Current Science

Open Access Open Access  Restricted Access Subscription Access

Identification of simple sequence repeat markers for grain iron and zinc content in pearl millet (Pennisetum glaucum (L.) R. Br.)


Affiliations
1 College of Agriculture, S.D. Agricultural University, Tharad 385 565, India
2 Pulses Research Station, S.D. Agricultural University, S. K. Nagar 385 506, India
3 Division of Crop Improvement, Directorate of Groundnut Research, Junagadh 362 001, India
 

Pearl millet is an important staple crop, and biofortifying with grain iron (Fe) and zinc (Zn) is a continuing effort to fight micronutrients malnutrition globally. In the present study, parental polymorphism survey identi­fied 99 polymorphic primers between the contrasting parents out of 275 primers used. Further, in bulk segregant analysis, two simple sequence repeats (SSRs), Xipes0027 and Xpsmp2263 were found to be polymorphic between high and low grain Fe and Zn content parents as well as bulks. The primer Xipes0027 showed the specific band of 214 bp and Xpsmp2263 amplified 238 bp in the high grain Fe and Zn content parents and bulks. Moreover, individual plants of each contrasting bulks were genotyped to validate the result of BSA. Xipes0027 was reported to be present on linkage groups 2 as well as 6 of pearl millet, and Xpsmp2263 was located on linkage group 7 according to the published SSR consensus maps. As a result, these markers have been reported to be putatively linked to elevated Fe and Zn content in grains of pearl millet

Keywords

Biofortification, bulk segregant analysis, grain Fe and Zn content, pearl millet, SSRs.
User
Notifications
Font Size

  • Varshney, R. K. et al., Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments. Nat. Biotechnol., 2017; doi:10.1038/nbt.3943.

  • AICPMIP Annual Report, Jodhpur, Rajasthan, India, 2020, 1–12; http://www.aicpmip.res.in/pcr2020.pdf

  • Kumar, M., Patel, M. P. and Rani, K., Delineating genetic inheritance and nonallelic genic interactions for grain iron and zinc concentration, yield and its attributes by generation mean analysis in pearl millet (Pennisetum glaucum (L.) R. Br.). Genet. Resour. Crop Evol., 2021; http://doi.org/10.1007/s10722-021-01208-2

  • Vadez, V., Hash, T., Bidinger, F. R. and Kholova, J., Phenotyping pearl millet for adaptation to drought. Front. Physiol., 2012, 3(386), 158–169.

  • Gupta, S. K. et al., Seed set variability under high temperatures during flowering period in pearl millet (Pennisetum glaucum L. (R.) Br.). Field Crops Res., 2015, 171, 41–53.

  • Deshmukh, D. S., Pawar, B. R., Yeware, P. P. and Landge, V. U., Consumer’s preference for pearl millet products. Agric. Update, 2010, 5(1–2), 122–124.

  • Kumar, M., Rani, K., Ajay, B. C., Patel, M. S., Mungra, K. D. and Patel, M. P., Multivariate diversity analysis for grain micronutrients concentration, yield and agromorphological traits in pearl millet (Pennisetum glaucum (L.) R. Br.). Int. J. Curr. Microbiol. Appl. Sci., 2020, 9(3), 2209–2226; https://doi.org/10.20546/ ijcmas.2020.903.253.

  • Kumar, M., Rani, K., Ajay, B. C., Patel, M. S., Mungra, K. D. and Patel, M. P., Study of genetic variability, heritability and path analysis for grain micronutrients concentration, yield and component traits in pearl millet (Pennisetum glaucum (L.) R. Br.). J. Pharmacogn. Phytochem., 2020, 9(2), 1402–1409.

  • Tako, E., Reed, S. M., Budiman, J., Hart, J. J. and Glahn, R. P., Higher iron pearl millet (Pennisetum glaucum (L.) R. Br.) provides more absorbable iron that is limited by increased polyphenolic content. J. Nutr., 2015, 14, 11; doi:10.1186/1475-2891-14-11.

  • Deshpande, J. D., Joshi, M. M. and Giri, P. A., Zinc: the trace element of major importance in human nutrition and health. Int. J. Med. Sci. Publ. Health, 2013, 2(1), 1–6; doi:10.5455/ijmsph.2013.2.1-6.

  • Stein, A. J., Global impacts of human malnutrition. Plant Soil, 2010, 335, 133–154.

  • Bouis, H. E., Micronutrient fortification of plants through plant breeding: can it improve nutrition in man at low cost? Proc. Nutr. Soc., 2003, 62, 403–411.

  • Cramer, G. R., Urano, K., Delrot, S., Pezzotti, M. and Shinozaki, K., Effects of abiotic stress on plants: a systems biology perspective. BMC Plant Biol., 2011, 11, 163.

  • El-Soda, M., Malosetti, M., Zwaan, B. J., Koornneef, M. and Aarts, M. G., Genotype × environment interaction QTL mapping in plants: lessons from Arabidopsis. Trends Plant Sci., 2014, 19, 390–398.

  • Grishkevich, V. and Yanai, I., The genomic determinants of genotype environment interactions in gene expression. Trends Genet., 2013, 29, 479–487.

  • Kumar, S. et al., Mapping grain iron and zinc content quantitative trait loci in an iniadi-derived immortal population of pearl millet. Genes, 2018, 9, 248; doi:10.3390/genes9050248.

  • Holland, J., Genetic architecture of complex traits in plants. Curr. Opin. Plant Biol., 2007, 10, 156–161.

  • Xu, Y., Molecular dissection of complex traits: practice. In Molecular Plant Breeding, CABI, Wallingford, UK, 2010, pp. 249–285.

  • Zou, C., Wang, P. and Yunbi, Xu, Bulked sample analysis in genetics, genomics and crop improvement. Plant Biotechnol. J., 2016, 14, 1941–1955; doi:10.1111/pbi.12559.

  • Sun, Y., Wang, J., Crouch, J. H. and Xu, Y., Efficiency of selective genotyping for genetic analysis of complex traits and potential applications in crop improvement. Mol. Breed., 2010, 26, 493– 511.

  • Xu, Y. and Crouch, J. H., Marker-assisted selection in plant breeding: from publications to practice. Crop Sci., 2008, 48, 391–407.

  • Michelmore, R. W., Paran, I. and Kesseli, R. V., Identification of markers linked to disease resistance genes by bulked-sergeants analysis; a rapid method to detect markers in specific genomic regions by using segregating populations. Proc. Natl. Acad. Sci. USA, 1991, 88, 9828–9832.

  • Singh, D., Chhonkar, P. K. and Dwivedi, B. S., Manual on Soil, Plant and Water Analysis, Westville Publishing House, New Delhi, 2005.

  • Murray, M. G. and Thompson, W. F., Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res., 1980, 8, 4321– 4326; doi:10.1093/nar/8.19.4321.

  • Caetano-Anolles, G., Nucleic scanning by amplification with mini-hairpin and microsatellite oligonucleotide primers. In DNA Markers: Protocols, Applications and Overviews (eds CaetanoAnolles, G. and Gresshoff, P. M.), Wiley-Liss, Inc., New York, 1997, pp. 91–114.

  • Allouis, S., Qi, X., Lindup, S., Gale, M. D. and Devos, K. M., Constructions of BAC library of pearl millet, Pennisetum glaucum. Theor. Appl. Genet., 2001, 102, 1200–1205.

  • Budak, H. F., Pedraza, P. B., Cregan, P. S., Baenziger and Dweikat, I., Development and utilization of SSRs to estimate the degree of genetic relationships in a collection of pearl millet germplasm. Crop Sci., 2003, 43, 2284–2290.

  • Qi, X., Lindup, S., Pittaway, T. S., Allouis, S., Gale, M. D. and Devos, K. M., Development of simple sequence repeat markers from bacterial artificial chromosomes without subcloning. Biotechniques, 2001, 31, 355–362.

  • Qi, X. et al., An integrated genetic map and new set of simple sequence repeat markers for pearl millet. Pennisetum glaucum. Theor. Appl. Genet., 2004, 109, 1485–1493.

  • Rajaram, V. et al., Pearl millet (Pennisetum glaucum (L.) R. Br.) consensus linkage map constructed using four RIL mapping populations and newly developed EST–SSRs. BMC Genomics, 2013,

  • , 159.

  • Senthilvel, S., Jayashree, B., Mahalakshmi, V., Kumar, P., Nakka, S., Nepolean, T. and Hash, C. T., Development and mapping of simple sequence repeat markers for pearl millet from data mining of expressed sequence tags. BMC Plant Biol., 2008, 8, 119.

  • Kanatti, A., Rai, K. N., Radhika, K., Govindaraj, M., Sahrawat, K. L. and Rao, A. S., Grain iron and zinc density in pearl millet: combining ability, heterosis and association with grain yield and grain size. SpringerPlus, 2014, 3, 763–774.

  • Anuradha, N. et al., Deciphering genomic regions for high grain iron and zinc content using association mapping in pearl millet. Front. Plant Sci., 2017, 7; https://doi.org/10.3389/fpls.2017.00412.

  • Kumar, S. et al., Mapping quantitative trait loci controlling high Fe and Zn density in self and open pollinated grains of pearl millet (Pennisetum glaucum (L.) R. Br.). Front. Plant Sci., 2016, 7, 1636; doi:10.3389/fpls.2016.01636.

  • Altinkut, A. and Gozukirmizi, N., Search for microsatellite markers associated with water–stress tolerance in wheat through bulked segregant analysis. Mol. Biotechnol., 2003, 23, 97–106.

  • Bernier, J., Kumar, A., Ramaiah, V., Spaner, D. and Atlin, G., A large effect QTL for grain yield under reproductive stage drought stress in upland rice. Crop Sci., 2007, 47, 507–516.

  • Kanagaraj, P., Prince, K. S. J., Sheeba, J. A., Biji, K., Paul, S. B., Senthil, A. and Babu, R. C., Microsatellite markers linked to drought resistance in rice (Oryza sativa L.). Curr. Sci., 2010, 98, 836.

  • Venuprasad, R., Dalid, C. O., Valle, M. D., Zhao, D., Espiritu, M., Cruz, M. T. S. and Amante, M., Identification and characterization of large-effect quantitative trait loci for grain yield under lowland

  • drought stress in rice using bulk segregant analysis. Theor. Appl. Genet., 2009, 120, 177–190.


Abstract Views: 292

PDF Views: 141




  • Identification of simple sequence repeat markers for grain iron and zinc content in pearl millet (Pennisetum glaucum (L.) R. Br.)

Abstract Views: 292  |  PDF Views: 141

Authors

Mithlesh Kumar
College of Agriculture, S.D. Agricultural University, Tharad 385 565, India
Manubhai Patel
Pulses Research Station, S.D. Agricultural University, S. K. Nagar 385 506, India
Kirti Rani
Division of Crop Improvement, Directorate of Groundnut Research, Junagadh 362 001, India

Abstract


Pearl millet is an important staple crop, and biofortifying with grain iron (Fe) and zinc (Zn) is a continuing effort to fight micronutrients malnutrition globally. In the present study, parental polymorphism survey identi­fied 99 polymorphic primers between the contrasting parents out of 275 primers used. Further, in bulk segregant analysis, two simple sequence repeats (SSRs), Xipes0027 and Xpsmp2263 were found to be polymorphic between high and low grain Fe and Zn content parents as well as bulks. The primer Xipes0027 showed the specific band of 214 bp and Xpsmp2263 amplified 238 bp in the high grain Fe and Zn content parents and bulks. Moreover, individual plants of each contrasting bulks were genotyped to validate the result of BSA. Xipes0027 was reported to be present on linkage groups 2 as well as 6 of pearl millet, and Xpsmp2263 was located on linkage group 7 according to the published SSR consensus maps. As a result, these markers have been reported to be putatively linked to elevated Fe and Zn content in grains of pearl millet

Keywords


Biofortification, bulk segregant analysis, grain Fe and Zn content, pearl millet, SSRs.

References





DOI: https://doi.org/10.18520/cs%2Fv121%2Fi9%2F1194-1200