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| Status |
Public on Jan 11, 2022 |
| Title |
Natural variation in the transcriptional response of Drosophila melanogaster to oxidative stress |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Broadly distributed species must cope with diverse and changing environmental conditions, including various forms of stress. Cosmopolitan populations of Drosophila melanogaster are more tolerant to oxidative stress than those from the species’ ancestral range in sub-Saharan Africa, and the degree of tolerance is associated with an insertion/deletion polymorphism in the 3’ untranslated region of the Metallothionein A (MtnA) gene that varies clinally in frequency. We examined oxidative stress tolerance and the transcriptional response to oxidative stress in cosmopolitan and sub-Saharan African populations of D. melanogaster, including paired samples with allelic differences at the MtnA locus. We found that the effect of the MtnA polymorphism on oxidative stress tolerance was dependent on the genomic background, with the deletion allele increasing tolerance only in a northern, temperate population. Genes that were differentially expressed under oxidative stress included MtnA and other metallothioneins, as well as those involved in glutathione metabolism and other genes known to be part of the oxidative stress response or the general stress response.
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| Overall design |
RNA sequencing was performed on pools of whole heads of 5-7 day old male flies, either treated with menadione sodium bisulfite (MSB) or not.
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| Contributor(s) |
Ramnarine T, Grath S, Parsch J |
| Citation(s) |
34747443 |
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| Submission date |
May 21, 2021 |
| Last update date |
Jan 11, 2022 |
| Contact name |
Sonja Grath |
| E-mail(s) |
grath@bio.lmu.de
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| Organization name |
Ludwig-Maximilians University Munich
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| Department |
Department Biology II
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| Lab |
Evolutionary Biology
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| Street address |
Grosshaderner Str. 2
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| City |
Planegg-Martinsried |
| State/province |
Bavaria |
| ZIP/Postal code |
82152 |
| Country |
Germany |
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| Platforms (1) |
| GPL25244 |
Illumina NovaSeq 6000 (Drosophila melanogaster) |
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| Samples (48)
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| GSM5328667 |
C2D3,control,deletion,replicate 1 [C2D3c_H3] |
| GSM5328668 |
C2D3,control,deletion,replicate 2 [C2D3c_H4] |
| GSM5328669 |
C2D3,stress,deletion,replicate 1 [C2D3s_H1] |
| GSM5328670 |
C2D3,stress,deletion,replicate 2 [C2D3s_H2] |
| GSM5328671 |
C2N1,control,non-deletion,replicate 1 [C2N1c_G3] |
| GSM5328672 |
C2N1,control,non-deletion,replicate 2 [C2N1c_G4] |
| GSM5328673 |
C2N1,stress,non-deletion,replicate 1 [C2N1s_G1] |
| GSM5328674 |
C2N1,stress,non-deletion,replicate 2 [C2N1s_G2] |
| GSM5328675 |
KL01,control,deletion,replicate 1 [KL01c_E3] |
| GSM5328676 |
KL01,control,deletion,replicate 2 [KL01c_E4] |
| GSM5328677 |
KL01,stress,deletion,replicate 1 [KL01s_E1] |
| GSM5328678 |
KL01,stress,deletion,replicate 2 [KL01s_E2] |
| GSM5328679 |
KL02,control,non-deletion,replicate 1 [KL02c_F3] |
| GSM5328680 |
KL02,control,non-deletion,replicate 2 [KL02c_F4] |
| GSM5328681 |
KL02,stress,non-deletion,replicate 1 [KL02s_F1] |
| GSM5328682 |
KL02,stress,non-deletion,replicate 2 [KL02s_F2] |
| GSM5328683 |
M12D3,control,deletion,replicate 1 [M12D3c_C3] |
| GSM5328684 |
M12D3,control,deletion,replicate 2 [M12D3c_C4] |
| GSM5328685 |
M12D3,stress,deletion,replicate 1 [M12D3s_C1] |
| GSM5328686 |
M12D3,stress,deletion,replicate 2 [M12D3s_C2] |
| GSM5328687 |
M12N3,control,non-deletion,replicate 1 [M12N3c_D3] |
| GSM5328688 |
M12N3,control,non-deletion,replicate 2 [M12N3c_D4] |
| GSM5328689 |
M12N3,stress,non-deletion,replicate 1 [M12N3s_D1] |
| GSM5328690 |
M12N3,stress,non-deletion,replicate 2 [M12N3s_D2] |
| GSM5328691 |
M9D3,control,deletion,replicate 1 [M9D3c_B3] |
| GSM5328692 |
M9D3,control,deletion,replicate 2 [M9D3c_B4] |
| GSM5328693 |
M9D3,stress,deletion,replicate 1 [M9D3s_B1] |
| GSM5328694 |
M9D3,stress,deletion,replicate 2 [M9D3s_B2] |
| GSM5328695 |
M9N1,control,non-deletion,replicate 1 [M9N1c_A3] |
| GSM5328696 |
M9N1,control,non-deletion,replicate 2 [M9N1c_A4] |
| GSM5328697 |
M9N1,stress,non-deletion,replicate 1 [M9N1s_A1] |
| GSM5328698 |
M9N1,stress,non-deletion,replicate 2 [M9N1s_A2] |
| GSM5328699 |
ZI197,control,non-deletion,replicate 1 [ZI197c_I2] |
| GSM5328700 |
ZI197,control,non-deletion,replicate 2 [ZI197c_I3] |
| GSM5328701 |
ZI197,stress,non-deletion,replicate 1 [ZI197s_I1] |
| GSM5328702 |
ZI254,control,non-deletion,replicate 1 [ZI254c_J3] |
| GSM5328703 |
ZI254,control,non-deletion,replicate 2 [ZI254c_J4] |
| GSM5328704 |
ZI254,stress,non-deletion,replicate 1 [ZI254s_J1] |
| GSM5328705 |
ZI254,stress,non-deletion,replicate 2 [ZI254s_J2] |
| GSM5328706 |
ZI254,stress,non-deletion,replicate 3 [ZI254s_J5] |
| GSM5328707 |
ZI273,control ,non-deletion,replicate 1 [ZI273c_K3] |
| GSM5328708 |
ZI273,control,non-deletion,replicate 2 [ZI273c_K4] |
| GSM5328709 |
ZI273,stress,non-deletion,replicate 1 [ZI273s_K1] |
| GSM5328710 |
ZI273,stress,non-deletion,replicate 2 [ZI273s_K2] |
| GSM5328711 |
ZI273,stress,non-deletion,replicate 3 [ZI273s_K5] |
| GSM5328712 |
ZI418,control,non-deletion,replicate 1 [ZI418c_L2] |
| GSM5328713 |
ZI418,control ,non-deletion,replicate 2 [ZI418c_L3] |
| GSM5328714 |
ZI418,stress,non-deletion,replicate 1 [ZI418s_L1] |
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| Relations |
| BioProject |
PRJNA731676 |
| SRA |
SRP320821 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE174813_all_counts.csv.gz |
1.2 Mb |
(ftp)(http) |
CSV |
| GSE174813_metadata_all_counts.csv.gz |
636 b |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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