Ngangkham Umakanta, Dash Sofini, Parida Madhuchhanda, Samantaray Sanghamitra, Nongthombam Devachandra, Yadav Manoj Kumar, Kumar Awadhesh, Chidambaranathan Parameswaran, Katara Jawahar L, Patra Bhaskar C, Bose Lotan K
1ICAR-National Rice Research Institute, Cuttack, Odisha 753006 India.
Present Address: ICAR-Research Complex for North East Hill Region, Umiam, 793103 India.
3 Biotech. 2019 Jun;9(6):217. doi: 10.1007/s13205-019-1757-x. Epub 2019 May 20.
The main aim of this study is to assess the potentiality of SSR markers for the identification of the cross-species transferability frequency in a large set of the diverse genome types of wild relative rice along with cultivated rice. Here, we used 18 different rice genotypes representing nine different genome types with 70 SSR markers to investigate the potentiality of cross-species transferability rate. The overall cross-species transferability of SSR markers across the 18 rice genotypes ranged from 38.9% (RM280 and RM447) to 100% (RM490, RM318, RM279, RM18877 and RM20033, RM19303) with an average of 76.58%. Also, cross-species transferability across chromosome ranged from 54.4% (chromosome 4) to 86.5% (chromosome 2) with an average of 74.35%. The polymorphism information content of the markers varied from 0.198 (RM263) to 0.868 (RM510) with a mean of 0.549 ± 0.153, showing high discriminatory power. The highest rate of cross-transferability was observed in (97%), The highest rate of cross-species transferability was in . (97.00%), followed by (94.20%) (92.80%), Swarna (92.80%), (91.40%), (90%), (88.50%), (82.80%), (77.10%), (74.20%), (74.20%), (70.00%), (68.50%), (62.80%), (57.10%) and (41.40%) with least in (28.50%). A total of 341 alleles from 70 loci were detected with the number of alleles per locus ranged from 2 to 12. Based on dendrogram analysis, the AA genome groups was separated as distinct group from the rest of the genome types. Similarly, principal coordinate analysis and structure analysis clearly separated the AA genome type from the rest of the genome types. Through the analysis of molecular variance, more variance (51%) was observed among the individual, whereas less (14%) was observed among the population. Thus, our findings may offer a valuable resource for studying the genetic diversity and relationship to facilitate the understanding of the complex mechanism of the origin and evolutionary processes of different species and wild relative rice.
本研究的主要目的是评估SSR标记在鉴定包括栽培稻在内的大量野生近缘稻不同基因组类型间跨物种转移频率的潜力。在此，我们使用了代表9种不同基因组类型的18种不同水稻基因型以及70个SSR标记来研究跨物种转移率的潜力。SSR标记在18种水稻基因型间的总体跨物种转移率范围为38.9%（RM280和RM447）至100%（RM490、RM318、RM279、RM18877和RM20033、RM19303），平均为76.58%。此外，跨染色体的跨物种转移率范围为54.4%（第4号染色体）至86.5%（第2号染色体），平均为74.35%。标记的多态性信息含量从0.198（RM263）到0.868（RM510）不等，平均值为0.549±0.153，显示出高鉴别力。在[具体品种1]中观察到最高的跨转移率（97%），最高的跨物种转移率在[具体品种2]中（97.00%），其次是[具体品种3]（94.20%）[具体品种4]（92.80%）、Swarna（92.80%）、[具体品种5]（91.40%）、[具体品种6]（90%）、[具体品种7]（88.50%）、[具体品种8]（82.80%）、[具体品种9]（77.10%）、[具体品种10]（74.20%）、[具体品种11]（74.20%）、[具体品种12]（70.00%）、[具体品种13]（68.50%）、[具体品种14]（62.80%）、[具体品种15]（57.10%），而在[具体品种16]中最低（28.50%）。从70个位点共检测到341个等位基因，每个位点的等位基因数范围为2至12个。基于聚类分析，AA基因组组与其他基因组类型明显分开。同样，主坐标分析和结构分析也清楚地将AA基因组类型与其他基因组类型分开。通过分子方差分析，个体间观察到更多的方差（51%），而群体间较少（14%）。因此，我们的研究结果可能为研究遗传多样性和关系提供有价值的资源，以促进对不同物种和野生近缘稻起源及进化过程复杂机制的理解。
