Use of the RAPD marker to determine the genetic diversity of various Dalbergia sissoo Roxb. (Shisham) genotypes and their evolutionary relationship in Indian subcontinents

*Article not assigned to an issue yet

Tewari, Salil K., Tewari, Lakshmi, Dubey, Ashutosh, Kumar, Amit, Kumar, Narendra, Kaushal, Rajesh


Short Communications | Published: 21 February, 2022

Print ISSN : 0970-4078.
Online ISSN : 2229-4473.
Website:www.vegetosindia.org
Pub Email: contact@vegetosindia.org
Doi: 10.1007/s42535-021-00334-7
First Page: 0
Last Page: 0
Views: 25


Keywords: Genetic diversity, Genetic composition, Landraces, Molecular marker, Polymorphism


Abstract


Although Dalbergia sissoo Roxb. is an important tree species that help in nitrogen fixation, it lacks distinguishable morphological markers. There are only a few shisham breeding studies available. In this study, the molecular diversity of 30 shisham genotypes collected from different regions of India and one foreign landrace obtained from Nepal were analyzed using a randomly amplified polymorphic DNA (RAPD) marker. The genetic diversity of shisham genotypes were assessed by calculating various marker parameters, namely percent and number of monomorphic and polymorphic loci. This gave an average of 8.76 bands per primer, of which 65 bands (24.71%) were monomorphic for all the genotypes, and 198 bands (75.28%) were found to be polymorphic for one or more genotypes. Jaccard’s coefficient of similarity between all possible pairs of genotypes revealed that genotypes had divergence ranging between 22.4 and 49.8%. The phylogenetic results showed that group I, II, III, and IV comprise genotypes originating from plains of U.P., while genotypes in groups III and IV were from hills and foothills of Uttarakhand state. However, PS-71, PS-8 and Ps-26 were exceptional. The RAPD marker system aided in determining genetic diversity, origin, and identifying variation among landraces.

Genetic diversity, Genetic composition, Landraces, Molecular marker, Polymorphism


References


Arif M, Zaidi NW, Singh YP, Haq QMR, Singh U (2009) A comparative analysis of ISSR and RAPD markers for the study of genetic diversity in shisham (Dalbergia sissoo). Plant Mol Biol Rep 27:488–495


Bakshi M, Sharma A (2011) Assessment of genetic diversity in Dalbergia sissoo clones through RAPD profiling. J Fores Res 22(3):393–397


Cehula M, Mlček J, Juríková T, Žiarovská J, Paulen O, Dokoupil L, Adámková A, Babosova R (2020) Assessment of genetic diversity of edible honeysuckle monitored through RAPD in relative to bioactive substances. Agronomy 10(6):868


Chandra A( 2007). Molecular assessment of variation in Stylosanthes fruticosa accessions employing STS and RAPD markers. Jap MendSoci Cytologia 72: 251–258.


Cheng JL, Li J, Qiu YM, Wei CL, Yang LQ, Fu JJ (2016) Development of novel SCAR markers for genetic characterization of Lonicera japonica from high GC-RAMPPCR and DNA cloning. Genet Mol Res 15(2):1–12


Dobhal S, Sharma S, Ahmed N, Kumar A (2019) Genetic polymorphism in Dalbergia sissoo Roxb. using RAPD markers. Ind J Biotech 18:164–173


Dobhal S, Kumar A, Ravichandran S (2016). Evaluation of clonal divergence in Dalbergia Sissoo Roxb. for developing production populations. Indi Fores 142 (5): 451–458


Gato S, Watanabe A, Ikeda K (1997) Use of RAPD markers for cultivar identification in Rhus succedanea L. J Japanese Forestry Soc 79(4):229–233


Giachino RR (2020). Investigation of the genetic variation of anise (Pimpinella anisum L.) using RAPD and ISSR markers. Gen Res Crop Evol 67(3):763–80.


Ginwal HS, Maurya SS (2009) Evaluation and optimization of DNA extraction method for Dalbergia sissoo leaf. Indian J Biotechnol 9:69–73


Gupta VK, Misra AK, Gaur R, Pandey R, Chauhan UK (2009) Studies of genetic polymor- phism in the isolates of Fusarium solani. Australian J Crop Sci 3:101–106


Hawa MM, Salleh Latiffah BZ (2010) Characterization and intraspecific variation of Fusarium semitectum (Berkeley and Ravenel) associated with red-fleshed dragon fruit (Hylocereus polyrhizus [Weber] Britton and Rose) in Malaysia. Afr J Biotechnol 9:273–284


He HY, Zhang D, Quing H, Yang Y (2016) Analysis of the genetic diversity of Lonicera japonica Thumb. using inter-simple sequence repeat markers. Genet Mol Res 16:1–7


Javaid A, Akram W, Shoaib A, Haider M, Ahmad A (2014) Issr analysis of genetic diversity in dalbergia sissoo in punjab, pakistan. Pak J Botany 46(5):1573–1576


Kaczmarska E, Gawroński J, Dyduch-Siemińska M, Najda A, Marecki W, Żebrowska J (2015) Genetic diversity and chemical characterization of selected Polish and Russian cultivars and clones of blue honeysuckle (Lonicera caerulea). Turk J Agric for 39:394–402


Kumar A, Dobhal S, Sharma S (2011). Assessment of genetic diversity in different clones of Dalbergia sissoo Roxb. by RAPD markers. Afr Jf Biotechnol 10(35):6686–94.


Kumar A, Dobhal S, Sharma S(2011). Assessment of genetic diversity in different clones of Dalbergia sissoo Roxb. by RAPD markers. Afr J Biotechnol 10(35), pp.6686–6694.


Mukhtar I (2012) Pathobiology and host parasite genetics of Shisham dieback in various agro ecological zones of Punjab. University of th Punjab, Lahore, Pakistan, pp 1–127


Naugžemys D, Žilinskaite S, Kleizaite V, Skridaila A, Zvingila D (2011) Assesment of genetic variation among elite and wild germplasm of blue honeysuckle (Lonicera caerulea L.). Balt for 17:8–16


Pan L, Zhao Z, He Y, Li Y, Liu H, Feng T, Zhou Y (2018) Genetic diversity among five species medicinal plants of Lonicera L. in Guizhou Province by SRAP molecular markers analysis. J South Agric 49:2349–2355


Sanghi-Maroof MA, Soliman KM, Allard JRA, RW, (1984) Ribosome DNA spacer length polymorphism in barley: mendelian inheritance, chromosomal location and population dynamics. Proc. Nat. Acad. Sci. USA 81:8014–8018


Shah A, Dz Li, Gao LM, Li H, Moller M (2008) Genetic diversity within and among populations of endangered species Taxus fuana (Taxaceae) from Pakistan and implications for its conservation. Biochem Syst Ecol 36:183–193


Smith JSC, Smith OS (1989) The description and assessment of distance between inbred lines of maize. II. The utility of morphological, biochemical and genetic descriptors and a scheme for testing of distinctness between inbred lines. Maydica 34:151–161


Takata K, Sirashi S (1996) Discrimination of Japanese red cedar (Cryptomeria japonica D. Don) cutting cultivars in Kyushu region with RAPD markers. Bull Kyushu Univ Forests 75:1–14


Tewari SK, Shubhanjana AK, Shukla A, Pandey SBS (2002). Genetic divergence in Shisham (Dalbergia sissoo Roxb.) Ind J Forest. 25(1): 21–24


Varshney RK, Chabane K, Hendre PS, Aggarwal RK, Graner A (2007) Comparative assessment of EST-SSR, EST-SNP and AFLP markers for evaluation of genetic diversity and conservation of genetic resources using wild, cultivated and elite barleys. Plant Sci 173:638–649


Wang BY, Shi L, Ruan ZY, Deng J (2011) Genetic diversity and differentiation in Dalbergia sissoo (Fabaceae) as revealed by RAPD. Genet Mol Res 10:114–120


WangYB SL, Ruan ZY, Deng J (2011) Genetic diversity and differentiation in Dalbergia sissoo (Fabaceae) as revealed by RAPD. Genet Mol Res 10(1):114–120


Zarek M (2009) RAPD analysis of genetic structure in four natural populations of Taxus baccata from Southern Poland. Acta Biol Cracov Bot 51(2):67–75

 


Acknowledgements



Author Information


Tewari, Salil K.
G.B. Pant University of Agriculture and Technology, Pantnagar, India

Tewari, Lakshmi
G.B. Pant University of Agriculture and Technology, Pantnagar, India


Dubey, Ashutosh
G.B. Pant University of Agriculture and Technology, Pantnagar, India

Kumar, Amit
Forest Research Institute, Dehradun, India

amitudu@gmail.com Kumar, Narendra
Forest Research Institute, Dehradun, India

Kaushal, Rajesh
ICAR-Indian Institute of Soil and Water Conservation, Dehradun, India