DETECTION AND ANALYSIS OF DELETIONS AND INSERTIONS IN GENOME OF IRANIAN DROMEDARY CAMELS USING WHOLE GENOME SEQUENCING DATA

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KHALKHALI IVRIQ REZA; HAFEZIAN SEYED HASAN; HEDAYAT IVARIGH NEMAT; FARHADI AYOUB; Bakhtiarizadeh Mohammad Reza

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Journal: Journal of Animal Production Year:2018 | Volume:20 | Issue:1 Page(s): 109-119

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Title

DETECTION AND ANALYSIS OF DELETIONS AND INSERTIONS IN GENOME OF IRANIAN DROMEDARY CAMELS USING WHOLE GENOME SEQUENCING DATA

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Keywords

FUNCTIONAL GROUPSQ1

GENE ONTOLOGYQ1

GENETIC DIVERSITYQ2

ILLUMINAQ1

INDELQ1

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.

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APA: Copy

KHALKHALI IVRIQ, REZA, HAFEZIAN, SEYED HASAN, HEDAYAT IVARIGH, NEMAT, FARHADI, AYOUB, & Bakhtiarizadeh, Mohammad Reza. (2018). DETECTION AND ANALYSIS OF DELETIONS AND INSERTIONS IN GENOME OF IRANIAN DROMEDARY CAMELS USING WHOLE GENOME SEQUENCING DATA. JOURNAL OF ANIMAL PRODUCTION (JOURNAL OF AGRICULTURE), 20(1 ), 109-119. SID. https://sid.ir/paper/209199/en

Vancouver: Copy

KHALKHALI IVRIQ REZA, HAFEZIAN SEYED HASAN, HEDAYAT IVARIGH NEMAT, FARHADI AYOUB, Bakhtiarizadeh Mohammad Reza. DETECTION AND ANALYSIS OF DELETIONS AND INSERTIONS IN GENOME OF IRANIAN DROMEDARY CAMELS USING WHOLE GENOME SEQUENCING DATA. JOURNAL OF ANIMAL PRODUCTION (JOURNAL OF AGRICULTURE)[Internet]. 2018;20(1 ):109-119. Available from: https://sid.ir/paper/209199/en

IEEE: Copy

REZA KHALKHALI IVRIQ, SEYED HASAN HAFEZIAN, NEMAT HEDAYAT IVARIGH, AYOUB FARHADI, and Mohammad Reza Bakhtiarizadeh, “DETECTION AND ANALYSIS OF DELETIONS AND INSERTIONS IN GENOME OF IRANIAN DROMEDARY CAMELS USING WHOLE GENOME SEQUENCING DATA,” JOURNAL OF ANIMAL PRODUCTION (JOURNAL OF AGRICULTURE), vol. 20, no. 1 , pp. 109–119, 2018, [Online]. Available: https://sid.ir/paper/209199/en

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