scholarly journals The Genetic Architecture of Natural Variation in Recombination Rate in Drosophila melanogaster

PLoS Genetics ◽  
2016 ◽  
Vol 12 (4) ◽  
pp. e1005951 ◽  
Author(s):  
Chad M. Hunter ◽  
Wen Huang ◽  
Trudy F. C. Mackay ◽  
Nadia D. Singh
Keyword(s):  
Drosophila Melanogaster ◽  
Recombination Rate ◽  
Genetic Architecture ◽  
Natural Variation

scholarly journals Genetic Networks Underlying Natural Variation in Basal and Induced Activity Levels in Drosophila melanogaster

2020 ◽  
Vol 10 (4) ◽  
pp. 1247-1260 ◽  
Author(s):  
Louis P. Watanabe ◽  
Cameron Gordon ◽  
Mina Y. Momeni ◽  
Nicole C. Riddle
Keyword(s):  
Drosophila Melanogaster ◽  
Candidate Genes ◽  
Genetic Architecture ◽  
Natural Variation ◽  
Neuromuscular Junctions ◽  
Healthy Lifestyle ◽  
Activity Levels ◽  
Exercise Activity ◽  
The Central Nervous System ◽  
Exercise Induced

Exercise is recommended by health professionals across the globe as part of a healthy lifestyle to prevent and/or treat the consequences of obesity. While overall, the health benefits of exercise and an active lifestyle are well understood, very little is known about how genetics impacts an individual’s inclination for and response to exercise. To address this knowledge gap, we investigated the genetic architecture underlying natural variation in activity levels in the model system Drosophila melanogaster. Activity levels were assayed in the Drosophila Genetics Reference Panel fly strains at baseline and in response to a gentle exercise treatment using the Rotational Exercise Quantification System. We found significant, sex-dependent variation in both activity measures and identified over 100 genes that contribute to basal and induced exercise activity levels. This gene set was enriched for genes with functions in the central nervous system and in neuromuscular junctions and included several candidate genes with known activity phenotypes such as flightlessness or uncoordinated movement. Interestingly, there were also several chromatin proteins among the candidate genes, two of which were validated and shown to impact activity levels. Thus, the study described here reveals the complex genetic architecture controlling basal and exercise-induced activity levels in D. melanogaster and provides a resource for exercise biologists.

scholarly journals Genetic architecture of natural variation in cuticular hydrocarbon composition in Drosophila melanogaster

eLife ◽  
2015 ◽  
Vol 4 ◽  
Author(s):  
Lauren M Dembeck ◽  
Katalin Böröczky ◽  
Wen Huang ◽  
Coby Schal ◽  
Robert R H Anholt ◽  
...  
Keyword(s):  
Drosophila Melanogaster ◽  
Social Interactions ◽  
Individual Variation ◽  
Genetic Architecture ◽  
Natural Variation ◽  
Genetic Basis ◽  
Acid Metabolism ◽  
Cuticular Hydrocarbon ◽  
Principal Component ◽  
Hydrocarbon Composition

Insect cuticular hydrocarbons (CHCs) prevent desiccation and serve as chemical signals that mediate social interactions. Drosophila melanogaster CHCs have been studied extensively, but the genetic basis for individual variation in CHC composition is largely unknown. We quantified variation in CHC profiles in the D. melanogaster Genetic Reference Panel (DGRP) and identified novel CHCs. We used principal component (PC) analysis to extract PCs that explain the majority of CHC variation and identified polymorphisms in or near 305 and 173 genes in females and males, respectively, associated with variation in these PCs. In addition, 17 DGRP lines contain the functional Desat2 allele characteristic of African and Caribbean D. melanogaster females (more 5,9-C27:2 and less 7,11-C27:2, female sex pheromone isomers). Disruption of expression of 24 candidate genes affected CHC composition in at least one sex. These genes are associated with fatty acid metabolism and represent mechanistic targets for individual variation in CHC composition.

scholarly journals Unusual genetic architecture of natural variation affecting drug resistance in Drosophila melanogaster

2002 ◽  
Vol 80 (3) ◽  
pp. 205-213 ◽  
Author(s):  
ROLAND CARRILLO ◽  
GREG GIBSON
Keyword(s):  
Drug Resistance ◽  
Drosophila Melanogaster ◽  
Genetic Variation ◽  
Genetic Architecture ◽  
Natural Variation ◽  
Starvation Resistance ◽  
Female Resistance ◽  
Caffeine Ingestion ◽  
Naturally Occurring ◽  
Chronic Ingestion

Naturally occurring genetic variation was quantified for survival time of adult Drosophila melanogaster exposed to chronic ingestion of the drugs nicotine, caffeine, dopamine, tyramine and octopamine. Responses to nicotine, tyramine and octopamine were genetically correlated in both sexes, whereas caffeine response correlated with starvation resistance. However, there is also genetic variation that is specific for each of the drugs. Females tended to be more resistant than males to nicotine and caffeine but sex-by-genotype interactions were also seen for these drugs and for the response to dopamine. An unusual and complex genetic architecture was observed in crosses between lines with different responses to caffeine ingestion. Additive and dominance components were clearly seen from the analysis of F1 individuals, but increased female resistance to caffeine in backcross generations and increased male sensitivity in F2 generations confused the interpretation of possible epistatic contributions.

scholarly journals Genetic networks underlying natural variation in basal and induced activity levels in Drosophila melanogaster

2018 ◽  
Author(s):  
Louis P. Watanabe ◽  
Cameron Gordon ◽  
Mina Y. Momeni ◽  
Nicole C. Riddle
Keyword(s):  
Drosophila Melanogaster ◽  
Candidate Genes ◽  
Genetic Architecture ◽  
Natural Variation ◽  
Neuromuscular Junctions ◽  
Healthy Lifestyle ◽  
Activity Levels ◽  
Exercise Activity ◽  
The Central Nervous System ◽  
Exercise Induced

ABSTRACTExercise is recommended by health professionals across the globe as part of a healthy lifestyle to prevent and/or treat the consequences of obesity. While overall, the health benefits of exercise and an active lifestyle are well understood, very little is known about how genetics impacts an individual’s inclination for and response to exercise. To address this knowledge gap, we investigated the genetic architecture underlying natural variation in activity levels in the model system Drosophila melanogaster. Activity levels were assayed in the Drosophila Genetics Reference Panel 2 fly strains at baseline and in response to a gentle exercise treatment using the Rotational Exercise Quantification System. We found significant, sex-dependent variation in both activity measures and identified over 100 genes that contribute to basal and induced exercise activity levels. This gene set was enriched for genes with functions in the central nervous system and in neuromuscular junctions and included several candidate genes with known activity phenotypes such as flightlessness or uncoordinated movement. Interestingly, there were also several chromatin proteins among the candidate genes, two of which were validated and shown to impact activity levels. Thus, the study described here reveals the complex genetic architecture controlling basal and exercise-induced activity levels in D. melanogaster and provides a resource for exercise biologists.

scholarly journals Genetic Architecture of Natural Variation Underlying Adult Foraging Behavior That Is Essential for Survival of Drosophila melanogaster

2017 ◽  
Vol 9 (5) ◽  
pp. 1357-1369 ◽  
Author(s):  
Yuh Chwen G. Lee ◽  
Qian Yang ◽  
Wanhao Chi ◽  
Susie A. Turkson ◽  
Wei A. Du ◽  
...  
Keyword(s):  
Drosophila Melanogaster ◽  
Foraging Behavior ◽  
Genetic Architecture ◽  
Natural Variation

scholarly journals Chromosomal Distribution of Transposable Elements in Drosophila melanogaster Test of the Ectopic Recombination Model for Maintenance of Insertion Site Number

Genetics ◽  
1996 ◽  
Vol 144 (1) ◽  
pp. 197-204
Author(s):  
Christine Hoogland ◽  
Christian Biémont
Keyword(s):  
Drosophila Melanogaster ◽  
Transposable Elements ◽  
Dna Content ◽  
Recombination Rate ◽  
Alternative Hypothesis ◽  
Insertion Site ◽  
Polytene Chromosomes ◽  
Negative Relationship ◽  
Site Occupancy ◽  
Site Number

Abstract Data of insertion site localization and site occupancy frequency of P, hobo, I, copia, mdg1, mdg3, 412, 297, and roo transposable elements (TEs) on the polytene chromosomes of Drosophila melanogaster were extracted from the literature. We show that TE insertion site number per chromosomal division was significantly correlated with the amount of DNA. The insertion site number weighted by DNA content was not correlated with recombination rate for all TEs except hobo, for which a positive correlation was detected. No global tendency emerged in the relationship between TE site occupancy frequency, weighted by DNA content, and recombination rate; a strong negative correlation was, however, found for the 3L arm. A possible dominant deleterious effect of chromosomal rearrangements due to recombination between TE insertions is thus not the main factor explaining the dynamics of TEs, since this hypothesis implies a negative relationship between recombination rate and both TE insertion site number and site occupancy frequency. The alternative hypothesis of selection against deleterious effects of insertional mutations is discussed.

scholarly journals Patterns of DNA Variability at X-Linked Loci in Mus domesticus

Genetics ◽  
1997 ◽  
Vol 147 (3) ◽  
pp. 1303-1316
Author(s):  
Michael W Nachman
Keyword(s):  
Drosophila Melanogaster ◽  
X Chromosome ◽  
House Mouse ◽  
Recombination Rate ◽  
Nucleotide Diversity ◽  
Mus Domesticus ◽  
Substantial Variation ◽  
Intraspecific Polymorphism ◽  
Recombination Rates ◽  
Interspecific Divergence

Introns of four X-linked genes (Hprt, Plp, Glra2, and Amg) were sequenced to provide an estimate of nucleotide diversity at nuclear genes within the house mouse and to test the neutral prediction that the ratio of intraspecific polymorphism to interspecific divergence is the same for different loci. Hprt and Plp lie in a region of the X chromosome that experiences relatively low recombination rates, while Glra2 and Amg lie near the telomere of the X chromosome, a region that experiences higher recombination rates. A total of 6022 bases were sequenced in each of 10 Mus domesticus and one M. caroli. Average nucleotide diversity (π) for introns within M. domesticus was quite low (π = 0.078%). However, there was substantial variation in the level of heterozygosity among loci. The two telomeric loci, Glra2 and Amg, had higher ratios of polymorphism to divergence than the two loci experiencing lower recombination rates. These results are consistent with the hypothesis that heterozygosity is reduced in regions with lower rates of recombination, although sampling of additional genes is needed to establish whether there is a general correlation between heterozygosity and recombination rate as in Drosophila melanogaster.

Sign in / Sign up

Export Citation Format

Share Document