Annapurna Dhavala, Warrier Rekha Ravindranath, Arunkumar Arkalgud Nagaraja, Aparna Rajan, Sreedevi Chigatagere Nagaraj, Joshi Geeta
Genetics and Tree Improvement Division, Institute of Wood Science and Technology, 18th Cross Malleswaram, Bengaluru, India.
Institute of Forest Genetics and Tree Breeding, PB No. 1061, Forest Campus, RS Puram, Coimbatore, India.
3 Biotech. 2021 Jul;11(7):310. doi: 10.1007/s13205-021-02858-w. Epub 2021 Jun 4.
Cav. (Meliaceae), a fast-growing tropical tree finds use in plywood, pulp and high-value solid wood products. To increase its productivity, we must essentially capture genetic diversity and identify genotypes with superior wood properties. This study aimed to develop novel microsatellite markers from genomic data and validate the markers in . Direct Seq-to-SSR approach was adopted and using an in-house Perl script, 426,390 SSR markers identified. For validation, selected 151 markers, of which 50 were genomic markers chosen randomly, and 101 were genic markers identified through BLAST2GO. Amplification was observed in all loci, and 81.4% generated high-quality, reproducible amplicons of the expected size. Out of 50 genomic markers, we used ten highly polymorphic markers to assess genetic diversity among 75 genotypes from three populations. One hundred fourteen alleles were recorded, with a moderate level of diversity and a positive fixation index. Twenty-nine genic markers representing 13 enzymes showing polymorphism for wood stiffness were selected for diversity assessment of 24 genotypes (12 genotypes each with high and low-stress wave velocity). The product size ranged from 87 to 279, covering the majority of the genome. Cluster and structure analysis segregated ~ 80% of the genotypes based on the trait. This is the first report of the development of genic markers from a genomic survey and has proved efficient in differentiating genotypes based on the trait. The markers developed in this study will be useful for genetic mapping, diversity estimation, marker-assisted selection for desired traits and breeding for wood traits in .
The online version contains supplementary material available at 10.1007/s13205-021-02858-w.
桃花心木（楝科）是一种生长迅速的热带树木，可用于胶合板、纸浆和高价值实木产品。为了提高其生产力，我们必须从根本上获取遗传多样性并鉴定具有优良木材特性的基因型。本研究旨在从基因组数据中开发新型微卫星标记，并在[具体物种]中验证这些标记。采用直接序列到简单序列重复（Seq-to-SSR）方法，使用内部编写的Perl脚本，共鉴定出426,390个SSR标记。为了进行验证，选择了151个标记，其中50个是随机选择的基因组标记，101个是通过BLAST2GO鉴定的基因标记。在所有位点均观察到扩增，81.4%产生了预期大小的高质量、可重复扩增子。在50个基因组标记中，我们使用了10个高度多态性标记来评估来自三个种群的75个基因型之间的遗传多样性。共记录到114个等位基因，多样性水平适中，固定指数为正。选择了代表13种酶的29个基因标记，这些酶对木材硬度具有多态性，用于对24个基因型（12个高应力波速度基因型和12个低应力波速度基因型）进行多样性评估。产物大小范围为87至279，覆盖了大部分基因组。聚类和结构分析根据性状将约80%的基因型分开。这是首次从基因组调查中开发基因标记的报告，并且已证明在基于性状区分基因型方面是有效的。本研究中开发的标记将有助于[具体物种]的遗传图谱构建、多样性估计、所需性状的标记辅助选择以及木材性状育种。
在线版本包含可在10.1007/s13205-021-02858-w获取的补充材料。
