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Detailed characterization of lectin genes in common bean using bioinformatic tools

Year 2022, Volume 31, Issue 1, 1 - 25, 30.06.2022

Abstract

Because of differences in molecular structure, biochemical properties, and carbohydrate binding specificity, lectins are considered a complex and heterogeneous group of proteins found in all organisms. Plant lectins are important proteins in terms of their benefits in cancer treatments, biomedical applications, and many medical uses due to their numerous biological roles such as intercellular interactions, defense mechanisms formation, immunomodulation, and anticarcinogenic activity. Despite the discovery of significant amounts of lectin proteins in different plant species, many questions about their potential biological role remain unanswered in P. vulgaris L. In this study, using bioinformatics tools, 52 Pvul-LEC genes were identified in the P. vulgaris genome and these genes were clustered into three subgroups based on phylogenetic analysis. The majority of Pvul-LEC proteins in the same subfamily of phylogenetic tree shared similar motifs and gene structures. Eight pairs of segmental duplications were discovered based on genome wide duplication analysis. Pvul-LEC proteins' three-dimensional structure and functions were also predicted. Simultaneously, gene expression levels of Pvul-LEC genes against drought and salt stress in leaf tissues were evaluated based on publicly available RNAseq data. As a result, it is anticipated that the data obtained in the current study will be beneficial to literature and following studies related to lectin genes.

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Year 2022, Volume 31, Issue 1, 1 - 25, 30.06.2022

Abstract

References

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  • De Hoff, P.L., Brill, L.M., Hirsch, A.M., Plant lectins: the ties that bind in root symbiosis and plant defense, Molecular Genetics and Genomics, 282 (2009), 1-15. https://doi.org/10.1007/s00438-009-0460-8
  • Van der Poel, A., Effect of processing on antinutritional factors and protein nutritional value of dry beans (Phaseolus vulgaris L.). A review, Animal Feed Science and Technology, 29 (1990), 179-208.
  • Büyük, İ., Okay, A. Aksoy, T., Aras, S., The NIN-like Protein (NLP) Family in Common Bean: Genome-Wide Identificationn Evolution and Expression Analysis, Communications Faculty of Sciences University of Ankara Series C Biology, 30 (2021), 58-84. https://dergipark.org.tr/en/pub/communc/issue/58411/869501.
  • Hirsch, M., Phillips, S., Solnik, C., Black, P., Schwartz, R., Carpenter, C., Activation of leukemia viruses by graft-versus-host and mixed lymphocyte reactions in vitro, Proceedings of the National Academy of Sciences, 69 (1972), 1069-1072.
  • Koyanagi, Y., Miles, S., Mitsuyasu, R.T., Merrill, J.E., Vinters, H.V., Chen, I., Dual infection of the central nervous system by AIDS viruses with distinct cellular tropisms, Science, 236 (1987), 819-822.
  • Lajolo, F.M., Genovese M.I., Nutritional significance of lectins and enzyme inhibitors from legumes, Journal of Agricultural and Food Chemistry, 50 (2002), 6592-6598. https://doi.org/10.1021/jf020191k.
  • Woodley, J.F., Lectins for gastrointestinal targeting–15 years on, Journal of Drug Targeting, 7 (1999), 325-333. https://doi.org/10.3109/10611869909085515.
  • Goodstein, D. M., Shu, S., Howson, R., Neupane, R., Hayes,R.D., Fazo, J., Mitros,T., Dirks, W., Hellsten,U., Putnam, N., Phytozome: a comparative platform for green plant genomics, Nucleic Acids Research, 40 (2012), D1178-D1186. https://doi.org/10.1093/nar/gkr944.
  • Guo, A., Zhu, Q., Chen, X., Luo, J., GSDS: a gene structure display server, Yi chuan= Hereditas, 29 (2007), 1023-1026. https://doi.org/10.1360/yc-007-1023
  • Voorrips, R., MapChart: software for the graphical presentation of linkage maps and QTLs, Journal of Heredity, 93 (2002), 77-78. https://doi.org/10.1093/jhered/93.1.77
  • Bailey, T.L., Williams, N., Misleh. C., Li,W.W., MEME: discovering and analyzing DNA and protein sequence motifs, Nucleic Acids Research, 34 (2006), W369-W373. https://doi.org/10.1093/nar/gkl198
  • Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., Kumar, S., MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods, Molecular Biology and Evolution, 28 (2011), 2731-2739. https://doi.org/10.1093/molbev/msr121
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Details

Primary Language English
Subjects Biology
Journal Section Research Articles
Authors

Aybüke OKAY>
ANKARA UNIVERSITY
0000-0002-6772-4316
Türkiye


Sumer ARAS>
ANKARA UNIVERSITY
0000-0003-3474-9493
Türkiye


İlker BÜYÜK> (Primary Author)
ANKARA ÜNİVERSİTESİ
0000-0002-0843-8299
Türkiye

Publication Date June 30, 2022
Published in Issue Year 2022, Volume 31, Issue 1

Cite

Bibtex @research article { communc1056557, journal = {Communications Faculty of Sciences University of Ankara Series C Biology}, issn = {1303-6025}, eissn = {2651-3749}, address = {Ankara Üniversitesi Fen Fakültesi Matematik Bölümü}, publisher = {Ankara University}, year = {2022}, volume = {31}, number = {1}, pages = {1 - 25}, doi = {10.53447/communc.1056557}, title = {Detailed characterization of lectin genes in common bean using bioinformatic tools}, key = {cite}, author = {Okay, Aybüke and Aras, Sumer and Büyük, İlker} }

Communications Faculty of Sciences University of Ankara Series C-Biology.

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