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Genome-Wide Identification and Analysis of Variants in Domestic and Wild Bactrian Camels Using Whole-Genome Sequencing Data.
International Journal of Genomics ( IF 2.6 ) Pub Date : 2020-07-16 , DOI: 10.1155/2020/2430846
Nemat Hedayat-Evrigh 1 , Reza Khalkhali-Evrigh 1 , Mohammad Reza Bakhtiarizadeh 2
Affiliation  

The population size of Bactrian camels is smaller than dromedary, and they are distributed in cold and mountain regions and are also at the risk of extinction in some countries such as Iran. To identify and investigate the genome-wide variations, whole-genome sequencing of two Iranian Bactrian camels were performed with 37.4- and 42.6-fold coverage for the first time. Along with Iranian Bactrian camels, sequencing data from two Mongolian domestic and two wild Bactrian camels deposited in the NCBI were reanalyzed. The analysis eventuated to the identification of 4,908,998, 4,485,725, and 4,706,654 SNPs for Iranian, Mongolian domestic, and wild Bactrian camels, respectively. Also, INDEL variations ranged from 358,311 to 533,188 in all six camels. Results of variants annotation in all samples revealed that more than 88 percent of SNPs and INDELs were located in the intergenic and intronic regions. We found that 800,530 SNPs were common among all studied camels, containing 4,046 missense variants that affected 2,428 genes. Investigation of common genes among all camels containing the missense SNPs showed that there are 98 zinc finger and 4 fertility-related genes (ZP1, ZP2, ZP4, and ZPBP) in this set.

中文翻译:

使用全基因组测序数据对全家和野生双峰骆驼进行全基因组鉴定和变异分析。

双峰驼的人口规模小于单峰骆驼,分布在寒冷和山区,在伊朗等一些国家也有灭绝的危险。为了鉴定和研究全基因组变异,首次对两个伊朗双峰驼进行了全基因组测序,覆盖率分别为37.4和42.6倍。与伊朗双峰驼一起,重新分析了存放在NCBI中的两个蒙古国内骆驼和两个野生双峰骆驼的测序数据。该分析最终确定了分别针对伊朗,蒙古国内和野生双峰驼的4,908,998、4,485,725和4,706,654个SNP。同样,所有六个骆驼的INDEL变化范围从358,311到533,188。所有样品的变体注释结果表明,超过88%的SNP和INDEL位于基因间和内含子区域。我们发现在所有研究的骆驼中共有800,530个SNP,其中包含影响2,428个基因的4,046个错义变体。在所有包含错义SNP的骆驼中共有基因的调查显示,该组中有98个锌指和4个与生育相关的基因(ZP1,ZP2,ZP4和ZPBP)。
更新日期:2020-07-16
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