Data from: Neofunctionalization of embryonic head patterning genes facilitates the positioning of novel traits on the dorsal head of adult beetles

Zattara EE, Busey HA, Linz DM, Tomoyasu Y, Moczek AP

Date Published: June 21, 2016

DOI: http://dx.doi.org/10.5061/dryad.nd1js

 

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Title Onthophagus spp six3 and otd gene sequences
Downloaded 1 time
Description Sequence and associated annotations for O. taurus six3 and otd genes and O. sagittarius six3 and otd transcripts. Flat file Genbank format.
Download Onthophagus six3 and otd genes and primers.gb (145.2 Kb)
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Title Insect SIX protein family sequences and tree (data for Figure S1)
Downloaded 1 time
Description Aligned sequences and RaxML generated phylogram of selected insect SIX proteins.
Download InsectSIXtree.nex (112.9 Kb)
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Title Insect OTD protein sequences and tree (data for Figure S2)
Description Aligned sequence and FastTree generated phylogram of selected insect orthodenticle proteins.
Download InsectOTDtree.nex (42.51 Kb)
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Title R script to reproduce expression plots (Figures S3 and S8)
Downloaded 2 times
Description Annotated R script with code to read and plot raw data from qPCR and RNAseq estimations of stage specific and tissue specific levels of six3 and otd transcripts. Requires files "tcas_qPCR_stages.csv", "otau_rnaseq_stages.csv", "osag_rnaseq_stages.csv", "tcas_qpcr_tissues.csv" and "otau_rnaseq_tissues.csv".
Download Expression_plots.R (4.14 Kb)
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Title Tribolium castaneum qPCR by stage
Downloaded 3 times
Description Raw data table for T. castaneum stage-specific qPCR estimation of six3 and otd transcript levels. Use R script in "Expression_plots.R" for analysis and plotting.
Download tcas_qPCR_stages.csv (270 bytes)
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Title Onthophagus taurus RNAseq by stage
Downloaded 1 time
Description Raw data table for O. taurus stage-specific RNAseq estimation of six3 and otd transcript levels. Use R script in "Expression_plots.R" for analysis and plotting.
Download otau_rnaseq_stages.csv (790 bytes)
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Title Onthophagus sagittarius RNAseq by stage
Downloaded 1 time
Description Raw data table for O. sagittarius stage-specific RNAseq estimation of six3 and otd transcript levels. Use R script in "Expression_plots.R" for analysis and plotting.
Download osag_rnaseq_stages.csv (1.258 Kb)
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Title Tribolium castaneum qPCR by pupal tissue
Downloaded 2 times
Description Raw data table for T. castaneum tissue-specific qPCR estimation of six3 and otd transcript levels. Use R script in "Expression_plots.R" for analysis and plotting.
Download tcas_qpcr_tissues.csv (2.843 Kb)
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Title Onthophagus taurus RNAseq by pupal tissue
Downloaded 1 time
Description Raw data table for O. taurus tissue-specific RNAseq estimation of six3 and otd transcript levels. Use R script in "Expression_plots.R" for analysis and plotting.
Download otau_rnaseq_tissues.csv (6.102 Kb)
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Title R script to reproduce RNAi phenotype plots (Figures S4 and S5))
Downloaded 377 times
Description Annotated R script with code to read and plot raw data from phenotypic measurements of dsRNA treated beetles . Requires files "tcas_RNAi.csv", "otau_RNAi.csv" and "osag_RNAi.csv".
Download RNAiAnalyses.R (31.84 Kb)
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Title Tribolium castaneum RNAi phenotype data
Downloaded 3 times
Description Phenotypic measurements from dsRNA injected T. castaneum. For analysis and plotting using the R code in file "RNAiAnalyses.R".
Download tcas_RNAi.csv (1.186 Kb)
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Title Onthophagus taurus RNAi phenotype data
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Description Phenotypic measurements from dsRNA injected O. taurus. For analysis and plotting using the R code in file "RNAiAnalyses.R".
Download otau_RNAi.csv (75.29 Kb)
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Title Onthophagus sagitarius RNAi phenotype data
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Description Phenotypic measurements from dsRNA injected O. sagittarius. For analysis and plotting using the R code in file "RNAiAnalyses.R".
Download osag_RNAi.csv (44.91 Kb)
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Title Tribolium castaneum qPCR validation of RNAi KD efficiency (Figure S9)
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Description Raw data from qPCR experiments to validate the knockdown efficiency of dsRNA injections in Tribolium castaneum.
Download RNAiknockdownefficiency_qPCR_rawdata.xlsx (16.86 Kb)
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When using this data, please cite the original publication:

Zattara EE, Busey HA, Linz DM, Tomoyasu Y, Moczek AP (2016) Neofunctionalization of embryonic head patterning genes facilitates the positioning of novel traits on the dorsal head of adult beetles. Proceedings of the Royal Society B 283(1834): 20160824. http://dx.doi.org/10.1098/rspb.2016.0824

Additionally, please cite the Dryad data package:

Zattara EE, Busey HA, Linz DM, Tomoyasu Y, Moczek AP (2016) Data from: Neofunctionalization of embryonic head patterning genes facilitates the positioning of novel traits on the dorsal head of adult beetles. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.nd1js
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