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Genome of Drosophila suzukii, the spotted wing drosophila.

Chiu JC, Jiang X, Zhao L, Hamm CA, Cridland JM, Saelao P, Hamby KA, Lee EK, Kwok RS, Zhang G, Zalom FG, Walton VM, Begun DJ - G3 (Bethesda) (2013)

Bottom Line: To enable basic and applied research of this important pest, we sequenced the D. suzukii genome to obtain a high-quality reference sequence.Here, we discuss the basic properties of the genome and transcriptome and describe patterns of genome evolution in D. suzukii and its close relatives.Our analyses and genome annotations are presented in a web portal, SpottedWingFlyBase, to facilitate public access.

View Article: PubMed Central - PubMed

Affiliation: Department of Entomology and Nematology, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616.

ABSTRACT
Drosophila suzukii Matsumura (spotted wing drosophila) has recently become a serious pest of a wide variety of fruit crops in the United States as well as in Europe, leading to substantial yearly crop losses. To enable basic and applied research of this important pest, we sequenced the D. suzukii genome to obtain a high-quality reference sequence. Here, we discuss the basic properties of the genome and transcriptome and describe patterns of genome evolution in D. suzukii and its close relatives. Our analyses and genome annotations are presented in a web portal, SpottedWingFlyBase, to facilitate public access.

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Related in: MedlinePlus

Sex-biased genes of D. suzukii. Correlations between whole female and whole male expression (FPKM, log10) are plotted (red, sex-biased genes; gray, nonbiased genes). Pearson correlation r = 0.72.
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fig4: Sex-biased genes of D. suzukii. Correlations between whole female and whole male expression (FPKM, log10) are plotted (red, sex-biased genes; gray, nonbiased genes). Pearson correlation r = 0.72.

Mentions: Sexual dimorphic traits play key roles in animal evolution and behavior. The development of a trait in one sex and not the other must be the result of differential gene expression between males and females (Williams et al. 2008). To understand sex-biased gene expression in D. suzukii, we compared the RNA expression of 2-d-old adult females and males. We identified 1399 genes that showed sexually dimorphic expression, which we define as at least a two-fold difference between sexes (Figure 4 and Table S5). This is approximately 10.3% of the total annotated genes (n = 13,583) and 13.1% of the genes expressed in adults (n = 10,705). Of these 1399 genes, 150 showed female-biased expression and 1249 showed male-biased expression. To identify possible cases of genes that evolved in sex-biased expression between D. melanogaster and D. suzukii, we compared the expression pattern of all orthologs expressed in both species and found 22 genes that showed sex-biased expression switch (male to female or female to male) (Table S6). Four genes were male-biased in D. melanogaster but were female-biased in D. suzukii, whereas 18 were female-biased in D. melanogaster but were male-biased in D. suzukii.


Genome of Drosophila suzukii, the spotted wing drosophila.

Chiu JC, Jiang X, Zhao L, Hamm CA, Cridland JM, Saelao P, Hamby KA, Lee EK, Kwok RS, Zhang G, Zalom FG, Walton VM, Begun DJ - G3 (Bethesda) (2013)

Sex-biased genes of D. suzukii. Correlations between whole female and whole male expression (FPKM, log10) are plotted (red, sex-biased genes; gray, nonbiased genes). Pearson correlation r = 0.72.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3852387&req=5

fig4: Sex-biased genes of D. suzukii. Correlations between whole female and whole male expression (FPKM, log10) are plotted (red, sex-biased genes; gray, nonbiased genes). Pearson correlation r = 0.72.
Mentions: Sexual dimorphic traits play key roles in animal evolution and behavior. The development of a trait in one sex and not the other must be the result of differential gene expression between males and females (Williams et al. 2008). To understand sex-biased gene expression in D. suzukii, we compared the RNA expression of 2-d-old adult females and males. We identified 1399 genes that showed sexually dimorphic expression, which we define as at least a two-fold difference between sexes (Figure 4 and Table S5). This is approximately 10.3% of the total annotated genes (n = 13,583) and 13.1% of the genes expressed in adults (n = 10,705). Of these 1399 genes, 150 showed female-biased expression and 1249 showed male-biased expression. To identify possible cases of genes that evolved in sex-biased expression between D. melanogaster and D. suzukii, we compared the expression pattern of all orthologs expressed in both species and found 22 genes that showed sex-biased expression switch (male to female or female to male) (Table S6). Four genes were male-biased in D. melanogaster but were female-biased in D. suzukii, whereas 18 were female-biased in D. melanogaster but were male-biased in D. suzukii.

Bottom Line: To enable basic and applied research of this important pest, we sequenced the D. suzukii genome to obtain a high-quality reference sequence.Here, we discuss the basic properties of the genome and transcriptome and describe patterns of genome evolution in D. suzukii and its close relatives.Our analyses and genome annotations are presented in a web portal, SpottedWingFlyBase, to facilitate public access.

View Article: PubMed Central - PubMed

Affiliation: Department of Entomology and Nematology, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616.

ABSTRACT
Drosophila suzukii Matsumura (spotted wing drosophila) has recently become a serious pest of a wide variety of fruit crops in the United States as well as in Europe, leading to substantial yearly crop losses. To enable basic and applied research of this important pest, we sequenced the D. suzukii genome to obtain a high-quality reference sequence. Here, we discuss the basic properties of the genome and transcriptome and describe patterns of genome evolution in D. suzukii and its close relatives. Our analyses and genome annotations are presented in a web portal, SpottedWingFlyBase, to facilitate public access.

Show MeSH
Related in: MedlinePlus