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Transcriptomic response of Drosophila melanogaster pupae developed in hypergravity

Hateley, Shannon and Hosamani, Ravikumar and Bhardwaj, Shilpa R. and Pachter, Lior and Bhattacharya, Sharmila (2016) Transcriptomic response of Drosophila melanogaster pupae developed in hypergravity. Genomics, 108 (3-4). pp. 158-167. ISSN 0888-7543. doi:10.1016/j.ygeno.2016.09.002. https://resolver.caltech.edu/CaltechAUTHORS:20170309-154829565

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Abstract

Altered gravity can perturb normal development and induce corresponding changes in gene expression. Understanding this relationship between the physical environment and a biological response is important for NASA's space travel goals. We use RNA-Seq and qRT-PCR techniques to profile changes in early Drosophila melanogaster pupae exposed to chronic hypergravity (3 g, or three times Earth's gravity). During the pupal stage, D. melanogaster rely upon gravitational cues for proper development. Assessing gene expression changes in the pupae under altered gravity conditions helps highlight gravity-dependent genetic pathways. A robust transcriptional response was observed in hypergravity-treated pupae compared to controls, with 1513 genes showing a significant (q < 0.05) difference in gene expression. Five major biological processes were affected: ion transport, redox homeostasis, immune response, proteolysis, and cuticle development. This outlines the underlying molecular and biological changes occurring in Drosophila pupae in response to hypergravity; gravity is important for many biological processes on Earth.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1016/j.ygeno.2016.09.002DOIArticle
http://www.sciencedirect.com/science/article/pii/S088875431630088XPublisherArticle
ORCID:
AuthorORCID
Pachter, Lior0000-0002-9164-6231
Additional Information:© 2016 Published by Elsevier Inc. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). Received 11 May 2016, Revised 12 August 2016, Accepted 8 September 2016, Available online 10 September 2016. This work was funded by NASA grants to SB (NNX15AB42G and NNX13AN38G). RH was supported by a NASA Post-Doctoral Program (NPP) Fellowship. SH was supported by the NSF Graduate Research Fellowship. This work used the Vincent J. Coates Genomics Sequencing Laboratory at UC Berkeley, supported by NIH S10 Instrumentation Grants S10RR029668 and S10RR027303. Authors' contributions: SH, RH, and SB wrote the manuscript text. RH and SRB carried out the experiments. SH performed the sequencing library preparation. SH performed bioinformatic analysis including QC, mapping, expression estimates, and differential expression analysis; pathway analysis was performed jointly by SH and RH. RH and SRB performed qRT-PCR and corresponding analysis. SB and LP supervised the research and edited the manuscript text. All authors read and approved the final manuscript. The authors declare that they have no competing interests.
Funders:
Funding AgencyGrant Number
NASANNX15AB42G
NASANNX13AN38G
NASA Postdoctoral ProgramUNSPECIFIED
NSF Graduate Research FellowshipUNSPECIFIED
NIHS10RR029668
NIHS10RR02730
Subject Keywords:Hypergravity; Drosophila melanogaster; Pupae; Transcriptome; Metamorphosis; RNA-Seq
Issue or Number:3-4
DOI:10.1016/j.ygeno.2016.09.002
Record Number:CaltechAUTHORS:20170309-154829565
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20170309-154829565
Official Citation:Shannon Hateley, Ravikumar Hosamani, Shilpa R. Bhardwaj, Lior Pachter, Sharmila Bhattacharya, Transcriptomic response of Drosophila melanogaster pupae developed in hypergravity, Genomics, Volume 108, Issues 3–4, October 2016, Pages 158-167, ISSN 0888-7543, http://dx.doi.org/10.1016/j.ygeno.2016.09.002. (http://www.sciencedirect.com/science/article/pii/S088875431630088X)
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:75011
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:10 Mar 2017 02:35
Last Modified:15 Nov 2021 16:30

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