Development of ilp markers for PFKFB4 and ras genes of aegilops tauschii
DOI:
https://doi.org/10.31548/biologiya14(1-2).2023.005Keywords:
Aegilops tauschii, Aegilops biuncialis, genetic markers, intron length polymorphism.Abstract
The relevance of this research is determined by the prevalence of cereal crops, particularly common wheat, one of the ancestors of which is Aegilops tauschii. The development of new markers that can be used to study the genetic diversity of cereals is a current issue today. The aim of this study was to develop intron length polymorphism (ILP) markers to investigate the intron length polymorphism of PFKFB4 and RAS genes in Aegilops tauschii, and to assess the potential use of the developed markers for genetic differentiation of Ae. tauschii and Ae. biuncialis. EST sequences were obtained using the NCBI database, and online tools such as CD-HIT, BLAST, and Primer3Plus were employed for primer design. Molecular markers, Aet_ILP_1.1, Aet_ILP_1.2, and Aet_ILP_2, were developed and their efficiency was tested on samples of Ae. tauschii and Ae. biuncialis. Amplified fragments were separated using denaturing polyacrylamide gel electrophoresis and silver staining was performed. The Aet_ILP_1.1 marker differentiated fifteen Ae. biuncialis samples into two groups. The use of the Aet_ILP_1.2 marker revealed additional amplicons in certain Ae. tauschii and Ae. biuncialis samples on electropherograms. The Aet_ILP_2 marker visualized amplicons only in Ae. biuncialis samples. Overall, the results indicate a low level of intraspecific genetic variability in Ae. tauschii using the developed markers, however, they can be effectively utilized for assessing interspecific differentiation between Ae. tauschii and Ae. biuncialis.
References
Konev, R. Yu. (2014). Ukraine on the world wheat market: export potential and its realization. The youth scientific bulletin of the UABS of the NBU. - Series: Economic Sciences. – 2014; 7: 615-626.
Ashfaq, M., Zulfiqar, F., Sarwar, I., Quddus, M. A., & Baig, I. A. (2011). Impact of climate change on wheat productivity in mixed cropping system of Punjab. Soil & Environment, 30(2). 12026–12034.
Luo, M. C., Gu, Y. Q., Puiu, D., Wang, H., Twardziok, S. O., Deal, K. R., ... & Dvořák, J. (2017). Genome sequence of the progenitor of the wheat D genome Aegilops tauschii. Nature, 551(7681), 498-502. DOI:10.1038/nature24486
Jafarzadeh J, Bonnett D, Jannink J-L, Akdemir D, Dreisigacker S, Sorrells ME (2016) Breeding Value of Primary Synthetic Wheat Genotypes for Grain Yield. PLoS ONE 11(9): e0162860. DOI: 10.1371/journal.pone.0162860
Geigenberger, P. (2011). Regulation of starch biosynthesis in response to a fluctuating environment. Plant physiology, 155(4), 1566-1577. DOI: 10.1104/pp.110.170399
Nielsen, T. H., Rung, J. H., & Villadsen, D. (2004). Fructose-2, 6-bisphosphate: a traffic signal in plant metabolism. Trends in plant science, 9 (11), 556-563. DOI: 10.1016/j.tplants.2004.09.004
Cen, W., Liu, J., Lu, S., Jia, P., Yu, K., Han, Y., ... & Luo, J. (2018). Comparative proteomic analysis of QTL CTS-12 derived from wild rice (Oryza rufipogon Griff.), in the regulation of cold acclimation and de-acclimation of rice (Oryza sativa L.) in response to severe chilling stress. BMC Plant Biology, 18, 1-17. DOI: 10.1186/s12870-018-1381-7
Li, C., Li, N., Huang, R., Chen, C., Guo, J., Yang, X., ... & Wang, P. (2020). A single nucleotide substitution at the 3′-end of SBPase gene involved in Calvin cycle severely affects plant growth and grain yield in rice. BMC Plant Biology, 20(1), 1-14. DOI:10.1186/s12870-020-02541-x
Swarup, R., & Bhosale, R. (2019). Developmental roles of AUX1/LAX auxin influx carriers in plants. Frontiers in Plant Science, 10, 1306. DOI: 10.3389/fpls.2019.01306
Van Ha, C., Le, D. T., Nishiyama, R. I. E., Watanabe, Y. A. S. U. K. O., Sulieman, S., Tran, U. T., ... & Tran, L. S. P. (2013). The auxin response factor transcription factor family in soybean: genome-wide identification and expression analyses during development and water stress. DNA research, 20(5), 511-524. DOI:10.1093/dnares/dst027
Zhang, H., Zhang, J., Xu, Q., Wang, D., Di, H., Huang, J., ... & Zhou, Y. (2020). Identification of candidate tolerance genes to low-temperature during maize germination by GWAS and RNA-seq approaches. BMC plant biology, 20, 1-17. DOI: 10.1186/s12870-020-02543-9
Tiwari, M., Kumar Trivedi, P., & Pandey, A. (2021). Emerging tools and paradigm shift of gene editing in cereals, fruits, and horticultural crops for enhancing nutritional value and food security. Food and Energy Security, 10(1), e258. DOI:10.1002/fes3.258
Mao, X., Zhang, H., Tian, S., Chang, X., & Jing, R. (2010). TaSnRK2. 4, an SNF1-type serine/threonine protein kinase of wheat (Triticum aestivum L.), confers enhanced multistress tolerance in Arabidopsis. Journal of experimental botany, 61(3), 683-696. DOI:10.1093/jxb/erp331
Wei, S., Peng, Z., & Yang, Z. (2015). A simple approach based on intron length polymorphism (ILP) for chromosomal localization of gene WAG-2. Indian Journal of Genetics and Plant Breeding, 75(3), 314-317. DOI: 10.5958/0975-6906.2015.00049.8
Wang, X., Zhao, X., Zhu, J., & Wu, W. (2005). Genome-wide investigation of intron length polymorphisms and their potential as molecular markers in rice (Oryza sativa L.). DNA Research, 12(6), 417-427. DOI: 10.1093/dnares/dsi019
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