Detection and analysis of deletions and insertions in genome of Iranian dromedary camels using whole genome sequencing data

Khalkhali Ivriq, Reza; Hafezian, Seyed Hassan; Hedayat Evrigh, Nemat; Farhadi, Ayoub; Bakhtiarizadeh, Mohammad Reza

doi:10.22059/jap.2018.242902.623229

Document Type : Research Paper

Authors

¹ department of animal science, Faculty of Animal Sciences and Fisheries, Sari Agricultural Sciences and Natural Resources University, sari, Iran

² department of animal science,faculty of agriculture and natural science, university of mohaghegh ardabili, ardabil, Iran

³ department of animal science, aburaihan campus, university of Tehran, pakdasht, Iran

https://doi.org/10.22059/jap.2018.242902.623229

Abstract

This study was carried out for identification of deletions, insertions (INDELs) and assessment of their related functional groups in two Iranian dromedary camels (Yazdi camel and Trodi camel) using whole genome sequencing data. In this study, two powerful variant callers (GATK and SAMtools) were used to increase precision and accuracy of detected INDELs. Finally, common identified variants between two programs, after quality filtration, were considered as final INDELs. The present study led to identification of 351429 INDELs for Yazdi camel and 341479 INDELs for Trodi camel. Annotated INDELs that classified as high impact INDELs, were used for further analysis. The numbers of high impact INDELs were 3424 and 3506 for Yazdi and Trodi camels, respectively. To compare Iranian camels with non-Iranian camels, we used whole genome sequencing data of one African origin camel. Comparison of high impact INDELs between three samples showed that 1595 INDELs were common between them. Assessment of gene ontology’s results showed that many of significant terms are related to the ability of camels to withstand serve desert conditions.

Keywords

20.1001.1.20096776.1397.20.1.9.2

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Animal Production

Detection and analysis of deletions and insertions in genome of Iranian dromedary camels using whole genome sequencing data

References

References

Volume 20, Issue 1
May 2018
Pages 109-120

Detection and analysis of deletions and insertions in genome of Iranian dromedary camels using whole genome sequencing data

References

References

Volume 20, Issue 1May 2018Pages 109-120

Volume 20, Issue 1
May 2018
Pages 109-120