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| Status |
Public on May 03, 2023 |
| Title |
Exposure to a bacterial metabolite induces specific transcriptional signature of DAF-16 regulated genes, xanthine oxidase, and Phase I detoxification enzymes in C. elegans |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
RNA-seq analysis of the effect of a secondary metabolite produced by Streptomyces venezuelae that enhanced oxidative stress, mitochondrial dysfunction, and neurodegeneration in Caenorhabditis elegans.
Nearly all DEGs had previous evidence of an association with DAF-16 (FOXO). DEGs were also enriched for Phase I (CYP) and Phase II (UGT) detoxification genes.
DEGs representing several non-CYP Phase I enzymes were identified, including down-regulation of xdh-1. XDH-1 is interconvertible with XO and S. ven metabolite exposure enhanced XO activity.
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| Overall design |
Comparative gene expression profiling analysis of RNA-seq data for C. elegans exposed to the S.ven metabolite or an ethyl acetate solvent control, 5 biological replicates.
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| Contributor(s) |
Thies JL, Willicott K, Craig ML, Greene MR, DuGay CN, Caldwell GA, Caldwell KA |
| Citation |
https://0-doi-org.brum.beds.ac.uk/10.3390/cells12081170
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| Submission date |
Nov 04, 2022 |
| Last update date |
May 03, 2023 |
| Contact name |
Guy Caldwell |
| E-mail(s) |
gcaldwel@ua.edu
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| Organization name |
The University of Alabama
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| Department |
Biological Sciences
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| Street address |
300 Hackberry Lane
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| City |
Tuscaloosa |
| State/province |
AL |
| ZIP/Postal code |
35487 |
| Country |
USA |
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| Platforms (1) |
| GPL22765 |
Illumina HiSeq 4000 (Caenorhabditis elegans) |
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| Samples (20)
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| GSM6710673 |
BY250 strain, S.ven treatment, day 5, rep1 |
| GSM6710674 |
BY250 strain, S.ven treatment, day 5, rep2 |
| GSM6710675 |
BY250 strain, S.ven treatment, day 5, rep3 |
| GSM6710676 |
BY250 strain, S.ven treatment, day 5, rep4 |
| GSM6710677 |
BY250 strain, S.ven treatment, day 5, rep5 |
| GSM6710678 |
BY250 strain, EtAc treatment, day 5, rep1 |
| GSM6710679 |
BY250 strain, EtAc treatment, day 5, rep2 |
| GSM6710680 |
BY250 strain, EtAc treatment, day 5, rep3 |
| GSM6710681 |
BY250 strain, EtAc treatment, day 5, rep4 |
| GSM6710682 |
BY250 strain, EtAc treatment, day 5, rep5 |
| GSM6710683 |
BY250 strain, S.ven treatment, day 7, rep1 |
| GSM6710684 |
BY250 strain, S.ven treatment, day 7, rep2 |
| GSM6710685 |
BY250 strain, S.ven treatment, day 7, rep3 |
| GSM6710686 |
BY250 strain, S.ven treatment, day 7, rep4 |
| GSM6710687 |
BY250 strain, S.ven treatment, day 7, rep5 |
| GSM6710688 |
BY250 strain, EtAc treatment, day 7, rep1 |
| GSM6710689 |
BY250 strain, EtAc treatment, day 7, rep2 |
| GSM6710690 |
BY250 strain, EtAc treatment, day 7, rep3 |
| GSM6710691 |
BY250 strain, EtAc treatment, day 7, rep4 |
| GSM6710692 |
BY250 strain, EtAc treatment, day 7, rep5 |
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| Relations |
| BioProject |
PRJNA898366 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE217300_Metabolite_Differentially_Expressed_Genes_D5.xlsx |
2.5 Mb |
(ftp)(http) |
XLSX |
| GSE217300_Metabolite_Differentially_Expressed_Genes_D7.xlsx |
2.5 Mb |
(ftp)(http) |
XLSX |
| GSE217300_Metabolite_Readcount_D5.xlsx |
2.2 Mb |
(ftp)(http) |
XLSX |
| GSE217300_Metabolite_Readcount_D7.xlsx |
2.2 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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