SNPs and single base pair (SBP) insertion/deletions (indels) are not only the most abundant genetic markers for genetic mapping and breeding selection, but also always occur in the mutants generated from chemical mutagenesis or CRISPR/Cas9-mediated genome editing. Most of the current SNP and SBP indel genotyping methods are time-consuming and/or require special equipment or reagents. Here, we describe an improved heteroduplex analysis method, named iHDA, that can readily discriminate SNP and SBP indel alleles with specially designed DNA probes that harbor a couple of nucleotides adjacent to the SNP site. By hybridizing with the same probe, SNP and SBP indel alleles form different heteroduplexes, differing in bulge size, which show different mobility on a polyacrylamide gel. Therefore, iHDA is an easy, fast and inexpensive method for SNP and SBP indel genotyping.

中文翻译：

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一种改进的异源双链分析，可用于SNP和单碱基对插入/缺失的快速基因分型。

SNP和单碱基对（SBP）插入/缺失（indels）不仅是进行遗传作图和育种选择的最丰富的遗传标记，而且总是发生在由化学诱变或CRISPR / Cas9介导的基因组编辑产生的突变体中。当前大多数的SNP和SBP indel基因分型方法很耗时，并且/或者需要特殊的设备或试剂。在这里，我们描述了一种改进的异源双链分析方法，称为iHDA，它可以使用专门设计的DNA探针轻松区分SNP和SBP indel等位基因，该探针带有两个与SNP位点相邻的核苷酸。通过与同一探针杂交，SNP和SBP indel等位基因形成不同的异源双链体，凸出大小不同，在聚丙烯酰胺凝胶上显示出不同的迁移率。因此，iHDA很简单，