Assessment of population genetics of shisham (Dalbergia sissoo) based on genetic structure and diversity analyses
Paper Details
Assessment of population genetics of shisham (Dalbergia sissoo) based on genetic structure and diversity analyses
Abstract
Population genetic study is an important strategy to shape up a scattered population, for its characterization and improvement. Marker assisted approaches have been allied to computation biology for unraveling and estimating precise genetic pattern of a population. Therefore, this research study was designed by keeping in view the lack of genetic information of shisham (Dalbergia sissoo) regarding genetic pattern and diversity of population. ISSR (21) markers were used to investigate 60 genotypes collected across the Punjab (Pakistan) with the aid of different bioinformatics analyses. Genetic diversity analysis showed, a total of 373 loci were amplified with percent polymorphic loci, 99.46. Maximum similarity (96%) was found between genotypes MBP2 & MBP3. However, genotype OP4 was more distantly related to genotype LP1 (98% dissimilar). Principle coordinate analysis (PCoA) revealed first II coords accounted for 30.06% total genetic variation in 2-Dplot.Population genetic pattern showed three subpopulations or genepools with diverse genetic pattern, which were arrayed as distinct and even sharing maximum genetics. These three subpopulations collectively, were yielded genetic diversity tree with hierarchical clustering exhibiting four distinct clusters that sat in population in a range or degree from close to diverse. These results were proved to be helpful for tagging and organizing scattered shisham population and would be an step for finding dieback disease resistant shisham genotypes.
Bajwa R, Javaid A. 2007. Integrated disease management to control Shisham (Dalbergia sissoo Roxb.) decline in Pakistan. Pakistan Journal of Botany 39(7), 2651-6.
Bajwa R, Javaid A, Shah MB. 2003. Extent of shisham (Dalbergia sissoo Roxb.) decline in Sialkot, Gujranwala, Lahore and Sargodha districts. Mycopath 1, 1-5.
Baksha MW, Basak AC. 2000. Mortality of sissoo (Dalbergia sissoo Roxb.) in Bangladesh. Mortality of sissoo (Dalbergia sissoo Roxb.) in Bangladesh 18, 1-4.
Bakshi M, Sharma A. 2011. Assessment of genetic diversity in Dalbergia sissoo clones through RAPD profiling. Journal of forestry research 22(3), 393. http://dx.doi.org/10.1007/s11676-011-0183-7
Dwivedi SL, Gurtu S, Chandra S, Yuejin W, Nigam SN. 2001. Assessment of genetic diversity among selected groundnut germplasm. I: RAPD analysis. Plant Breeding 120(4), 345-9. http://dx.doi.org/10.1046/j.1439-0523.2001.00613.x
Evanno G, Regnaut S, Goudet J. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Molecular ecology 14(8), 2611-20. http://dx.doi.org/10.1111/j.1365-294X.2005.02553.x
Danielsson PE. 1980. Euclidean distance mapping. Computer Graphics and image processing 14(3), 227-48.
Dos Santos Araújo F, Pacheco MV, de Almeida Vieira F, dos Santos Ferrari C, Félix FC, das Chagas KP. 2016. ISSR molecular markers for the study of the genetic diversity of Mimosa caesalpiniaefolia Benth. IDESIA (Chile) 34(3), 47-52.
Falk DA, Holsinger KE. 1991. Genetics and conservation of rare plants. Oxford University Press on Demand.
Ginwal HS, Maurya SS. 2010. Evaluation and optimization of DNA extraction method for Dalbergia sissoo leaf.
Jaccard P. 1908. Nouvelles researches sur la distribution florale. Bulletin de la Société vaudoise des sciences naturelles 44, 223-70. http://dx.doi.org/10.1051/ocl.2001.0502
Javaid A. 2008. Research on shisham (Dalbergia sissoo Roxb.) decline in Pakistan–a review. Pakistan Journal of Phytopathology 20(1), 134-42.
Khan MM, Khan MH. 2000. Die-back of Dalbergia sissoo in Pakistan. Die-back of Dalbergia sissoo in Pakistan 18, 51-6.
Kalpana D, Choi SH, Choi TK, Senthil K, Lee YS. 2012. Assessment of genetic diversity among varieties of mulberry using RAPD and ISSR fingerprinting. Scientia horticulturae 134, 79-87. http://dx.doi.org/0.1016/j.scienta.2011.11.002
Kumar A, Dobhal S, Sharma S. 2011. Assessment of genetic diversity in different clones of Dalbergia sissoo Roxb. by RAPD markers. African Journal of Biotechnology 10(35), 6686-94.
Li A, Ge S. 2001. Genetic variation and clonal diversity of Psammochloa villosa (Poaceae) detected by ISSR markers. Annals of Botany 87(5), 585-90 https://doi.org/10.1006/anbo.2001.1390
Nilkanta H, Amom T, Tikendra L, Rahaman H, Nongdam P. 2017. ISSR Marker Based Population Genetic Study of Melocanna baccifera (Roxb.) Kurz: A Commercially Important Bamboo of Manipur, North-East India. Scientifica 2017. https://doi.org/10.1155/2017/3757238
Nei M. 1972. Genetic distance between populations. The American Naturalist 106(949), 283-92 https://doi.org/10.1371/journal.pone.0154801
Orwa C, Mutua A, Kindt R, Jamnadass R, Simons A. 2009. Agroforestree database: a tree species reference and selection guide version 4.0. World Agroforestry Centre ICRAF, Nairobi, KE 2009.
Rajput NA, Pathan MA, Jiskani MM, Rajput AQ, Arain RR. 2008. Pathogenicity and host range of Fusarium solani (Mart.) Sacc., causing dieback of Shisham (Dalbergia sissoo Roxb.). Pakistan Journal of Botany 40(6), 2631-9.
Rocha JA, Vasconcelos S, Silva MA FMMDA, Silva MF, Miranda JA. 2014. ISSR primer selection for genetic variability analyses with jaborandi (Pilocarpus microphyllus Stapf ex Wardlew., Rutaceae). Forest Research 3(3), 1000126.
Shah MH, Mukhtar I, Khan SN. 2010. Medicinal importance and association of pathological constraints with Dalbergia sissoo. Pakistan Journal of Phytopathology 22(2), 135-8.
Saleh B. 2011. Efficiency of RAPD and ISSR markers in assessing genetic variation in Arthrocnemum macrostachyum (Chenopodiaceae). Brazilian archives of biology and technology 54(5), 859-66 https://doi.org/10.1590/S1516-89132011000500002
Singh B, Yadav R, Bhatt BP. 2011. Effects of mother tree ages, different rooting mediums, light conditions and auxin treatments on rooting behaviour of Dalbergia sissoo branch cuttings. Journal of Forestry Research 22(1), 53-7 https://doi.org/10.1007/s11676-011-0125-4
Sokal RR. 1958. A statistical method for evaluating systematic relationship. University of Kansas science bulletin 28, 1409-38.
Verma S, Rana TS. 2011. Genetic diversity within and among the wild populations of Murraya koenigii (L.) Spreng., as revealed by ISSR analysis. Biochemical Systematics and Ecology 39(2), 139-44 https://doi.org/10.1016/j.bse.2011.01017
Wolfe AD, Randle CP. 2001. Relationships within and among species of the holoparasitic genus Hyobanche (Orobanchaceae) inferred from ISSR banding patterns and nucleotide sequences. Systematic Botany 26(1), 120-30.
Yee E, Kidwell KK, Sills GR, Lumpkin TA. 1999. Diversity among selected Vigna angularis (Azuki) accessions on the basis of RAPD and AFLP markers. Crop Science 39(1), 268-75. https://doi.org/10.2135/cropsci1999.0011183X003900010041x
Zietkiewicz E, Rafalski A, Labuda D. 1994. Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification. Genomics 20(2), 176-83 https://doi.org/10.1006/geno.1994.1151
Siddra Ijaz, Hafiza Arooj Razzaq, Maria Babar, Imran Ul Haq, 2018. Assessment of population genetics of shisham (Dalbergia sissoo) based on genetic structure and diversity analyses. Int. J. Biosci., 13(3), 209-222.
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