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Shree Prakash Pandey

Max Planck Institute for Chemical Ecology (2007)
Area of Interest:
Systems biology, small-RNA mediated gene regulation, plant genomics, molecular ecology, plant -pathogen, -insect interactions
Email ID:
Research Interest:

Probably, the answer to the question, how is organismal complexity encoded by genomes, lies not in number of genes in an organism, rather in the regulation of gene expression including that by small-RNAs (smRNAs). We explore this hypothesis by combining systems biology, next-generation deep sequencing, experimental and field biology approaches. Current projects include:

1. The role of small-RNA pathways in plant stress adaptation

2. Understanding conceptual parallels between eukaryotic and prokaryotic small-RNA pathways

3. The role of small-RNA pathway in regulating S. meliloti adaptation during symbiosis

4. Exploring 21st generation antibiotics

Academic Qualification:

1. PhD,  Max Planck Institute for Chemical Ecology, and FSU, Jena, Germany (2004-2007)

2. Advance Post-Graduate Diploma in Bioinformatics, Jawaharlal Nehru University, New Delhi, India (2003-2004)

3. MSc (Ag) in Genetics and Plant Breeding, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, India (2001-2003)

4. BSc (Ag) Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, India (1997-2001)


Assistant Professor, Dept. of Biological Sciences, Indian Institute of Science Education and Research Kolkata (IISERK), India (July 2011 – till now)

Head of Max Planck-India partner group of Max Planck Institute for Chemical Ecology at IISERK (July 2011 – till now)

Post-doctoral associate, Dept. of Biology (Graham Walker lab), Massachusetts Institute of Technology (MIT), Cambridge, USA (Nov. 2008 – June 2011)

Post-doctoral fellow, Dept. of Plant Microbe Interaction (Imre Somssich lab), Max Planck Institute for Plant Breeding Research, Cologne, Germany (March 2008 – Oct. 2008)

Post-doctoral fellow, Dept. of Molecular Ecology (Ian Baldwin lab), Max Planck Institute for Chemical Ecology, Jena, Germany (Sept. 2007 – Feb. 2008)

Awards and Honors:

Head of Max Planck-India partner group of Max Planck Institute for Chemical Ecology at IISERK (selected in 2011)

Otto-Hahn Medal of Max Planck Society, Germany (2009)

Life Science and Physics Award of Beutenberg-Campus Jena e.V., Jena, Germany (2009)

Max Planck Fellowship for Post-doctoral research (2007- 2008)

Summa cum laude for Ph.D. thesis (2008)

Max Planck Fellowship for PhD work (2004-2007)

CSIR JRF-NET fellowship (Joint CSIR-UGC (India) Junior Research Fellowship and Eligibility for

Lecturership; June 2003)

GATE - 2003 (Graduate Aptitude Test in Engineering)

Department of Biotechnology Scholarship (Government of India) for Advanced (PG) Diploma in

Bioinformatics (2003 – 2004)

Visiting (summer) fellow of Indian Academy of Sciences, Bangalore, India (2000)

List of Publications:

23. Singh RK, Gase K, Baldwin IT, and Pandey SP (2015): Molecular evolution and diversification of the Argonaute family of proteins in plants. BMC Plant Biology 15:23.

22. Srivastava PK, Moturu TR, Pandey P, Baldwin IT and Pandey SP (2014): A comparison of performance of plant miRNA target prediction tools and the characterization of features for genome-wide target prediction. BMC Genomics, 15(1): 348. [Highly Accessed]

21. Pandey SP, Winkler JA, Li H, Camacho DM, Collins JJ and Walker GC (2014): Central role for RNase YbeY in Hfq-dependent and Hfq-independent small-RNA regulation in bacteria. BMC Genomics, 15(1): 121. [Highly Accessed]

20. Pandey SP, Moturu TR and Pandey P (2013): Roles of Small RNAs in Regulation of Signaling and Adaptive Responses in Plants. In Mandal, S. S. (ed.), Recent Trends in Gene Expression. Nova Publishers, Chapter 5, pp. 107-132

19. Kusari S, Pandey SP, Spiteller M (2013): Untapped mutualistic paradigms linking host plant and endophytic fungal production of similar bioactive secondary metabolites. Phytochemistry, Jul;91:81-7

18. Bozorov TA, Pandey SP, Dinh ST, Kim S, Heinrich M, Gase K, Baldwin IT (2012): DICER like proteins and their role in plant-insect interaction in Nicotiana attenuata. Journal of Integrative Plant Biology 2012, 54 (3): 189-206

17. Pandey SP, Minesinger BK, Kumar J and Walker GC (2011): A highly conserved protein of unknown function inSinorhizobium meliloti affects sRNA regulation similar to Hfq. Nucleic Acids Research, 39 (11): 4691-470.

16. Pandey SP, Roccaro M, Logemann E, Somssich IE (2010): WRKY 18 and 40 transcription factors modulate key Arabidopsis responses to powdery mildew infection. The Plant Journal, 64: 912-923.

15. Barra-Bily L, Pandey SP, Trautwetter A, Blanco C and Walker GC (2010): The Sinorhizobium meliloti RNA chaperone Hfq mediates symbiosis of S. meliloti and alfalfa. Journal of Bacteriology, 192: 1710- 1718.

14. Barra-Bily L, Fontenelle C, Jan G, Flechard M, Trautwetter A, Pandey SP, Walker GC and Blanco C (2010): Proteomic alterations explain phenotypic changes in Sinorhizobium meliloti lacking RNA chaperon Hfq. Journal of Bacteriology, 192: 1719-1729.

13. Jaiswal SK, Pandey SP, Sharma S, Prasad P, Prasad LC, Verma RPS and Joshi AK (2010): Diversity in Indian barley (Hordeum vulgare)cultivars and identification of genotype specific fingerprints using microsatellite markers. Journal of Genetics, 89: e46-e54.

12. Pandey SP and Somssich IE (2009): The role of WRKY transcription factors in plant immunity. PlantPhysiology 150: 1648-1655.

11. Gális I, Gaquerel E, Pandey SP and Baldwin IT (2009): Molecular mechanisms underlying plant memory in JA-mediated defense responses. Plant Cell and Environment, 32: 617-627.

10. Pandey SP, Shahi P, Gase K, and Baldwin IT (2008): Changes in small-RNA transcriptome and phytohormone signaling during herbivore attack in Nicotiana attenuate. Proceeding of NationalAcademy of Sciences, USA (PNAS), 105: 4559-4564 (featured in news in PhysOrg.com: http://www.physorg.com/news125240204.html).

9. Pandey SP and Baldwin IT (2008): Silencing RNA-directed RNA polymerase 2 (RdR2) increases Nicotiana attenuata's susceptibility to UV in the field and in the glasshouse. The Plant Journal, 54: 845-862.

8. Pandey SP, Gaquerel E, Gase K, and Baldwin IT (2008): RNA-directed RNA polymerase (RdR) 3 from Nicotiana attenuata is required for competitive growth in natural environments. Plant Physiology, 147: 1212-1224.

7. Pandey SP, Sharma S, Chand R, Shahi P, and Joshi AK (2008): Clonal variability and its relevance in generation of new pathotypes in the spot blotch pathogen, Bipolaris sorokiniana. Current Microbiology, 56: 33-41.

6. Pandey SP and Baldwin IT (2007): RNA-directed RNA polymerase 1 (RdR1) mediates the resistance of Nicotiana attenuata to herbivore attack in nature. The Plant Journal, 50: 40-53 [Cover Page Featured; Faculty of 1000 recommended].

5. Pandey SP and Krishnamachari A (2006): Computational analysis of plant RNA Pol-II promoters.Biosystems, 83: 38-50 (Online 19 Oct. 2005; Among "Top 25 Hottest Articles, Oct-Dec, 2005" In Biosystems).

4. Pandey SP, Kumar S, Kumar U, Chand R, Joshi AK (2005): Sources of inoculum and reappearance of spot blotch of wheat in rice-wheat cropping systems in eastern India. European Journal of Plant Pathology, 111: 47-55.

3. Jaiswal SK, Sweta, Prasad LC, Sharma S, Kumar S, Prasad R, Pandey SP, Chand R, Joshi AK (2007): Identification of molecular marker and aggressiveness for different groups of Bipolaris sorokiniana isolates causing spot blotch disease in wheat (Triticum aestivum L.). Current Microbiology, 55: 135-141.

2. Singh RK, Mishra RPN, Jaiswal HK, Kumar V, Pandey SP, Rao SB, Annapurna K (2006): Isolation and identification of natural endophytic rhizobia from rice (Oryza sativa L.) through rDNA PCR-RFLP and sequence analysis. Current Microbiology, 52: 345-349.

1. Chand R, Pandey SP, Singh HV, Kumar S, and Joshi AK (2003): Variability and its probable cause in the natural populations of Bipolaris sorokiniana of wheat (T. aestivum L.) in India. J. Plant Disease and Protection, 110: 27-35.