<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE article PUBLIC "-//NLM//DTD JATS (Z39.96) Journal Publishing DTD v1.4 20241031//EN"
        "https://jats.nlm.nih.gov/publishing/1.4/JATS-journalpublishing1-4.dtd">
<article  article-type="reviewer-report"        dtd-version="1.4">
            <front>

                <journal-meta>
                                    <journal-id></journal-id>
            <journal-title-group>
                                                                                    <journal-title>Eastern Anatolian Journal of Science</journal-title>
            </journal-title-group>
                            <issn pub-type="ppub">2149-6137</issn>
                                                                                                        <publisher>
                    <publisher-name>Ağrı İbrahim Çeçen University</publisher-name>
                </publisher>
                    </journal-meta>
                <article-meta>
                                        <article-id/>
                                                                <article-categories>
                                            <subj-group  xml:lang="en">
                                                            <subject>Plant Biotechnology</subject>
                                                            <subject>Plant Cell and Molecular Biology</subject>
                                                    </subj-group>
                                            <subj-group  xml:lang="tr">
                                                            <subject>Bitki Biyoteknolojisi</subject>
                                                            <subject>Bitki Hücresi ve Moleküler Biyoloji</subject>
                                                    </subj-group>
                                    </article-categories>
                                                                                                                                                        <title-group>
                                                                                                                        <article-title>Classification and Biological Function of ncRNAs (lncRNAs and circRNAs) in Plants</article-title>
                                                                                                    </title-group>
            
                                                    <contrib-group content-type="authors">
                                                                        <contrib contrib-type="author">
                                                                    <contrib-id contrib-id-type="orcid">
                                        https://orcid.org/0009-0000-0004-1732</contrib-id>
                                                                <name>
                                    <surname>Eren</surname>
                                    <given-names>Abdil Hakan</given-names>
                                </name>
                                                                    <aff>Hatay Mustafa Kemal Üniversitesi</aff>
                                                            </contrib>
                                                                                </contrib-group>
                        
                                        <pub-date pub-type="pub" iso-8601-date="20251229">
                    <day>12</day>
                    <month>29</month>
                    <year>2025</year>
                </pub-date>
                                        <volume>11</volume>
                                        <issue>1-2</issue>
                                        <fpage>17</fpage>
                                        <lpage>25</lpage>
                        
                        <history>
                                    <date date-type="received" iso-8601-date="20251201">
                        <day>12</day>
                        <month>01</month>
                        <year>2025</year>
                    </date>
                                                    <date date-type="accepted" iso-8601-date="20251218">
                        <day>12</day>
                        <month>18</month>
                        <year>2025</year>
                    </date>
                            </history>
                                        <permissions>
                    <copyright-statement>Copyright © 2015, Eastern Anatolian Journal of Science</copyright-statement>
                    <copyright-year>2015</copyright-year>
                    <copyright-holder>Eastern Anatolian Journal of Science</copyright-holder>
                </permissions>
            
                                                                                                <abstract><p>Non-coding RNAs (ncRNAs) are molecules that play important biological roles in plant growth but lack coding capacity. They are widely distributed in all living species. The advancement of high-throughput sequencing technology (RNA-seq) has enabled the identification of various ncRNAs. Their activities and mechanisms of action have become increasingly clear. Recent studies indicate that ncRNAs are critical for plant growth, development, and responses to environmental stress. In particular, elucidating miRNA-lncRNA-circRNA interaction processes will help identify genetic adaptations in plant stress resistance. The categorization of lncRNAs, their roles, and mechanisms in plant responses to environmental challenges are briefly summarized. The functions of ncRNAs in root and leaf development, plant growth and development, dormancy, germination, and flower formation are emphasized. Long non-coding RNAs (lncRNAs) function as sponges, precursors, scaffolds, and regulatory complexes, and serve as transcription factors (TFs) and chromatin modification structures. lncRNAs serve as regulators in epigenetics and significantly influence processes such as chromatin network remodeling and DNA methylation.</p></abstract>
                                                            
            
                                                            <kwd-group>
                                                    <kwd>non-coding RNA</kwd>
                                                    <kwd>  lncRNA</kwd>
                                                    <kwd>  circRNA</kwd>
                                                    <kwd>  intronic</kwd>
                                                    <kwd>  stress</kwd>
                                            </kwd-group>
                            
                                                                                                                        </article-meta>
    </front>
    <back>
                            <ref-list>
                                    <ref id="ref1">
                        <label>1</label>
                        <mixed-citation publication-type="journal">BELOUSOVA, E., FİLİPENKO, M., &amp; KUSHLİNSKİİ, N. (2018). Circular RNA: New regulatory molecules. Bulletin of Experimental Biology and Medicine, 164, 803–815.</mixed-citation>
                    </ref>
                                    <ref id="ref2">
                        <label>2</label>
                        <mixed-citation publication-type="journal">BHAR, A., &amp; ROY, A. (2023). Emphasizing the role of long non-coding RNAs (lncRNA), circular RNA (circRNA), and micropeptides (miPs) in plant biotic stress tolerance. Plants, 12(23), 3951. https://doi.org/10.3390/plants12233951</mixed-citation>
                    </ref>
                                    <ref id="ref3">
                        <label>3</label>
                        <mixed-citation publication-type="journal">CHAO, H., HU, Y., ZHAO, L., XİN, S., Nİ, Q., ZHANG, P., &amp; CHEN, M. (2022). Biogenesis, functions, interactions, and resources of non-coding RNAs in plants. International Journal of Molecular Sciences, 23(7), 3695. https://doi.org/10.3390/ijms23073695</mixed-citation>
                    </ref>
                                    <ref id="ref4">
                        <label>4</label>
                        <mixed-citation publication-type="journal">DELPU, Y., LARRIEU, D., GAYRAL, M., ARVANITIS, D., DUFRESNE, M., CORDELIER, P., &amp; TORRISANI, J. (2016). Noncoding RNAs: clinical and therapeutic applications. In Drug discovery in cancer epigenetics (pp. 305-326). Academic Press.</mixed-citation>
                    </ref>
                                    <ref id="ref5">
                        <label>5</label>
                        <mixed-citation publication-type="journal">EREN, A. H., İLHAN, E., &amp; İNAL, B. (2016). Yeni nesil dizileme teknolojisi ile bitkilerde miRNA analizi. Yüzüncü Yıl Üniversitesi Tarım Bilimleri Dergisi, 26(3), 448-454.</mixed-citation>
                    </ref>
                                    <ref id="ref6">
                        <label>6</label>
                        <mixed-citation publication-type="journal">FAN, J., QUAN, W. L., Lİ, G. B., HU, X. H., WANG, Q., WANG, H., ... WANG, W. M. (2020). circRNAs are involved in the rice-Magnaporthe oryzae interaction. Plant Physiology, 182, 272–286.</mixed-citation>
                    </ref>
                                    <ref id="ref7">
                        <label>7</label>
                        <mixed-citation publication-type="journal">FEUERSTEİN, E., MANAVELLA, P., CRESPİ, M., FERRERO, L., &amp; ARİEL, F. (2025). Long noncoding RNAs in plant chromatin 3D conformation dynamics. Current Opinion in Plant Biology, 88, 102817. https://doi.org/10.1016/j.pbi.2025.102817</mixed-citation>
                    </ref>
                                    <ref id="ref8">
                        <label>8</label>
                        <mixed-citation publication-type="journal">GHORBANİ, A., IZADPANAH, K., PETERS, J. R., DİETZGEN, R. G., &amp; MİTTER, N. (2018). Detection and profiling of circular RNAs in uninfected and maize Iranian mosaic virus-infected maize. Plant Science, 274, 402–409.</mixed-citation>
                    </ref>
                                    <ref id="ref9">
                        <label>9</label>
                        <mixed-citation publication-type="journal">HAWKES, E. J., HENNELLY, S. P., NOVİKOVA, I. V., IRWİN, J. A., DEAN, C., &amp; SANBONMATSU, K. Y. (2016). COOLAIR antisense RNAs form evolutionarily conserved elaborate secondary structures. Cell Reports, 16, 3087-3096. https://doi.org/10.1016/j.celrep.2016.08.045</mixed-citation>
                    </ref>
                                    <ref id="ref10">
                        <label>10</label>
                        <mixed-citation publication-type="journal">JİA, Y. Q., ZHAO, H. M., NİU, Y. N., &amp; WANG, Y. C. (2023). Identification of birch lncRNAs and mRNAs responding to salt stress and characterization of functions of lncRNA. Horticulture Research, 10, uhac277.</mixed-citation>
                    </ref>
                                    <ref id="ref11">
                        <label>11</label>
                        <mixed-citation publication-type="journal">Lİ, P., YANG, H., WANG, L., LİU, H. J., HUO, H. Q., ZHANG, C. J., ... LİU, L. (2019). Physiological and transcriptome analyses reveal short-term responses and formation of memory under drought stress in rice. Frontiers in Genetics, 10, 55.</mixed-citation>
                    </ref>
                                    <ref id="ref12">
                        <label>12</label>
                        <mixed-citation publication-type="journal">LİAO, X., Lİ, X.-J., ZHENG, G.-T., CHANG, F.-R., FANG, L., YU, H., ... ZHANG, Y.-F. (2022). Mitochondrion-encoded circular RNAs are widespread and translatable in plants. Plant Physiology, 189, 1482–1500.</mixed-citation>
                    </ref>
                                    <ref id="ref13">
                        <label>13</label>
                        <mixed-citation publication-type="journal">LİU, F., XU, Y. R., CHANG, K. X., Lİ, S. N., LİU, Z. G., Qİ, S. D., ... WANG, Y. (2019). The long noncoding RNA T5120 regulates nitrate response and assimilation in Arabidopsis. New Phytologist, 224, 117–131.</mixed-citation>
                    </ref>
                                    <ref id="ref14">
                        <label>14</label>
                        <mixed-citation publication-type="journal">LİU, X., Lİ, D. Y., ZHANG, D. L., YİN, D. D., ZHAO, Y., Jİ, C. J., ... ZHU, L. H. (2018). A novel antisense long noncoding RNA, TWISTED LEAF, maintains leaf blade flattening by regulating its associated sense R2R3-MYB gene in rice. New Phytologist, 218, 774–788.</mixed-citation>
                    </ref>
                                    <ref id="ref15">
                        <label>15</label>
                        <mixed-citation publication-type="journal">LU, D., ZHANG, Y., LİU, Y., Lİ, Y., ZUO, X., LİN, J., &amp; CUİ, Y. (2024). Recent advances of non-coding RNA in plant growth, development and stress response. Chinese Bulletin of Botany, 59(5), 709-725.</mixed-citation>
                    </ref>
                                    <ref id="ref16">
                        <label>16</label>
                        <mixed-citation publication-type="journal">MA, L., BAJİC, V. B., &amp; ZHANG, Z. (2013). On the classification of long non-coding RNAs. RNA Biology, 10(6), 925-933. https://doi.org/10.4161/rna.24604</mixed-citation>
                    </ref>
                                    <ref id="ref17">
                        <label>17</label>
                        <mixed-citation publication-type="journal">NADHAN, R., ISİDORO, C., SONG, Y. S., &amp; DHANASEKARAN, D. N. (2022). Signaling by LncRNAs: Structure, cellular homeostasis, and disease pathology. Cells, 11(16), 2517. https://doi.org/10.3390/cells11162517</mixed-citation>
                    </ref>
                                    <ref id="ref18">
                        <label>18</label>
                        <mixed-citation publication-type="journal">NELSON, B. R., MAKAREWİCH, C. A., ANDERSON, D. M., WİNDERS, B. R., TROUPES, C. D., ... OLSON, E. N. (2016). A peptide encoded by a transcript annotated as long noncoding RNA enhances SERCA activity in muscle. Science, 351, 271–275.</mixed-citation>
                    </ref>
                                    <ref id="ref19">
                        <label>19</label>
                        <mixed-citation publication-type="journal">PONTİNG, C. P., OLİVER, P. L., &amp; REİK, W. (2009). Evolution and functions of long noncoding RNAs. Cell, 136, 629–641.</mixed-citation>
                    </ref>
                                    <ref id="ref20">
                        <label>20</label>
                        <mixed-citation publication-type="journal">PRALL, W., BRİAN, D., &amp; GREGORY, K. (2022). The fold makes all the difference in COOLAIR-mediated regulation of plant flowering time. Developmental Cell. https://doi.org/10.1016/j.devcel.2022.09.008</mixed-citation>
                    </ref>
                                    <ref id="ref21">
                        <label>21</label>
                        <mixed-citation publication-type="journal">QİN, T., ZHAO, H. Y., CUİ, P., ALBESHER, N., &amp; XİONG, L. M. (2017). A nucleus-localized long non-coding RNA enhances drought and salt stress tolerance. Plant Physiology, 175, 1321–1336.</mixed-citation>
                    </ref>
                                    <ref id="ref22">
                        <label>22</label>
                        <mixed-citation publication-type="journal">SANGER, H. L., KLOTZ, G., RIESNER, D., GROSS, H. J., &amp; KLEINSCHMIDT, A. K. (1976). Viroids are single-stranded covalently closed circular RNA molecules existing as highly base-paired rod-like structures. Proceedings of the National Academy of Sciences, 73(11), 3852-3856.</mixed-citation>
                    </ref>
                                    <ref id="ref23">
                        <label>23</label>
                        <mixed-citation publication-type="journal">SONG, R. J., MA, S. Q., XU, J. J., REN, X., GUO, P. L., ... Lİ, X. D. (2023). A novel polypeptide encoded by the circular RNA ZKSCAN1 suppresses HCC via degradation of mTOR. Molecular Cancer, 22, 16.</mixed-citation>
                    </ref>
                                    <ref id="ref24">
                        <label>24</label>
                        <mixed-citation publication-type="journal">SWİEZEWSKİ, S., LİU, F., MAGUSİN, A., &amp; DEAN, C. (2009). Cold-induced silencing by long antisense transcripts of an Arabidopsis Polycomb target. Nature, 462, 799-802.</mixed-citation>
                    </ref>
                                    <ref id="ref25">
                        <label>25</label>
                        <mixed-citation publication-type="journal">TOGNACCA, R. S., &amp; BOTTO, J. F. (2021). Post-transcriptional regulation of seed dormancy and germination: Current understanding and future directions. Plant Communications, 2, 100169.</mixed-citation>
                    </ref>
                                    <ref id="ref26">
                        <label>26</label>
                        <mixed-citation publication-type="journal">TREVASKİS, B. (2010). The central role of the VERNALIZATION1 gene in the vernalization response of cereals. Functional Plant Biology, 37(6), 479-487.</mixed-citation>
                    </ref>
                                    <ref id="ref27">
                        <label>27</label>
                        <mixed-citation publication-type="journal">WANG, H. V., &amp; CHEKANOVA, J. A. (2017). Long noncoding RNAs in plants. Advances in Experimental Medicine and Biology, 1008, 133-154. https://doi.org/10.1007/978-981-10-5203-3_5</mixed-citation>
                    </ref>
                                    <ref id="ref28">
                        <label>28</label>
                        <mixed-citation publication-type="journal">WANG, X. S., CHANG, X. C., JİNG, Y., ZHAO, J. L., FANG, Q. W., ... Lİ, Y. G. (2020). Identification and functional prediction of soybean circRNAs involved in low-temperature responses. Journal of Plant Physiology, 250, 153188.</mixed-citation>
                    </ref>
                                    <ref id="ref29">
                        <label>29</label>
                        <mixed-citation publication-type="journal">WANG, Y. Q., FAN, Y. Y., FAN, D., ZHOU, X. L., JİAO, Y. T., ... ZHU, D. M. (2023). The noncoding RNA HIDDEN TREASURE1 promotes phytochrome B-dependent seed germination by repressing abscisic acid biosynthesis. Plant Cell, 35, 700–716.</mixed-citation>
                    </ref>
                                    <ref id="ref30">
                        <label>30</label>
                        <mixed-citation publication-type="journal">WEİ, J., HUANG, K., YANG, C., &amp; KANG, C. (2017). Non-coding RNAs as regulators in epigenetics (Review). Oncology Reports, 37(1), 3-9. https://doi.org/10.3892/or.2016.5236</mixed-citation>
                    </ref>
                                    <ref id="ref31">
                        <label>31</label>
                        <mixed-citation publication-type="journal">WU, J., LİU, C. X., LİU, Z. G., Lİ, S., Lİ, D. D., ... YUKAWA, Y. (2019). Pol III-dependent cabbage BoNR8 long ncRNA affects seed germination and growth in Arabidopsis. Plant and Cell Physiology, 60, 421–435.</mixed-citation>
                    </ref>
                                    <ref id="ref32">
                        <label>32</label>
                        <mixed-citation publication-type="journal">XİA, K. F., PAN, X. Q., CHEN, H. P., XU, X. L., &amp; ZHANG, M. Y. (2023). Rice miR168a-5p regulates seed length, nitrogen allocation and salt tolerance by targeting OsOFP3, OsNPF2.4 and OsAGO1a, respectively. Journal of Plant Physiology, 280, 153905.</mixed-citation>
                    </ref>
                                    <ref id="ref33">
                        <label>33</label>
                        <mixed-citation publication-type="journal">XU, S., DONG, Q., DENG, M., LİN, D., XİAO, J., CHENG, P., &amp; CHONG, K. (2021). The vernalization-induced long non-coding RNA VAS functions with the transcription factor TaRF2b to promote TaVRN1 expression for flowering in hexaploid wheat. Molecular Plant, 14(9), 1525-1538.</mixed-citation>
                    </ref>
                                    <ref id="ref34">
                        <label>34</label>
                        <mixed-citation publication-type="journal">YADAV, A., MATHAN, J., DUBEY, A. K., &amp; SİNGH, A. (2024). The emerging role of non-coding RNAs (ncRNAs) in plant growth, development, and stress response signaling. Non-Coding RNA, 10(1), 13. https://doi.org/10.3390/ncrna10010013</mixed-citation>
                    </ref>
                                    <ref id="ref35">
                        <label>35</label>
                        <mixed-citation publication-type="journal">YANG, J., ARİEL, F., &amp; WANG, D. (2023). Plant long non-coding RNAs: Biologically relevant and mechanistically intriguing. Journal of Experimental Botany, 74, 2364-2373.</mixed-citation>
                    </ref>
                                    <ref id="ref36">
                        <label>36</label>
                        <mixed-citation publication-type="journal">ZHANG, H., LANG, Z., &amp; ZHU, J. K. (2018). Dynamics and function of DNA methylation in plants. Nature Reviews Molecular Cell Biology, 19, 489–506. https://doi.org/10.1038/s41580-018-0016-z</mixed-citation>
                    </ref>
                                    <ref id="ref37">
                        <label>37</label>
                        <mixed-citation publication-type="journal">ZHANG, L. L., LİN, T., ZHU, G. N., WU, B., ZHANG, C. J., &amp; ZHU, H. L. (2023). LncRNAs exert indispensable roles in orchestrating the interaction among diverse noncoding RNAs and enrich the regulatory network of plant growth and its adaptive environmental stress response. Horticulture Research, 10, uhad-234.</mixed-citation>
                    </ref>
                                    <ref id="ref38">
                        <label>38</label>
                        <mixed-citation publication-type="journal">ZHANG, L., LİU, J. L., CHENG, J. R., SUN, Q., ZHANG, Y., ... CAİ, Y. F. (2022). lncRNA7 and lncRNA2 modulate cell wall defense genes to regulate cotton resistance to Verticillium wilt. Plant Physiology, 189, 264–284.</mixed-citation>
                    </ref>
                                    <ref id="ref39">
                        <label>39</label>
                        <mixed-citation publication-type="journal">ZHANG, N., LİU, Z. G., SUN, S. C., LİU, S. Y., LİN, J. H., ... WU, J. (2020). Response of AtR8 lncRNA to salt stress and its regulation on seed germination in Arabidopsis. Chinese Bulletin of Botany, 55, 421–429. 
ZHANG, P., &amp; DAİ, M. Q. (2022). CircRNA: A rising star in plant biology. Journal of Genetics and Genomics, 49, 1081–1092.</mixed-citation>
                    </ref>
                                    <ref id="ref40">
                        <label>40</label>
                        <mixed-citation publication-type="journal">ZHANG, X. P., DONG, J., DENG, F. N., WANG, W., CHENG, Y. Y., ... SHEN, F. F. (2019). The long non-coding RNA lncRNA973 is involved in cotton response to salt stress. BMC Plant Biology, 19, 459.</mixed-citation>
                    </ref>
                                    <ref id="ref41">
                        <label>41</label>
                        <mixed-citation publication-type="journal">ZHANG, X. P., SHEN, J., XU, Q. J., DONG, J., SONG, L. R., WANG, W., &amp; SHEN, F. F. (2021). Long noncoding RNA lncRNA354 functions as a competing endogenous RNA of miR160b to regulate ARF genes in response to salt stress in upland cotton. Plant, Cell &amp; Environment, 44, 3302–3321.</mixed-citation>
                    </ref>
                                    <ref id="ref42">
                        <label>42</label>
                        <mixed-citation publication-type="journal">ZHOU, J. P., YUAN, M. Z., ZHAO, Y. X., QUAN, Q., YU, D., ... ZHANG, Y. (2021). Efficient deletion of multiple circle RNA loci by CRISPR-Cas9 reveals Os06circ02797 as a putative sponge for OsMIR408 in rice. Plant Biotechnology Journal, 19, 1240–1252.</mixed-citation>
                    </ref>
                                    <ref id="ref43">
                        <label>43</label>
                        <mixed-citation publication-type="journal">ZHOU, J., YANG, L. Y., JİA, C. L., SHİ, W. G., DENG, S. R., &amp; LUO, Z. B. (2022). Identification and functional prediction of poplar root circRNAs involved in treatment with different forms of nitrogen. Frontiers in Plant Science, 13, 941380.</mixed-citation>
                    </ref>
                                    <ref id="ref44">
                        <label>44</label>
                        <mixed-citation publication-type="journal">ZHOU, R., XU, L. P., ZHAO, L. P., WANG, Y. L., &amp; ZHAO, T. M. (2018). Genome-wide identification of circRNAs involved in tomato fruit coloration. Biochemical and Biophysical Research Communications, 499, 466–469.</mixed-citation>
                    </ref>
                                    <ref id="ref45">
                        <label>45</label>
                        <mixed-citation publication-type="journal">ZHU, Y. X., JİA, J. H., YANG, L., XİA, Y. C., ZHANG, H. L., ... LİU, L. C. (2019). Identification of cucumber circular RNAs responsive to salt stress. BMC Plant Biology, 19, 164.</mixed-citation>
                    </ref>
                            </ref-list>
                    </back>
    </article>
