The University of Queensland

Avocado transcriptomic resources

Shaw, Lindsay, Nath, Onkar, Fletcher, Stephen, Henry, Robert, Mitter, Neena and Hayward, Alice (2020). Avocado transcriptomic resources. Reference Module in Food Science. (pp. 544-557) Amsterdam, Netherlands: Elsevier BV. doi: 10.1016/b978-0-08-100596-5.22733-9

Platelet-derived exerkine CXCL4/platelet factor 4 rejuvenates hippocampal neurogenesis and restores cognitive function in aged mice

Leiter, Odette, Brici, David, Fletcher, Stephen J., Yong, Xuan Ling Hilary, Widagdo, Jocelyn, Matigian, Nicholas, Schroer, Adam B., Bieri, Gregor, Blackmore, Daniel G., Bartlett, Perry F., Anggono, Victor, Villeda, Saul A. and Walker, Tara L. (2023). Platelet-derived exerkine CXCL4/platelet factor 4 rejuvenates hippocampal neurogenesis and restores cognitive function in aged mice. Nature Communications, 14 (1) 4375, 1-20. doi: 10.1038/s41467-023-39873-9

Characterization of the cholesterol biosynthetic pathway in Dioscorea transversa

Salisbury, Lauren J., Fletcher, Stephen J., Stok, Jeanette E., Churchman, Luke R., Blanchfield, Joanne T. and De Voss, James J. (2023). Characterization of the cholesterol biosynthetic pathway in Dioscorea transversa. Journal of Biological Chemistry, 299 (6) 104768, 1-16. doi: 10.1016/j.jbc.2023.104768

A haplotype resolved chromosomal level avocado genome allows analysis of novel avocado genes

Nath, Onkar, Fletcher, Stephen J., Hayward, Alice, Shaw, Lindsay M., Kharabian Masouleh, Ardashir, Furtado, Agnelo, Henry, Robert J. and Mitter, Neena (2022). A haplotype resolved chromosomal level avocado genome allows analysis of novel avocado genes. Horticulture Research, 9 uhac157, 1-10. doi: 10.1093/hr/uhac157

Tospoviruses induce small interfering RNAs targeting viral sequences and endogenous transcripts in solanaceous plants

Fletcher, Stephen J., Peters, Jonathan R., Olaya, Cristian, Persley, Denis M., Dietzgen, Ralf G., Carroll, Bernard J., Pappu, Hanu and Mitter, Neena (2022). Tospoviruses induce small interfering RNAs targeting viral sequences and endogenous transcripts in solanaceous plants. Pathogens, 11 (7) 745, 745. doi: 10.3390/pathogens11070745

RNAi as a foliar spray: efficiency and challenges to field applications

Hoang, Bao Tram L., Fletcher, Stephen J., Brosnan, Christopher A., Ghodke, Amol B., Manzie, Narelle and Mitter, Neena (2022). RNAi as a foliar spray: efficiency and challenges to field applications. International Journal of Molecular Sciences, 23 (12) 6639. doi: 10.3390/ijms23126639

Effective RNAi-mediated control of the crop pest whitefly

Jain, Ritesh, Fletcher, Stephen and Mitter, Neena (2022). Effective RNAi-mediated control of the crop pest whitefly. Nature Plants, 8 (5), 461-462. doi: 10.1038/s41477-022-01160-8

Foliar application of clay-delivered RNA interference for whitefly control

Jain, Ritesh G, Fletcher, Stephen J, Manzie, Narelle, Robinson, Karl E, Li, Peng, Lu, Elvin, Brosnan, Christopher A, Xu, Zhi Ping and Mitter, Neena (2022). Foliar application of clay-delivered RNA interference for whitefly control. Nature Plants, 8 (5), 535-548. doi: 10.1038/s41477-022-01152-8

A comprehensive high-quality DNA and RNA extraction protocol for a range of cultivars and tissue types of the woody crop avocado

Nath, Onkar, Fletcher, Stephen J., Hayward, Alice, Shaw, Lindsay M., Agarwal, Rimjhim, Furtado, Agnelo, Henry, Robert J. and Mitter, Neena (2022). A comprehensive high-quality DNA and RNA extraction protocol for a range of cultivars and tissue types of the woody crop avocado. Plants, 11 (3) 242. doi: 10.3390/plants11030242

Message in a bubble: Shuttling small RNAs and proteins between cells and interacting organisms using extracellular vesicles

Cai, Qiang, He, Baoye, Wang, Shumei, Fletcher, Stephen, Niu, Dongdong, Mitter, Neena, Birch, Paul R. J. and Jin, Hailing (2021). Message in a bubble: Shuttling small RNAs and proteins between cells and interacting organisms using extracellular vesicles. Annual Review of Plant Biology, 72 (1), 497-524. doi: 10.1146/annurev-arplant-081720-010616

RNAi-based functional genomics in hemiptera

Jain, Ritesh G., Robinson, Karl E., Fletcher, Stephen J. and Mitter, Neena (2020). RNAi-based functional genomics in hemiptera. Insects, 11 (9) 557, 557-22. doi: 10.3390/insects11090557

Summary of discussions from 2019 OECD Conference on RNAi Based Pesticides

Mendelsohn, Michael L., Gathmann, Achim, Kardassi, Dimitra, Sachana, Magdalini, Hopwood, Emily, Dietz-Pfeilstetter, Antje, Michelsen-Correa, Stephani, Fletcher, Stephen J. and Székács, András (2020). Summary of discussions from 2019 OECD Conference on RNAi Based Pesticides. Frontiers in Plant Science, 11 740, 740. doi: 10.3389/fpls.2020.00740

The tomato spotted wilt virus (TSWV) genome is differentially targeted in TSWV-infected tomato (Solanum lycopersicum) with or without Sw-5 gene

Olaya, Cristian, Fletcher, Stephen J., Zhai, Ying, Peters, Jonathan, Margaria, Paolo, Winter, Stephan, Mitter, Neena and Pappu, Hanu R. (2020). The tomato spotted wilt virus (TSWV) genome is differentially targeted in TSWV-infected tomato (Solanum lycopersicum) with or without Sw-5 gene. Viruses, 12 (4) 363, 363. doi: 10.3390/v12040363

Can-Seq: a PCR and DNA sequencing strategy for identifying new alleles of known and candidate genes

Cao, Jiangling, Gursanscky, Nial R., Fletcher, Stephen J., Sawyer, Anne, Wadia, Mehershad, McKeough, Lachlan, Coleman, Marek, Dressel, Uwe, Taochy, Christelle, Mitter, Neena, Vaucheret, Herv and Carroll, Bernard J. (2020). Can-Seq: a PCR and DNA sequencing strategy for identifying new alleles of known and candidate genes. Plant Methods, 16 (1) 16, 16. doi: 10.1186/s13007-020-0555-0

A perspective on RNAi-based biopesticides

Fletcher, Stephen J., Reeves, Philip T., Hoang, Bao Tram and Mitter, Neena (2020). A perspective on RNAi-based biopesticides. Frontiers in Plant Science, 11 51, 51. doi: 10.3389/fpls.2020.00051

The avocado genome informs deep angiosperm phylogeny, highlights introgressive hybridization, and reveals pathogen-influenced gene space adaptation

Rendon-Anaya, Martha, Ibarra-Laclette, Enrique, Mendez-Bravo, Alfonso, Lan, Tianying, Zheng, Chunfang, Carretero-Paulet, Lorenzo, Anahi Perez-Torres, Claudia, Chacon-Lopez, Alejandra, Hernandez-Guzman, Gustavo, Chang, Tien-Hao, Farr, Kimberly M., Barbazuk, W. Brad, Chamala, Srikar, Mutwil, Marek, Shivhare, Devendra, Alvarez-Ponce, David, Mitter, Neena, Hayward, Alice, Fletcher, Stephen, Rozas, Julio, Sanchez Gracia, Alejandro, Kuhn, David, Barrientos-Priego, Alejandro F., Salojarvi, Jarkko, Librado, Pablo, Sankoff, David, Herrera-Estrella, Alfredo, Albert, Victor A. and Herrera-Estrella, Luis (2019). The avocado genome informs deep angiosperm phylogeny, highlights introgressive hybridization, and reveals pathogen-influenced gene space adaptation. Proceedings of the National Academy of Sciences of the United States of America, 116 (34), 17081-17089. doi: 10.1073/pnas.1822129116

Small RNA profiling of Cavendish banana roots inoculated with Fusarium oxysporum f. sp. cubense race 1 and tropical race 4

Fei, Shulang, Czislowski, Elizabeth, Fletcher, Stephen, Peters, Jonathan, Batley, Jacqueline, Aitken, Elizabeth and Mitter, Neena (2019). Small RNA profiling of Cavendish banana roots inoculated with Fusarium oxysporum f. sp. cubense race 1 and tropical race 4. Phytopathology Research, 1 (1) 22. doi: 10.1186/s42483-019-0029-3

Juvenility and vegetative phase transition in tropical/subtropical tree crops

Ahsan, Muhammad Umair, Hayward, Alice, Irihimovitch, Vered, Fletcher, Stephen, Tanurdzic, Milos, Pocock, Alexander, Beveridge, Christine Anne and Mitter, Neena (2019). Juvenility and vegetative phase transition in tropical/subtropical tree crops. Frontiers in Plant Science, 10 729, 729. doi: 10.3389/fpls.2019.00729

Exogenous application of RNAi-inducing double-stranded RNA inhibits aphid-mediated transmission of a plant virus

Worrall, Elizabeth A., Bravo-Cazar, Ana, Nilon, Alexander T., Fletcher, Stephen J., Robinson, Karl E., Carr, John P. and Mitter, Neena (2019). Exogenous application of RNAi-inducing double-stranded RNA inhibits aphid-mediated transmission of a plant virus. Frontiers in Plant Science, 10 265, 265. doi: 10.3389/fpls.2019.00265

Molecular characterization and analysis of conserved potyviral motifs in bean common mosaic virus (BCMV) for RNAi-mediated protection

Worrall, Elizabeth A., Hayward, Alice C., Fletcher, Stephen J. and Mitter, Neena (2018). Molecular characterization and analysis of conserved potyviral motifs in bean common mosaic virus (BCMV) for RNAi-mediated protection. Archives of Virology, 164 (1), 181-194. doi: 10.1007/s00705-018-4065-6

RNA-dependent epigenetic silencing directs transcriptional downregulation caused by intronic repeat expansions

Eimer, Hannes, Sureshkumar, Sridevi, Singh Yadav, Avilash, Kraupner-Taylor, Calvin, Bandaranayake, Champa, Seleznev, Andrei, Thomason, Tamblyn, Fletcher, Stephen J., Gordon, Stephanie Frances, Carroll, Bernard J. and Balasubramanian, Sureshkumar (2018). RNA-dependent epigenetic silencing directs transcriptional downregulation caused by intronic repeat expansions. Cell, 174 (5), 1095-1105.e11. doi: 10.1016/j.cell.2018.06.044

SCRAM: a pipeline for fast index-free small RNA read alignment and visualization

Fletcher, Stephen J., Boden, Mikael, Mitter, Neena and Carroll, Bernard J. (2018). SCRAM: a pipeline for fast index-free small RNA read alignment and visualization. Bioinformatics, 34 (15), 2670-2672. doi: 10.1093/bioinformatics/bty161

A Genetic Screen for Impaired Systemic RNAi Highlights the Crucial Role of DICER-LIKE 2

Taochy, Christelle, Gursanscky, Nial R., Cao, Jiangling, Fletcher, Stephen J., Dressel, Uwe, Mitter, Neena, Tucker, Matthew R., Koltunow, Anna M G., Bowman, John L., Vaucheret, Hervé and Carroll, Bernard J. (2017). A Genetic Screen for Impaired Systemic RNAi Highlights the Crucial Role of DICER-LIKE 2. Plant Physiology, 175 (3), 1424-1437. doi: 10.1104/pp.17.01181

Clay nanosheets for topical delivery of RNAi for sustained protection against plant viruses

Mitter, Neena, Worrall, Elizabeth A., Robinson, Karl E., Li, Peng, Jain, Ritesh G., Taochy, Christelle, Fletcher, Stephen J., Carroll, Bernard J., Lu, G. Q. (Max) and Xu, Zhi Ping (2017). Clay nanosheets for topical delivery of RNAi for sustained protection against plant viruses. Nature Plants, 3 (2) 16207, 16207.1-16207.10. doi: 10.1038/nplants.2016.207

The tomato spotted wilt virus genome is processed differentially in its plant host Arachis hypogaea and its thrips vector Frankliniella fusca

Fletcher, Stephen J., Shrestha, Anita, Peters, Jonathan R., Carroll, Bernard J., Srinivasan, Rajagopalbabu, Pappu, Hanu R. and Mitter, Neena (2016). The tomato spotted wilt virus genome is processed differentially in its plant host Arachis hypogaea and its thrips vector Frankliniella fusca. Frontiers in Plant Science, 7 (September) 1349, 1349. doi: 10.3389/fpls.2016.01349

qPCR for Quantification of Transgene Expression and Determination of Transgene Copy Number.

Fletcher, Stephen J. (2014). qPCR for Quantification of Transgene Expression and Determination of Transgene Copy Number.. Methods in Molecular Biology, 1145, 213-237. doi: 10.1007/978-1-4939-0446-4_17

Optimization of TaDREB3 gene expression in transgenic barley using cold-inducible promoters

Kovalchuk, Nataliya, Jia, Wei, Eini, Omid, Morran, Sarah, Pyvovarenko, Tatiana, Fletcher, Stephen, Bazanova, Natalia, Harris, John, Beck-Oldach, Kontanze, Shavrukov, Yuri, Langridge, Peter and Lopato, Sergiy (2013). Optimization of TaDREB3 gene expression in transgenic barley using cold-inducible promoters. Plant Biotechnology Journal, 11 (6), 659-670. doi: 10.1111/pbi.12056

Meiotic and epigenetic defects in Dnmt3L-knockout mouse spermatogenesis

Webster, Kylie E., O'Bryan, Moira K., Fletcher, Stephen J., Crewther, Pauline E., Aapola, Ulla, Craig, Jeff, Harrison, Dion K., Aung, Hnin T., Phutikanit, Nawapen, Lyle, Robert, Meachem, Sarah J., Antonarakis, Stylianos E., de Kretser, David M., Hedger, Mark P., Peterson, Pärt M., Carroll, Bernard J. and Scott, Hamish S. (2005). Meiotic and epigenetic defects in Dnmt3L-knockout mouse spermatogenesis. Proceedings of the National Academy of Sciences of the United States of America, 102 (11), 4068-4073. doi: 10.1073/pnas.0500702102

Avocado genome sequencing and development of genetic markers for breeding and germplasm identification

Nath, O., Shaw, L. M., Hayward, A., Fletcher, S., Albert, V., Henry, R. and Mitter, N. (2019). Avocado genome sequencing and development of genetic markers for breeding and germplasm identification. TropAg 2019, Brisbane, QLD Australia, 11-13 November 2019.

The genomic RNAs of Tomato spotted wilt orthotospovirus are differentially targeted in infected tomato (Solanum lycopersicum) with or without Sw5 gene

Olaya, C., Fletcher, S., Mitter, N. and Pappu, H. R. (2018). The genomic RNAs of Tomato spotted wilt orthotospovirus are differentially targeted in infected tomato (Solanum lycopersicum) with or without Sw5 gene. International Congress of Plant Pathology (ICPP), Boston Ma, Jul 29-Aug 03, 2018. ST PAUL: AMER PHYTOPATHOLOGICAL SOC.

Adventitious Rooting in Avocado - Unravelling the Bottleneck to Propagation

Gleeson, Madeleine , Hayward, Alice , Hiti Bandalarage, Jayeni , Fletcher, Stephen and Mitter, Neena (2018). Adventitious Rooting in Avocado - Unravelling the Bottleneck to Propagation. Plant and Animal Genome Conference XXIV, San Diego, CA, United States, 13-17 January 2018. San Diego, CA, United States:

Toward specific detection of Dengue virus serotypes using a novel modular biosensor

Fletcher, Stephen J., Phillips, Lucy W., Milligan, Andrew S. and Rodda, Stephen J. (2010). Toward specific detection of Dengue virus serotypes using a novel modular biosensor. World Congress on Biosensors, Glasgow, Scotland, 26-28 May 2010. Amsterdam, Netherlands: Elsevier. doi: 10.1016/j.bios.2010.07.046

The search for a DNA methylation marker for mantled fruit in oil palm

Fletcher, S., Harrison, D., Zamri, R., Ramage, C. M., Waldron, J., Berking, O. C. L., Yuniaty, A., Musa, H., Gresshoff, P. M. and Carroll, B. J. (2005). The search for a DNA methylation marker for mantled fruit in oil palm. Oils and Fats International Congress 2004, Putra World Trade Centre, Kuala Lumper, Malyasia, 29 September-2 October 2004. Malyasia: Mosta.

Tethered enzyme mediated nucleic acid detection

Fletcher, Stephen (2015). Tethered enzyme mediated nucleic acid detection. 2011242404.

Capture based nucleic acid detection

Fletcher, Stephen (2015). Capture based nucleic acid detection. 2011301777.

Methods for detecting a target nucleotide sequence in a sample utilising a nuclease-aptamer complex

Fletcher, Stephen and Milligan, Andrew (2013). Methods for detecting a target nucleotide sequence in a sample utilising a nuclease-aptamer complex. 2008235260.