reveals mechanisms for the evolution of insect seasonality

Variation inDrosophila melanogastercentral metabolic genes appears driven by natural selection both within and between populations

Contact Info

Product

Resources

About