scholarly journals Natural selection shapes variation in genome-wide recombination rate in Drosophila pseudoobscura

2019 ◽  
Author(s):  
Kieran Samuk ◽  
Brenda Manzano-Winkler ◽  
Kathryn R. Ritz ◽  
Mohamed A.F. Noor
Keyword(s):  
Natural Selection ◽  
Recombination Rate ◽  
Natural Populations ◽  
Amplicon Sequencing ◽  
Drosophila Pseudoobscura ◽  
Global Regulators ◽  
Crossover Rate ◽  
Genome Wide ◽  
Significant Difference ◽  
Long Read

AbstractWhile recombination is widely recognized to be a key modulator of numerous evolutionary phenomena, we have a poor understanding of how recombination rate itself varies and evolves within a species. Here, we performed a comprehensive study of recombination rate (rate of meiotic crossing over) in two natural populations of Drosophila pseudoobscura from Utah and Arizona, USA. We used an amplicon sequencing approach to obtain high-quality genotypes in approximately 8000 individual backcrossed offspring (17 mapping populations with roughly 530 individuals each), for which we then quantified crossovers. Interestingly, variation in recombination rate within and between populations largely manifested as differences in genome-wide recombination rate rather than remodeling of the local recombination landscape. Comparing populations, we discovered individuals from the Utah population displayed on average 8% higher crossover rates than the Arizona population, a statistically significant difference. Using a QST-FST analysis, we found that this difference in crossover rate was dramatically higher than expected under neutrality, indicating that this difference may have been driven by natural selection. Finally, using a combination of short and long read whole-genome sequencing, we found no significant association between crossover rate and structural variation at the 200-400kb scale. Our results demonstrate that (1) there is abundant variation in genome-wide crossover rate in natural populations (2) interpopulation differences in recombination rate may be the result of local adaptation, and (3) the observed variation among individuals in recombination rate is primarily driven by global regulators of crossover rate, with little detected variation in recombination rate among strains across specific tracts of individual chromosomes.

scholarly journals Natural Selection Shapes Variation in Genome-wide Recombination Rate in Drosophila pseudoobscura

2020 ◽  
Vol 30 (8) ◽  
pp. 1517-1528.e6 ◽  
Author(s):  
Kieran Samuk ◽  
Brenda Manzano-Winkler ◽  
Kathryn R. Ritz ◽  
Mohamed A.F. Noor
Keyword(s):  
Natural Selection ◽  
Recombination Rate ◽  
Drosophila Pseudoobscura ◽  
Genome Wide

scholarly journals Higher Intercellular Variation in Genome-Wide Recombination Rate in Female Mice

2021 ◽  
pp. 1-7
Author(s):  
April L. Peterson ◽  
Bret A. Payseur
Keyword(s):  
Natural Selection ◽  
Sex Difference ◽  
Meiotic Recombination ◽  
Recombination Rate ◽  
Inbred Strains ◽  
House Mice ◽  
Mlh1 Focus ◽  
Female Mice ◽  
Genome Wide ◽  
Recombination Pathway

Meiotic recombination affects fertility, shuffles genomes, and modulates the effectiveness of natural selection. Despite conservation of the recombination pathway, the rate of recombination varies among individuals and along chromosomes. Recombination rate also differs among cells from the same organism, but this form of variation has received less attention. To identify patterns that characterize intercellular variation in the genome-wide recombination rate, we counted foci of the MLH1 recombination-associated protein in oocytes and spermatocytes from a panel of wild-derived inbred strains of house mice. Females show higher intercellular variation in MLH1 focus count than males from the same inbred strains. This pattern is consistent across strains from multiple subspecies, including 2 strains in which the average MLH1 focus count is higher in males. The sex difference in genome-wide recombination rate we report suggests that selection targeting recombination rate will be more efficient in males than in females.

scholarly journals Spatio-Temporal Ecological and Evolutionary Dynamics in Natural Butterfly Populations (2015 Field Season)

2015 ◽  
Vol 38 ◽  
pp. 29-32
Author(s):  
Zachariah Gompert ◽  
Lauren Lucas
Keyword(s):  
Genetic Variation ◽  
Natural Selection ◽  
Molecular Evolution ◽  
Natural Populations ◽  
Spatial And Temporal Variation ◽  
Long Term Study ◽  
Genome Wide ◽  
In The Wild ◽  
Long Term Studies

The study of evolution in natural populations has advanced our understanding of the origin and maintenance of biological diversity. For example, long term studies of wild populations indicate that natural selection can cause rapid and dramatic changes in traits, but that in some cases these evolutionary changes are quickly reversed when periodic variation in weather patterns or the biotic environment cause the optimal trait value to change (e.g., Reznick et al. 1997, Grant and Grant 2002). In fact, spatial and temporal variation in the strength and nature of natural selection could explain the high levels of genetic variation found in many natural populations (Gillespie 1994, Siepielski et al. 2009). Long term studies of evolution in the wild could also be informative for biodiversity conservation and resource management, because, for example, data on short term evolutionary responses to annual fluctuations in temperature or rainfall could be used to predict longer term evolution in response to directional climate change. Most previous research on evolution in the wild has considered one or a few observable traits or genes (e.g., Kapan 2001, Grant and Grant 2002, Barrett et al. 2008). We believe that more general conclusions regarding the rate and causes of evolutionary change in the wild and selection’s contribution to the maintenance of genetic variation could be obtained by studying genome-wide molecular evolution in a suite of natural populations. Thus, in 2012 we began a long term study of genome-wide molecular evolution in a series of natural butterfly populations in the Greater Yellowstone Area (GYA). This study will allow us to quantify the contribution of environment-dependent natural selection to evolution in these butterfly populations and determine whether selection consistently favors the same alleles across space and through time.

scholarly journals Spatio-Temporal Evolutionary Dynamics in Natural Butterfly Populations (2012 Field Season)

2012 ◽  
Vol 35 ◽  
pp. 73-76
Author(s):  
Zachariah Gompert ◽  
Lauren Lucas
Keyword(s):  
Genetic Variation ◽  
Natural Selection ◽  
Molecular Evolution ◽  
Natural Populations ◽  
Spatial And Temporal Variation ◽  
Long Term Study ◽  
Genome Wide ◽  
In The Wild ◽  
Long Term Studies

The study of evolution in natural populations has advanced our understanding of the origin and maintenance of biological diversity. For example, long term studies of wild populations indicate that natural selection can cause rapid and dramatic changes in traits, but that in some cases these evolutionary changes are quickly reversed when periodic variation in weather patterns or the biotic environment cause the optimal trait value to change (e.g., Reznick et al. 1997; Grant and Grant 2002). In fact, spatial and temporal variation in the strength and nature of natural selection could explain the high levels of genetic variation found in many natural populations (Gillespie 1994; Siepielski et al. 2009). Long term studies of evolution in the wild could also be informative for biodiversity conservation and resource management, because, for example, data on short term evolutionary responses to annual fluctuations in temperature or rainfall could be used to predict longer term evolution in response to directional climate change. Most previous research on evolution in the wild has considered one or a few observable traits or genes (Kapan 2001; Grant and Grant 2002; Barrett et al. 2008). We believe that more general conclusions regarding the rate and causes of evolutionary change in the wild and selection’s contribution to the maintenance of genetic variation could be obtained by studying genome-wide molecular evolution in a suite of natural populations. Thus, we have begun a long term study of genome-wide molecular evolution in a series of natural butterfly populations in the Greater Yellowstone Area (GYA). This study will allow us to quantify the contribution of environment-dependent natural selection to evolution in these butterfly populations and determine whether selection consistently favors the same alleles across space and through time.

scholarly journals Spatio-temporal Ecological and Evolutionary Dynamics in Natural Butterfly Populations (2013 Field Season)

2013 ◽  
Vol 36 ◽  
pp. 146-149
Author(s):  
Zachariah Gompert ◽  
Lauren Lucas
Keyword(s):  
Genetic Variation ◽  
Natural Selection ◽  
Molecular Evolution ◽  
Natural Populations ◽  
Spatial And Temporal Variation ◽  
Long Term Study ◽  
Genome Wide ◽  
In The Wild ◽  
Long Term Studies

The study of evolution in natural populations has advanced our understanding of the origin and maintenance of biological diversity. For example, long term studies of wild populations indicate that natural selection can cause rapid and dramatic changes in traits, but that in some cases these evolutionary changes are quickly reversed when periodic variation in weather patterns or the biotic environment cause the optimal trait value to change (e.g., Reznick et al. 1997, Grant and Grant 2002). In fact, spatial and temporal variation in the strength and nature of natural selection could explain the high levels of genetic variation found in many natural populations (Gillespie 1994, Siepielski et al. 2009). Long term studies of evolution in the wild could also be informative for biodiversity conservation and resource management, because, for example, data on short term evolutionary responses to annual fluctuations in temperature or rainfall could be used to predict longer term evolution in response to directional climate change. Most previous research on evolution in the wild has considered one or a few observable traits or genes (Kapan 2001, Grant and Grant 2002, Barrett et al. 2008). We believe that more general conclusions regarding the rate and causes of evolutionary change in the wild and selection’s contribution to the maintenance of genetic variation could be obtained by studying genome-wide molecular evolution in a suite of natural populations. Thus, we have begun a long term study of genome-wide molecular evolution in a series of natural butterfly populations in the Greater Yellowstone Area (GYA). This study will allow us to quantify the contribution of environment-dependent natural selection to evolution in these butterfly populations and determine whether selection consistently favors the same alleles across space and through time.

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