Wang MB, Wesley V, Finnegan EJ, Smith NA and Waterhouse …



Publication list – Ming-Bo Wang (March 2018)Refereed research ArticlesSchumann U, Lee JM, Kazan K, Ayliffe M, Wang MB (2017). DNA-demethylase regulated genes show methylation-independent spatiotemporal expression patterns. Frontiers in Plant Science 8:1449. Au PCK, Dennis ES, Wang MB (2017). Analysis of Argonaute 4-associated long non-coding RNA in Arabidopsis thaliana sheds novel insights into gene regulation through RNA-directed DNA methylation. Genes 8: E198.Akbar S, Tahir M, Wang MB, Liu Q (2017). Expression analysis of hairpin RNA carrying Sugarcane mosaic virus (SCMV) derived sequences and transgenic resistance development in a model rice plant. BioMed Research International, Q, Guo Q, Akbar S, Zhi Y, El Tahchy A, Mitchell M, Li Z, Shrestha P, Vanhercke T, Ral JP, Liang G, Wang MB, White R, Larkin P, Singh S, Petrie J (2017) Genetic enhancement of oil content in potato tuber (Solanum tuberosum L.) through an integrated metabolic engineering strategy. Plant Biotechnol J. 15:56-67.Wang Q, Li T, Xu K, Zhang W, Wang X, Quan J, Jin W, Zhang M, Fan G, Wang MB, Shan W (2016). The tRNA-Derived Small RNAs Regulate Gene Expression through Triggering Sequence-Specific Degradation of Target Transcripts in the Oomycete Pathogen Phytophthora sojae. Front Plant Sci. 7:1938.Li Y, Alonso-Peral M, Wong G, Wang MB, Millar AA (2016) Ubiquitous miR159 repression of MYB33/65 in Arabidopsis rosettes is robust and is not perturbed by a wide range of stresses. BMC Plant Biol. 16(1):179.Wang F, Li W, Zhu J, Fan F, Wang J, Zhong W, Wang MB, Liu Q, Zhu QH, Zhou T, Lan Y, Zhou Y, Yang J (2016) Hairpin RNA targeting multiple viral genes confers strong resistance to rice black-streaked dwarf virus. Int. J. Mol. Sci.?2016,?17(5), 705.Shen WX, Au PCK, Smith NA, Dennis ES, Guo HS, Zhou CY, Wang MB (2015) Satellite RNAs interfere with the function of viral RNA silencing suppressors. Frontiers in Plant Science 6: 281.Zahid K, Zhao JH, Smith NA, Schumann U, Fang YY, Dennis ES, Zhang R, Guo HS, Wang MB (2015) Nicotiana small RNA sequences support a host genome origin of cucumber mosaic virus satellite RNA. PLoS Genet. 11:e1004906.Le TN, Schumann U, Smith NA, Tiwari S, Au P, Zhu QH, Taylor J, Kazan K, Llewellyn DJ, Zhang R, Dennis ES, Wang MB (2014) DNA demethylases target promoter transposable elements to positively regulate stress responsive genes in Arabidopsis. Genome Biology 15:458.Wang N, Zhang D, Wang Z, Xun H, Ma J, Wang H, Huang W, Liu Y, Lin X, Li N, Ou X, Zhang C, Wang MB, Liu B (2014) Mutation of the RDR1 gene caused genome-wide changes in gene expression, regional variation in small RNA clusters and localized alteration in DNA methylation in rice. BMC Plant Biol.14: 177.Shen WX, Smith NA, Zhou CY, Wang MB (2014) High-level accumulation of exogenous small RNAs not affecting endogenous small RNA biogenesis and function in plants. Journal of Integrative Agriculture 13: 1017-1023.Au PCK, Helliwell CA, Wang MB (2014) Characterizing RNA-protein interaction using cross-linking and metabolite supplemented nuclear RNA-immunoprecipitation. Molecular Biology Reports 41:2971-7. Eamens AL, Smith NA, Dennis ES, Wassenegger M, Wang MB (2013) In Nicotiana species, an artificial microRNA corresponding to the virulence modulating region of Potato spindle tuber viroid directs RNA silencing of a soluble inorganic pyrophosphatase gene and the development of abnormal phenotypes. Virology 450-451(2014): 266–277.Xu MY, Zhang L, Li WW, Hu XL, Wang MB, Fan YL, Zhang CY, Wang L (2014) Stress-induced early flowering is mediated by miR169 in Arabidopsis thaliana. J Exp Bot. 65:89-101.Cao S, Zhu QH, Shen W, Jiao X, Zhao X,?Wang MB, Liu L, Singh SP,?Liu Q (2013). Comparative profiling of miRNA expression in developing seeds of high linoleic and high oleic safflower (Carthamus tinctorius L.) plants. Front Plant Sci. 4:489. Zhu QH, Stephen S, Taylor J, Helliwell CA, Wang MB (2013) Long noncoding RNAs responsive to Fusarium oxysporum infection in Arabidopsis thaliana. New Phytologist doi: 2013 Oct 7. 10.1111/nph.12537. Wang L, Zheng J, Luo Y, Xu T, Zhang Q, Zhang L, Xu M, Wan J, Wang MB, Zhang C, Fan YL. (2013) Construction of a genomewide RNAi mutant library in rice. Plant Biotechnol J. 11:997-1005.Schumann U, Smith NA, Kazan K, Ayliffe M, Wang MB (2013). Analysis of hairpin RNA transgene-induced gene silencing in Fusarium oxysporum. Silence 4:3.Schumann U, Smith NA, Wang MB (2013) A fast and efficient method for preparation of high-quality RNA from fungal mycelia. BMC Res Notes 6:71.Ayliffe M, Periyannan SK, Feechan A, Dry I, Schumann U, Wang MB, Pryor A, Lagudah E (2013). A simple method for comparing fungal biomass in infected plant tissues. Mol Plant Microbe Interact. 26: 658-67. Duan G, Saint RB, Helliwell CA, Behm CA, Wang MB, Waterhouse PM, Gordon KH (2013) C. elegans RNA-dependent RNA polymerases rrf-1 and ego-1 silence Drosophila transgenes by differing mechanisms. Cell Mol Life Sci. 70:1469-81. Zhu QH, Stephen S, Kazan K, Jin G, Fan L, Taylor J, Dennis ES, Helliwell CA, Wang MB (2013) Characterization of the defense transcriptome responsive to Fusarium oxysporum-infection in Arabidopsis using RNA-seq. Gene 512:259-266. Smith NA, Eamens AL and Wang MB (2011) Viral small Interfering RNAs target host genes to mediate disease symptoms in plants. PLoS Pathogens 7(5): e1002022.Finn TE, Wang L, Smolilo D, Smith NA, White R, Chaudhury A, Dennis ES and Wang MB (2011) Transgene expression and transgene-induced silencing in diploid and autotetraploid Arabidopsis. Genetics 187(2): 409-423.Eamens AL, Agius C, Smith NA, Waterhouse PM and Wang MB (2011): Efficient silencing of endogenous microRNAs using artificial microRNAs in Arabidopsis thaliana. Molecular Plant 4:157-170. Smith NA, Eamens AL and Wang MB (2010) The presence of high molecular weight viral RNAs interferes with the detection of viral small RNAs. RNA 16: 1062-1067.Liu C, Zhang L, Sun J, Luo Y, Wang MB, Fan YL and Wang L (2010) A simple artificial microRNA vector based on ath-miR169d precursor from Arabidopsis. Molecular Biology Reports 37: 903-909.Eamens A, Smith NA, Curtin SJ, Wang MB and Waterhouse PM (2009). The Arabidopsis thaliana double-stranded RNA binding protein DRB1 is involved in guide strand selection from microRNA Duplexes. RNA 15: 2219-2235.Schwind N, Zwiebel M, Itaya A, Ding B, Wang MB, Krczal G and Wassenegger M (2009) RNAi-mediated resistance to Potato spindle tuber viroid in transgenic tomato expressing a viroid hairpin RNA construct. Molecular Plant Pathology 10: 459-69.Wang L, Luo YZ, Zhang L, Jiao XM, Wang MB and Fan YL (2008) Rolling circle amplification-mediated hairpin RNA (RMHR) libraries construction in plants. Nucleic Acids Research 36: e149.Wang L, Smith NA, Dennis ES, Waterhouse PM, Unrau PJ and Wang MB (2008) Synthesis of complementary RNA by RNA-dependent RNA polymerases in plant extracts is independent of an RNA primer. Functional Plant Biology 35: 1091 – 1099.Wang MB, Helliwell C, Wu L, Waterhouse PM, Peacock J and Dennis ES (2008) Hairpin RNAs derived from RNA polymerase II and polymerase III promoter-directed transgenes are processed differently in plants. RNA 14: 903-913. Wang L, Wang MB, Tu JX, Helliwell C, Waterhouse PM, Dennis ES, Fu TD, and Fan YL (2007) Cloning and characterization of microRNAs from Brassica napus. FEBS Letters 581: 3848–3856.Fusaro A, Matthew L, Curtin S, Smith NA, Dedic J, Watson J, Wang MB, Brosnan C, Carrol B and Waterhouse PM (2006) RNAi-incuding hairpin RNAs in plants act through the viral defense pathway. EMBO Reports 7: 1168-1175.Chen S, Helliwell HA, Wu LM, Dennis ES, Upadhyaya N, Zhang R, Waterhouse PM and Wang MB (2005) A novel T-DNA vector design conducive for selection of transgenic lines with simple integration and stable transgene expression. Functional Plant Biology 32: 671-681. Ebhardt HA, Thi EP, Wang MB and Unrau PJ (2005) Extensive 3' modification of plant small RNAs is modulated by helper component-proteinase expression. Proceedings of the National Academy of Sciences USA 102: 13398-13403.Wang MB, Bian XY, Wu LM, Liu LX, Smith NA, Isenegger D, Wu RM, Masuta C, Vance VB, Watson JM, Rezaian A, Dennis ES and Waterhouse PM (2004) On the role of RNA silencing in the pathogenicity and evolution of viroids and viral satellites. Proceedings of the National Academy of Sciences USA 101, 3275-3280.Wang MB, Wesley V, Finnegan EJ, Smith NA and Waterhouse PM (2001) Replicating Satellite RNA Induces Sequence-Specific DNA Methylation and Truncated Transcripts in Plants. RNA 7: 16-28.Wang MB, Abbott DC, Upadhyaya NM, Jacobsen JV and Waterhouse PM (2001) Agrobacterium tumefaciens mediated transformation of an elite Australian barley cultivar with virus resistance and reporter genes. Australian Journal of Plant physiology 28: 149-156.Wesley SV, Helliwell CA, Smith NA, Wang MB et al. (2001) Construct design for efficient, effective and high-throughput gene silencing in plants. The Plant Journal 27: 581-590.Weir B, Gu X, Wang MB, Upadhyaya N, Elliott AR and Brettell R (2001) Agrobacterium tumefaciens-mediated transformation of wheat using suspension cells as a model system and green fluorescent protein as a visual marker. Australian Journal of Plant Physiology 28: 807-818.Matthews PR, Wang MB, Waterhouse PM, Thornton S, Fieg SJ, Gubler F and Jacobsen JV (2001) Marker gene elimination from transgenic barley, using co-transformation with adjacent “twin T-DNAs” on a standard Agrobacterium transformation vector. Molecular Breeding 7: 195-202.Wang MB, Abbot DC and Waterhouse PM (2000) A single copy of a virus-derived transgene encoding hairpin RNA gives immunity to barley yellow dwarf virus. Molecular Plant Pathology 1: 341-350.Wang MB and Waterhouse PM (2000) High efficiency silencing of a -glucuronidase gene in rice is correlated with repetitive transgene structure but is independent of DNA methylation. Plant Molecular Biology 43: 67-82.Smith NA, Surinder PS, Wang MB, Stoutjesdijk PA, Green AG and Waterhouse PM (2000) Total silencing by intron-spliced hairpin RNAs. Nature 407: 319-320.Upadhyaya NM, Surin B, Ramm K, Gaudron J, Schunmann PHD, Taylor W, Waterhouse PM and Wang MB (2000) Agrobacterium-mediated transformation of Australian rice cultivars Jarrah and Amaroo using modified promoters and selectable markers. Australian Journal of Plant Physiology 27: 201-210.Waterhouse PM, Graham MW and Wang MB (1998) Virus resistance and gene silencing in plants can be induced by simultaneous expression of sense and antisense RNA. Proceedings of the National Academy of Sciences USA 95: 13959-13964.Wang MB, Upadhyaya NM, Brettell RIS and Waterhouse PM (1997) Intron-mediated improvement of a selectable marker gene for Agrobacterium-mediated plant transformation. The Journal of Genetics & Breeding 51: 325-334.Wang MB, Cheng ZM, Keese P, Graham M, Larkin P and Waterhouse PM (1998) Comparison of the coat protein, movement protein and RNA polymerase gene sequences of Australian, Chinese, and American isolates of barley yellow dwarf virus transmitted by Rhopalosiphum padi. Achives of Virology 143: 1005-1013.Wang MB and Waterhouse PM (1997) A rapid and simple method of assaying plants transformed with hygromycin or PPT resistance genes. Plant Molecular Biology Reporter 15: 209-215.Tingay S, McElroy D, Kalla R, Fieg S, Wang MB, Thornton S and Brettell R (1997) Agrobacterium tumefaciens-mediated barley transformation. The Plant Journal 11: 1369-1376.Wang MB, Boulter D and Gatehouse JA (1994) Characterization and sequencing of cDNA clone encoding the phloem protein PP2 of Cucurbita pepo. Plant Molecular Biology 24: 159-170.Shi Y, Wang MB, Powell KS, van Dammes E, Hilder VA, Gatehouse VMR, Boulter D and Gatehouse JA (1994) Use of the rice sucrose synthase-1 promoter to direct phloem-specific expression of ?-glucuronidase and snowdrop lectin genes in transgenic tobacco plants. Journal of Experimental Botany 45: 623-631.Gatehouse AMR, Hilder VA, Powell KS. Wang MB, et al (1994) Insect-resistant transgenic plants: choosing the gene to do the 'job'. Biochemical Society Transactions 22: 944-949.Wang MB, Boulter D and Gatehouse JA (1992) A complete sequence of rice sucrose synthase-1 (RSs1) gene. Plant Molecular Biology 19: 881-885.Wang MB, Zhang XD and Fan YL (1990) Study of a bacteriocidal protein and its subunits produced by Pseudomonas solanacearum M2. Chinese Science Bulletin 35(7): 545-548.Liu GH, Wang MB and Fan YL (1989) Purification of a Mosquito-larvicidal toxin protein from spores of Bacillus sphaericus isolate 10. Chinese Science Bulletin 34(1): 61-64. Invited reviewsShaw J, Judy J, Bertsch P, Wang MB, Kumar A, Kirby J (2017) Incorporating transgenerational epigenetic inheritance into ecological risk assessment frameworks. Environmental Science & Technology (accepted).Guo Q, Liu Q, Smith NA, Liang G, Wang MB (2016) RNA silencing in plants: mechanisms, technologies and applications in horticultural crops. Current Genomics 17: 476-489.Zhu QH, Shan WX, Ayliffe MA, Wang MB (2016) Epigenetic Mechanisms: An Emerging Player in Plant-Microbe Interactions. Mol Plant Microbe Interact. 29:187-196.Wang MB, Smith NA (2016) Satellite RNA pathogens of plants: impacts and origins-an RNA silencing perspective. Wiley Interdiscip Rev RNA 7:5-16.Lee JRM, Duxbury Z, Wang MB (2013) Small RNAs and transgenerational epigenetic variation. American J Plant Sci. 4: 641-646. Zhu QH and Wang MB (2012) Molecular Functions of Long Non-Coding RNAs in Plants. Genes 3: 176-190.Wang MB, Masuta C, Smith NA and Shimura H (2012) RNA silencing and plant viral diseases. Mol. Plant-Microbe Interact. 25:1275-85. Liang D, Finnegan EJ, Dennis ES, Waterhouse PM and Wang MB (2011). Mobile silencing in plants: what is the signal and what defines the target? Frontiers in Biology 6: 140-146. Finnegan EJ, Liang D and Wang MB (2011). Self-incompatibility: Smi silences through a novel sRNA pathway. Trends in Plant Science 16(5): 238-241.Au PCK, Zhu QH, Dennis ES and Wang MB (2011) Long non-coding RNA mediated mechanisms independent of the RNAi pathway in animals and plants. RNA Biology 8: 404-414.Eamens AL and Wang MB (2011) Alternate approaches to repress endogenous microRNA activity in Arabidopsis thaliana. Plant Signalling and Behaviour 6:349-59..Schumann U, Ayliffe M, Kezan K and Wang MB (2010). RNA silencing in fungi. Frontiers in Biology 5(6): 478–494.Agius C, Eamens AL, Millar AA, Wang MB (2010). Regulatory giants join forces. Frontiers in Biology 5(1): 5–7.Wang MB and Dennis ES (2009) SPT5-like, a new component in plant RdDM. EMBO Reports 10: 573-575.Eamens AL, Wang MB, Smith NA and Waterhouse PM (2008) RNA silencing in plants: yesterday, today, and tomorrow. Plant Physiology 147: 456-468.Watson JM, Fusaro AF, Wang MB and Waterhouse PM (2005) RNA silencing platforms in plants. FEBS Letters 579: 5982-5987.Wang MB and Metzlaff M (2005) RNA silencing and antiviral defense in plants. Current Opinion in Plant Biology 8: 216-222.Wang MB and Waterhouse PM (2002) Applications of gene silencing in plants. Current Opinion in Plant Biology 5:146-150.Waterhouse PM, Wang MB and Lough T (2001) Gene silencing as an adaptive defense against viruses. Nature 411: 834-842.Waterhouse PM, Wang MB and Finnegan EJ (2001) The role of short RNAs in gene silencing. Trends in Plant Science 6: 297-301.Finnegan EJ, Wang MB and Waterhouse PM (2001) Gene silencing: fleshing out the bones. Current Biology 11: R99-R102.Waterhouse PM, Smith NA and Wang MB (1999) Virus resistance and gene silencing: killing the messenger. Trends in Plant Science 4: 452-458.Book chaptersFang YY, Smith NA, Zhao JH, Lee JR, Guo HS, Wang MB (2015). Cloning and profiling of small RNAs from Cucumber mosaic virus satellite RNA. Methods Mol Biol. 1236:99-109.Agius C, Eamens AL, Millar AA, Watson JW and Wang MB (2012) RNA silencing and antiviral defence in plants. Methods Mol Biol. 894:17-38.Le NT and Wang MB (2011) The role of RNA silencing in plant stress responses. In: Omics and Plant Abiotic Stress Tolerance (Ed Narendra Tuteja), pp151-162.Tiwari S, Zhang R, Dennis ES and Wang MB (2008) RNA silencing and plant defence against viral and non-viral pathogens. In: RNA Interference Research Progress, ed. Roger T. Lyland and Irving B. Browning.Curtin SJ, Wang MB, Watson JM, Roffey P, Blanchard CL and Waterhouse PM (2006) RNA silencing and its application in functional genomics. In: Rice Functional Genomics, ed Narayana Upadhyaya.Wang MB, Rezaian A, Watson JM, Waterhouse PM and Metzlaff M (2006) Understanding and exploiting RNA silencing-mediated antiviral defense in plants. In: Floriculture, Ornamental and Plant Biotechnology, Volume III, ed Jaime Teixeira da Silva, Global science Books, UK.Jacobsen J, Venables I, Wang MB, Matthews P, Ayliffe M and Gubler F (2006) Barley (Hordeum vulgare L.). Agrobacterium Protocols: Methods in Molecular Biology 343: 171-183.Jacobsen J, Venables I, Wang MB, Matthews P, Ayliffe M and Gubler F (2005) Barley (Hordeum vulgare L.) in Agrobacterium Protocols, Methods in Molecular Biology Volume 44, ed. Kan Wang.Wesley V, Helliwell C, Wang MB and Waterhouse PM (2004) Posttranscriptional gene silencing in plants. Methods in Molecular Biology 265: 117-130.Wang MB, Finnegan EJ and Waterhouse PM (2004) PTGS - plant defence and counter-defensive strategy of viruses. In Viruses and Virus Diseases of Poaceae, eds. Hervé Lapierre and Pierre Signoret (Institut National de la Recherche Agronomique, Versailles, France) pp. 172-179.Wang MB and Waterhouse PM (2004) Single-stranded satellite RNAs. In Viruses and Virus Diseases of Poaceae, eds. Hervé Lapierre and Pierre Signoret (Institut National de la Recherche Agronomique, Versailles, France).Wang MB and Waterhouse PM (2004) Satellite RNA of cereal yellow dwarf virus associated disease. In Viruses and Virus Diseases of Poaceae, eds. Hervé Lapierre and Pierre Signoret (Institut National de la Recherche Agronomique, Versailles, France).Refereed conference papersUpadhyaya NM, Zhou XR, Zhu QH, Eamens A, Wang MB and Waterhouse PM (2000). Trangenic rice. In: Transgenic Cereals (OBrien L and Henry RJ Eds) pp. 28-87?(Symposium on Transgenic Cereals, Gold Coast, Australia, September, 2000) (Times Cited: 7).??Jacobsen JV, Matthews PM, Abbott DC, Wang MB and Waterhouse PM (2000). Transgenic barley. In: Transgenic Cereals (OBrien L and Henry RJ Eds) pp. 88-114 (Symposium on Transgenic Cereals, Gold Coast, Australia, September, 2000) (Amer Assoc Cereal Chemists Inc, 3340 Pilot Knob Road, St Paul, MN 55121-2079 USA) (Times Cited: 3).Wang MB, Li ZY, Matthews PR, Upadhyaya NM and Waterhouse PM (1998) Improved vectors for Agrobacterium tumefaciens-mediated transformation of monocot plants. Acta Horticulturae 461: 401-407 (times cited: 6.Upadhyaya NM, Li ZY, Ramm K, Gaudron J, Wang MB, Kositratana W and Gong Z (1998) Production of transgenic rice with rice ragged stunt virus synthetic resistance genes. Acta Horticulturae 461:393-400 (times cited: 0). Wang MB, Graham M, Brettell R, Jacobsen J, Ramm K, Upadhyaya N and Waterhouse P (1998) Transformation of an elite barley cultivar with barley yellow dwarf virus (BYDV) resistance genes. In: Proceedings of the 4th Asia-Pacific Conference on Agricultural Biotechnology (ed. P.J. Larkin), pp18-20.Book editedWatson JM and Wang MB (2012): Antiviral Resistance in Plants: Methods and Protocols. Methods in Molecular Biology Volume 894, Humana Press, New York. ................
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