利用异源单核苷酸多态性探针鉴定人类和恒河猴的基因直系同源物。
Identifying human-rhesus macaque gene orthologs using heterospecific SNP probes.
机构信息
Molecular Anthropology Lab., Dept. of Anthropology, UC Davis, CA, USA.
出版信息
Genomics. 2013 Jan;101(1):30-7. doi: 10.1016/j.ygeno.2012.09.001. Epub 2012 Sep 12.
Abstract
We genotyped a Chinese and an Indian-origin rhesus macaque using the Affymetrix Genome-Wide Human SNP Array 6.0 and cataloged 85,473 uniquely mapping heterospecific SNPs. These SNPs were assigned to rhesus chromosomes according to their probe sequence alignments as displayed in the human and rhesus reference sequences. The conserved gene order (synteny) revealed by heterospecific SNP maps is in concordance with that of the published human and rhesus macaque genomes. Using these SNPs' original human rs numbers, we identified 12,328 genes annotated in humans that are associated with these SNPs, 3674 of which were found in at least one of the two rhesus macaques studied. Due to their density, the heterospecific SNPs allow fine-grained comparisons, including approximate boundaries of intra- and extra-chromosomal rearrangements involving gene orthologs, which can be used to distinguish rhesus macaque chromosomes from human chromosomes.
摘要
我们使用 Affymetrix 全基因组人类 SNP 阵列 6.0 对一只中国和一只印度来源的恒河猴进行了基因分型，并对 85473 个独特映射的异源 SNP 进行了编目。这些 SNP 根据其在人类和恒河猴参考序列中的探针序列比对被分配到恒河猴染色体上。异源 SNP 图谱显示的保守基因顺序（同线性）与已发表的人类和恒河猴基因组一致。使用这些 SNP 的原始人类 rs 编号，我们鉴定了与这些 SNP 相关的在人类中注释的 12328 个基因，其中 3674 个基因在我们研究的两只恒河猴中的至少一只中被发现。由于其密度，异源 SNP 允许进行精细的比较，包括涉及基因直系同源物的染色体内和染色体外重排的近似边界，这些可以用于区分恒河猴染色体和人类染色体。
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