Physical and Linkage Maps for<i>Drosophila serrata</i>, a Model Species for Studies of Clinal Adaptation and Sexual Selection

Stocker, Ann Jacob; Rusuwa, Bosco; Blacket, Mark J.; Frentiu, Francesca D.; Sullivan, Mitchell J.; Foley, Bradley R; Beatson, Scott A.; Hoffmann, Ary A.; Chenoweth, Stephen F.

doi:10.1534/g3.111.001354

Cited by 20 publications

(33 citation statements)

References 53 publications

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“…The chromosomal location of ESTs was established based on homology with D. melanogaster . As observed among other Drosophila species (Bhutkar et al 2008), there is strong chromosome level conservation of orthologous genes between D. serrata and D. melanogaster (Stocker et al 2012). Stand-alone Blast (version 2.2.27+) was used to perform tBlastx (default settings) between our EST sequences and D. melanogaster chromosome, coding, gene, transcript, and pseudogene sequences obtained from Flybase.…”

Section: Methodsmentioning

confidence: 68%

“…On the D. melanogaster X chromosome, there is a deficit of sperm proteome-specific genes (Meisel et al 2012) but not testis-specific genes in general (Meiklejohn and Presgraves 2012; Meisel et al 2012). Because we used conserved synteny between D. serrata and D. melanogaster (Stocker et al 2012) to place genes on chromosomes, it is possible that genes which have transposed from the X chromosome to an autosome, a move which has occurred more than expected by chance for testis-specific genes in D. melanogaster (Betran et al 2002; Han and Hahn 2012), were incorrectly assigned to the X chromosome in D. serrata . If this were the case, our finding of a deficit of testis-specific genes in D. serrata is conservative because we may have assigned autosomal genes to the X chromosome.…”

Section: Resultsmentioning

confidence: 99%

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The Genomic Distribution of Sex-Biased Genes in Drosophila serrata: X Chromosome Demasculinization, Feminization, and Hyperexpression in Both Sexes

Allen

Bonduriansky

Chenoweth

2013

Genome Biology and Evolution

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The chromosomal distribution of genes with sex-biased expression is often nonrandom, and in species with XY sex chromosome systems, it is common to observe a deficit of X-linked male-biased genes and an excess of X-linked female-biased genes. One explanation for this pattern is that sex-specific selection has shaped the gene content of the X. Alternatively, the deficit of male-biased and excess of female-biased genes could be an artifact of differences between the sexes in the global expression level of their X chromosome(s), perhaps brought about by a lack of dosage compensation in males and hyperexpression in females. In the montium fruit fly, Drosophila serrata, both these explanations can account for a deficit of male-biased and excess of female-biased X-linked genes. Using genome-wide expression data from multiple male and female tissues (n = 176 hybridizations), we found that testis- and accessory gland-specific genes are underrepresented whereas female ovary-specific genes are overrepresented on the X chromosome, suggesting that X-linkage is disfavored for male function genes but favored for female function genes. However, genes with such sex-specific functions did not fully account for the deficit of male-biased and excess of female-biased X-linked genes. We did, however, observe sex differences in the global expression level of the X chromosome and autosomes. Surprisingly, and in contrast to other species where a lack of dosage compensation in males is responsible, we found that hyperexpression of X-linked genes in both sexes leads to this imbalance in D. serrata. Our results highlight how common genomic distributions of sex-biased genes, even among closely related species, may arise via quite different evolutionary processes.

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Section: Methodsmentioning

confidence: 68%

Section: Resultsmentioning

confidence: 99%

The Genomic Distribution of Sex-Biased Genes in Drosophila serrata: X Chromosome Demasculinization, Feminization, and Hyperexpression in Both Sexes

Allen

Bonduriansky

Chenoweth

2013

Genome Biology and Evolution

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“…errors and uneven recombination rates on statistical calculations. 39 Segregation distortion, which is common in interspecific crosses [40][41][42] as well as some crosses between different strains, 43,44 may also have contributed to the increased genetic distances.…”

Section: Resultsmentioning

confidence: 99%

Genomic resources for multiple species in the Drosophila ananassae species group

Signor

Seher²,

Kopp³

2013

Fly

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The development of genomic resources in non-model taxa is essential for understanding the genetic basis of biological diversity. Although the genomes of many Drosophila species have been sequenced, most of the phenotypic diversity in this genus remains to be explored. To facilitate the genetic analysis of interspecific and intraspecific variation, we have generated new genomic resources for seven species and subspecies in the D. ananassae species subgroup. We have generated large amounts of transcriptome sequence data for D. ercepeae, D. merina, D. bipectinata, D. malerkotliana malerkotliana, D. m. pallens, D. pseudoananassae pseudoananassae, and D. p. nigrens. de novo assembly resulted in contigs covering more than half of the predicted transcriptome and matching an average of 59% of annotated genes in the complete genome of D. ananassae. Most contigs, corresponding to an average of 49% of D. ananassae genes, contain sequence polymorphisms that can be used as genetic markers. Subsets of these markers were validated by genotyping the progeny of inter- and intraspecific crosses. The ananassae subgroup is an excellent model system for examining the molecular basis of speciation and phenotypic evolution. The new genomic resources will facilitate the genetic analysis of inter- and intraspecific differences in this lineage. Transcriptome sequencing provides a simple and cost-effective way to identify molecular markers at nearly single-gene density, and is equally applicable to any non-model taxa.

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“…Microsatellites were derived chiefly from a D. serrata EST collection (Frentiu et al ., ) with the exception of Dser6 (marker 25) which was developed earlier (Magiafoglou et al ., ). Because of the strong conservation of chromosome arm‐level gene content between D. serrata and Drosophila melanogaster genomes (Stocker et al ., ), we were able to use blast (Altschul et al ., ) to assign markers to chromosomal arms. Additionally, the 16 SNPs genotyped using sequenom have been placed on the D. serrata linkage map (Stocker et al ., ).…”

Section: Methodsmentioning

confidence: 99%

Connecting thermal performance curve variation to the genotype: a multivariate QTL approach

Latimer

Foley

Chenoweth

2015

J of Evolutionary Biology

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Thermal performance curves (TPCs) are continuous reaction norms that describe the relationship between organismal performance and temperature and are useful for understanding trade-offs involved in thermal adaptation. Although thermal trade-offs such as those between generalists and specialists or between hot- and cold-adapted phenotypes are known to be genetically variable and evolve during thermal adaptation, little is known of the genetic basis to TPCs - specifically, the loci involved and the directionality of their effects across different temperatures. To address this, we took a multivariate approach, mapping quantitative trait loci (QTL) for locomotor activity TPCs in the fly, Drosophila serrata, using a panel of 76 recombinant inbred lines. The distribution of additive genetic (co)variance in the mapping population was remarkably similar to the distribution of mutational (co)variance for these traits. We detected 11 TPC QTL in females and 4 in males. Multivariate QTL effects were closely aligned with the major axes genetic (co)variation between temperatures; most QTL effects corresponded to variation for either overall increases or decreases in activity with a smaller number indicating possible trade-offs between activity at high and low temperatures. QTL representing changes in curve shape such as the 'generalist-specialist' trade-off, thought key to thermal adaptation, were poorly represented in the data. We discuss these results in the light of genetic constraints on thermal adaptation.

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Physical and Linkage Maps forDrosophila serrata, a Model Species for Studies of Clinal Adaptation and Sexual Selection

Cited by 20 publications

References 53 publications

The Genomic Distribution of Sex-Biased Genes in Drosophila serrata: X Chromosome Demasculinization, Feminization, and Hyperexpression in Both Sexes

The Genomic Distribution of Sex-Biased Genes in Drosophila serrata: X Chromosome Demasculinization, Feminization, and Hyperexpression in Both Sexes

Genomic resources for multiple species in the Drosophila ananassae species group

Connecting thermal performance curve variation to the genotype: a multivariate QTL approach

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