GEO DataSets

(Submitter supplied) PRO-seq experiments in multiple organisms. Also, PRO-seq experiment of Nelfb and Nelfe degron mESC in serum/LIF with or without dTAG-13. 

Organism:

Haloferax mediterranei; Dryas iulia; Nematostella vectensis; Dictyostelium discoideum; Capsaspora owczarzaki; Creolimax fragrantissima; Daphnia pulex; Strongylocentrotus purpuratus; Sphaeroforma arctica; Escherichia coli; Mus musculus; Perkinsus marinus

Type:

Other

12 related Platforms

46 Samples

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(Submitter supplied) The objective of this study was to explore the transcriptional basis of the holometabolous development of Danaus plexippus (the monarch butterfly), which we reasoned would lend insight into how complex life cycles evolve.

Organism:

Danaus plexippus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34095

50 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Heliconius erato cyrbia; Heliconius erato demophoon; Heliconius melpomene rosina; Heliconius melpomene cythera

Type:

Expression profiling by high throughput sequencing

4 related Platforms

64 Samples

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(Submitter supplied) We use RNAseq data to perform differential gene expression analysis to identify genes controlling structural colouration in two co-mimetic species of Heliconius butterfly - Heliconius erato and Heliconius melpomene. We use comparisons between iridescent and non-iridescent subspecies of Helcionius erato (H. e. cyrbia and H. e. demophoon, respectively) and Helcionius melpomene (H. m. cythera and H. m. more...

Organism:

Heliconius melpomene rosina; Heliconius melpomene cythera

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL31037 GPL31038

32 Samples

Download data: CSV

(Submitter supplied) We use RNAseq data to perform differential gene expression to identify genes controlling structural colouration in two co-mimetic species of Heliconius butterfly - Heliconius erato and Heliconius melpomene. We use comparisons between iridescent and non-iridescent subspecies of Helcionius erato (H. e. cyrbia and H. e. demophoon, respectively) and Helcionius melpomene (H. m. cythera and H. m. rosina, respectively) at two separate developmental stages, 50% and 70% of development. more...

Organism:

Heliconius erato cyrbia; Heliconius erato demophoon

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL31036 GPL31035

32 Samples

Download data: CSV

(Submitter supplied) Gene expression profiling was performed by next generation sequencing strategy to explore the transcriptional changes of Papilio clytia and Atrophaneura mencius larvae in response to LPS challenge

Organism:

Papilio clytia; Byasa mencius

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL27954 GPL27955

4 Samples

Download data: FA, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Heliconius melpomene rosina; Heliconius erato lativitta; Heliconius melpomene aglaope

Type:

Genome binding/occupancy profiling by high throughput sequencing; Other

Platforms:

GPL25926 GPL25925 GPL24134

20 Samples

Download data: BW, TXT

(Submitter supplied) Aposematic color pattern mimicry in Heliconius butterflies provides a well-known example of adaptation via selection on a few genes of large effect. To understand how selection at individual genes can drive the evolution of complex traits, we functionally characterized five novel enhancers of the color pattern gene, optix. In Heliconius erato we found that wing pattern enhancers are largely ancestral, pleiotropic, functionally interdependent, and introgressed between populations. more...

Organism:

Heliconius erato lativitta

Type:

Other

Platform:

GPL24134

4 Samples

Download data: TXT

(Submitter supplied) Aposematic color pattern mimicry in Heliconius butterflies provides a well-known example of adaptation via selection on a few genes of large effect. To understand how selection at individual genes can drive the evolution of complex traits, we functionally characterized five novel enhancers of the color pattern gene, optix. In Heliconius erato we found that wing pattern enhancers are largely ancestral, pleiotropic, functionally interdependent, and introgressed between populations. more...

Organism:

Heliconius erato lativitta

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24134

8 Samples

Download data: BW

(Submitter supplied) Aposematic color pattern mimicry in Heliconius butterflies provides a well-known example of adaptation via selection on a few genes of large effect. To understand how selection at individual genes can drive the evolution of complex traits, we functionally characterized five novel enhancers of the color pattern gene, optix. In Heliconius erato we found that wing pattern enhancers are largely ancestral, pleiotropic, functionally interdependent, and introgressed between populations. more...

Organism:

Heliconius melpomene aglaope; Heliconius melpomene rosina

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL25926 GPL25925

8 Samples

Download data: BW

(Submitter supplied) Monarch butterflies (Danaus plexippus) rely on milkweeds as larval host plants. Host plant seeking and verification by female butterflies may be mediated by gustatory (GRs) and olfactory receptors (ORs). Here we employed RNA-Seq, bioinformatics and RT-qPCR techniques to identify sex- and tissue-specific gene expression. We focused on chemosensation related genes and pathways, including putative ORs, GRs, ionotropic receptors (IRs), odorant-binding proteins, chemosensory proteins, and steroid hormone mediated signaling in specific chemosensory tissues (i.e., antennae, legs and proboscis). more...

Organism:

Danaus plexippus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28520

36 Samples

Download data: TXT

(Submitter supplied) Predicting how climate change affects biotic interactions and their evolution poses a challenge. Plant-insect herbivore interactions are particularly sensitive to climate change, as climate-induced changes in plant quality cascade into the performance of insect herbivores. Whereas the immediate survival of herbivore individuals depends on plastic responses to climate change induced nutritional stress, long-term population persistence via evolutionary adaptation requires genetic variation for these responses. more...

Organism:

Melitaea cinxia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29241

78 Samples

Download data: FASTA, TXT

(Submitter supplied) Here we used artificial selection to assimilate a seasonal wing color phenotype from a naturally plastic population of butterflies. Using SNP association and RNAseq we mapped three genes responsible for wing color fixation, including the color pattern supergene cortex. Combined with endocrine and chromatin accessibility assays, we found that the rapid transition of wing coloration from an environmentally determined trait to a fixed, genetic trait occurred through selection on cis-regulatory alleles of genes with wing-specific functions, not by changes in environmental detection or hormone signaling.

Organism:

Junonia coenia

Type:

Other

Platform:

GPL23448

3 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Junonia coenia

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other

Platform:

GPL23448

27 Samples

Download data: BW, TXT

(Submitter supplied) Here we used artificial selection to assimilate a seasonal wing color phenotype from a naturally plastic population of butterflies. Using SNP association and RNAseq we mapped three genes responsible for wing color fixation, including the color pattern supergene cortex. Combined with endocrine and chromatin accessibility assays, we found that the rapid transition of wing coloration from an environmentally determined trait to a fixed, genetic trait occurred through selection on cis-regulatory alleles of genes with wing-specific functions, not by changes in environmental detection or hormone signaling.

Organism:

Junonia coenia

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL23448

12 Samples

Download data: BW

(Submitter supplied) Here we used artificial selection to assimilate a seasonal wing color phenotype from a naturally plastic population of butterflies. Using SNP association and RNAseq we mapped three genes responsible for wing color fixation, including the color pattern supergene cortex. Combined with endocrine and chromatin accessibility assays, we found that the rapid transition of wing coloration from an environmentally determined trait to a fixed, genetic trait occurred through selection on cis-regulatory alleles of genes with wing-specific functions, not by changes in environmental detection or hormone signaling.

Organism:

Junonia coenia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23448

12 Samples

Download data: BW

(Submitter supplied) Second instar larvae of the monarch butterfly, Danaus plexippus, from a nonmigratory population in Irapuato, Mexico, were reared for twenty-four hours on three species of milkweed hosts: Asclepias curassavica, A. linaria, and Gomphocarpus physocarpus. The greatest differences in coding gene expression occurred in genes controlling growth and detoxification and were most extreme in comparisons between G. more...

Organism:

Danaus plexippus

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL25611

18 Samples

Download data: GTF, TSV

(Submitter supplied) Seasonal adaptation to changes in light:dark regimes (i.e., photoperiod) allows organisms living at temperate latitudes to anticipate environmental change and adjust their physiology and behavior accordingly. The circadian system has been implicated in measurement and response to changes in photoperiod in nearly all animals studied so far (Saunders, 2011). The use of both traditional and non-traditional model insects with robust seasonal responses has recently genetically demonstrated the central role that clock genes play in photoperiodic response. more...

Organism:

Danaus plexippus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25611

48 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Danaus plexippus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25611

39 Samples

Download data: BW, TXT

(Submitter supplied) The Eastern North American monarch butterfly, Danaus plexippus, is notorious for its spectacular seasonal long-distance migration. In recent years, it has also emerged as a novel system to study how animal circadian clocks keep track of time and regulate ecologically relevant daily rhythmic activities and seasonal behavioral outputs. However, unlike Drosophila and the mouse, little work has been undertaken in the monarch to identify clock-controlled output genes and elucidate the regulation of their rhythmic expression. more...

Organism:

Danaus plexippus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25611

7 Samples

Download data: BW