Deng, P., Liu, S., Nie, X., and Wu, L., Conservation analysis of long non-coding RNAs in plants, Sci. China Life Sci., 2018, vol. 61, pp. 190—198.

Article  CAS  PubMed  Google Scholar 

Wu, H.-J., Wang, Z.-M., Wang, M., and Wang, X.-J., Widespread long noncoding RNAs as endogenous target mimics for microRNAs in plants, Plant Physiol., 2013, vol. 161, no. 4, pp. 1875—1884.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Zhu, Q.-H. and Wang, M.-B., Molecular functions of long non-coding RNAs in plants, Genes, 2012, vol. 3, no. 1, pp. 176—190.

Article  PubMed  PubMed Central  Google Scholar 

Nazipova, N.N., Diversity of non-coding RNAs in eukaryotic genomes, Mat. Biol. Bioinf., 2021, vol. 16, no. 2, pp. 256—298.

Article  CAS  Google Scholar 

Joshi, A. and Romanowska, J., Recent advances in computational-based approaches in epigenetics studies, Epigenetics Methods, vol. 18 of Translational Epigenetics, 2020, Chapter 28, pp. 569—590.

Kim, E.-D. and Sung, S., Long noncoding RNA: unveiling hidden layer of gene regulatory networks, Trends Plant Sci., 2012, vol. 17, no. 1, pp. 16—21.

Article  CAS  PubMed  Google Scholar 

Karlik, E., Ari, S., and Gozukirmizi, N., LncRNAs: genetic and epigenetic effects in plants, Biotechnol. Biotechnol., 2019, vol. 33, no. 1, pp. 429—439. https://doi.org/10.1080/13102818.2019.1581085

Article  CAS  Google Scholar 

Tsai, M.-C., Manor, O., Wan, Y., et al., Long noncoding RNA as modular scaffold of histone modification complexes, Science, 2010, vol. 329, no. 5992, pp. 689—693. https://doi.org/10.1126/science.1192002

Article  CAS  PubMed  PubMed Central  Google Scholar 

Sousa, C., Johansson, C., Charonet, C., et al., Translational and structural requirements of the early nodulin gene enod40, a short-open reading frame-containing RNA, for elicitation of a cell-specific growth response in the alfalfa root cortex, Mol. Cell. Biol., 2001, vol. 21, no. 1, pp. 354—366. https://doi.org/10.1128/MCB.21.1.354-366.2001

Article  CAS  PubMed  PubMed Central  Google Scholar 

Medvedeva, Y.A., Lennartsson, A., Ehsani, R., et al., EpiFactors: a comprehensive database of human epigenetic factors and complexes, Database, 2015, vol. 2015, p. bav067.

Article  PubMed  PubMed Central  Google Scholar 

Frankish, A., Diekhans, M., Jungreis, I., et al., GENCODE 2021, Nucleic Acids Res., 2021, vol. 49, no. D1, pp. D916—D923.

Gordiyuk, V.V., Long non-coding RNAs—the tuning forks in the regulation of cellular processes, Ukr. Biokhim. Zh., 2014, vol. 86, no. 2, pp. 5—15.

CAS  Google Scholar 

Zhao, X., Li, J., Lian, B., et al., Global identification of Arabidopsis lncRNAs reveals the regulation of MAF4 by a natural antisense RNA, Nat. Commun., 2018, vol. 9, no. 1, p. 5056.

Article  PubMed  PubMed Central  Google Scholar 

Li, X., Wu, Z., Fu, X., et al., LncRNAs: insights into their function and mechanics in underlying disorders, Mutat. Res., 2014, vol. 762, pp. 1—21.

Article  CAS  Google Scholar 

Ahmad, P., Bensaoud, C., Mekki, I., et al., Long non-coding RNAs and their potential roles in the vector—host—pathogen triad, Life (Basel), 2021, vol. 11, no. 1, p. 56.

Article  CAS  PubMed  PubMed Central  Google Scholar 

De Quattro, C., Pè, M.E., and Bertolini, E., Long noncoding RNAs in the model species Brachypodium distachyon, Sci. Rep., 2017, vol. 7, no. 1, p. 11252.

Article  PubMed  PubMed Central  Google Scholar 

Ma, L., Bajic, V.B., and Zhang, Z., On the classification of long non-coding RNAs, RNA Biol., 2013, vol. 10, no. 6, pp. 924—933. https://doi.org/10.4161/rna.24604

Article  CAS  PubMed Central  Google Scholar 

Chen, L., Zhu, Q.-H., and Kaufmann, K., Long non-coding RNAs in plants: emerging modulators of gene activity in development and stress responses, Planta, 2020, vol. 252, no. 5, p. 92. https://doi.org/10.1007/s00425-020-03480-5

Article  CAS  PubMed  PubMed Central  Google Scholar 

Griffiths-Jones, S., miRBase: the microRNA sequence database, MicroRNA Protoc., 2006, vol. 342, pp. 129—138.

Article  CAS  Google Scholar 

Amaral, P.P. and Mattick, J.S., Noncoding RNA in development, Mamm. Genome, 2008, vol. 19, pp. 454–492.

Article  CAS  PubMed  Google Scholar 

Beilerli, O.A. and Gareev, I.F., Long non-coding RNA—perspectives?, Profil. Med., 2020, vol. 23, no. 2, pp. 124—128.

Article  Google Scholar 

Blythe, A.J., Fox, A.H., and Bond, C.S., The ins and outs of lncRNA structure: how, why and what comes next?, Biochim. Biophys. Acta, Gene Regul. Mech., 2016, vol. 1859, no. 1, pp. 46—58.

Article  CAS  Google Scholar 

Bryzghalov, O., Makałowska, I., and Szcześniak, M.W., lncEvo: automated identification and conservation study of long noncoding RNAs, BMC Bioinf., 2021, vol. 22, no. 1, p. 59. https://doi.org/10.1186/s12859-021-03991-2

Article  CAS  Google Scholar 

Zhao, Q., Sun, Y., Wang, D., et al., LncPipe: a nextflow-based pipeline for identification and analysis of long non-coding RNAs from RNA-Seq data, J. Genet. Genomics, 2018, vol. 45. https://doi.org/10.1016/j.jgg.2018.06.005

Talyan, S., Filipów, S., Ignarski, M., et al., CALINCA—a novel pipeline for the identification of lncRNAs in podocyte disease, Cells, 2021, vol. 10, no. 3, p. 692.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Campalans, A., Kondorosi, A., and Crespi, M., Enod40, a short open reading frame–containing mRNA, induces cytoplasmic localization of a nuclear RNA binding protein in Medicago truncatula, Plant Cell, 2004, vol. 16, no. 4, pp. 1047—1059.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Unver, T. and Tombuloglu, H., Barley long non-coding RNAs (lncRNA) responsive to excess boron, Genomics, 2020, vol. 112, no. 2, pp. 1947—1955.

Article  CAS  PubMed  Google Scholar 

Khorkova, O., Hsiao, J., and Wahlestedt, C., Basic biology and therapeutic implications of lncRNA, Adv. Drug Deliv. Rev., 2015, vol. 87, pp. 15—24.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Duret, L., Chureau, C., Samain, S., et al., The Xist RNA gene evolved in eutherians by pseudogenization of a protein-coding gene, Science, 2006, vol. 312, no. 5780, pp. 1653—1655. https://doi.org/10.1126/science.1126316

Article  CAS  PubMed  Google Scholar 

Graf, J. and Kretz, M., From structure to function: route to understanding lncRNA mechanism, BioEssays, 2020, vol. 42, no. 12. https://doi.org/10.1002/bies.202000027

Golicz, A.A., Singh, M.B., and Bhalla, P.L., The long intergenic noncoding RNA (lincRNA) landscape of the soybean genome, Plant Physiol., 2018, vol. 176, no. 3, pp. 2133—2147.

Article  CAS  PubMed  Google Scholar 

Cheng, F., Wu, J., Fang, L., and Wang, X., Syntenic gene analysis between Brassica rapa and other Brassicaceae species, Front. Plant Sci., 2012, vol. 3, p. 30895.

Article  Google Scholar 

Huang, L., Dong, H., Zhou, D., et al., Systematic identification of long non-coding RNA s during pollen development and fertilization in Brassica rapa, Plant J., 2018, vol. 96, no. 1, pp. 203—222. https://doi.org/10.1111/tpj.14016

Article  CAS  PubMed  Google Scholar 

Derrien, T., Johnson, R., Bussotti, G., et al., The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression, Genome Res., 2012, vol. 22, no. 9, pp. 1775—1789.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Ponting, C.P., Oliver, P.L., and Reik, W., Evolution and functions of long noncoding RNAs, Cell, 2009, vol. 136, no. 4, pp. 629—641.

Article