Professional Profile

 2010-2015           Post-doctoral Fellow with Professor Ling Yuan, KTRDC, University of Kentucky

 2015-2017           Research Analyst, KTRDC, University of Kentucky

 2017-2023           Scientist I, KTRDC, University of Kentucky 

 2023-present       Scientist II, KTRDC, University of Kentucky

Research Interests

• Transcriptional and posttranscriptional regulation of secondary metabolism in plants
• DNA damage and repair in plants

Additional Information

Selected Publications 

• Hou X, Singh SK, Werkman JR, Liu Y, Yuan Q, Wu X, Patra B, Sui X, Lyu R, Wang B, Liu X, Li Y, Ma W, Pattanaik S, Yuan L (2023) Partial desensitization of MYC2 transcription factor alters the interaction with jasmonate signaling components and affects specialized metabolism. International Journal of Biological Macromolecules. 252:126472
• Liu Y, Singh SK, Pattanaik S, Wang H, Yuan L (2023) Light regulation of the biosynthesis of phenolics, terpenoids, and alkaloids in plants. Communications Biology. 6(1):1055.
• Patra B, Liu Y, Singleton JJ, Singh SK, Pattanaik S, Yuan L. (2022) Virus-induced gene silencing as a tool to study regulation of alkaloid biosynthesis in medicinal plants. Methods in Molecular Biology. 2469:155-164.
• Singh SK, Patra B, Singleton JJ, Liu Y, Paul P, Sui X, Suttipanta N, Pattanaik S, Yuan L (2022) Identification and Characterization of Transcription Factors Regulating Terpenoid Indole Alkaloid Biosynthesis in Catharanthus roseus. Methods in Molecular Biology. 2505:203-221.
• Lim ARQ, Kong Q, Singh SK*, Guo L, Yuan L, Ma W (2022) Sunflower WRINKLED1 plays a key role in transcriptional regulation of oil biosynthesis. International Journal of Molecular Sciences. 23(6):3054
• Liu YL, Patra B, Singh SK, Paul P, Zhou Y Li YQ, Wang Y, Pattanaik S, Yuan L. (2021) Terpenoid indole alkaloid biosynthesis in Catharanthus roseus: effects and prospects of environmental factors in metabolic engineering. Biotechnology Letters. (in press)
• Lyu R, Singh SK, Liu Y, Patra B, Zhou Y, Wang B, Pattanaik S, Yuan L. (2021) Reprogramming plant specialized metabolism by manipulating protein kinases. aBiotech. 1-14.
• Singh SK, Patra B, Paul P, Pattanaik S, Yuan L. (2021) BHLH IRIDOID SYNTHESIS 3 is a member of a bHLH gene cluster regulating terpenoid indole alkaloid biosynthesis in Catharanthus roseus. Plant Direct 00:e00305. 
• Liu X, Singh SK, Patra B, Liu Y, Wang B, Wang J, Pattanaik S, Yuan L (2021) Protein-phosphatase NtPP2C2b and MAP-kinase NtMPK4 act in concert to modulate nicotine biosynthesis. Journal of Experimental Botany 72(5):1661-1676.
• Singh SK, Richmond MD, Pearce RC, Bailey WA, Hou X, Pattanaik S, Yuan L (2020) Maleic hydrazide elicits global transcriptomic changes in chemically topped tobacco to influence shoot bud development. Planta 252(4):64.
• Kong Q, Singh SK, Mantyla JJ, Pattanaik S, Guo L, Yuan L, Benning C, Ma W (2020) TEOSINTE BRANCHED1/CYCLOIDEA/PROLIFERATING CELL FACTOR 4 interacts with WRINKLED1 to mediate seed oil biosynthesis. Plant Physiology 184:658-665.
• Singh SK, Patra B, Paul P, Liu Y, Pattanaik S, Yuan L (2020) Revisiting the ORCA gene cluster that regulates terpenoid indole alkaloid biosynthesis in Catharanthus roseus. Plant Science 293:110408.
• Wang J, Singh SK, Geng S, Zhang S, Yuan L. (2020) Genome-wide analysis of glycerol-3-phosphate O-acyltransferase gene family and functional characterization of two cutin group GPATs in Brassica napus. Planta. 251:93
• Paul P, Singh SK, Patra B, Liu X, Pattanaik S, Yuan L. (2020) Mutually Regulated AP2/ERF Gene Clusters Modulate Biosynthesis of Specialized Metabolites in Plants. Plant Physiology 182:840-856.
• Sui X, Kumar Singh S, Patra B, Schluttenhofer C, Guo W, Pattanaik S, Yuan L. (2018) Cross-family transcription factor interaction between MYC2 and GBFs modulates terpenoid indole alkaloid biosynthesis. Journal of Experimental Botany 69: 4267-4281.
• Wang J, Wang X, Geng S, Singh SK, Wang Y, Pattanaik S, Yuan L. (2018) Genome-wide identification of hexokinase gene family in Brassica napus: structure, phylogenetic analysis, expression, and functional characterization. Planta. 248:171-182.
• Paul, P., Singh, S.K., Patra, B., Sui, X., Pattanaik, S., and Yuan, L. (2017) A differentially regulated AP2/ERF transcription factor gene cluster acts downstream of a MAP kinase cascade to modulate terpenoid indole alkaloid biosynthesis in Catharanthus roseus. New Phytologist 213, 1107-1123. 

• Shen, E.M., Singh, S.K., Ghosh, J.S., Patra, B., Paul, P., Yuan, L., and Pattanaik, S. (2017). The miRNAome of Catharanthus roseus: identification, expression analysis, and potential roles of microRNAs in regulation of terpenoid indole alkaloid biosynthesis. Scientific Reports 7: 43027. 

• Singh, S.K., Wu, Y., Ghosh, J.S., Pattanaik, S., Fisher, C., Wang, Y., Lawson, D., and Yuan, L. (2015) RNA-sequencing reveals global transcriptomic changes in Nicotiana tabacum responding to topping and treatment of axillary-shoot control chemicals. Scientific Reports 5: 18148. 

• Pattanaik, S., Patra, B., Singh, S.K., and Yuan, L. (2014) An over view of the gene regulatory network controlling trichome development in the model plant, Arabidopsis. Frontiers in Plant Science 5: 259. 

• Singh, S.K., Heng, C., Braker, J.D., Chan, V.J., Lee, C.C., Jordan, D.B., Yuan, L., and Wagschal, K. (2014) Directed evolution of GH43 beta-xylosidase XylBH43 thermal stability and L186 saturation mutagenesis. Journal of Industrial Microbiology and Biotechnology. 41: 489-498.

• Roy, S., Choudhury, S.R., Singh, S.K., and Das, K.P. (2012). Functional analysis of light-regulated promoter region of AtPoll gene. Planta. 235: 411-432. 

• Choudhury, S.R., Roy, S., Nag, A., Singh, S.K., and Sengupta, D.N. (2012). Characterization of an AGAMOUS-like MADS box protein, a probable constituent of flowering and fruit ripening regulatory system in banana. PLoS One. 7: e44361. 

• Suttipanta, N., Pattanaik, S., Kulshrestha, M., Patra, B., Singh, S.K., and Yuan, L. (2011). The transcription factor CrWRKY1 positively regulates the terpenoid indole alkaloid biosynthesis in Catharanthus roseus. Plant Physiology 157: 2081-2093. 

• Singh, S.K., Choudhury, S.R., Roy, S., and Sengupta, D.N. (2011). Understanding DNA repair and recombination in higher plant genome: information from genome-wide screens in Arabidopsis and rice. Plant Signaling Behavior 6:120-122. 

• Roy, S., Choudhury, S.R., Singh, S.K., and Das, K.P. (2011). AtPolλ, a homolog of mammalian DNA polymerase λ in Arabidopsis thaliana, is involved in the repair of UV-B induced DNA damage through the dark repair pathway. Plant Cell Physiology 52: 448-467. 

• Choudhury, S.R., Roy, S., Singh, S.K., and Sengupta, D.N. (2009) MA-ACS1: a key operator in ethylene biosynthesis in banana-its role and regulation during fruit ripening. Acta Horticulturae 187-194. 

• Choudhury, S.R., Roy, S., Singh, S.K., and Sengupta, D.N. (2010). Understanding the molecular mechanism of transcriptional regulation of banana sucrose phosphate synthase (SPS) gene during fruit ripening: An insight into the functions of various cis-acting regulatory elements. Plant Signaling and Behavior 5: 553-557. 

• Choudhury, S.R., Roy, S., Singh, S.K., and Sengupta, D.N (2010). Molecular characterization and differential expression of ß-1,3-glucanase during ripening in banana fruit in response to ethylene, auxin, ABA, wounding, cold, and light–dark cycles. Plant Cell Reports 29: 813-828. 

• Singh, S.K., Roy, S., Choudhury, S.R., and Sengupta, D.N. (2010). DNA repair and recombination in higher plants: insights from comparative genomics of arabidopsis and rice. BMC Genomics 11: 443. 

• Choudhury, S.R.*, Singh, S.K.*, Roy, S., and Sengupta, D.N. (2010). An insight into the sequential, structural and phylogenetic properties of banana ACC synthase and study of its interaction with PLP and AVG. Journal of Bioscience. 35; 281–294. (* equal contributing authors). 

• Roy, S., Singh, S.K., Choudhury, S.R., and Sengupta, D.N. (2009). An insight into the biological functions of family X-DNA polymerase in DNA replication and repair of plant genome. Plant Signaling and Behavior 4: 678-681. 

• Singh, S.K., Choudhury, S.R., Roy, S., and Sengupta, D.N. (2008). Sequential, structural, and phylogenetic study of BRCT module in plants. Journal of Bimolecular Structure and Dynamics 26: 163-272. 

• Choudhury, S.R., Roy, S., Saha, P.P., Singh, S.K., and Sengupta, D.N. (2008). Characterization of differential ripening pattern in association with ethylene biosynthesis in the fruits of five naturally occurring banana cultivars and  detection of a GCC-box-specific DNA-binding protein. Plant Cell Reports 27: 1235–1249.

• Roy, S., Sarkar, S.N., Singh, S.K., and Sengupta, D.N. (2007). A dideoxynucleotide-sensitive DNA polymerase activity characterized from endoreduplicating cells of mungbean (Vigna radiata L.) during ontogeny of cotyledons. FEBS Journal. 274: 2005-2023.

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