Agronomic characteristics and genetic relationship of putative transgenic rice lines of cv. Fatmawati with the Glu-1Dx5 transgene

##plugins.themes.bootstrap3.article.main##

NONO CARSONO
GIGIH IBNU PRAYOGA
SANTIKA SARI
MEDDY RACHMADI

Abstract

Abstract. Carsono N, Prayoga GI, Sari S, Rachmadi M. 2021. Agronomic characteristics and genetic relationship of putative transgenic rice lines of cv. Fatmawati with the Glu-1Dx5 transgene. Biodiversitas 23: 291-298. Transgenic rice lines cv. Fatmawati with the Glu-1Dx5 transgene (encoding high molecular weight glutenin sub-unit Dx5 from bread wheat) has been produced in order to improve dough functionality of rice flour. These lines have reached T1 (transformant-1) dan T2 (transformant-2) generations. Some transgenic rice plants obtained from in vitro culture and transformation events frequently show phenotypic and genotypic variations from the original plants, thus evaluation of agronomic traits of these transgenic rice is highly important in order to obtain rice genotypes with the best agronomic traits that will be integrated into rice breeding program. Nine transgenic rice lines and two check lines, i.e. seed-derived and callus-derived rice lines, were used in this experiment. A comparison between transgenic rice traits with those of non-transgenic checks was done by student’s t-test and relationship among transgenic rice lines was evaluated by UPGMA (Unweighted Pair Group Method with Mean Arithmetic) method using NT Sys (Numerical Taxonomy and Multivariate Analysis System). Results indicated that agronomic traits of transgenic rice lines were similar to those of non-transgenic check except for number of productive tillers (T2-11, T2-12, T2-20), the maximum number of tillers (T2-7, T2-11, T2-12, T2-20), number of filled grains (T1-45) and days to maturity (all T2 lines). It suggests that somaclonal variations, gene insertional effect, genetic and epigenetic mutations might occur. Genetic relationship between putative transgenic and non-transgenic checks was closely related, although somaclonal variants were found. The selected transgenic rice lines will be incorporated into rice breeding programs.

##plugins.themes.bootstrap3.article.details##

References
Amanullah, Inamullah. 2016. Dry matter partitioning and harvest index differ in rice genotypes with variables rates of Phosphorus and Zinc nutrition. Rice Science 23(2): 78-87. http://dx.doi.org/10.1016/j.rsci.2015.09.006
Amaya YM, Medina JIB, Quijano EB. 2019. Identification of climatic and physiological variables associated with rice (Oryza sativa L.) yield under tropical conditions. Rev. Fac. Nac. Agron. Medellín 72(1): 8699-8706. doi: 10.15446/rfnam.v72n1.72076
Ansari MurR, Shaheen T, Bukhari SA, Husnain T. 2015. Genetic improvement of rice for biotic and biotic stress tolerance. Turk J Bot. 39: 911-919. doi:10.3906/bot-1503-47
Anderson OD, Larka L, Christoffers MJ, McCue KF, Gustafson JP. 2002. Comparison of orthologous and paralogous DNA flanking the wheat high molecular weight glutenin genes: sequence conservation and divergence, transposon distribution, and matrix-attachment regions. Genome 45 (2): 367-380. https://doi.org/10.1139/g01-137
Arraudeau MA, Vergara BS. 1988. A Farmer's Primer on Growing Upland Rice. International Rice Research Institute and French Institute for Tropical Food Crops Research, Los Baños, Laguna, Philippines. http://books.irri.org/ 9711041707_content.pdf
Bioversity International, IRRI and WARDA. 2007. Descriptors for Wild and Cultivated Rice (Oryza spp.). Bioversity International, Rome, Italy; International Rice Research Institute, Los Baños, Philippines; WARDA, Africa Rice Center, Cotonou, Benin.
Bollinedi H, Krishnan GS, Prabhu KV, Singh NK, Mishra S, Khurana JP, Singh AK. 2017. Molecular and functional characterization of GR2-R1 event based backcross derived line of Golden Rice in the genetic background of a mega rice variety Swarna. PLoS ONE 12(1) e0169600 DOI:10.1371/journal.pone.0169600
Breseghello F and Coelho ASG. 2013. Traditional and modern plant breeding methods with examples in rice. J. Agric. Food Chem. 61: 8277-8286. dx.doi.org/10.1021/jf305531j
Carpentier M-C, Manfroi E, Wei F-J, Wu H-P, Lasserre E, Llauro C, Debladis, Akakpo R, Hsing Y-I, Panaud O. 2019. Retrotransposisional landscape of Asian rice revealed by 3000 genomes. Nature Communications 10:24. https://doi.org/10.1038/s41467-018-07974-5
Carsono N, Yoshida T. 2006. Plant regeneration capacity of calluses derived mature seed of five Indonesian rice genotypes. Plant Prod Sci 9 (1): 71-77. https://doi.org/10.1626/pps.9.71
Carsono N, Yoshida T. 2007. Variation in spikelet-related traits of rice plants regenerated from mature seed-derived callus culture. Plant Prod Sci 10(1): 86-90. https://doi.org/10.1626/pps.10.86
Chairunisa, Zahra F, Nugroho S. 2020. Agronomic characteristics and yield component of Rojolele transgenic rice resistant to Scirpophaga incertulas in biosafety containment. IOP Conf. Series: Earth and Environmental Science 481 (2020) 012016. Doi:10.1088/1755-1315/481/1/012016
Chen J, Yan H, Mu Q, Tian X. 2017. Impacts of prolonged high temperature on heavy-panicle rice varieties in the field. Chilean J of Agric Res. doi:10.4067/S0718-58392017000200102
Chen K, Lyskowski A, Jaremko L, Jaremko M. 2021. Genetic and molecular factors determining grain weight in rice. Front. Plant Sci. 12: 605799. doi: 10.3389/fpls.2021.605799
Choi HW, Lemaux PG, Cho M-J. 2000. Increased chromosomal variation in transgenic versus nontransgenic (Hordeum vulgare L.) plants. Crop Science 40: 524-533. Doi: 10.2135/cropsci2000.402524x
Cho J, Paszkowski J. 2017. Regulation of rice root development by a retrotransposon acting as a microRNA sponge. eLife 2017;6:e30038. DOI: https://doi.org/10.7554/eLife.30038
Deng X, Song X, Wei L, Liu C, Cao X. 2016. Epigenetic regulation and epigenomic landscape in rice. National Science Rev. 3: 309-327.
Garcia-Alonso M. 2013. Safety assessment of food and feed derived from GM crops: using problem formulation to ensure “fit for purpose” risk assessment. Collection of Biosafety Reviews Vol. 8 (2013): 72-101 http://www.icgeb.org/biosafety/publications/collections.html
Garces-Varon G, Restrepo-Diaz H. 2015. Growth and yield of rice cultivars sowed on different dates under tropical conditions. Ciencia e Investigacion Agraria 42 (2): 217-226. DOI: 10.4067/S0718-16202015000200008
Fan X, Chen J, Wu Y, Teo C, Xu G, Fan X. 2020. Genetic and global epigenetic modification, which determines the phenotype of transgenic rice?. Int. J. Mol. Sci. 21,1819, doi:10.3390/ijms21051819
Fu W, Wang C, Xu W, Zhu P, Lu Y, Wei S, Wu X, Wu Y, Zhao Y, Shuifang Zhu. 2019. Unintended effects of transgenic rice revealed by transcriptome and metabolism. GM Crops & Food 10 (1): 20-34, DOI: 10.1080/21645698.2019.1598215 To link to this article: https://doi.org/10.1080/21645
Fujimoto R, Sasaki T, Ishikawa R, Osabe K, Kawanabe T, Dennis ES. 2013. Molecular mechanisms of epigenetic variation in plants. Int. J. Mol. Sci. 2012, 13, 9900-9922; doi:10.3390/ijms13089900
Grist DH. 1965. Rice. Longman, Green and Co., Ltd. Singapore.
Hakata M, Wada H, Matsumoto-Kubo C, Tanaka R, Sato H, Morita S. 2017. Development of a new heat tolerance assay system for rice spikelet sterility. Plant Methods 13: 34. DOI 10.1186/s13007-017-0185-3
Hasan FU, Santika S, Anas, Carsono N. 2020. New promising rice genotypes of SP87-1-1-2 and SP73-3-1-7 adaptive to lowland and medium land. Planta Tropika 8 (1): 21-32. DOI: 10.18196/pt.2020.110.21-32
Hirochika H, Sugimoto K, Otsuki Y 1996. Retrotransposons of rice involved in mutations induced by tissue culture. Proc Natl Acad Sci USA 93 (15): 7783-7788. https://doi.org/10.1073/pnas.93.15.7783
Hoai TTT, Matsusaka H, Toyosawa Y, Suu TD, Satoh H, Kumamaru T. 2014. Influence of single-nucleotide polymorphisms in the gene encoding granule-bound starch synthase I on amylose content in Vietnamese rice cultivars. Breeding Science 64: 142-148. doi:10.1270/jsbbs.64.142
Huang M, Yin X, Jiang L, Zou Y, Deng G. 2015. Raising potential yield of short-duration rice cultivars is possible by increasing harvest index. Biotechnol. Agron. Soc. Environ. 19 (2):153-159. https://popups.uliege.be/1780-4507/index.php?id=16788&file=1&pid=12008
Jiang J, Linscombe SD, Wang J, Oard JH. 2000. High efficiency transformation of u.s. rice lines from mature seed-derived calluses and segregation of glufosinate resistance under field conditions. Crop Sci 40 9 (6): 1729-1741. https://doi.org/ 10.2135/cropsci2000.4061729x
Jeong JM, Jeung JU, Kang KH, Lee SB, Park HM, Kim CK, Kim KM, Sohn JK. 2013. Evaluations on agronomic traits of rice transgenic lines. Korean J. Crop Sci. 58 (2): 196-202. DOI: http://dx.doi.org/10.7740/kjcs.2013.58.2.196
Katsura K, Nakaide Y. 2011. Factors that determine grain weight in rice under high-yielding aerobic culture: the importance of husk size. Field Crops Research 123: 266-272. doi:10.1016/j.fcr.2011.05.023
Khan MH, Dar ZA, Dar SA. 2015. Breeding strategies for improving rice yield – a review. Agricultural Sciences 6: 467-478. http://dx.doi.org/10.4236/as.2015.65046
Kim CS, Baek MK, Kim SK, Suh JP, Lee CM. 2019. Screening of high-palatability rice resources and assessment of eating quality traits of Korean landraces and weedy rice germplasms (in Korean with English Abstract). Korean J of Crop Sci. 64 (4): 299-310. https://doi.org/10.7740/kjcs.2019.64.4.299
Kordrostami M, Mafakheri M, Chaleshtori MH. 2020. Characteristics of grain quality in rice: physiological and molecular aspects. In Book: Handbook of Plant and Crop Physiology, 4th Ed. Publisher: CRC Press.
Larkin PJ and Scowcroft WR. 1981. Somaclonal variant, a novel source of variability from cell culture improvement. Theor. Appl. Genet. 60:197-214.
Lohn AF, Trtikova M, Chapela I, Van den Berg J, du Plessis H, Hilbeck A. 2020. Transgene behavior in Zea mays L. crosses across different genetic backgrounds: Segregation patterns, cry1Ab transgene expression, insecticidal protein concentration and bioactivity against insect pests. PLoS ONE 15(9): e0238523. https://doi.org/ 10.1371/journal.pone.0238523
Masuta Y, Nozawa K, Takagi H, Yaegashi H, Tanaka K, Ito T, Saito H, Kobayashi H, Mastunaga W, Masuda S, Kato A, Ito H. 2016. Inducible transposition of a heat-activated retrotransposon in tissue culture. Plant Cell Physiol. 58 (2): 375-384. doi:10.1093/pcp/pcw202
Mishra P, Singh U, Pandey CM, Mishra P, Pandey G. 2019. Application of student’s test, analysis of variance, and covariance. Annals of Cardiac Anaesthesia 22 (4): DOI: 10.4103/aca.ACA_94_19
Misyura M, Guevara D, Subedi S, Hudson D, McNicholas PD, Colasanti J, Rothstein SJ. 2014. Nitrogen limitation and high density responses in rice suggest a role for ethylene under high density stress. BMC Genomics 15: 681. http://www.biomedcentral.com/1471-2164/15/681
Miyao A, Nakagome M, Ohnuma T, Yamagata H, Kanamori H, Katayose Y, Takahashi A, Matsumoto T, Hirochika H. 2012. Molecular spectrum of somaclonal variation in regenerated rice revealed by whole-genome-sequencing. Plant Cell Physiol 53 (1): 256-264. DOI: 10.1093/pcp/.pcr172
Moghaieb REA, Youssef SS, Mohammed EHK, Draz ASE. 2009. Genotype dependent somatic embryogenesis from Egyptian rice mature zygotic embryos. Australian J. of Basic and Applied Sci. 3(3):2570-2580. http://www.ajbasweb.com/old/ajbas/2009/2570-2580.pdf
Ohtsubo K and Nakamura S. 2016. Evaluation of palatability of cooked rice. IntechOpen DOI: 10.5772/66398
Park D, Choi I-Y, Kim N-S. 2019. Detection of mPing mobilization in transgenic rice plants. Genes & Genomics. https://doi.org/ 10.1007/s13258-019-00877-9
Qin Y, Shin K-S, Woo H-J, Lim, M-H. 2018. Genomic variations of rice regenerants from tissue culture revealed by whole genome re-sequencing. Plant Breed Biotech 6 (4): 426-433. https://doi.org/ 10.9787/PBB.2018.6.4.426
Racheal N, Park J-R, Jeon DW, Kim K-M. 2020. A comparison between the agricultural traits of GM and Non-GM rice in drought stress and non-stress conditions. Journal of Life Science 30(5): 411-419. DOI: https://doi.org/10.5352/JLS.2020.30.5.411
Rachmawati D, Daryono BS, Nuringtyas TR, Anzai H. 2014. Genetic and molecular analysis of transgenic rice cv. Rojolele expressing lactoferrin. Journal of Agricultural Sciences 6 (3): 1-11. doi:10.5539/jas.v6n3p1
Sah SJ, Kaur A, Kaur G, Cheema GS. 2014. Genetic transformation of rice: problems, progress and prospects. J Rice Res 3: 1. doi:10.4172/2375-4338.1000132
Saito H, Fukuta Y, Obara M, Tomita A, Ishimaru T, Fujita D, Kobayashi N. 2021. Two novel QTLs for the harvest index that contribute to high-yield production in rice (Oryza sativa L.). Rice 14:18. https://doi.org/10.1186/s12284-021-00456-1
Smulders MJM, de Klerk GJ. 2011. Epigenetics in plant tissue culture. Plant Growth Regul 63:137–146. DOI 10.1007/s10725-010-9531-4.
Stroud H, Ding B, Simon SA, Feng S, Bellizzi M, Pelegrini M, Wang GL, Meyers BC, Jacobsen SE. 2013. Plant regenerated from tissue culture contain stable epigenome changes in rice. eLife 2: e00354. DOI:10.7554/eLife.00354
Wada Y, Carsono N, Anas, Tong L, T. Yoshida. 2009. Genetic transformation of the high molecular weight glutenin the Glu-1Dx5 gene to rice cv. Fatmawati. Plant Prod Sci 12(3): 341-344. https://doi.org/ 10.1626/pps.12.341
Wang X, Wu R, Lin X, Bai Y, Song C, Yu X, Xu C, Zhao N, Dong Y, Liu B. 2013. Tissue culture-induced genetic and epigenetic alterations in rice pure-lines, F1 hybrids and polyploids. BMC Plant Biology 13:77. http://www.biomedcentral.com/1471-2229/13/77
Wang Y, Lu J, Ren T, Hussain S, Guo C, Wang S, Cong R. 2017. Effects of nitrogen and tiller type on grain yield and physiological responses in rice. AOB PLANTS 9: plx012; doi:10.1093/aobpla/plx012
Wang Z, Yu C, Jiang L. 2012. Segregation and expression of transgenes in the progenies of Bt transgenic rice crossed to conventional rice varieties. African J of Biotechnology 11(31): 7812-7818. DOI: 10.5897/AJB12.119
Wilson AK, Latham JR, Steinbrecher RA. 2013. Transformation-induced mutations in transgenic plants: analysis and biosafety implications. Biotechnology and Genetic Engineering Reviews, 23 (1): 209-238, DOI: 10.1080/02648725.2006.10648085
Wei FJ, Kuang LY, Oung HM, Cheng SY, Wu HP, Huang LT, Tseng YT, Chiou WY, Hsieh-Feng V, Chung CH, Yu SM, Lee LY, Gelvin SB, Hsing YI. 2016. Somaclonal variation does not preclude the use of rice transformants for genetic screening. The Plant Journal 85: 648-659. doi: 10.1111/tpj.13132
Wang Z, Yu C, Jiang L. 2012. Segregation and expression of transgenes in the progenies of Bt transgenic rice crossed to conventional rice varieties. African J of Biotechnology 11(31): 7812-7818. DOI: 10.5897/AJB12.119
Zhang D, Wang Z, Wang N, Gao Y, Liu Y, Wu Y, Zhang YZ, Lin X, Dong Y, Ou X, Xu C, Liu B. 2014. Tissue culture-induced heritable genomic variation in rice, and their phenotypic implications. PLoS ONE 9(5): e96879. doi:10.1371/journal.pone.0096879
Zhang C, Li G, Chen T, Feng B, Fu W, Yan J, Islam MR, Jin Q, Tao L Fu G. 2018. Heat stress induces spikelet sterility in rice at anthesis through inhibition of pollen tube elongation interfering with auxin homeostasis in pollinated pistils. Rice 11:14. https://doi.org/10.1186/s12284-018-0206-5
Zhang H, Zhu Y-J, Zhu A-D, Fan Y-Y, Huang T-X, Zhang J-F, Xie H, Zhuang J-H. 2020. Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.). PeerJ 10.7717/peerj.8679

Most read articles by the same author(s)