Systems genomics of metabolic phenotypes in wild-type Drosophila melanogaster

Genetics

Volumn 197, Issue 2, 2014, Pages 781-783

  Reed, Laura K ^a   Lee, Kevin ^b   Zhang, Zhi ^c   Rashid, Lubna ^b   Poe, Amy ^b   Hsieh, Benjamin ^b   Deighton, Nigel ^d,e   Glassbrook, Norm ^d,f   Bodmer, Rolf ^c   Gibson, Greg ^b  

^a UNIVERSITY OF ALABAMA   (United States)

^b GEORGIA INSTITUTE OF TECHNOLOGY   (United States)

^c BURNHAM INSTITUTE   (United States)

^d NORTH CAROLINA STATE UNIVERSITY   (United States)

^e PENNSYLVANIA STATE UNIVERSITY   (United States)

^f BAYER CROPSCIENCE AG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

GLYCINE; SUGAR; TRANSCRIPTOME; TRIACYLGLYCEROL;

ARTICLE; DIET; DNA POLYMORPHISM; DROSOPHILA MELANOGASTER; FEMALE; FUNCTIONAL GENOMICS; GENE FREQUENCY; GENE LOCUS; GENETIC VARIABILITY; GENOTYPE; HEART ARRHYTHMIA; MALE; METABOLIC SYNDROME X; NONHUMAN; PHENOTYPE; PHENOTYPIC VARIATION; PRIORITY JOURNAL; QUANTITATIVE TRAIT LOCUS; RNA INTERFERENCE; SYSTEMS BIOLOGY; ADAPTATION; ANIMAL; GENETIC SELECTION; GENETICS; GENOMICS; INSECT GENOME; METABOLISM; METABOLOME;

ADAPTATION, PHYSIOLOGICAL; ANIMALS; DIET; DROSOPHILA MELANOGASTER; FEMALE; GENE FREQUENCY; GENOME, INSECT; GENOMICS; MALE; METABOLOME; PHENOTYPE; SELECTION, GENETIC; SYSTEMS BIOLOGY; TRANSCRIPTOME;

EID: 84902440699     PISSN: 00166731     EISSN: 19432631     Source Type: Journal    
DOI: 10.1534/genetics.114.163857     Document Type: Article

References (42)

1. Alberti, K., P. Zimmet, and J. Shaw, 2006 Metabolic syndrome: a new world-wide definition: a consensus statement from the International Diabetes Federation. Diabet. Med. 23: 469-480.
2. Atwell, S., and Y. S. Huang, B. J. Vilhja lmsson, G. Willems, M. Horton et al., 2010 Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Nature 465: 627-631.
3. Ayroles, J. F., M. A. Carbone, E. A. Stone, K. W. Jordan, R. F. Lyman et al., 2009 Systems genetics of complex traits in Drosophila melanogaster. Nat. Genet. 41: 299-307.
4. Barnes, P. T., B. Holland, and V. Courreges, 1989 Genotype-byenvironment and epistatic interactions in Drosophila melanogaster: the effects of Gpdh allozymes, genetic background and rearing temperature on larval developmental time and viability. Genetics 122: 859-868.
5. Birse, R. T., J. Choi, K. Reardon, J. Rodriguez, S. Graham et al., 2010 High-fat-diet-induced obesity and heart dysfunction are regulated by the TOR pathway in Drosophila. Cell Metab. 12: 533-544.
6. Burke, M. K., J. P. Dunham, P. Shahrestani, K. R. Thornton, M. R. Rose et al., 2010 Genome-wide analysis of a long-term evolution experiment with Drosophila. Nature 467: 587-590.
7. Chubukov, V., M. Uhr, L. Le Chat, R. J. Kleijn, M. Jules et al., 2013 Transcriptional regulation is insufficient to explain substrate-inducedfluxchangesinBacillussubtilis. Mol.Syst.Biol.9:709.
8. Civelek, M., and A. J. Lusis, 2013 Systems genetics approaches to understand complex traits. Natl. Rev. 15: 34-48.
9. Clark, A. G., and L. E. Keith, 1988 Variation among extracted lines of Drosophila melanogaster in triacylglycerol and carbohydrate storage. Genetics 119: 595-607.
10. De Luca, M., N. Yi, D. B. Allison, J. Leips, and D. M. Ruden, 2005 Mapping quantitative trait loci affecting variation in Drosophila triacylglycerol storage. Obes. Res. 13: 1596-1605.
11. Diop, S. B., and R. Bodmer, 2012 Drosophila as a model to study the genetic mechanisms of obesity-associated heart dysfunction. J. Cell. Mol. Med. 16: 966-971.
12. Doroszuk, A., M. J. Jonker, N. Pul, T. M. Breit, and B. J. Zwaan, 2012 Transcriptome analysis of a long-lived natural Drosophila variant: a prominent role of stressand reproductiongenes in lifespan extension. BMC Genomics 13: 167.
13. Dworkin, I. M., E. Kennerly, D. Tack, J. Hutchinson, J. Brown et al., 2009 Genomic consequences of background effects on scalloped mutant expressivity in the wing of Drosophila melanogaster. Genetics 181: 1065-1076.
14. Eckel, R. H., S. M. Grundy, and P. Z. Zimmet, 2005 The metabolic syndrome. Lancet 365: 16-22.
15. Floegel, A., N. Stefan, Z. Yu, K. Mühlenbruch, and D. Drogan et al., 2013 Identification of serum metabolites associated with risk of type 2 diabetes using a targeted metabolomic approach. Diabetes 62: 639-648.
16. Haddrill, P. R., K. R. Thornton, B. Charlesworth, and P. Andolfatto, 2005 Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations. Genome Res. 15: 790-799.
17. Harbison, S. T., M. A. Carbone, J. F. Ayroles, E. A. Stone, and R. F. Lyman et al., 2009 Co-regulated transcriptional networks contribute to natural genetic variation in Drosophila sleep. Nat. Genet. 41: 371-375.
18. Jain, M. M., R. Nilsson, S. Sharma, N. Madhusudhan, T. Kitami et al., 2012 Metabolite profiling identifies a key role for glycine in rapid cancer cell proliferation. Science 336: 1040-1044.
19. Jumbo-Lucioni, P., J. F. Ayroles, M. M. Chambers, K. W. Jordan, J. Leips et al., 2010 Systems genetics analysis of body weight and energy metabolism traits in Drosophila melanogaster. BMC Genomics 11: 297.
20. Khan, Z., M. J. Ford, D. A. Cusanovich, A. Mitrano, J. K. Pritchard et al., 2013 Primate transcript and protein expression levels evolve under compensatory selection pressures. Science 342: 1100-1104.
21. Lee, K. P., S. J. Simpson, F. J. Clissold, R. Brooks, and J. W. O. Ballard et al., 2008 Lifespan and reproduction in Drosophila: new insights from nutritional geometry. Proc. Natl. Acad. Sci. USA 105: 2498-2503.
22. Lehner, B., 2013 Genotype to phenotype: lessons from model organisms for human genetics. Nat. Rev. Genet. 14: 168-178.
23. Lim, H.-Y., W. Wang, R. J. Wessells, K. Ocorr, and R. Bodmer, 2011 Phospholipid homeostasis regulates lipid metabolism and cardiac function through SREBP signaling in Drosophila. Genes Dev. 25: 189-200.
24. Mackay, T. F. C., S. Richards, E. A. Stone, A. Barbadilla, J. F. Ayroles et al., 2012 The Drosophila melanogaster Genetic Reference Panel. Nature 482: 173-178.
25. Massouras, A., S. M. Waszak, M. Albarca-Aguilera, K. Hens, and W. Holcombe et al., 2012 Genomic variation and its impact on gene expression in Drosophila melanogaster. PLoS Genet. 8: e1003055.
26. Mayr, M., S. Yusuf, G. Weir, Y. L. Chung, U. Mayr et al., 2008 Combined metabolomic and proteomic analysis of human atrial fibrillation. J. Am. Coll. Cardiol. 51: 585-594.
27. Na, J., L. P. Musselman, J. Pendse, T. J. Baranski, R. Bodmer et al., 2013 A Drosophila model of high sugar diet-induced cardiomyopathy. PLoS Genet. 9: e1003175.
28. Nuwaysir, E. F., W. Huang, T. J. Albert, J. Singh, K. Nuwaysir et al., 2002 Gene expression analysis using oligonucleotide arrays produced by maskless photolithography. Genome Res. 12: 1749-1755.
29. Ocorr, K., N. L. Reeves, R. J. Wessells, M. Fink, and H. S. Chen et al., 2007 KCNQ potassium channel mutations cause cardiac arrhythmias in Drosophila that mimic the effects of aging. Proc. Natl. Acad. Sci. USA 104: 3943-3948.
30. Orozco-terWengel, P., M. Kapun, V. Nolte, R. Kofler, T. Flatt et al., 2012 Adaptation of Drosophila to a novel laboratory environment reveals temporally heterogeneous trajectories of selected alleles. Mol. Ecol. 21: 4931-4941.
31. Patel, C. J., A. Sivadas, R. Tabassum, T. Preeprem, J. Zhao et al., 2013 Whole genome sequencing in support of wellness and health maintenance. Genome Med. 5: 58.
32. Pospisilik, J.A., D. Schramek, H. Schnidar, S. J. Cronin, and N. T. Nehme et al., 2010 Drosophila genome-wide obesity screen reveals hedgehog as a determinant of brown vs. white adipose cell fate. Cell 140: 148-160.
33. Qi, Q., A. Y. Chu, J. H. Kang, M. K. Jensen, G. C. Curhan et al., 2012 Sugar-sweetened beverages and genetic risk of obesity. N. Engl. J. Med. 367: 1387-1396.
34. Reed, L. K., S. Williams, M. Springston, J. Brown, K. Freeman et al., 2010 Genotype-by-dietinteractionsdrivemetabolicphenotype variationinDrosophilamelanogaster.Genetics 185:1009-1019.
35. Rulifson, E. J., S. K. Kim, and R. Nusse, 2002 Ablation of insulinproducing neurons in flies: growth and diabetic phenotypes. Science 296: 1118-1120.
36. Sang, J. H., 1956 The quantitative nutritional requirements of Drosophila melanogaster. J. Exp. Biol. 33: 45-72.
37. Schulz, L., P.H. Bennett, E. Ravussin, J. R. Kidd, and K.K. Kidd et al., 2006 Effects of traditional and Western environments on prevalence of type 2 diabetes in Pima Indians in Mexico and the U.S. Diabetes Care 29: 1866-1871.
38. Spurgeon, S. L., R. C. Jones, and R. Ramakrishnan, 2008 High throughput gene expression measurement with real time PCR in a microfluidic dynamic array. PLoS ONE 3: e1662.
39. Takano, T., S. Kusakabe, and T. Mukai, 1987 The genetic structure of natural populations of Drosophila melanogaster. XX. Comparison of genotype-environment interaction in viability between a northern and a southern population. Genetics 117: 245-254.
40. Turner, T. L., and P. M. Miller, 2012 Investigating natural variation in Drosophila courtship song by the evolve and resequence approach. Genetics 191: 633-642.
41. Turner, T. L., A. D. Stewart, A. T. Fields, and W. R. Rice, A. M. Tarone, 2011 Population-based resequencing of experimentally evolved populations reveals the genetic basis of body size variation in Drosophila melanogaster. PLoS Genet. 7: e1001336.
42. Zhou, S., T. G. Campbell, E. A. Stone, T. F. C. Mackay, and R. R. H. Anholt, 2012 Phenotypic plasticity of the Drosophila transcriptome. PLoS Genet. 8: e1002593.