ProfessorOffice: Biology Building - Room Number 420Phone: 970-491-5773Website: http://wp.natsci.colostate.edu/reddylabEducation: Ph.D., Jawaharlal Nehru UniversityEmail: Anireddy.Reddy@ColoState.EDU
One of the fundamental questions in plant biology is how plants sense and respond to environmental (abiotic and biotic) and hormonal signals that regulate diverse cellular processes and various aspects of plant growth and development. Our group has been studying i) calcium-mediated signal transduction mechanisms with emphasis on calcium sensors and their target proteins, ii) mechanisms that regulate basic and alternative splicing of pre-messenger RNAs in response to stresses, iii) disease resistance, iv) cell wall degrading enzymes for biofuel production and iv) synthetic signal transduction circuits in plants. We use molecular, cell biological, genetic, biochemical, bioinformatics and computational tools to accomplish our research goals. Arabidopsis, maize, potato and Miscanthus are used in our research. Studies on computational aspects of alternative splicing and protein-protein interactions are being done in collaboration with Asa Ben-Hur in the Department of Computer Science at CSU (http://www.cs.colostate.edu/~asa/projects.html). In signaling research, our work is focused on calcium/calmodulin-mediated signal transduction mechanisms in plant growth and development, and in plant responses to pathogens and abiotic stresses. Calcium is a key messenger in transducing diverse signals in plants. We have been particularly interested in calcium sensors and downstream targets of calcium sensors in understanding diverse cellular and physiological processes regulated by calcium. Using bioinformatics tools we have extensively characterized several gene families involved in calcium signaling. In a comprehensive screen for calmodulin interacting proteins, we identified over 100 calmodulin-binding proteins ranging from transcription factors to molecular motors. During the last twenty years we have been studying the function of several of these calmodulin-binding proteins in plant growth and development, and plant responses to various biotic and abiotic stresses. Our group has extensively characterized function and regulation a novel calcium/calmodulin-regulated microtubule motor protein involved in cell morphogenesis and cell division. We have identified several calmodulin target proteins that play a central role in plant disease resistance and abiotic stress responses and elucidated signaling pathways involving these proteins. Additionally, we demonstrated a critical role for a pollen-specific calmodulin-binding protein in pollen germination. We have generated and tested chimeric motors and receptors by combining modular domains from plant and animal proteins for potential applications in synthetic biology and nanobiotechnolgy. In gene regulation area, our focus is on precursor-mRNA splicing. Alternative splicing of pre-mRNAs is emerging as an important step in regulating transcriptome complexity and eventually proteome diversity. More recently, it has become evident that alternative splicing is coupled to nonsense-mediated decay to regulate the abundance of transcripts through a mechanism called regulated unproductive splicing and translation (RUST). Our group has been studying spliceosomal proteins, identified several putative splicing regulators, called serine/arginine-rich (SR) proteins, and analyzed their functions using a variety of genetic, biochemical and cell biological approaches. By studying alternative splicing of Arabidopsis SR genes, we have demonstrated extensive alternative splicing (generation of over 90 splice variants from 15 genes) of this family of genes. Furthermore, out studies have demonstrated that stresses have rapid and dramatic effect on alternative splicing, suggesting rapid reprogramming of gene expression at the splicing level. Recent studies suggest that plants can rapidly alter their transcriptome complexity in response to stresses by regulating alternative splicing of master splicing regulators. Our current focus is on genome-scale analyses of targets of calmodulin-regulated transcription factors and stress-regulated alternative splicing in various mutants, using high-throughput next generation sequencing technologies (ChIP-seq, RNA-seq and RIP-seq) and computational tools. A thorough understanding of mechanisms by which plants respond to stresses will pave the way to engineer plants that are capable of growing well under adverse environmental conditions. In addition to these projects, we are also working on developing transformation tools in Miscanthus, a potential energy crop, and cloning and expression of cell wall degrading enzymes from fungal species with an ultimate goal to use them in the production of ethanol from lignocellulose. For additional details on our ongoing research projects please visit our website at http://lamar.colostate.edu/~reddy
Ling, Y., Serrano, N., Gao, G., Atia, M. Mokhtar, M., Woo, Y.H., Bazin, J., Veluchamy, A., Behamud, M., Crespi, M., Gehring, C., Reddy, A.S.N. and Mahfouz, M.M. (2018) Thermopriming triggers splicing memory in Arabidopsis. J. Expt. Bot. 69: 2659-2675.
Gao Y, Xi F, Zhang H, Liu X, Wang H, Zhao L, Reddy A, Gu L (2018), Single-molecule real-time (SMRT) isoform sequencing (Iso-Seq) in plants: The status of the bioinformatics tools to unravel the transcriptome complexity. Current Bioinformatics (in press)
Sergei A Filichkin, Mike Hamilton, Palitha D Dharmawardhana, Sunil K Singh, Christopher Sullivan, Asa Ben-Hur, Anireddy SN Reddy and Pankaj Jaiswal (2018) Abiotic stresses modulate landscape of poplar transcriptome via alternative splicing, differential intron retention, and isoform ratio switching. Frontiers in Plant Science 9, pages 1-17.
Salah E. Abdel-Ghany, S.E., Day, I., Heuberger, A.L., Broeckling, C.D. and Reddy, A.S.N. (2016) Production of Phloroglucinol, a Platform Chemical, in Arabidopsis using a Bacterial Gene. Scientific Reports. 6:38483: Pages 1-14
Salah E. Abdel-Ghany*, Michael Hamilton*, Jennifer L. Jacobi, Peter Ngam, Nicholas Devitt, Faye Schilkey, Asa Ben-Hur, Anireddy S.N. Reddy (2016) A survey of the sorghum transcriptome using single-molecule long reads. (*joint first authors) Nature Communications 7:11706, Pages 1-11. DOI: 10.1038/ncomms11706
K. V.S.K. Prasad*, Amira A.E. Abdel-Hameed*, Denghui Xing, and Anireddy S.N. Reddy (2016) Global gene expression analysis using RNA-seq uncovered a new role for SR1/CAMTA3 transcription factor in salt stress. Scientific Reports 6:27021: pages 1-15 (*joint first authors)
D. Xing, Y.Wang, Michael Hamilton, Asa Ben-Hur and A.S.N. Reddy (2015) Transcriptome-wide identification of RNA targets of Arabidopsis serine/arginine protein 45 (SR45) uncovers the unexpected roles of this RNA binding protein in RNA processing. Plant Cell 27:3294-3308.
Salah E. Abdel-Ghany, Maxim Golovkin, and A.S.N. Reddy (2015) Engineering of Plants for the Production of Commercially Important Products: Approaches and Accomplishments. In: Plant Biology and Biotechnolgy. Vol. II: Plant Genomics and Biotechnology, Springer Publisher.
Saiprasad G. Palusa and A.S.N. Reddy (2015) Differential Recruitment of Splice Variants from SR Pre-mRNAs to Polysomes During Development and in Response to Stresses. Plant and Cell Physiology. 56: 421-427.
Sergei A. Filichkin, Jason S. Cumbie, J., Palitha Dharmawadhana, Pankaj Jaiswal, Jeff H. Chang, Saiprasad G. Palusa, A.S.N. Reddy, Molly Megraw, Todd C. Mockler (2015) Environmental Stresses Modulate Abundance and Timing of Alternatively Spliced Circadian Transcripts in Arabidopsis. Mol. Plant 8:207-227.
Abdel-Ghany, S.E., Day, I., Heuberger, A.L., Broeckling, C.D. and Reddy, A.S.N.(2013) Metabolic engineering of Arabidopsis for butanetriol production using bacterial genes. Metabolic Engineering 20: 109-120.
Lazzaro, M.D., Marom, E.Y., Reddy, A.S.N. (2013) Polarized cell growth, organelle motility, and cytoskeletal organization in conifer pollen tube tips are regulated by KCBP, the calmodulin binding kinesin. Planta 238:587-597.
Helena Celesnik, Gul S. Ali, Faith M. Robison and Anireddy S.N. Reddy (2013) Arabidopsis thaliana VOZ (Vascular plant One-Zinc finger) transcription factors are required for proper regulation of flowering time. Biology Open 2: 421-431. Featured on cover page.
K. Laluk, K.V.S.K. Prasad, T. Savchenko, H. Celesnik, K. Dehesh, M. Levy, T. Mitchell-Olds, A.S.N. Reddy (2012) The calmodulin-binding transcription factor SIGNAL RESPONSIVE1 is a novel regulator of glucosinolate metabolism and herbivory tolerance in Arabidopsis. Plant Cell Physiol. 53: 2008-2015
Julie Thomas, Saiprasad G. Palusa, K.V.S.K. Prasad, Gul Shad Ali, Giridara-Kumar Surabhi, Asa Ben-Hur, Salah E. Abdel-Ghany and Anireddy S. N. Reddy (2012) Identification of an intronic splicing regulatory element involved in autoregulation of alternative splicing of the SCL33 pre-mRNA. Plant Journal 72: 935-946.
Irene S. Day, Maxim Golovkin, Saiprasad Goud Palusa, Alicia Link, Gul Shad Ali, Julie Thomas, Dale N. Richardson, and Anireddy S.N. Reddy(2012) Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: Insights into regulated splicing. Plant Journal 71, 936–947.
M.F. Rogers, J. Thomas, A.S.N. Reddy, and A. Ben-Hur (2012). SpliceGrapher: Detecting patterns of alternativesplicing from RNA-seq data in the context of gene models and EST data. Genome Biology, 13, R4. Designated as "Highly Accessed" article
Reddy, A.S.N., Rogers, M., Richardson, D., Hamilton, M. and Ben-Hur, A. (2012) Deciphering the plant splicing code: Experimental and computational approaches for predicting alternative splicing and splicing regulatory elements. Front. Plant Sci. 3:18. doi: 10.3389/fpls.2012.00018
Dale N. Richardson, Mark F. Rogers, Adam Labadorf, Asa Ben-Hur, Hui Guo, Andrew H. Patersonand Anireddy S.N. Reddy (2011) Comparative Analysis of Serine/Arginine-Rich Proteins Across 27 Eukaryotes: Insights into Sub-family Classification and Extent of Alternative Splicing. PLoS ONE 6:e24542, Pages 1-16.
M. Hamilton, A.S.N. Reddy, and A. Ben-Hur. Kernel methods for Calmodulin binding and binding site prediction (2011) In: Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine Pages 381-386, ACM New York, NY, USA
Reddy, A.S.N. and Day, I.S. (2011) Calcium signaling in plants. Indian J. Agric. Biochem. 24, 1-16.
Irene S. Day. and Reddy, A. S.N. (2011) Elucidation of calcium signaling components and networks, In Coding and Decoding of Calcium Signals in Plants. Ed. S. Luan, Springer (In press).
Labadorf, A., Link, A., Rogers, M., Thomas, J., Reddy, A.S.N. and Ben-Hur, A. Genome-wide analysis of alternative splicing in Chlamydomonas reinhardtii. BMC Genomics 11, 114 (2010) Designated as "Highly Accessed Article". Chlamydomonas Alternative Splicing web site: http://combi.cs.colostate.edu/as/chlamy/chlamy.CL01777/chlamy.CL01777.html
Yang, T., Ali, G.S., Yang, L., Du, L., Reddy, A.S.N. and Poovaiah (2010) Calcium/calmodulin-regulated receptor-like kinase, CRLK, interacts with MEKK1 in plants. Plant Signaling and Behavior. 8, 991-994.
Maia V. Vinogradova, Galina G. Malanina, A. S.N. Reddy, Robert J. FlettericK (2009) Structure of the complex of a mitotic kinesin with its calcium binding regulator. Proc. Natl. Acad. Sci. 106, 8175-8179
Liqun Du, Gul S. Ali, Kayla A. Simons, Jingguo Hou, Tianbao Yang, A.S.N. Reddy and B. W. Poovaiah (2009) Ca2+/calmodulin Regulates Salicylic Acid-mediated Plant Immunity. Nature 457: 1154-1158. Featured under “Leading Edge” section of Cell.
Maia V. Vinogradova, Galina G. Malanina, V. S. Reddy, A.S.N. Reddy, R. J. Fletterick (2008) Structural dynamics of the microtubule binding and regulatory elements in the kinesin-like calmodulin binding protein. J Struc. Biol. 163:76-83 Featured on cover.
S. Schindler, K. Szafranski1, M. Hiller, G. S Ali, S. G. Palusa, Rolf Backofen, M. Platzer, A. S.N. Reddy (2008) Alternative splicing at NAGNAG acceptors in Arabidopsis thaliana SR and SR-related protein-coding gene. BMC Genomics 10: 9:159; pages 1-11.
Day, I. and Reddy, A.S.N (2007) Proteomic Approaches to Construct Calcium Signaling Networks in Plants. In: Plant Proteomics: Technologies, Strategies, and Applications. Wiley Publisher; pages 645-657
Ali, G. S. and Reddy, A.S. N. (2006) ATP, phosphorylation and transcription regulate the mobility of plant splicing factors. J. Cell Sci. 119: 3527-3538. (Featured on cover)
Vaka S. Reddy, Irene S. Day, Tyler Thomas and Reddy, A.S.N. (2004) KIC, a Novel Ca2+-Binding Protein with One EF-Hand Motif, Interacts with a Microtubule Motor Protein and Regulates Trichome Morphogenesis. Plant Cell 16: 185-200.
Vaka S. Reddy, and Reddy, A.S.N. (2004)Developmental and cell-specific expression of ZWICHEL is regulated by the intron and exon sequences of its upstream protein-coding gene. Plant Mol. Biol. 54: 273-293.