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Series GSE107177 Query DataSets for GSE107177
Status Public on Mar 22, 2018
Title Firefly genomes illuminate parallel origins of bioluminescence in beetles
Organism Photinus pyralis
Experiment type Methylation profiling by high throughput sequencing
Summary Fireflies and their fascinating luminous courtships have inspired centuries of scientific study. Today firefly luciferase is widely used in biotechnology, but the evolutionary origin of their bioluminescence remains unclear. To shed light on this long-standing question, we sequenced the genomes of two firefly species that diverged over 100 million-years-ago: the North American Photinus pyralis and Japanese Aquatica lateralis. To compare bioluminescent origins, we also sequenced the genome of a related click-beetle, the Caribbean Ignelater luminosus, with bioluminescent biochemistry near-identical to fireflies, but anatomically unique light organs, suggesting the intriguing but contentious hypothesis of parallel gains of bioluminescence. Our analyses support two independent gains of bioluminescence between fireflies and click-beetles, and provide new insights into the genes, chemical defenses, and symbionts that evolved alongside their luminous lifestyle.
 
Overall design MethylC-seq libraries were prepared from high molecular weight (HMW) DNA extracted from four Photinus pyralis Mercer Meadows New Jersey (MMNJ) males according to a previously published protocol (Urich et al. 2015; doi:10.1038/nprot.2014.114) and sequenced on an Illumina NextSeq 500 to an expected depth of ~36x. Sequencing data was aligned to Ppyr1.3 assembly using the latest version of methylpy (Schultz et al. 2015; doi:10.1038/nature14465; https://bitbucket.org/schultzmattd/methylpy/wiki/Home). In total, 49.4M reads were mapped corresponding to an actual sequencing depth of ~16x. A sodium bisulfite non-conversion rate of 0.17% was estimated from Lambda phage genomic DNA.
 
Contributor(s) Schmitz RJ, Bewick AJ
Citation(s) 30324905
Submission date Nov 20, 2017
Last update date Oct 17, 2018
Contact name Robert J Schmitz
E-mail schmitz@uga.edu
Organization name University of Georgia
Department Genetics
Street address B416 Davison Life Sciences
City Athens
State/province GA
ZIP/Postal code 30602
Country USA
 
Platforms (1)
GPL24293 Illumina NextSeq 500 (Photinus pyralis)
Samples (4)
GSM2862214 Photinus_pyralis_MethylC-seq_library_1_of_4
GSM2862215 Photinus_pyralis_MethylC-seq_library_2_of_4
GSM2862216 Photinus_pyralis_MethylC-seq_library_3_of_4
Relations
BioProject PRJNA419213
SRA SRP125333

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE107177_allc_Ppyr_RefGenome-v1.3.tsv.gz 494.4 Mb (ftp)(http) TSV
Raw data provided as supplementary file
Processed data is available on Series record

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