Bagyalakshmi K, Viswanathan R. Development of a scoring system for sugarcane mosaic disease and genotyping of sugarcane germplasm for mosaic viruses. Sugar Tech. 2021;23:1105–17.
Article
Google Scholar
Chen J, Chen J, Adams MJ. Characterisation of potyviruses from sugarcane and maize in China. Arch Virol. 2002;147:1237–46.
Article
CAS
PubMed
Google Scholar
Zhang YL, Huang QX, Yin GH, Jia RZ. Genetic diversity of viruses associated with sugarcane mosaic disease of sugarcane inter-specific hybrids in China. Eur J Plant Pathol. 2015;143:351–61.
Article
Google Scholar
Xu DL, Park JW, Mirkov TE, Zhou GH. Viruses causing mosaic disease in sugarcane and their genetic diversity in southern China. Arch Virol. 2008;153:1031.
Article
PubMed
CAS
Google Scholar
Baskerville S, Bartel DP. Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes. RNA. 2005;11:241.
Article
CAS
PubMed
PubMed Central
Google Scholar
Xia ZH, Zhao ZX, Li MJ, Chen L, Jiao ZY, Wu YH, et al. Identification of miRNAs and their targets in maize in response to Sugarcane mosaic virus infection. Plant Physiol Bioch. 2018;125:143–52.
Article
CAS
Google Scholar
Niu QW, Lin SS, Reyes JL, Chen KC, Wu HW, Yeh SD, et al. Expression of artificial microRNAs in transgenic Arabidopsis thaliana confers virus resistance. Nat Biotechnol. 2006;24:1420–8.
Article
CAS
PubMed
Google Scholar
Luan YS, Cui J, Zhai JM, Li J, Han L, Meng J. High-throughput sequencing reveals differential expression of miRNAs in tomato inoculated with Phytophthora infestans. Planta. 2015;241:1405–16.
Article
CAS
PubMed
Google Scholar
Boccara M, Sarazin A, Thiébeauld O, Jay F, Voinnet O, Navarro L, et al. The Arabidopsis miR472-RDR6 silencing pathway modulates PAMP- and effector-triggered immunity through the post-transcriptional control of disease resistance genes. Plos Pathog. 2014;10:e1003883.
Article
PubMed
PubMed Central
CAS
Google Scholar
Chapman EJ, Prokhnevsky AI, Gopinath K, Dolja VV, Carrington JC. Viral RNA silencing suppressors inhibit the microRNA pathway at an intermediate step. Gene Dev. 2004;18:1179–86.
Article
CAS
PubMed
PubMed Central
Google Scholar
Chellappan P, Vanitharani R, Fauquet CM. MicroRNA-binding viral protein interferes with Arabidopsis development. P Natl Acad Sci USA. 2005;102:10381–6.
Article
CAS
Google Scholar
Viswanathan C, Anburaj J, Prabu G. Identification and validation of Sugarcane streak mosaic virus-encoded microRNAs and their targets in sugarcane. Plant Cell Rep. 2014;33:265–76.
Article
CAS
PubMed
Google Scholar
Ling H, Huang N, Xu LP, Peng Q, Liu F, Yang YT, et al. Suitable reference genes/miRNAs for qRT-PCR normalization of expression analysis in sugarcane under Sorghum mosaic virus infection. Sugar Tech. 2019;21:780–93.
Article
CAS
Google Scholar
Dezulian T, Palatnik JF, Huson DH, Weigel D. Conservation and divergence of microRNA families in plants. Genome Biol. 2005;6:P13.
Article
Google Scholar
Mi SJ, Cai T, Hu YG, Chen YM, Hodges E, Ni FR, et al. Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5’ terminal nucleotide. Cell. 2008;133:116–27.
Ling H, Huang N, Wu QB, Su YC, Peng Q, Ahmed W, et al. Transcriptional insights into the sugarcane-sorghum mosaic virus interaction. Trop Plant Biol. 2018;11:163–76.
Article
CAS
Google Scholar
Que YX, Su YC, Guo JL, Wu QB, Xu LP. A global view of transcriptome dynamics during Sporisorium scitamineum challenge in sugarcane by RNA-seq. PLoS ONE. 2014;9:e106476.
Article
PubMed
PubMed Central
Google Scholar
Hawkesford MJ, Kok L. Managing sulphur metabolism in plants. Plant Cell Environ. 2006;29:382–95.
Article
CAS
PubMed
Google Scholar
Liu YL, Schiff M, Czymmek K, Tallóczy Z, Levine B, Dinesh-Kumar SP. Autophagy regulates programmed cell death during the plant innate immune response. Cell. 2005;121:567–77.
Article
CAS
PubMed
Google Scholar
Kanehisa M, Furumichi M, Sato Y, Ishiguro-Watanabe M, Tanabe M. KEGG: integrating viruses and cellular organisms. Nucleic Acids Res. 2021;49:D545–51.
Article
CAS
PubMed
Google Scholar
Baulcombe D. RNA silencing in plants. Nature. 2004;431:356–63.
Article
CAS
PubMed
Google Scholar
Jin SB, Fu HT, Jiang SF, Xiong YW, Qiao H, Zhang WY, et al. Identification of androgenic gland microRNA and their target genes to discover sex-related microRNA in the oriental river prawn Macrobrachium nipponense. Genet Mol Res. 2015;14:18396–406.
Article
CAS
PubMed
Google Scholar
Bukhari SAH, Shang SH, Zhang M, Zheng WT, Zhang GP, Wang TZ, et al. Genome-wide identification of chromium stress-responsive micro RNAs and their target genes in tobacco (Nicotiana tabacum) roots. Environ Toxicol Chem. 2015;34:2573–82.
Article
CAS
PubMed
Google Scholar
Sun W, Xu XH, Wu X, Wang Y, Lu XB, Sun HW, et al. Genome-wide identification of microRNAs and their targets in wild type and phyB mutant provides a key link between microRNAs and the phyB-mediated light signaling pathway in rice. Front Plant Sci. 2015;6:372.
PubMed
PubMed Central
Google Scholar
Tang HM, Chen H, Jing Z, Ren JY, Ning X. Application of next generation sequencing in microRNA detection. Hereditas. 2012;34:784–92.
CAS
PubMed
Google Scholar
Schwab R, Palatnik JF, Riester M, Schommer C, Schmid M, Weigel D. Specific effects of microRNA on the plant transcriptome. Dev Cell. 2005;8:517–27.
Article
CAS
PubMed
Google Scholar
Su YC, Xiao XH, Ling H, Huang N, Liu F, Su WH, et al. A dynamic degradome landscape on miRNAs and their predicted targets in sugarcane caused by Sporisorium scitamineum stress. BMC Genomics. 2019;20:57.
Article
PubMed
PubMed Central
Google Scholar
Li YW. Identification and functional analysis of miRNA related to resistance to rice black streaked dwarf virus. Disseration for Master’s Degree of Najing Normal University. 2015. https://t.cnki.net/kcms/detail?v=3uoqIhG8C475KOm_zrgu4lQARvep2SAk6nr4r5tSd-_pTaPGgq4znNRgmCDb2ToGvSfzYfU-DaTl6RJZ7LDP6Bj-QB7uF0av&uniplatform=NZKPT.
Ismayil A, Yang M, Liu Y. Role of autophagy during plant-virus interactions. Semin Cell Dev Biol. 2020;101:36–40.
Article
CAS
PubMed
Google Scholar
Dantuma NP, Heessen S, Lindsten K, Jellne M, Masuccie MG. Inhibition of proteasomal degradation by the Gly-Ala repeat of Epstein-Barr virus is influenced by the length of the repeat and the strength of the degradation signal. P Natl Acad Sci USA. 2000;97:8381–5.
Article
CAS
Google Scholar
Leary AY, Sanguankiattichai N, Duggan C, Tumtas Y, Pandey P, Segretin ME, et al. Modulation of plant autophagy during pathogen attack. J Exp Bot. 2018;69:1325–33.
Article
CAS
PubMed
Google Scholar
Nakatogawa H, Ichimura Y, Ohsumi Y. Atg8, a ubiquitin-like protein required for autophagosome formation, mediates membrane tethering and hemifusion. Cell. 2007;130:165–78.
Article
CAS
PubMed
Google Scholar
Xia K, Liu T, Ouyang J, Wang R, Fan T, Zhang M. Genome-wide identification, classification, and expression analysis of autophagy-associated gene homologues in rice (Oryza sativa L.). DNA Res. 2011;18:363–77.
Shpilka T, Weidberg H, Pietrokovski S, Elazar Z. Atg8: an autophagy-related ubiquitin-like protein family. Genome Biol. 2011;12:226.
Article
CAS
PubMed
PubMed Central
Google Scholar
Denancé N, Sánchez-Vallet A, Goffner D, Molina A. Disease resistance or growth: the role of plant hormones in balancing immune responses and fitness costs. Front Plant Sci. 2013;4:155.
Article
PubMed
PubMed Central
Google Scholar
Rouse D. Changes in auxin response from mutations in an AUX/IAA gene. Science. 1998;279:1371–3.
Article
CAS
PubMed
Google Scholar
Padmanabhan MS, Goregaoker SP, Golem S, Culver JN, Shiferaw H. Interaction of the Tobacco mosaic virus replicase protein with the Aux/IAA protein PAP1/IAA26 is associated with disease development. J Virol. 2005;79:2549–58.
Article
CAS
PubMed
PubMed Central
Google Scholar
Tiwari SB, Hagen G, Guilfoyle T. The roles of auxin response factor domains in auxin-responsive transcription. Plant Cell. 2003;15:533–43.
Article
CAS
PubMed
PubMed Central
Google Scholar
Fan J, Hill L, Crooks C, Doerner P, Lamb C. Abscisic acid has a key role in modulating diverse plant-pathogen interactions. Plant Physiol. 2009;150:1750–61.
Article
CAS
PubMed
PubMed Central
Google Scholar
Zhou XF, Hua DP, Chen ZZ, Zhou ZJ, Gong ZZ. Elongator mediates ABA responses, oxidative stress resistance and anthocyanin biosynthesis in Arabidopsis. Plant J. 2009;60:79–90.
Article
CAS
PubMed
Google Scholar
Defraia CT, Zhang XD, Mou ZL. Elongator subunit 2 is an accelerator of immune responses in Arabidopsis thaliana. Plant J. 2010;64:511–23.
Article
CAS
PubMed
Google Scholar
Siriwardana CL. Molecular characterization of the Arabidopis nuclear factor-Y transcription factor family. Disseration for PhD’s Degree of University of Oklahoma. 2014. https://hdl.handle.net/11244/10367.
Palmeros-Suárez PA, Massange-Sánchez JA, Martínez-Gallardo NA, Montero-Vargas JM, Gómez-Leyva JF, Délano-Friera JP. The overexpression of an Amaranthus hypochondriacus NF-YC gene modifies growth and confers water deficit stress resistance in Arabidopsis. Plant Sci. 2015;240:25–40.
Article
PubMed
CAS
Google Scholar
Leustek T, Martin MN, Bick JA, Davies JP. Pathways and regulation of sulfur metabolism revealed through molecular and genetic studies. Annu Rev Plant Biol. 2000;51:141–65.
Article
CAS
Google Scholar
Sanda S, Leustek T, Theisen MJ, Garavito RM, Benning C. Recombinant Arabidopsis SQD1 converts udp-glucose and sulfite to the sulfolipid head group precursor UDP-sulfoquinovose in vitro. J Biol Chem. 2001;276:3941–6.
Article
CAS
PubMed
Google Scholar
Ménard R, Kauffmann S. β-1,3 glucan sulfate, but not β-1,3 glucan, induces the salicylic acid signaling pathway in tobacco and Arabidopsis. Plant Cell. 2004;16:3020–32.
Article
PubMed
PubMed Central
CAS
Google Scholar
Zhang L, Du L, Poovaiah BW. Calcium signaling and biotic defense responses in plants. Plant Signal Behav. 2014;9:e973818.
Article
PubMed
PubMed Central
CAS
Google Scholar
Ma W, Smigel A, Tsai YC, Braam J, Berkowitz GA. Innate immunity signaling: Cytosolic Ca2+ elevation is linked to downstream nitric oxide generation through the action of calmodulin or a calmodulin-like protein. Plant Physiol. 2008;148:818–28.
Article
CAS
PubMed
PubMed Central
Google Scholar
Máthé C, Garda T, Freytag C, M-Hamvas M. The role of serine-threonine protein phosphatase PP2A in plant oxidative stress signaling-facts and hypotheses. Int J Mol Sci. 2019;20:3028.
Article
PubMed Central
CAS
Google Scholar
Ruvolo PP, Clark W, Mumby M, Gao FQ, Stratford MW. A functional role for the B56 alpha-subunit of protein phosphatase 2A in ceramide-mediated regulation of Bcl2 phosphorylation status and function. J Biol Chem. 2002;277:22847–52.
Article
CAS
PubMed
Google Scholar
Silverstein AM, Barrow CA, Davis AJ, Mumby MC. Actions of PP2A on the MAP kinase pathway and apoptosis are mediated by distinct regulatory subunits. P Natl Acad Sci USA. 2002;99:4221–6.
Article
CAS
Google Scholar
Ling H. Transcriptome analysis of sugarcane response to Sorghum mosaic virus infection and mining pf pathogenesis related genes. Disseration for PhD’s Degree of Fujian Agriculture and Forestry University. 2017. https://t.cnki.net/kcms/detail?v=3uoqIhG8C447WN1SO36whLpCgh0R0Z-iVBgRpfJBcb4JAybTo8M4lgYYxKYm9xb6PotXS-E7zLdnJDoE-vRr1GY8FLAjCtvk&uniplatform=NZKPT.
Portis AR. The regulation of rubisco by rubisco activase. J Exp Bot. 1995;46:1285–91.
Article
CAS
Google Scholar
Andersson I, Backlund A. Structure and function of Rubisco. Plant Physiol Bioch. 2008;46:275–91.
Article
CAS
Google Scholar
Roy H, Cannon S. Ribulose bisphosphate carboxylase assembly: what is the role of the large subunit binding protein? Trends Biochem Sci. 1988;13:163–5.
Article
CAS
PubMed
Google Scholar
Zhu HL, Cheng GY, Peng L, Cai Z, Guo JL, Xu LP, et al. Interaction between sugarcane streak mosaic virus P3 and Rubisco large subunit from sugarcane. Acta Bot Boreal Occident Sin. 2014;34:0676–81.
CAS
Google Scholar
Yamaguchi K, Knoblauch KV, Subramanian AR. The plastid ribosomal proteins. J Biol Chem. 2000;275:28466–82.
Article
CAS
PubMed
Google Scholar
Dalio RJD, Paschoal D, Arena GD, Magalhães DM, Oliveira TS, Merfa MV, et al. Hypersensitive response: From NLR pathogen recognition to cell death response. Ann Appl Biol. 2020;178:268–80.
Article
CAS
Google Scholar
He CJ, Morgan PW, Drew MC. Transduction of an ethylene signal is required for cell death and lysis in the root cortex of maize during aerenchyma formation induced by hypoxia. Plant Physiol. 1996;112:463–72.
Article
CAS
PubMed
PubMed Central
Google Scholar
Faria JA, Reis PA, Reis MT, Rosado GL, Pinheiro GL, Mendes GC, et al. The NAC domain-containing protein, GmNAC6, is a downstream component of the er stress- and osmotic stress-induced NRP-mediated cell-death signaling pathway. BMC Plant Biol. 2011;11:129.
Article
CAS
PubMed
PubMed Central
Google Scholar
Oh JE, Hong SW, Lee Y, Koh EJ, Kim K, Seo YW, et al. Modulation of gene expressions and enzyme activities of methionine sulfoxide reductases by cold, ABA or high salt treatments in Arabidopsis. Plant Sci. 2005;169:1030–6.
Article
CAS
Google Scholar
Mokryakova MV, Pogorelko GV, Bruskin SA, Piruzian ES, Abdeeva IA. The role of peptidyl-prolyl cis / trans isomerase genes of arabidopsis thaliana in plant defense during the course of Xanthomonas campestris infection. Genetika. 2014;50:157–66.
Google Scholar
Tian YC, Min F, Qin ZX, Lv HJ, Wang MM, Zhang Z, et al. Hydrogen peroxide positively regulates brassinosteroid signaling through oxidation of the brassinazole-resistant1 transcription factor. Nat Commun. 2018;9:1063.
Article
PubMed
PubMed Central
CAS
Google Scholar
Li WF, Shen K, Huang YK, Wang XY, Zhang RY, Shan HL, et al. Evaluation of resistance to Sorghum mosaic virus (SrMV) in 49 new elite sugarcane varieties/clones in China. Crop Prot. 2014;60:62–5.
Article
Google Scholar
Wang HX, Zhang YL, Wang JH, Zhang SY, Xiong GR, Liu ZX. Detection of sugarcane yellow leaf virus and Sorghum mosaic virus by multiplex SYBR green-I real time PCR. Chin J Trop Agri. 2012;32:52–62.
Google Scholar
Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009;10:R25.
Article
PubMed
PubMed Central
CAS
Google Scholar
Friedländer MR, Mackowiak SD, Li N, Chen W, Nikolaus R. miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades. Nucleic Acids Res. 2012;40:37–52.
Article
PubMed
CAS
Google Scholar
Fahlgren N, Howell MD, Kasschau KD, Chapman EJ, Sullivan CM, Cumbie JS, et al. High-throughput sequencing of Arabidopsis microRNAs: Evidence for frequent birth and death of miRNA genes. PLoS ONE. 2007;2:e219.
Article
PubMed
PubMed Central
CAS
Google Scholar
Anders S, Huber W. Differential expression analysis for sequence count data. Genome Biol. 2010;11:R106.
Article
CAS
PubMed
PubMed Central
Google Scholar
Allen E, Xie Z, Gustafson AM, Carrington JC. MicroRNA-directed phasing during trans-acting siRNA biogenesis in plants. Cell. 2005;121:207–21.
Article
CAS
PubMed
Google Scholar
Varkonyi-Gasic E, Wu R, Wood M, Walton EF, Hellens RP. Protocol: a highly sensitive RT-PCR method for detection and quantification of microRNAs. Plant Methods. 2007;3:12.
Article
PubMed
PubMed Central
CAS
Google Scholar
Varkonyi-Gasic E, Hellens RP. Quantitative stem-loop RT-PCR for detection of microRNAs. In: Kodama H, Komamine A, editors. RNAi and Plant Gene Function Analysis. Humana Press: Methods Mol Biol; 2011. p. 145–57.
Chapter
Google Scholar
Livak KJ, Schmittgen TD. Analysis of relative gene expression data using real-time quantitative PCR and the 2-△△CT method. Methods. 2001;25:402–8.
Article
CAS
PubMed
Google Scholar
Su YC, Wang ZQ, Feng L, Li Z, Peng Q, Guo JL, et al. Isolation and characterization of ScGluD2, a new sugarcane beta-1,3-glucanase d family gene induced by Sporisorium scitamineum, ABA, H2O2, NaCl, and CdCl2 stresses. Front Plant Sci. 2016;7:1348.
PubMed
PubMed Central
Google Scholar