iGene - Gene Analysis Module
A specialized framework for annotating olfactory receptors (OR) from insect genomes, based on the published insectOR database functionality.
Overview
The iGene module is a localized iOR gene annotation method. Based on the multi-exon gene annotation method insectOR for iOR, it further improves the annotation efficiency by using the method of reducing the genome. According to the method of screening annotation results based on structural integrity proposed by us in iORbase v1.0, It further reduced the false positives of the annotation results.
Methods & Algorithms
1. Shrink the genome
The genome was aligned with the known insect OR sequence through tblastn to locate and extract the candidate fragments (extending 30,000 bits upstream and downstream, with an E value of 1e-5), and finally the candidate fragments were spliced to form the reduced genome.
2. iOR gene annotation
Based on the insectOR method, iOR sequences are annotated from the miniaturized genome. This method is a multi-exon gene annotation approach for iOR.
3. Correction of annotation results
The template-based structure prediction method modeller was used to conduct batch structure prediction on the annotation results. Finally, the standard iOR electron microscope structure was used as the standard to eliminate incomplete annotation results.
References
Karpe SD et al. InsectOR—Webserver for sensitive identification of insect olfactory receptor genes from non-model genomes. PLoS ONE 16(1): e0245324 (2021).
Li. et al. iORbase: A database for the prediction of the structures and functions of insect olfactory receptors. Insect Sci 30, 1245-1254 (2022).