References
Agrawal A., Rajamani V., Reddy V.S., Mukherjee S.K. & Bhatnagar R.K.
(2015) Transgenic plants over-expressing insect-specific microRNA
acquire insecticidal activity against Helicoverpa armigera : an
alternative to Bt-toxin technology. Transgenic Research24 , 791-801.
Araki S., Le N.T., Koizumi K., Villar-Briones A., Nonomura K.I., Endo
M., … & Komiya R. (2020) miR2118-dependent U-rich phasiRNA
production in rice anther wall development. Nature Communications11 , 3115.
Basso M.F., Ferreira P.C.G., Kobayashi A.K., Harmon F.G., Nepomuceno
A.L., Molinari H.B.C. & Grossi-de-Sa M.F. (2019) MicroRNAs and new
biotechnological tools for its modulation and improving stress tolerance
in plants. Plant Biotechnology Journal 17 , 1482-1500.
Baulcombe D. (2004) RNA silencing in plants. Nature 431 ,
356-363.
Belhaj K., Chaparro-Garcia A., Kamoun S., Patron N.J. & Nekrasov V.
(2015) Editing plant genomes with CRISPR/Cas9. Current Opinion in
Biotechnology 32 , 76-84.
Bi H., Fei Q., Li R., Liu B., Xia R., Char S.N., … & Yang B.
(2020) Disruption of miRNA sequences by TALENs and CRISPR/Cas9 induces
varied lengths of miRNA production. Plant Biotechnology Journal18 , 1526-1536.
Białas A., Zess E.K., De La Concepcion J.C., Franceschetti M.,
Pennington H.G., Yoshida K., … & Kamoun S. (2018) Lessons in
effector and NLR biology of plant-microbe systems. Molecular
Plant-Microbe Interactions 31 , 34-45.
Bian H., Xie Y., Guo F., Han N., Ma S., Zeng Z., … & Zhu M.
(2012) Distinctive expression patterns and roles of the miRNA393/TIR1
homolog module in regulating flag leaf inclination and primary and crown
root growth in rice (Oryza sativa ). New Phytologist196 , 149–161.
Boccara M., Sarazin A., Thiébeauld O., Jay F., Voinnet O., Navarro L. &
Colot V. (2014) The arabidopsis miR472-RDR6 silencing pathway modulates
PAMP- and effector-triggered immunity through the post-transcriptional
control of disease resistance genes. PLoS Pathogens 10 ,
e1003883.
Campo S., Peris-Peris C., Siré C., Moreno A.B., Donaire L., Zytnicki M.,
… & San Segundo B. (2013) Identification of a novel microRNA
(miRNA) from rice that targets an alternatively spliced transcript of
the Nramp6 (Natural resistance-associated macrophage
protein 6 ) gene involved in pathogen resistance. New Phytologist199 , 212-227.
Canto-Pastor A., Santos B.A.M.C., Valli A.A., Summers W., Schornack S.
& Baulcombe D.C. (2019) Enhanced resistance to bacterial and oomycete
pathogens by short tandem target mimic RNAs in tomato. Proceedings
of the National Academy of Sciences of the United States of America116 , 2755-2760.
Chandran V., Wang H., Gao F., Cao X.L., Chen Y.P., Li G.B., … &
Wang W.M. (2019) miR396-osgrfs module balances growth and rice blast
disease-resistance. Frontiers in Plant Science 9 , 1999
Che R., Tong H., Shi B., Liu Y., Fang S., Liu D., … & Chu C.
(2015) Control of grain size and rice yield by GL2-mediated
brassinosteroid responses. Nature Plants . 2 , 15195.
Chen H., Li Z. & Xiong L. (2012) A plant microRNA regulates the
adaptation of roots to drought stress. FEBS Letters 586 ,
1742–1747.
Chen J., Li T.C., Pang R., Yue X.Z., Hu J. & Zhang W.Q. (2018)
Genome-wide screening and functional analysis reveal that the specific
microRNA nlu-miR-173 regulates molting by targeting Ftz-F1 inNilaparvata lugens . Frontiers in Physiology . 9 ,
1854.
Chen J.F., Zhao Z.X., Li Y., Li T.T., Zhu Y., Yang X.M., … &
Wang W.M. (2021) Fine-tuning roles of Osa-miR159a in rice immunity
against Magnaporthe oryzae and development. Rice14, 26.
Chen X. & Ronald P.C. (2011) Innate immunity in rice. Trends in
Plant Science 16 , 451-459.
Chen X. (2009) Small RNAs and their roles in plant development.Annual Review of Cell and Developmental Biology 35 ,
407-431.
Chen Z.H., Bao M.L., Sun Y.Z., Yang Y.J., Xu X.H., Wang J.H., …
& Zhu M.Y. (2011) Regulation of auxin response by miR393-targeted
transport inhibitor response protein 1 is involved in normal development
in Arabidopsis. Plant Molecular Biology 77 , 619–629.
Csorba T., Kontra L. & Burgyán J. (2015) Viral silencing suppressors:
Tools forged to fine-tune host-pathogen coexistence. Virology479-480, 85-103.
Dai Z., Tan J., Zhou C., Yang X., Yang F., Zhang S., … & Shi Z.
(2019) The OsmiR396-OsGRF8-OsF3H-flavonoid pathway mediates resistance
to the brown planthopper in rice ( Oryza sativa ) . Plant
Biotechnology Journal 17 , 1657-1669.
Dai Z., Wang J., Yang X., Lu H., Miao X. & Shi Z. (2018) Modulation of
plant architecture by the miR156f-OsSPL7-OsGH3.8 pathway in rice.Journal of Experimental Botany 69 , 5117-5130.
Dangl J.L., Horvath D.M. & Staskawicz B.J. (2013) Pivoting the plant
immune system from dissection to deployment. Science341, 746-751.
Denver J.B. & Ullah H. (2019) miR393s regulate salt stress response
pathway in Arabidopsis thaliana through scaffold protein RACK1A
mediated ABA signaling pathways. Plant Signaling and Behavior14 , 1600394.
Ding S.W. & Voinnet O. (2007) Antiviral Immunity Directed by Small
RNAs. Cell 130 , 413-426.
Ding Y., Gong S., Wang Y., Wang F., Bao H., Sun J., … & Zhu C.
(2018) MicroRNA166 modulates cadmium tolerance and accumulation in rice.Plant Physiology 177 , 1691-1703.
Dodds P.N. & Rathjen J.P. (2010) Plant immunity: towards an integrated
view of plant–pathogen interactions. Nature Reviews Genetics11 , 539–548.
Duan P., Ni S., Wang J., Zhang B., Xu R., Wang Y., … & Li Y.
(2015) Regulation of OsGRF4 by OsmiR396 controls grain size and
yield in rice. Nature Plants 2 , 15203.
Eichmann R. & Schäfer P. (2015) Growth versus immunity-a redirection of
the cell cycle? Current Opinion in Plant Biology 26 ,
106-112.
Fan Y., Yang J., Mathioni S.M., Yu J., Shen J., Yang X., … &
Zhang Q. (2016) PMS1T, producing Phased small-interfering RNAs,
regulates photoperiod-sensitive male sterility in rice.Proceedings of the National Academy of Sciences of the United
States of America 113 , 15144-15149.
Fang Y., Xie K. & Xiong L. (2014) Conserved miR164-targeted NAC genes
negatively regulate drought resistance in rice. Journal of
Experimental Botany 65 , 2119-2135.
Fei Q., Li P., Teng C. & Meyers B.C. (2015) Secondary siRNAs from
Medicago NB-LRRs modulated via miRNA-target interactions and their
abundances. Plant Journal 83 , 451-465.
Fei Q., Xia R. & Meyers B.C. (2013) Phased, secondary, small
interfering RNAs in posttranscriptional regulatory networks. Plant
Cell 25 , 2400-2415.
Feng Z., Zhang B., Ding W., Liu X., Yang D.L., Wei P., … & Zhu
J.K. (2013) Efficient genome editing in plants using a CRISPR/Cas
system. Cell Research 23 , 1229-1232.
Gao F., Wang K., Liu Y., Chen Y., Chen P., Shi Z., … & Li S.
(2015) Blocking miR396 increases rice yield by shaping inflorescence
architecture. Nature Plants 2 , 15196.
Ge Y., Han J., Zhou G., Xu Y., Ding Y., Shi M., … & Wu G. (2018)
Silencing of miR156 confers enhanced resistance to brown planthopper in
rice. Planta 248 , 813-826.
Guo F., Han N., Xie Y., Fang K., Yang Y., Zhu M., … & Bian H.
(2016) The miR393a/target module regulates seed germination and seedling
establishment under submergence in rice (Oryza sativa L.). Plant
Cell and Environment 39 , 2288–2302.
Guo S., Xu Y., Liu H., Mao Z., Zhang C., Ma Y., … & Chong K.
(2013) The interaction between OsMADS57 and OsTB1 modulates rice
tillering via DWARF14. Nature Communications 4 , 1566.
Hatsugai N., Igarashi D., Mase K., Lu Y., Tsuda Y., Chakravarthy S.,
… & Katagiri F. (2017) A plant effector‐triggered immunity
signaling sector is inhibited by pattern‐triggered immunity. The
EMBO Journal 36 , 2758-2769.
He K., Xiao H., Sun Y., Ding S., Situ G. & Li F. (2019) Transgenic
microRNA-14 rice shows high resistance to rice stem borer. Plant
Biotechnology Journal 17 , 461-471.
Huang J., Li Z. & Zhao D. (2016) Deregulation of the OsmiR160 target
gene OsARF18 causes growth and developmental defects with an
alteration of auxin signaling in rice. Scientific Reports6 , 29938.
Huang X., Qian Q., Liu Z., Sun H., He S., Luo D., … & Fu X.
(2009) Natural variation at the DEP1 locus enhances grain yield
in rice. Nature Genetics 41 , 494-497.
Huot B., Yao J., Montgomery B.L. & He S.Y. (2014) Growth-defense
tradeoffs in plants: A balancing act to optimize fitness.Molecular Plant 7 , 1267-1287.
Iglesias M.J., Terrile M.C., Windels D., Lombardo M.C., Bartoli C.G.,
Vazquez F., … & Casalongué C.A. (2014) MiR393 regulation of
auxin signaling and redox-related components during acclimation to
salinity in Arabidopsis. PLoS ONE 9 , e107678.
Inoue H., Hayashi N., Matsushita A., Xinqiong L., Nakayama A., Sugano
S., … & Takatsuji H. (2013) Blast resistance of CC-NB-LRR
protein Pb1 is mediated by WRKY45 through protein-protein
interaction. Proceedings of the National Academy of Sciences of
the United States of America 110 , 9577-9582.
Iwamoto M. & Tagiri A. (2016) MicroRNA-targeted transcription factor
gene RDD1 promotes nutrient ion uptake and accumulation in rice.Plant Journal 85 , 466-477.
Jacobs T.B., LaFayette P.R., Schmitz R.J. & Parrott W.A. (2015)
Targeted genome modifications in soybean with CRISPR/Cas9. BMC
Biotechnology 15 , 16.
Jia Y., Li C., Li Q., Liu P., Liu D., Liu Z., … & Zhai W. (2020)
Characteristic dissection of Xanthomonas oryzae pv. Oryzaeresponsive micrornas in rice. International Journal of Molecular
Sciences 21 , 785.
Jiang D., Chen W., Dong J., Li J., Yang F., Wu Z., … & Zhuang C.
(2018) Overexpression of miR164b-resistant OsNAC2 improves plant
architecture and grain yield in rice. Journal of Experimental
Botany 69 , 1533–1543.
Jiang G., Liu D., Yin D., Zhou Z., Shi Y., Li C., … & Zhai W.
(2020) A rice NBS-ARC gene conferring quantitative resistance to
bacterial blight is regulated by a pathogen effector-inducible miRNA.Molecular Plant 13 , 1752–1767.
Jiang S., Wu H., Liu H., Zheng J., Lin Y. & Chen H. (2017) The
overexpression of insect endogenous small RNAs in transgenic rice
inhibits growth and delays pupation of striped stem borer (Chilo
suppressalis ). Pest Management Science 73 , 1453-1461.
Jiao X., Wang H., Yan J., Kong X., Liu Y., Chu J., … & Yan Y.
(2020) Promotion of BR biosynthesis by miR444 is required for
ammonium-triggered inhibition of root growth. Plant Physiology182 , 1454-1466.
Jiao Y., Wang Y., Xue D., Wang J., Yan M., Liu G., … & Li J.
(2010) Regulation of OsSPL14 by OsmiR156 defines ideal plant
architecture in rice. Nature Genetics 42 , 541-544.
Jinek M., Chylinski K., Fonfara I., Hauer M., Doudna J.A. & Charpentier
E. (2012) A programmable dual-RNA-guided DNA endonuclease in adaptive
bacterial immunity. Science 337 , 816-821.
Johnson C., Kasprzewska A., Tennessen K., Fernandes J., Nan G.L., Walbot
V., … & Bowman L.H. (2009) Clusters and superclusters of phased
small RNAs in the developing inflorescence of rice. Genome
Research 19 , 1429-1440.
Jones J.D.G. & Dangl J.L. (2006) The plant immune system. Nature444 , 323-329.
Jones J.D.G., Vance R.E. & Dangl J.L. (2016) Intracellular innate
immune surveillance devices in plants and animals. Science354 , aaf6395.
Junhua L., Xuemei Y., Jinfeng C., Tingting L., Zijin H., Ying X.,
… & Yan L. (2021) Osa-miR439 Negatively Regulates Rice Immunity
Against Magnaporthe oryzae . Rice Science 28 ,
156–165.
Källman T., Chen J., Gyllenstrand N. & Lagercrantz U. (2013) A
significant fraction of 21-nucleotide small RNA originates from phased
degradation of resistance genes in several perennial species.Plant Physiology 162 , 741-754.
Katiyar-Agarwal S. & Jin H. (2010) Role of Small RNAs in Host-Microbe
Interactions. Annual Review of Phytopathology 48 ,
225-246.
Khraiwesh B., Zhu J.K. & Zhu J. (2012) Role of miRNAs and siRNAs in
biotic and abiotic stress responses of plants. Biochimica et
Biophysica Acta - Gene Regulatory Mechanisms 1819 , 137-148.
Khush G.S. (2001) Green revolution: the way forward. Nature
Reviews Genetics 2 , 815–822.
Kim V.N. (2005) MicroRNA biogenesis: Coordinated cropping and dicing.Nature Reviews Molecular Cell Biology 6 , 376-385.
Komiya R., Ohyanagi H., Niihama M., Watanabe T., Nakano M., Kurata N. &
Nonomura K.I. (2014) Rice germline-specific Argonaute MEL1 protein binds
to phasiRNAs generated from more than 700 lincRNAs. Plant Journal78 , 385-397.
Kurihara Y. & Watanabe Y. (2004) Arabidopsis micro-RNA biogenesis
through Dicer-like 1 protein functions. Proceedings of the
National Academy of Sciences of the United States of America101 , 12753-12758.
Lee Y., Kim M., Han J., Yeom K.H., Lee S., Baek S.H. & Kim V.N. (2004)
MicroRNA genes are transcribed by RNA polymerase II. EMBO Journal23 , 4051-4060.
Li F., Pignatta D., Bendix C., Brunkard J.O., Cohn M.M., Tung J.,
… & Baker B. (2012) MicroRNA regulation of plant innate immune
receptors. Proceedings of the National Academy of Sciences of the
United States of America 109 , 1790-1795.
Li S., Gao F., Xie K., Zeng X., Cao Y., Zeng J., … & Li P.
(2016) The OsmiR396c-OsGRF4-OsGIF1 regulatory module determines grain
size and yield in rice. Plant Biotechnology Journal 14 ,
2134-2146.
Li T., Chen J., Fan X., Chen W. & Zhang W. (2017a) MicroRNA and dsRNA
targeting chitin synthase A reveal a great potential for pest management
of the hemipteran insect Nilaparvata lugens . Pest
Management Science 73 , 1529-1537.
Li W., Chern M., Yin J., Wang J. & Chen X. (2019a) Recent advances in
broad-spectrum resistance to the rice blast disease. Current
Opinion in Plant Biology 50 , 114-120.
Li W., Jia Y., Liu F., Wang F., Fan F., Wang J., … & Yang J.
(2019b) Integration analysis of small rna and degradome sequencing
reveals micrornas responsive to dickeya zeae in resistant rice.International Journal of Molecular Sciences 20 , 222.
Li W., Zhu Z., Chern M., Yin J., Yang C., Ran L., … & Chen X.
(2017b) A natural allele of a transcription factor in rice confers
broad-spectrum blast resistance. Cell 170 , 114-126.e15.
Li X., Lian H., Zhao Q. & He Y. (2019c) MicroRNA166 monitors
SPOROCYTELESS/NOZZLE for building of the anther internal boundary.Plant Physiology 181 , 208-220.
Li X.P., Ma X.C., Wang H., Zhu Y., Liu X.X., Li T.T., … & Wang
W.M. (2020) Osa-miR162a fine-tunes rice resistance to Magnaporthe
oryzae and Yield. Rice 13 , 38.
Li Y., Cao X.L., Zhu Y., Yang X.M., Zhang K.N., Xiao Z.Y., … &
Wang W.M. (2019d) Osa-miR398b boosts
H2O2 production and rice blast
disease-resistance via multiple superoxide dismutases. New
Phytologist 222 , 1507-1522.
Li Y., Lu Y.G., Shi Y., Wu L., Xu Y.J., Huang F., … & Wang W.M.
(2014) Multiple rice MicroRNAs are involved in immunity against the
blast fungus Magnaporthe oryzae . Plant Physiology164 , 1077-1092.
Li Y., Zhang Q.Q., Zhang J., Wu L., Qi Y. & Zhou J.M. (2010)
Identification of microRNAs involved in pathogen-associated molecular
pattern-triggered plant innate immunity. Plant Physiology152 , 2222-2231.
Li Y., Zhao S.L., Li J.L., Hu X.H., Wang H., Cao X.L., … & Wang
W.M. (2017c) Osa-miR169 negatively regulates rice immunity against the
blast fungus Magnaporthe oryzae . Frontiers in Plant
Science 8 , 2.
Lieber M.R. (2010) The mechanism of double-strand DNA break repair by
the nonhomologous DNA end-joining pathway. Annual Review of
Biochemistry 79 , 181-211.
Liu B., Li J.F., Ao Y., Qu J., Li Z., Su J., … & Wang H. Bin
(2012a) Lysin motif-containing proteins LYP4 and LYP6 play dual roles in
peptidoglycan and chitin perception in rice innate immunity. Plant
Cell 24 , 3406-3419.
Liu H., Jia S., Shen D., Liu J., Li J., Zhao H., … & Wang Y.
(2012b) Four AUXIN RESPONSE FACTOR genes downregulated by microRNA167
are associated with growth and development in Oryza sativa .Functional Plant Biology 39 , 736-744.
Liu M., Shi Z., Zhang X., Wang M., Zhang L., Zheng K., … & Yang
D.L. (2019) Inducible overexpression of Ideal Plant Architecture1improves both yield and disease resistance in rice. Nature Plants5 , 389-400.
Liu Q., Hu H., Zhu L., Li R., Feng Y., Zhang L., … & Zhang H.
(2015) Involvement of miR528 in the regulation of arsenite tolerance in
rice (Oryza sativa L.). Journal of Agricultural and Food
Chemistry 63 , 8849-8861.
Liu W.T., Chen P.W., Chen L.C., Yang C.C., Chen S.Y., Huang G.F.,
… & Chen J.J.W. (2017) Suppressive effect of microRNA319
expression on rice plant height. Theoretical and Applied Genetics130 , 1507-1518.
Lu C., Kulkarni K., Souret F.F., MuthuValliappan R., Tej S.S., Poethig
R.S., … & Meyers B.C. (2006) MicroRNAs and other small RNAs
enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant.Genome Research 16 , 1276-1288.
Lu Y., Feng Z., Bian L., Xie H. & Liang J. (2011) miR398 regulation in
rice of the responses to abiotic and biotic stresses depends on CSD1 and
CSD2 expression. Functional Plant Biology 38 , 44.
Mao Y.B., Cai W.J., Wang J.W., Hong G.J., Tao X.Y., Wang L.J., …
& Chen X.Y. (2007) Silencing a cotton bollworm P450 monooxygenase gene
by plant-mediated RNAi impairs larval tolerance of gossypol.Nature Biotechnology 25 , 1307-1313.
Mee Y.P., Wu G., Gonzalez-Sulser A., Vaucheret H. & Poethig R.S. (2005)
Nuclear processing and export of microRNAs in Arabidopsis.Proceedings of the National Academy of Sciences of the United
States of America 102 , 3691-3696.
Mele G., Ori N., Sato Y. & Hake S. (2003) The knotted1-like homeobox
gene BREVIPEDICELLUS regulates cell differentiation by modulating
metabolic pathways. Genes and Development 17 , 2088-2093.
Miao C., Wang D., He R., Liu S. & Zhu J.K. (2020) Mutations in MIR396e
and MIR396f increase grain size and modulate shoot architecture in rice.Plant Biotechnology Journal 18 , 491-501.
Miao C., Wang Z., Zhang L., Yao J., Hua K., Liu X., … & Zhu J.K.
(2019) The grain yield modulator miR156 regulates seed dormancy through
the gibberellin pathway in rice. Nature Communications10 , 3822.
Miura K., Ikeda M., Matsubara A., Song X.J., Ito M., Asano K., …
& Ashikari M. (2010) OsSPL14 promotes panicle branching and
higher grain productivity in rice. Nature Genetics 42 ,
545-549.
Navarro L., Dunoyer P., Jay F., Arnold B., Dharmasiri N., Estelle M.,
… & Jones J.D.G. (2006) A plant miRNA contributes to
antibacterial resistance by repressing auxin signaling. Science312 , 436-439.
Nelson R., Wiesner-Hanks T., Wisser R. & Balint-Kurti P. (2018)
Navigating complexity to breed disease-resistant crops. Nature
Reviews Genetics 19 , 21-33.
Ning X., Yunyu W. & Aihong L. (2020) Strategy for use of rice blast
resistance genes in rice molecular breeding. Rice Science27 , 263–277.
Ning Y., Liu W. & Wang G.L. (2017) Balancing immunity and yield in crop
plants. Trends in Plant Science 22 , 1069-1079.
Peng T., Qiao M., Liu H., Teotia S., Zhang Z., Zhao Y., … & Tang
G. (2018) A resource for inactivation of microRNAs using short tandem
target mimic technology in model and crop plants. Molecular
Plant 11 , 1400-1417.
Puchta H. (2017) Applying CRISPR/Cas for genome engineering in plants:
the best is yet to come. Current Opinion in Plant Biology36 , 1-8.
Reichel M., Li Y., Li J. & Millar A.A. (2015) Inhibiting plant microRNA
activity: Molecular SPONGEs, target MIMICs and STTMs all display
variable efficacies against target microRNAs. Plant Biotechnology
Journal 13 , 915-926.
Salvador-Guirao R., Hsing Y.I. & San Segundo B. (2018) The
polycistronic miR166k-166h positively regulates rice immunity via
post-transcriptional control of EIN2 . Frontiers in Plant
Science 9 , 337.
Sánchez-Sanuy F., Peris-Peris C., Tomiyama S., Okada K., Hsing Y.I., San
Segundo B. & Campo S. (2019) Osa-miR7695 enhances transcriptional
priming in defense responses against the rice blast fungus. BMC
Plant Biology 19 , 563.
Savary S., Willocquet L., Pethybridge S.J., Esker P., McRoberts N. &
Nelson A. (2019) The global burden of pathogens and pests on major food
crops. Nature Ecology and Evolution 3 , 430-439.
Shen B., Zhang W., Zhang J., Zhou J., Wang J., Chen L., … &
Skarnes W.C. (2014) Efficient genome modification by CRISPR-Cas9 nickase
with minimal off-target effects. Nature Methods 11 ,
399-402.
Shimizu T., Nakano T., Takamizawa D., Desaki Y., Ishii-Minami N.,
Nishizawa Y., … & Shibuya N. (2010) Two LysM receptor molecules,
CEBiP and OsCERK1, cooperatively regulate chitin elicitor signaling in
rice. Plant Journal 64 , 204-214.
Shivaprasad P. V., Chen H.M., Patel K., Bond D.M., Santos B.A.C.M. &
Baulcombe D.C. (2012) A microRNA superfamily regulates nucleotide
binding site-leucine-rich repeats and other mRNAs. Plant Cell24 , 859-874.
Si L., Chen J., Huang X., Gong H., Luo J., Hou Q., … & Han B.
(2016) OsSPL13 controls grain size in cultivated rice.Nature Genetics 48 , 447-456.
Si-Ammour A., Windels D., Arn-Bouldoires E., Kutter C., Ailhas J., Meins
F. & Vazquez F. (2011) miR393 and secondary siRNAs regulate expression
of the TIR1/AFB2 auxin receptor clade and auxin-related development of
Arabidopsis leaves. Plant Physiology 157 , 683–691.
Song X., Li P., Zhai J., Zhou M., Ma L., Liu B., … & Cao X.
(2012) Roles of DCL4 and DCL3b in rice phased small RNA
biogenesis. Plant Journal 69 , 462-474.
Symington L.S. & Gautier J. (2011) Double-strand break end resection
and repair pathway choice. Annual Review of Genetics 45 ,
247-271.
Tan J., Wu Y., Guo J., Li H., Zhu L., Chen R., … & Du B. (2020)
A combined microRNA and transcriptome analyses illuminates the
resistance response of rice against brown planthopper. BMC
Genomics 21 , 144.
Tang J. & Chu C. (2017) MicroRNAs in crop improvement: Fine-tuners for
complex traits. Nature Plants 3 , 17077.
Tang W. & Thompson W.A. (2019) OsmiR528 enhances cold stress tolerance
by repressing expression of stress response-related transcription factor
genes in plant cells. Current Genomics 20 , 100-114.
Tang X., Lowder L.G., Zhang T., Malzahn A.A., Zheng X., Voytas D.F.,
… & Qi Y. (2017) A CRISPR-Cpf1 system for efficient genome
editing and transcriptional repression in plants. Nature Plants3 , 17018.
Tong A., Yuan Q., Wang S., Peng J., Lu Y., Zheng H., … & Yan F.
(2017) Altered accumulation of osa-miR171b contributes to rice stripe
virus infection by regulating disease symptoms. Journal of
Experimental Botany 68 , 4357-4367.
Tsuda K. & Katagiri F. (2010) Comparing signaling mechanisms engaged in
pattern-triggered and effector-triggered immunity. Current Opinion
in Plant Biology 13 , 459-465.
Vidal E.A., Araus V., Lu C., Parry G., Green P.J., Coruzzi G.M. &
Gutiérrez R.A. (2010) Nitrate-responsive miR393/AFB3 regulatory module
controls root system architecture in Arabidopsis thaliana.Proceedings of the National Academy of Sciences of the United
States of America 107 , 4477–4482.
Voinnet O. (2009) Origin, biogenesis, and activity of plant microRNAs.Cell 136, 669-687.
Voytas D.F. (2013) Plant genome engineering with sequence-specific
nucleases. Annual Review of Plant Biology 64 , 327-350.
Wang H., Jiao X., Kong X., Hamera S., Wu Y., Chen X., … & Yan Y.
(2016) A signaling cascade from miR444 to RDR1 in rice antiviral RNA
silencing pathway. Plant Physiology 170 , 2365-2377.
Wang M., Wu H.J., Fang J., Chu C. & Wang X.J. (2017) A long noncoding
RNA involved in rice reproductive development by negatively regulating
osa-miR160. Science Bulletin 62 , 470-475.
Wang S., Li S., Liu Q., Wu K., Zhang J., Wang S., … & Fu X.
(2015) The OsSPL16-GW7 regulatory module determines grain shape and
simultaneously improves rice yield and grain quality. Nature
Genetics 215 , 949-954.
Wang S., Wu K., Yuan Q., Liu X., Liu Z., Lin X., … & Fu X.
(2012) Control of grain size, shape and quality by OsSPL16 in
rice. Nature Genetics 44 , 950-954.
Wang S.T., Sun X.L., Hoshino Y., Yu Y., Jia B., Sun Z.W., … &
Zhu Y.M. (2014) MicroRNA319 positively regulates cold tolerance by
targeting OsPCF6 and OsTCP21 in rice (Oryza sativaL.). PLoS ONE 9 , e91357.
Wang W. & Galili G. (2019) Tuning the Orchestra: miRNAs in Plant
Immunity. Trends in Plant Science 24 , 189–191.
Wang Z., Xia Y., Lin S., Wang Y., Guo B., Song X., … & Zhao H.
(2018) Osa-miR164a targets OsNAC60 and negatively regulates rice
immunity against the blast fungus Magnaporthe oryzae . Plant
Journal 95, 584-597.
Wu J., Yang R., Yang Z., Yao S., Zhao S., Wang Y., … & Li Y.
(2017a) ROS accumulation and antiviral defence control by microRNA528 in
rice. Nature Plants 3 , 16203.
Wu Y., Lv W., Hu L., Rao W., Zeng Y., Zhu L., … & He G. (2017b)
Identification and analysis of brown planthopper-responsive microRNAs in
resistant and susceptible rice plants. Scientific Reports7 , 8712.
Xia K., Wang R., Ou X., Fang Z., Tian C., Duan J., … & Zhang M.
(2012) OsTIR1 and OsAFB2 downregulation via OsmiR393
overexpression leads to more tillers, early flowering and less tolerance
to salt and drought in rice. PLoS ONE 7 , e30039.
Xiao, Z.Y., Wang, Q.X., Zhao, S.L., Wang, H., Li, J.L., Fan,
J., … & Wang, W.M. (2017) MiR444b.2 regulates resistance
to Magnaporthe oryzae and tillering in rice. Acta
Phytopathologica Sinica , 47 , 511-522.
Yan Y., Wang H., Hamera S., Chen X. & Fang R. (2014) MiR444a has
multiple functions in the rice nitrate-signaling pathway. Plant
Journal 78 , 44-55.
Yang C., Li D., Mao D., Liu X., Ji C., Li X., … & Zhu L. (2013)
Overexpression of microRNA319 impacts leaf morphogenesis and leads to
enhanced cold tolerance in rice (Oryza sativa L.). Plant,
Cell and Environment 36 , 2207-2218.
Yang J.H., Han S.J., Yoon E.K. & Lee W.S. (2006) Evidence of an auxin
signal pathway, microRNA167-ARF8-GH3, and its response to exogenous
auxin in cultured rice cells. Nucleic Acids Research 34 ,
1892-1899.
Yang R., Li P., Mei H., Wang D., Sun J., Yang C., … & Cao X.
(2019) Fine-tuning of miR528 accumulation modulates flowering time in
rice. Molecular Plant 12 , 1103-1113.
Yao J., Withers J. & He S.Y. (2013) Pseudomonas syringaeinfection assays in arabidopsis. Methods in Molecular Biology1011 , 63-81.
Yao S., Yang Z., Yang R., Huang Y., Guo G., Kong X., … & Li Y.
(2019) Transcriptional regulation of miR528 by OsSPL9orchestrates antiviral response in rice. Molecular Plant12 , 1114-1122.
Yin K., Gao C. & Qiu J.L. (2017) Progress and prospects in plant genome
editing. Nature Plants 3 , 17107.
Yogindran S. & Rajam M.V. (2016) Artificial miRNA-mediated silencing of
ecdysone receptor (EcR) affects larval development and oogenesis inHelicoverpa armigera . Insect Biochemistry and Molecular
Biology 77 , 21-30.
Yu C., Chen Y., Cao Y., Chen H., Wang J., Bi Y.M., … & He C.
(2018) Overexpression of miR169o, an overlapping MicroRNA in response to
both nitrogen limitation and bacterial infection, promotes nitrogen use
efficiency and susceptibility to bacterial blight in rice. Plant
and Cell Physiology 59 , 1234-1247.
Yu R., Xu X., Liang Y., Tian H., Pan Z., Jin S., … & Zhang W.
(2014) The insect ecdysone receptor is a good potential target for
RNAi-based pest control. International Journal of Biological
Sciences 10 , 1171-1180.
Yuan H., Qin P., Hu L., Zhan S., Wang S., Gao P., … & Li S.
(2019) OsSPL18 controls grain weight and grain number in rice.Journal of Genetics and Genomics 46 , 41-51.
Yuan S., Li Z., Li D., Yuan N., Hu Q. & Luo H. (2015) Constitutive
expression of rice microRNA528 alters plant development and enhances
tolerance to salinity stress and nitrogen starvation in creeping
bentgrass. Plant Physiology 169 , 576-593.
Zhai J., Jeong D.H., de Paoli E., Park S., Rosen B.D., Li Y., …
& Meyers B.C. (2011) MicroRNAs as master regulators of the plant NB-LRR
defense gene family via the production of phased, trans-acting siRNAs.Genes and Development 25 , 2540-2553.
Zhang C., Ding Z., Wu K., Yang L., Li Y., Yang Z., … & Wu J.
(2016) Suppression of jasmonic acid-mediated defense by viral-inducible
microRNA319 facilitates virus infection in rice. Molecular Plant9 , 1302-1314.
Zhang F., Wen Y. & Guo X. (2014) CRISPR/Cas9 for genome editing:
Progress, implications and challenges. Human Molecular Genetics23 , R40-6.
Zhang H., Zhang J., Yan J., Gou F., Mao Y., Tang G., … & Zhu
J.K. (2017) Short tandem target mimic rice lines uncover functions of
miRNAs in regulating important agronomic traits. Proceedings of
the National Academy of Sciences of the United States of America114 , 5277-5282.
Zhang J. & Zhou J.M. (2010) Plant immunity triggered by microbial
molecular signatures. Molecular Plant 3 , 783-793.
Zhang J., Zhang H., Srivastava A.K., Pan Y., Bai J., Fang J., …
& Zhu J.K. (2018a) Knockdown of rice microRNA166 confers drought
resistance by causing leaf rolling and altering stem xylem development.Plant Physiology 176 , 2082-2094.
Zhang J., Zhou Z., Bai J., Tao X., Wang L., Zhang H. & Zhu J.K. (2020a)
Disruption of MIR396e and MIR396f improves rice yield under
nitrogen-deficient conditions. National Science Review7 , 102-112.
Zhang L.L., Li Y., Zheng Y.P., Wang H., Yang X., Chen J.F., … &
Wang W.M. (2020b) Expressing a target mimic of miR156fhl-3p enhances
rice blast disease resistance without yield penalty by improvingSPL14 expression. Frontiers in Genetics 11 , 327.
Zhang X., Bao Y., Shan D., Wang Z., Song X., Wang Z., … & Zhao
H. (2018b) Magnaporthe oryzae induces the expression of a
microRNA to suppress the immune response in rice. Plant
physiology 177 , 352-368.
Zhang Y.C., He R.R., Lian J.P., Zhou Y.F., Zhang F., Li Q.F., …
& Chen Y.Q. (2020c) OsmiR528 regulates rice-pollen intine formation by
targeting an uclacyanin to influence flavonoid metabolism.Proceedings of the National Academy of Sciences of the United
States of America 117 , 727-732.
Zhao B., Ge L., Liang R., Li W., Ruan K., Lin H. & Jin Y. (2009)
Members of miR-169 family are induced by high salinity and transiently
inhibit the NF-YA transcription factor. BMC Molecular
Biology 10 , 29.
Zhao Y., Zhang C., Liu W., Gao W., Liu C., Song G., … & Xie C.
(2016) An alternative strategy for targeted gene replacement in plants
using a dual-sgRNA/Cas9 design. Scientific Reports 6 ,
23890.
Zhao Z.X., Feng Q., Cao X.L., Zhu Y., Wang H., Chandran V., … &
Wang W.M. (2019) Osa-miR167d facilitates infection of Magnaporthe
oryzae in rice. Journal of Integrative Plant Biology62 , 702-715.
Zhou J., Deng K., Cheng Y., Zhong Z., Tian L., Tang X., … &
Zhang Y. (2017) CRISPR-cas9 based genome editing reveals new insights
into microRNA function and regulation in rice. Frontiers in Plant
Science 8 , 1598.
Zhou J., Zhong Z., Chen H., Li Q., Zheng X., Qi Y. & Zhang Y. (2019a)
Knocking out microRNA genes in rice with CRISPR-Cas9. In Methods
in Molecular Biology 1917 , 109-119.
Zhou S.X., Zhu Y., Wang L.F., Zheng Y.P., Chen J.F., Li T.T., …
& Wang W.M. (2019b) Osa-miR1873 fine-tunes rice immunity againstMagnaporthe oryzae and yield traits. Journal of Integrative
Plant Biology 62 , 1213-1226.
Zhu H., Hu F., Wang R., Zhou X., Sze S.H., Liou L.W., … & Zhang
X. (2011) Arabidopsis argonaute10 specifically sequesters miR166/165 to
regulate shoot apical meristem development. Cell 145 ,
242–256.
Zipfel C. (2014) Plant pattern-recognition receptors. Trends in
Immunology 35 , 345-351.