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Volume 50 Issue 11
Nov.  2023
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Article Contents

Triticeae-BGC: a web-based platform for detecting, annotating and evolutionary analysis of biosynthetic gene clusters in Triticeae

doi: 10.1016/j.jgg.2023.09.014
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We thank Prof. Zhenhua Liu from Shanghai Jiao Tong University for helpful comments. This study was supported by the National Natural Science Foundation of China (32270628, 32270629), State Key Laboratory of Crop Gene Exploration and Utilization in Southwest (SKL-KF202305), and State Key Laboratory of Genetic Engineering (SKLGE-2312).

  • Received Date: 2023-08-23
  • Accepted Date: 2023-09-23
  • Rev Recd Date: 2023-09-21
  • Publish Date: 2023-10-06
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  • Boycheva, S., Daviet, L., Wolfender, J.-L., Fitzpatrick, T.B., 2014. The rise of operon-like gene clusters in plants. Trends Plant Sci. 19, 447-459.
    Cimermancic, P., Medema, M.H., Claesen, J., Kurita, K., Wieland Brown, L.C., Mavrommatis, K., Pati, A., Godfrey, P.A., Koehrsen, M., Clardy, J., et al., 2014. Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters. Cell 158, 412-421.
    Doroghazi, J.R., Albright, J.C., Goering, A.W., Ju, K.-S., Haines, R.R., Tchalukov, K.A., Labeda, D.P., Kelleher, N.L., Metcalf, W.W., 2014. A roadmap for natural product discovery based on large-scale genomics and metabolomics. Nat. Chem. Biol. 10, 963-968.
    Field, B., Osbourn, A.E., 2008. Metabolic diversification--independent assembly of operon-like gene clusters in different plants. Science 320, 543-547.
    Kautsar, S.A., Suarez Duran, H.G., Blin, K., Osbourn, A., Medema, M.H., 2017. plantiSMASH: automated identification, annotation and expression analysis of plant biosynthetic gene clusters. Nucleic Acids Res. 45, W55-W63.
    Medema, M.H., Cimermancic, P., Sali, A., Takano, E., Fischbach, M.A., 2014. A systematic computational analysis of biosynthetic gene cluster evolution: lessons for engineering biosynthesis. PLoS Comput. Biol. 10, e1004016.
    Polturak, G., Dippe, M., Stephenson, M.J., Chandra Misra, R., Owen, C., Ramirez-Gonzalez, R.H., Haidoulis, J.F., Schoonbeek, H.-J., Chartrain, L., Borrill, P., et al., 2022. Pathogen-induced biosynthetic pathways encode defense-related molecules in bread wheat. Proc. Natl. Acad. Sci. U. S. A. 119, e2123299119.
    van der Lee, T.A.J., Medema, M.H., 2016. Computational strategies for genome-based natural product discovery and engineering in fungi. Fungal Genet. Biol. FG B 89, 29-36.
    Wang, Y., Tang, H., Debarry, J.D., Tan, X., Li, J., Wang, X., Lee, T., Jin, H., Marler, B., Guo, H., et al., 2012. MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity. Nucleic Acids Res. 40, e49.
    Zhang, D., Bai, G., Zhu, C., Yu, J., Carver, B.F., 2010. Genetic Diversity, Population Structure, and Linkage Disequilibrium in U.S. Elite Winter Wheat. Plant Genome 3.
    Ziemert, N., Lechner, A., Wietz, M., Millan-Aguinaga, N., Chavarria, K.L., Jensen, P.R., 2014. Diversity and evolution of secondary metabolism in the marine actinomycete genus Salinispora. Proc. Natl. Acad. Sci. U. S. A. 111, E1130-1139.
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