National Center for Bioinformatics, King Abdulaziz City for Science and Technology, Riyadh 11442, Saudi Arabia.
National Center for Agricultural Technology, King Abdulaziz City for Science and Technology, Riyadh 11442, Saudi Arabia.
Int J Mol Sci. 2022 Aug 30;23(17):9847. doi: 10.3390/ijms23179847.
Weevils, classified in the family Curculionidae (true weevils), constitute a group of phytophagous insects of which many species are considered significant pests of crops. Within this family, the red palm weevil (RPW), , has an integral role in destroying crops and has invaded all countries of the Middle East and many in North Africa, Southern Europe, Southeast Asia, Oceania, and the Caribbean Islands. Simple sequence repeats (SSRs), also termed microsatellites, have become the DNA marker technology most applied to study population structure, evolution, and genetic diversity. Although these markers have been widely examined in many mammalian and plant species, and draft genome assemblies are available for many species of true weevils, very little is yet known about SSRs in weevil genomes. Here we carried out a comparative analysis examining and comparing the relative abundance, relative density, and GC content of SSRs in previously sequenced draft genomes of nine true weevils, with an emphasis on . We also used Illumina paired-end sequencing to generate draft sequence for adult female RPW and characterized it in terms of perfect SSRs with 1-6 bp nucleotide motifs. Among weevil genomes, mono- to trinucleotide SSRs were the most frequent, and mono-, di-, and hexanucleotide SSRs exhibited the highest GC content. In these draft genomes, SSR number and genome size were significantly correlated. This work will aid our understanding of the genome architecture and evolution of Curculionidae weevils and facilitate exploring SSR molecular marker development in these species.
象鼻虫,分类于象甲科(象甲科),是一组以植物为食的昆虫,其中许多物种被认为是作物的重要害虫。在这个科中,红棕榈象鼻虫(RPW)在破坏作物方面起着重要作用,已经入侵了中东的所有国家和北非、南欧、东南亚、大洋洲和加勒比群岛的许多国家。简单序列重复(SSR),也称为微卫星,已成为研究种群结构、进化和遗传多样性最应用的 DNA 标记技术。尽管这些标记已在许多哺乳动物和植物物种中广泛研究,并且许多真象甲科物种的基因组草图已经可用,但关于象鼻虫基因组中的 SSR 知之甚少。在这里,我们进行了一项比较分析,检查和比较了以前测序的九个真象甲科草案基因组中 SSR 的相对丰度、相对密度和 GC 含量,重点是。我们还使用 Illumina 配对末端测序技术生成了成年雌性 RPW 的草案序列,并根据具有 1-6 bp 核苷酸基序的完美 SSR 对其进行了表征。在象鼻虫基因组中,单核苷酸到三核苷酸 SSR 最为常见,而单核苷酸、二核苷酸和六核苷酸 SSR 表现出最高的 GC 含量。在这些草案基因组中,SSR 数量和基因组大小呈显著正相关。这项工作将有助于我们理解象甲科象鼻虫的基因组结构和进化,并促进在这些物种中探索 SSR 分子标记的开发。