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Eskisehir Osmangazi University, Faculty of Agriculture, Department of Agricultural Biotechnology, Eskisehir
Abstract
Expansins loose plant cell walls and play diverse roles in plant growth and development, germination, fruit ripening and softening, fiber development, and biotic/abiotic stress response, especially adaptation to the osmotic and oxidative stresses caused by drought stress. In this study, genome-wide analysis of the expansin gene family in Cannabis sativa was performed for the first time. A total of 29 expansin genes were found in the C. sativa genome. These genes were classified into four subfamilies, including 18 CsEXPAs, 5 CsEXPBs, 1 CsEXLAs, and 5 CsEXLBs family members. Phylogenetic analysis showed that the cannabis, Arabidopsis and rice expansins were divided into ten subgroups. 29 cannabis expansin genes were unevenly distributed among nine cannabis chromosomes. Most expansin genes have 3 exons while the number of introns and exons among expansin genes ranged from 1 to 4 and from 2 to 5, respectively. The promoter regions of 29 cannabis expansin genes contained diverse cis-elements that are involved in the development, environmental stress, hormones, and light responsiveness. This initial study is a useful resource for further research on the potential roles of expansin in fiber development, plant growth and development, and environmental stress response.
Keywords
Expansin,Cannabis sativa,bioinformatics
How to Cite
SİPAHİ, H. . (2024). Genome-Wide Characterization of Expansin Gene Family in Cannabis sativa. ISPEC Journal of Agricultural Sciences, 8(1), 255–265. https://doi.org/10.5281/zenodo.10864859
📄Chen, F., Dahal, P., Bradford, K.J., 2001. Two tomato expansin genes show divergent expression and localization in embryos during seed development and germination. Plant Physiology, 127(3): 928-936.
📄Chen, C., Wu, Y., Li, J., Wang, X., Zeng, Z., Xu, J., Liu, Y., Feng, J., Chen, H., He, Y., Xia, R., 2023. TBtools-II: A "one for all, all for one" bioinformatics platform for biological big-data mining. Molecular Plant 16: 1733–1742.
📄Cho, H.T., Cosgrove, D.J., 2000. Altered expression of expansin modulates leaf growth and pedicel abscission in Arabidopsis thaliana. Proceedings of the National Academy of Sciences, 97(17): 9783-9788.
📄Cosgrove, D.J., 2015. Plant expansins: diversity and interactions with plant cell walls. Current Opinion in Plant Biology, 25: 162-172.
📄Civello, P.M., Powell, A.L., Sabehat, A., Bennett, A.B., 1999. An expansin gene expressed in ripening strawberry fruit. Plant Physiology, 121(4): 1273-1279.
📄Ding, A., Marowa, P., Kong, Y., 2016. Genome-wide identification of the expansin gene family in tobacco (Nicotiana tabacum). Molecular Genetics and Genomics, 291(5): 1891-1907.
📄Feng, X., Li, C., He, F., Xu, Y., Li, L., Wang, X., Li, F., 2022. Genome-wide identification of Expansin genes in wild soybean (Glycine soja) and functional characterization of Expansin B1 (GsEXPB1) in soybean hair root. International Journal of Molecular Sciences, 23(10): 5407.
📄Gao, C., Cheng, C., Zhao, L., Yu, Y., Tang, Q., Xin, P., Zang, G., 2018. Genome-wide expression profiles of hemp (Cannabis sativa L.) in response to drought stress. International Journal of Genomics.
📄Guo, W., Zhao, J., Li, X., Qin, L., Yan, X., Liao, H., 2011. A soybean β‐expansin gene GmEXPB2 intrinsically involved in root system architecture responses to abiotic stresses. The Plant Journal, 66(3): 541-552.
📄Han, Y., Chen, Y., Yin, S., Zhang, M., Wang, W., 2015. Over-expression of TaEXPB23, a wheat expansin gene, improves oxidative stress tolerance in transgenic tobacco plants. Journal of Plant Physiology, 173: 62-71.
📄Hemalatha, N., Rajesh, M.K., Narayanan, N.K., 2011. Genome-wide analysis and identification of genes related to expansin gene family in indica rice. International Journal of Bioinformatics Research and Applications, 7(2): 162-167.
📄Huang, J., Takano, T., Akita, S., 2000. Expression of α-expansin genes in young seedlings of rice (Oryza sativa L.). Planta 211(4): 467–473
📄Islam, M.S., Ahmed, S., Azady, M.A.R., 2021. Sustainable technologies for textile production. In Fundamentals of Natural Fibres and Textiles (pp. 625-655). Woodhead Publishing
📄Jin, K.M., Zhuo, R.Y., Xu, D., Wang, Y.J., Fan, H.J., Huang, B.Y., Qiao, G.R., 2020. Genome-wide identification of the expansin gene family and its potential association with drought stress in moso bamboo. International Journal of Molecular Sciences, 21(24): 9491.
📄Kuluev, B.R., Mikhaylova, E.V., Chemeris, A.V., 2013. Transfer of the ARGOS-LIKE and AtEXPA10 genes into non-transgenic forms of tobacco and the phenotypic effects of their constitutive expression. Russian Journal of Genetics: Applied Research, 3: 265-270.
📄Kuluev, B.R., Knyazev, A.B., Lebedev, Y.P., Chemeris, A.V., 2012. Morphological and physiological characteristics of transgenic tobacco plants expressing expansin genes: AtEXP10 from Arabidopsis and PnEXPA1 from poplar. Russian Journal of Plant Physiology, 59: 97-104.
📄Li, Y., Lin-Wang, K., Liu, Z., Allan, A.C., Qin, S., Zhang, J., Liu, Y., 2020. Genome-wide analysis and expression profiles of the StR2R3-MYB transcription factor superfamily in potato (Solanum tuberosum L.). International Journal of Biological Macromolecules, 148: 817-832.
📄Lu, Y., Liu, L., Wang, X., Han, Z., Ouyang, B., Zhang, J., Li, H., 2016. Genome-wide identification and expression analysis of the expansin gene family in tomato. Molecular Genetics and Genomics, 291: 597-608.
📄Lv, L.M., Zuo, D.Y., Wang, X.F., Cheng, H. L., Zhang, Y.P., Wang, Q.L., Ma, Z.Y., 2020. Genome-wide identification of the expansin gene family reveals that expansin genes are involved in fibre cell growth in cotton. BMC Plant Biology, 20: 1-13.
📄Mistry, J., Chuguransky, S., Williams, L., Qureshi, M., Salazar, G.A., Sonnhammer, E.L.L., Tosatto, S.C.E., Paladin, L., Raj, S., Richardson, L.J., Finn, R.D., Bateman, A., 2021. Pfam: The protein families database in 2021. Nucleic Acids Research, 49(D1): D412–D419.
📄Morris, K., Linkies, A., Müller, K., Oracz, K., Wang, X., Lynn, J.R., Finch-Savage, W.E., 2011. Regulation of seed germination in the close Arabidopsis relative Lepidium sativum: a global tissue-specific transcript analysis. Plant Physiology, 155(4): 1851-1870.
📄Pien, S., Wyrzykowska, J., McQueen-Mason, S., Smart, C., Fleming, A., 2001. Local expression of expansin induces the entire process of leaf development and modifies leaf shape. Proceedings of the National Academy of Sciences, 98(20): 11812-11817.
📄Saitou, N., Nei, M., 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4(4): 406–425.
📄Shimizu, Y., Aotsuka, S., Hasegawa, O., Kawada, T., Sakuno, T., Sakai, F., Hayashi, T., 1997. Changes in levels of mRNAs for cell wall-related enzymes in growing cotton fiber cells. Plant Cell Physiology 38(3): 375–378.
📄Tamura, K., Stecher, G., Kumar, S., 2021 MEGA11: molecular evolutionary genetics analysis version 11. Molecular Biology and Evolution, 38(7): 3022–3027.
📄Valdivia, E.R., Wu, Y., Li, L.C., Cosgrove, D.J., Stephenson, A.G., 2007. A group-1 grass pollen allergen influences the outcome of pollen competition in maize. PLoS One, 2(1): e154.
📄Won, S.K., Choi, S.B., Kumari, S., Cho, M., Lee, S.H., Cho, H.T., 2010. Root hair-specific EXPANSIN B genes have been selected for Graminaceae root hairs. Molecules and Cells, 30: 369-376.
📄Yeo, H.C., Reddy, V.A., Mun, B.G., Leong, S.H., Dhandapani, S., Rajani, S., Jang, I.C., 2022. Comparative transcriptome analysis reveals coordinated transcriptional regulation of central and secondary metabolism in the trichomes of cannabis cultivars. International Journal of Molecular Sciences, 23(15): 8310
📄Zhang, J.F., Xu, Y.Q., Dong, J.M., Peng, L.N., Feng, X., Wang, X., Li, F.L., 2018. Genome-wide identification of wheat (Triticum aestivum) expansins and expansin expression analysis in cold-tolerant and cold-sensitive wheat cultivars. PLoS One, 13(3): e0195138.
📄Zhou, S., Han, Y.Y., Chen, Y., Kong, X., Wang, W., 2015. The involvement of expansins in response to water stress during leaf development in wheat. Journal of Plant Physiology, 183: 64-74.
📄Zou, H., Wenwen, Y., Zang, G., Kang, Z., Zhang, Z., Huang, J., Wang, G., 2015. OsEXPB2, a β-expansin gene, is involved in rice root system architecture. Molecular Breeding, 35: 1-14.
