Fantaccione Stefania, Woodrow Pasqualina, Pontecorvo Giovanni
Department of Life Science, II University of Naples, via Vivaldi 43, 81100 Caserta, Italy.
Bioinformation. 2008 Apr 28;2(7):311-5. doi: 10.6026/97320630002311.
Genetic assessment was carried out on three Italian melon accessions by sequence and structural analysis of the internal transcribed spacer 1 (ITS1) from three populations belonging to two Cucumis melo L. varieties (madras and tendral). Alignment of the 18S-5.8S-26S sequences from three melon accessions showed that there were three single-nucleotide polymorphisms (SNPs) and one short insertion-deletion (indel) at the 5'end ITS1. An amplification refractory mutation system (ARMS)-PCR-based analysis was successfully applied to the SNP markers of the ITS1 sequences for the fingerprinting analysis of three melon populations. Secondary structure models for each ITS1 were derived. The prediction of ITS1 RNA secondary structure from each accession was improved by detecting key functional elements shared by all sequences in the alignments. Our results demonstrated that the ITS1secondary structure models can be used to improve the preliminary genetic assessment of the three melon accessions, suggesting a new tool in plant fingerprinting analysis.
通过对来自两个甜瓜品种（马德拉斯和滕德拉尔）的三个群体的内部转录间隔区1（ITS1）进行序列和结构分析，对三个意大利甜瓜种质进行了遗传评估。对三个甜瓜种质的18S - 5.8S - 26S序列进行比对后发现，在ITS1的5'端存在三个单核苷酸多态性（SNP）和一个短插入缺失（indel）。基于扩增阻滞突变系统（ARMS）-PCR的分析成功应用于ITS1序列的SNP标记，用于三个甜瓜群体的指纹分析。推导了每个ITS1的二级结构模型。通过检测比对中所有序列共有的关键功能元件，改进了对每个种质ITS1 RNA二级结构的预测。我们的结果表明，ITS1二级结构模型可用于改进对这三个甜瓜种质的初步遗传评估，为植物指纹分析提供了一种新工具。
