Adai A, Johnson C, Mlotshwa S, Archer-Evans S, Manocha V, Vance V, Sundaresan V. 2005. Computational prediction of miRNAs in Arabidopsis thaliana. Genome Res, 15(1): 78–91.
Archak S, Nagaraju J. 2007. Computational prediction of rice (Oryza sativa) miRNA targets. Genom Prot Bioinform, 5(3/4): 196–206.
Bonnet E, Wuyts J, Rouzé P, Van de Peer Y. 2004. Detection of 91 potential conserved plant microRNAs in Arabidopsis thaliana and Oryza sativa identifies important target genes. Proc Natl Acad Sci USA, 101(31): 11511–11516.
Chen L, Ren Y Y, Zhang Y Y, Xu J G, Sun F S, Zhang Z Y, Wang Y W. 2012. Genome-wide identification and expression analysis of heat-responsive and novel microRNAs in Populus tomentosa. Gene, 504(2): 160–165.
Ding Y F, Chen Z, Zhu C. 2011. Microarray-based analysis of cadmium responsive microRNAs in rice (Oryza sativa). J Exp Bot, 62: 3563–3573.
Eldem V, ?elikkol Ak?ay U, Ozhuner E, Bak?r Y, Uranbey S, Unver T. 2012. Genome-wide identification of miRNAs responsive to drought in peach (Prunus persica) by high-throughput deep sequencing. PLoS One, 7(12): e50298.
Grandbastien M A. 1998. Activation of plant retrotransposons under stress conditions. Trends Plant Sci, 3(5): 181–187.
Huang B, Xu C. 2008. Identification and characterization of proteins associated with plant tolerance to heat stress. J Integr Plant Biol, 50(10): 1230–1237.
Jagadeeswaran G, Saini A, Sunkar R. 2009. Biotic and abiotic stress down-regulate miR398 expression in Arabidopsis. Planta, 229(4): 1009–1014.
Jeong D H, Park S, Zhai J, Gurazada S G, De Paoli E, Meyers B C, Green P J. 2011. Massive analysis of rice small RNAs: Mechanistic implications of regulated microRNAs and variants for differential target RNA cleavage. Plant Cell, 23(12): 4185–4207.
Jian X Y, Zhang L, Li G L, Zhang L, Wang X J, Cao X F, Fang X B, Chen F. 2010. Identification of novel stress-regulated microRNAs from Oryza sativa L. Genomics, 95(1): 47–55.
Jung H J, Kim M K, Kang H. 2013. An ABA-regulated putative RNA-binding protein affects seed germination of Arabidopsis under ABA or abiotic stress conditions. J Plant Physiol, 170(2): 179–184.
Kondamudi R, Swamy K N, Chakravarthy D V N, Vishnuprasanth V, Rao Y V, Rao P R, Sarla N, Subrahmanyam D, Voleti S R. 2012. Heat stress in rice: Physiological mechanisms and adaptation strategies. In: Venkateswarulu B, Shanker A K, Shanker C, Maheswari M. Crop Stress and Its Management: Perspectives and Strategies. NewYork: Springer: 193–224.
Li W X, Oono Y, Zhu J, He X J, Wu J M, Iida K, Lu X Y, Cui X, Jin H, Zhu J K. 2008. The Arabidopsis NFYA5 transcription factor is regulated transcriptionally and posttranscriptionally to promote drought resistance. Plant Cell, 20(8): 2238–2251.
Li Y F, Zheng Y, Addo-Quaye C, Zhang L, Saini A, Jagadeeswaran G, Axtell M J, Zhang W A, Sunkar R. 2010. Transcriptome-wide identification of microRNA targets in rice. Plant J, 62(5): 742–759.
Liu H H, Tian X, Li Y J, Wu C A, Zheng C C. 2008. Microarray-based analysis of stress-regulated microRNAs in Arabidopsis thaliana. RNA, 14(5): 836–843.
Lu D K, Bai X, Li Y, Ding X D, Ge Y, Cai H, Ji W, Wu N, Zhu Y M. 2010. Profiling of cold-stress-responsive miRNAs in rice by microarrays. Gene, 459(1/2): 39–47.
Macovei A, Vaid N, Tula S, Tuteja N. 2012. A new DEAD-box helicase ATP-binding protein (OsABP) from rice is responsive to abiotic stress. Plant Signal Behav, 7(9): 1138–1143.
Mallory A C, Vaucheret H. 2006. Functions of microRNAs and related small RNAs in plants. Nat Genet (Suppl), 38: S31–36.
Mittal D, Chakrabarti S, Sarkar A, Singh A, Grover A. 2009. Heat shock factor gene family in rice: Genomic organization and transcript expression profiling in response to high temperature low temperature and oxidative stresses. Plant Physiol Biochem, 47(9): 785–795.
Mittal D, Madhyastha D A, Grover A. 2012. Genome-wide transcriptional profiles during temperature and oxidative stress reveal coordinated expression patterns and overlapping regulons in rice. PLoS One, 7(7): e40899.
Nakashima K, Ito Y, Yamaguchi-Shinozaki K. 2009. Transcriptional regulatory networks in response to abiotic stresses in Arabidopsis and grasses. Plant Physiol, 149(1): 88–95.
Qin F, Shinozaki K, Yamaguchi-Shinozaki K. 2011. Achievements and challenges in understanding plant abiotic stress responses and tolerance. Plant Cell Physiol, 52(9): 1569–1582.
Rhoades M W, Reinhart B J, Lim L P, Burge C B, Bartel B, Bartel D P. 2002. Prediction of plant microRNAs targets. Cell, 110(4): 513–520.
Sanan-Mishra N, Kumar V, Sopory S K, Mukherjee S K. 2009. Cloning and validation of novel miRNA from basmati rice indicates cross talk between abiotic and biotic stresses. Mol Genet Genom, 282(5): 463–474.
Sunkar R, Zhu J K. 2004. Novel and stress regulated micro-RNAs and other small RNAs from Arabidopsis. Plant Cell, 16(8): 2001–2019.
Sunkar R, Chinnusamy V, Zhu J, Zhu J K. 2007. Small RNAs as big players in plant abiotic stress responses and nutrient deprivation. Trends Plant Sci, 12(7): 301–309.
Tang G, Reinhart B J, Bartel D P, Zamore P D. 2003. A biochemical framework for RNA silencing in plants. Genes Dev, 17(1): 49–63.
Wang L W, Liu H H, Li D T, Chen H B. 2011. Identification and characterization of maize microRNAs involved in the very early stage of seed germination. BMC Genomics, 12: 154.
Xin M M, Wang Y, Yao Y Y, Xie C J, Peng H R, Ni Z F, Sun Q X. 2010. Diverse set of microRNAs are responsive to powdery mildew infection and heat stress in wheat (Triticum aestivum L.). BMC Plant Biol, 10: 123.
Yamada K, Osakabe Y, Mizoi J, Nakashima K, Fujita Y, Shinozaki K, Yamaguchi-Shinozaki K. 2010. Functional analysis of an Arabidopsis thaliana abiotic stress-inducible facilitated diffusion transporter for monosaccharides. J Biol Chem, 285(2): 1138–1146.
Yoshida S, Forno D A, Cock J H, Gomez K A. 1976. Laboratory Manual for Physiological Studies of Rice. Philippines: IRRI.
Yu X, Wang H, Lu Y Z, de Ruiter M, Cariaso M, Prins M, van Tunenn A, He Y K. 2012. Identification of conserved and novel microRNAs that are responsive to heat stress in Brassica rapa. J Exp Bot, 63(2): 1025–1038.
Zhang B H, Pan X P, Anderson T A. 2006a. Identification of 188 conserved maize microRNAs and their targets. FEBS Lett, 580(15): 3753–3762.
Zhang B H, Pan X P, Cox S B, Cobb G P, Anderson T A. 2006b. Evidence that miRNAs are different from other RNAs. Cell Mol Life Sci, 63(2): 246–254.
Zhang Z H, Yu J Y, Li D F, Zhang Z Y, Liu F X, Zhou X, Wang T, Ling Y, Su Z. 2010. PMRD: Plant microRNA database. Nucl Acids Res, 38: D806–D813.
Zhao B T, Liang R Q, Ge L F, Li W, Xiao H S, Lin H X, Ruan K C, Jin Y X. 2007. Identification of drought-induced microRNAs in rice. Biochem Biophys Res Commun, 354(2): 585–590.
Zhao B T, Ge L F, Liang R Q, Li W, Ruan K C, Lin H X, Jin Y X. 2009. Members of miR-169 family are induced by high salinity and transiently inhibit the NF-YA transcription factor. BMC Mol Biol, 10: 29.
Zhou L G, Liu Y H, Liu Z C, Kong D Y, Duan M, Luo L J. 2010. Genome-wide identification and analysis of drought-responsive microRNAs in Oryza sativa. J Exp Bot, 61(15): 4157–4168.
Zou J, Liu A L, Chen X B, Zhou X Y, Gao G F, Wang W F, Zhang X W. 2009. Expression analysis of nine rice heat shock protein genes under abiotic stresses and ABA treatment. J Plant Physiol, 166(8): 851–861.
