GEPHE SUMMARY Print
Sophophora melanogaster; fruit fly; Drosophila melanogaster Meigen, 1830; Sophophora melanogaster (Meigen, 1830); Drosophila melangaster
Show more ... Brachycera; Muscomorpha; Eremoneura; Cyclorrhapha; Schizophora; Acalyptratae; Ephydroidea; Drosophilidae; Drosophilinae; Drosophilini; Drosophila; Sophophora; melanogaster group; melanogaster subgroup
NCBI Taxonomy ID
is Taxon A an Infraspecies?
Taxon A Description
NCBI Taxonomy ID
is Taxon B an Infraspecies?
Taxon B Description
Generic Gene Name
28d1; CG10833; Dmel\CG10833
Belongs to the cytochrome P450 family.
GO - Molecular Function
GO:0020037 : heme binding ... show more
GO - Biological Process
GO - Cellular Component
GO:0005789 : endoplasmic reticulum membrane ... show more
Molecular Details of the Mutation
insertion of a partial 1.5kb Accord transposable element and a Cyp28d1 gene tandem duplication (CNV - 3754 bp) that may play complementary role in resistance levels
Chakraborty M; VanKuren NW; Zhao R; Zhang X; Kalsow S; Emerson JJ
Mutations that add, subtract, rearrange, or otherwise refashion genome structure often affect phenotypes, although the fragmented nature of most contemporary assemblies obscures them. To discover such mutations, we assembled the first new reference-quality genome of Drosophila melanogaster since its initial sequencing. By comparing this new genome to the existing D. melanogaster assembly, we created a structural variant map of unprecedented resolution and identified extensive genetic variation that has remained hidden until now. Many of these variants constitute candidates underlying phenotypic variation, including tandem duplications and a transposable element insertion that amplifies the expression of detoxification-related genes associated with nicotine resistance. The abundance of important genetic variation that still evades discovery highlights how crucial high-quality reference genomes are to deciphering phenotypes.
19 (Acetylcholinesterase (Ace-2), alcohol dehydrogenase (Adh), Aldehyde dehydrogenase (Aldh), CG11699, Cyp12d1, Cyp28d1-Cyp28d2, cyp6d2, cyp6g1, glutamate-gated chloride channel (GluCl), GSS (glutathione synthetase), GSTE1-E10 cluster, kin of irre (kire), para (kdr), PHGPx, resistance to dieldrin, RnrS, SOD1, Ugt86Dd, CHKov1)
The QTL harbors a pair of cytochrome P450 genes. According to gene expression Cyp28d1 is the best candidate but Cyp28d2 is also possible. @TE described with nicotine-dependent effect on gene expression in the follow-up article by Chakraborty et al.: Intergenic element between a gene copy is the 5′ end of Accord, a long terminal repeat (LTR) retrotransposon.; Insertion of Accord upstream of another gene called Cyp6g1 has been linked to upregulation of the encoded cytochrome P450 enzyme suggesting that the retrotransposon may be responsible for the upregulated expression of the Cyp28d gene
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