RT Journal Article
SR Electronic
T1 InsectOR – webserver for sensitive identification of insect olfactory receptor genes from non-model genomes
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.04.29.067470
DO 10.1101/2020.04.29.067470
A1 Snehal D. Karpe
A1 Vikas Tiwari
A1 Sowdhamini Ramanathan
YR 2020
UL http://biorxiv.org/content/early/2020/04/29/2020.04.29.067470.abstract
AB Insect Olfactory Receptors (ORs) are diverse family of membrane protein receptors responsible for most of the insect olfactory perception and communication, and hence they are of utmost importance for developing repellents or pesticides. Hence, accurate gene prediction of insect ORs from newly sequenced genomes is an important but challenging task. We have developed a dedicated web-server, ‘insectOR’, to predict and validate insect OR genes using multiple gene prediction algorithms, accompanied by relevant validations. It is possible to employ this sever nearly automatically and perform rapid prediction of the OR gene loci from thousands of OR-protein-to-genome alignments, resolve gene boundaries for tandem OR genes and refine them further to provide more complete OR gene models. InsectOR outperformed the popular genome annotation pipelines (MAKER and NCBI eukaryotic genome annotation) in terms of overall sensitivity at base, exon and locus level, when tested on two distantly related insect genomes. It displayed more than 95% nucleotide level precision in both tests. Finally, given the same input data and parameters, InsectOR missed less than 2% gene loci, in contrast to 55% loci missed by MAKER for Drosophila melanogaster. The web-server is freely available on the web at http://caps.ncbs.res.in/insectOR/. All major browsers are supported. Website is implemented in Python with Jinja2 for templating and bootstrap framework which uses HTML, CSS and JavaScript/Ajax. The core pipeline is written in Perl.Competing Interest StatementThe authors have declared no competing interest.