Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcription profiling of Drosophila LD/DD time series of y w tim01, cn bw, and y w

ABSTRACT: This SuperSeries is composed of the following subset Series:; GSE3826: LD/DD time course of y w Drosophila #1; GSE3828: LD/DD time course of y w Drosophila #2; GSE3829: LD/DD time course of cn bw Drosophila; GSE3830: LD/DD time course of y w Drosophila #3; GSE3831: LD/DD time course of y w; tim01 Drosophila #1; GSE3832: LD/DD time course of y w; tim01 Drosophila #2 Experiment Overall Design: Refer to individual Series

ORGANISM(S): Drosophila melanogaster

SUBMITTER: Herman Wijnen

PROVIDER: E-GEOD-3842 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Control of daily transcript oscillations in Drosophila by light and the circadian clock.

Wijnen Herman H Naef Felix F Boothroyd Catharine C Claridge-Chang Adam A Young Michael W MW

PLoS genetics 20060324 3

The transcriptional circuits of circadian clocks control physiological and behavioral rhythms. Light may affect such overt rhythms in two ways: (1) by entraining the clock circuits and (2) via clock-independent molecular pathways. In this study we examine the relationship between autonomous transcript oscillations and light-driven transcript responses. Transcript profiles of wild-type and arrhythmic mutant Drosophila were recorded both in the presence of an environmental photocycle and in consta ...[more]

PMID: 16565745

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Project description:Mechanisms composing Drosophila's clock are conserved within the animal kingdom. To learn how such clocks influence behavioral and physiological rhythms, we determined the complement of circadian transcripts in adult Drosophila heads. High-density oligonucleotide arrays were used to collect data in the form of three 12-point time course experiments spanning a total of 6 days. Analyses of 24 hr Fourier components of the expression patterns revealed significant oscillations for 400 transcripts. Based on secondary filters and experimental verifications, a subset of 158 genes showed particularly robust cycling and many oscillatory phases. Circadian expression was associated with genes involved in diverse biological processes, including learning and memory/synapse function, vision, olfaction, locomotion, detoxification, and areas of metabolism. Data collected from three different clock mutants (per0, tim01, and ClkJrk), are consistent with both known and novel regulatory mechanisms controlling circadian transcription (Claridge-Chang et al., Neuron. 2001 Nov 20;32(4):657-71). For more information see also http://biorhythm.rockefeller.edu Experiment Overall Design: y w flies that had been kept in a 12-hr light/ 12-hr dark cycle for three days were harvested every four hours during an additional light/dark day (ZT) and a subsequent day in constant darkness (CT). Relative to Zeitgeber time 0 (ZT0) as the time of lightson Experiment Overall Design: during the LD cycle and Circadian time 0 (CT0) as the time corresponding to Experiment Overall Design: subjective lights-on during freerun in DD, time courses were collected in a ZT2- Experiment Overall Design: ZT6-ZT10-ZT14-ZT18-ZT22-CT2-CT6-CT10-CT14-CT18-CT22 schedule. Heads Experiment Overall Design: were isolated by breaking up frozen flies and passing them through a set of Experiment Overall Design: sieves. RNA was prepared using Rnazol (Tel-test) or Trizol (Life Technologies) extraction. Additional purification of the RNA samples was Experiment Overall Design: achieved by applying them to Rneasy columns (Qiagen). Biotin-labeled cRNA Experiment Overall Design: probe was generated from 25 Î¼g of purified RNA and hybridized as described Experiment Overall Design: previously (Claridge-Chang et al., Neuron. 2001 Nov 20;32(4):657-71). Experiment Overall Design: For more information see also http://biorhythm.rockefeller.edu

Project description:Mechanisms composing Drosophila's clock are conserved within the animal kingdom. To learn how such clocks influence behavioral and physiological rhythms, we determined the complement of circadian transcripts in adult Drosophila heads. High-density oligonucleotide arrays were used to collect data in the form of three 12-point time course experiments spanning a total of 6 days. Analyses of 24 hr Fourier components of the expression patterns revealed significant oscillations for 400 transcripts. Based on secondary filters and experimental verifications, a subset of 158 genes showed particularly robust cycling and many oscillatory phases. Circadian expression was associated with genes involved in diverse biological processes, including learning and memory/synapse function, vision, olfaction, locomotion, detoxification, and areas of metabolism. Data collected from three different clock mutants (per0, tim01, and ClkJrk), are consistent with both known and novel regulatory mechanisms controlling circadian transcription (Claridge-Chang et al., Neuron. 2001 Nov 20;32(4):657-71). For more information see also http://biorhythm.rockefeller.edu Experiment Overall Design: cn bw flies that had been kept in a 12-hr light/ 12-hr dark cycle for three days were harvested every four hours during an additional light/dark day (ZT) and a subsequent day in constant darkness (CT). Relative to Zeitgeber time 0 (ZT0) as the time of lights on Experiment Overall Design: during the LD cycle and Circadian time 0 (CT0) as the time corresponding to Experiment Overall Design: subjective lights-on during freerun in DD, time courses were collected in a ZT4- Experiment Overall Design: ZT8-ZT12-ZT16-ZT20-ZT24-CT4-CT8-CT12-CT16-CT20-CT24 Experiment Overall Design: schedule. Heads Experiment Overall Design: were isolated by breaking up frozen flies and passing them through a set of Experiment Overall Design: sieves. RNA was prepared using Rnazol (Tel-test) or Trizol (Life Technologies) extraction. Additional purification of the RNA samples was Experiment Overall Design: achieved by applying them to Rneasy columns (Qiagen). Biotin-labeled cRNA Experiment Overall Design: probe was generated from 25 Î¼g of purified RNA and hybridized as described Experiment Overall Design: previously (Claridge-Chang et al., Neuron. 2001 Nov 20;32(4):657-71). Experiment Overall Design: For more information see also http://biorhythm.rockefeller.edu

Project description:Mechanisms composing Drosophila's clock are conserved within the animal kingdom. To learn how such clocks influence behavioral and physiological rhythms, we determined the complement of circadian transcripts in adult Drosophila heads. High-density oligonucleotide arrays were used to collect data in the form of three 12-point time course experiments spanning a total of 6 days. Analyses of 24 hr Fourier components of the expression patterns revealed significant oscillations for 400 transcripts. Based on secondary filters and experimental verifications, a subset of 158 genes showed particularly robust cycling and many oscillatory phases. Circadian expression was associated with genes involved in diverse biological processes, including learning and memory/synapse function, vision, olfaction, locomotion, detoxification, and areas of metabolism. Data collected from three different clock mutants (per0, tim01, and ClkJrk), are consistent with both known and novel regulatory mechanisms controlling circadian transcription (Claridge-Chang et al., Neuron. 2001 Nov 20;32(4):657-71). For more information see also http://biorhythm.rockefeller.edu Experiment Overall Design: y w flies that had been kept in a 12-hr light/ 12-hr dark cycle for three days were harvested every four hours during an additional light/dark day (ZT) and a subsequent day in constant darkness (CT). Relative to Zeitgeber time 0 (ZT0) as the time of lights on Experiment Overall Design: during the LD cycle and Circadian time 0 (CT0) as the time corresponding to Experiment Overall Design: subjective lights-on during freerun in DD, time courses were collected in a ZT4- Experiment Overall Design: ZT8-ZT12-ZT16-ZT20-ZT24-CT4-CT8-CT12-CT16-CT20-CT24 schedule. Heads Experiment Overall Design: were isolated by breaking up frozen flies and passing them through a set of Experiment Overall Design: sieves. RNA was prepared using Rnazol (Tel-test) or Trizol (Life Technologies) extraction. Additional purification of the RNA samples was Experiment Overall Design: achieved by applying them to Rneasy columns (Qiagen). Biotin-labeled cRNA Experiment Overall Design: probe was generated from 25 Î¼g of purified RNA and hybridized as described Experiment Overall Design: previously (Claridge-Chang et al., Neuron. 2001 Nov 20;32(4):657-71). Experiment Overall Design: For more information see also http://biorhythm.rockefeller.edu

Dataset Information

Transcription profiling of Drosophila LD/DD time series of y w tim01, cn bw, and y w

Publications

Control of daily transcript oscillations in Drosophila by light and the circadian clock.

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