Birla Institute of Technology, Mesra
Dr. Kunal Mukhopadhyay
Professor and Head, Bioengineering and Biotechnology
M.Sc., Ph.D., Rockefeller Foundation Fellow
Contact Address
Permanent Address Dept. of Bio-Engineering, BIT Mesra
Local Address Dept. of Bio-Engineering, BIT Mesra
Phone (Office) 0651-2276223
Phone Residence 0651-2276223
Email Id
Joined Institute on : 10-Jul-2003

  Research Areas

Thrust Areas of Research:

  • Analysis of Host-Pathogen interaction during leaf rust infection of wheat using transcriptomic and micro RNA mediated approaches.
  • Metabolite profiling, isolation, cloning and sequencing of cDNAs and genes involved in biosynthesis of Anthocyanin and Flavonoids, having potential uses in food and pharmaceutical industry from wheat grass.
  Award and Honours
  1. NET (1987) – CSIR Fellowship (JRF & SRF) to pursue Ph.D. at the Center of Advanced Study, Dept. of Botany, University of Calcutta.
  2. ROCKEFELLER FOUNDATION sponsored Post-Doctoral Fellowship (1994) in ‘International Program on Rice Biotechnology’ at the Dept. of Biochemistry and Molecular Biology, University of Georgia, Athens, GA 30602, USA.
  3. UNIVERSITY OF GEORGIA RESEARCH FOUNDATION sponsored Post-Doctoral Fellowship (1997) at the Dept. of Plant Sciences, Univ. of Georgia, Athens, GA 30602, USA.
  4. CSIR Pool Officer (1999) Molecular Biology Laboratory, Dept. of Botany, University of Calcutta.


International Peer Reviewed Journals & Contributary Book Chapters


Afreen U, Kumar M, Mukhopadhyay K* (2024) Unraveling the role of microRNA-like RNAs in enhancing Puccinia triticina pathogenicity in wheat by high-throughput sequencing data. Physiological and Molecular Plant Pathology

Dhandhanya UK, Mukhopadhyay K, Kumar M (2024) An accretive detection method for in silico identification and validation of circular RNAs in wheat (Triticum aestivum L.) using RT?qPCR. Molecular Biology Reports 51:162


Gidhi A, Mohapatra A, Fatima M, Jha SK, Kumar M, Mukhopadhyay K* (2023) Insights of Auxin signaling F-box genes in wheat (Triticum aestivum L.) and their dynamic expression during the leaf rust infection. Protoplasma 260(3):723-739. 10.1007/s00709-022-01808-4

Kumari P, Misra M, Mukhopadhyay K, Chattopadhyay S (2023) In-silico identification and characterization of lipase gene sequences present in hexaploid wheat. South African Journal of Botany, 161: 482-488. DOI: 10.1016/j.sajb.2023.08.038


Jha P, Ghosh S, Vidyarthi AS, Singh J, Mukhopadhyay K, Prasad R (2022) Unravelling the microbial community structure and function of coal-bed methane producing formation water of Jharia coal mines using metagenomics approach. Fuel 123459


Gidhi A, Kumar M, Mukhopadhyay K* (2021) The Auxin Response Factor gene family in wheat (Triticum aestivum L.): Genome-wide identification, characterization and expression analyses in response to leaf rust. South African Journal of Botany, 140:  312-325. DOI:10.1016/j.sajb.2020.06.017

Singh P, Mukhopadhyay K* (2021) Comprehensive molecular dissection of TIFY Transcription factors reveal their dynamic responses to biotic and abiotic stress in wheat (Triticum aestivum L.). Scientific Reports 11:9739

Adhikari M, Mukhopadhyay K, Sarkar B (2021) Flavonoid-rich wheatgrass (Triticum aestivum L.) diet attenuates diabetes by modulating antioxidant genes in streptozotocin-induced diabetic rats. Journal of Food Biochemistry 45(4): e13643
DOI: 10.1111/jfbc.13643 

Roy Sarkar S, Mitra Mazumder P, Chatterjee K, Sarkar A, Adhikary M, Mukhopadhyay K, Banerjee S. (2021) Saccharomyces boulardii ameliorates gut dysbiosis associated cognitive decline. Physiol Behav. 236:113411. doi: 10.1016/j.physbeh.2021.113411.


Dutta S, Afreen U, Kumar M, Mukhopadhyay K* (2020) Small RNA in tolerating various biotic stresses. In: Guleria P and Kumar V (ed.) Plant Small RNA, 1st Edition, Biogenesis, Regulation and Application. ELSEVIER BV. Published: 1st February 2020. DOI: 10.1016/B978-0-12-817112-7.00008-0

Singh A, Ghosh Sachan S, Mukhopadhyay K, Kumar M, Sachan A (2020) A rapid and simple ultra-high-performance liquid chromatography method for the simultaneous determination of methoxyphenol derivatives involved in the eugenol catabolic pathway. Journal of Separation Science. 43(5): 848-1018. DOI: 10.1002/jssc.201900939

Gaggar P, Kumar M, Mukhopadhyay K* (2020) Genome-scale identification, in silico characterization and interaction study between wheat SNARE and NPSN gene families involved in vesicular transport. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI: 10.1109/TCBB.2020.2981896

Gidhi A, Kumar M, Mukhopadhyay K* (2020) The Auxin Response Factor gene family in wheat (Triticum aestivum L.): Genome-wide identification, characterization and expression analyses in response to leaf rust. South African Journal of Botany. DOI:1 0.1016/j.sajb.2020.06.017


Dutta S, Kumar M, Mukhopadhyay K* (2019) Identification and Validation of Leaf Rust Responsive Wheat isomiRs and their Target Genes in both Wheat and Puccinia triticina. Tropical Plant Biology DOI:

Dutta S, Kumar M, Mukhopadhyay K* (2019) Development of a rapid RNA extraction procedure from urediniospores of the leaf rust fungus, Puccinia triticina. Journal of Microbiological Methods 158:1-5 DOI: 10.1016/j.mimet.2019.01.010 IF 1.701

Dutta S, Jha S, Prabhu KV, Kumar M, Mukhopadhyay K* (2019) Leaf rust (Puccinia triticina) mediated RNAi in wheat (Triticum aestivum L.) prompting host susceptibility. Functional & Integrative Genomics 19(3):437-452 DOI:10.1007/s10142-019-00655-6 IF 3.889

Adya R, Mohan M, Mukhopadhyay K., Poddar R (2019) Investigation of Puccinia triticina contagion on wheat leaves using swept source optical coherence tomography. Optik 178: 932-937 DOI: 10.1016/j.ijleo.2018.10.005

Sharan S, Sarin NB, Mukhopadhyay K* (2019) Elicitor-mediated enhanced accumulation of ursolic acid and eugenol in hairy root cultures of Ocimum tenuiflorum L. is age, dose, and duration dependent. South African Journal of Botany 124: 199-210 DOI: 10.1016/j.sajb.2019.05.009 IF 1.442


Singh A, Mukhopadhyay K, Ghosh Sachan S (2018) Biotransformation of eugenol to vanillin by a novel strain Bacillus safensis SMS1003. Biocatalysis and Biotransformation 37(4): 291-303 DOI: 10.1080/10242422.2018.1544245

Sarkar B, Vyas P, Haque I, Mukhopadhyay K (2018) A rapid UPLC method for simultaneous separation and detection of anthocyanidins from Ocimum, Hibiscus and Syzygium species and estimation of their antioxidant activity. Journal of Liquid Chromatography & Related Technologies, 41:10, 658-667, DOI: 10.1080/10826076.2018.1506932

Satapathy L, Kumar D, Kumar M, Mukhopadhyay K (2018) Functional and DNA–protein binding studies of WRKY transcription factors and their expression analysis in response to biotic and abiotic stress in wheat (Triticum aestivum L.) 3Biotech 8(1):40 DOI: 10.1007/s13205-017-1064-3.

Singh S., Sarkar B., Mukhopadhyay K., Banerjee M., Kumar M. (2018) Antioxidants, DNA Damage Protective Properties and Antibacterial Activity of Leaf Extract of Phlogacanthus thyrsiflorus Nees. Asian Jr. of Microbiol. Biotech. Env. Sc. 20: S145-S151


Singh D, Kumar D, Satapathy L, Pathak J, Chandra S, Riaz A, Bhaganagre G, Dhariwal R, Kumar M, Prabhu KV, Balyan HS, Gupta PK, Mukhopadhyay K (2017) Insights of Lr28 mediated wheat leaf rust resistance: Transcriptomic approach. Gene 637: 72–89 DOI: 10.1016/j.gene.2017.09.028 IF: 2.015

Dutta S, Kumar D, Jha S, Prabhu KV, Kumar M, Mukhopadhyay K* (2017) Identification and molecular characterization of a trans-acting small interfering RNA producing locus regulating leaf rust responsive gene expression in wheat (Triticum aestivum L.) Planta 246:939–957 DOI: 10.1007/s00425-017-2744-2 IF: 3.347

Chandra S, Singh D, Pathak J, Kumari S, Kumar M, Poddar R, Balyan HS, Prabhu KV, Gupta PK, Mukhopadhyay K* (2017) SNP discovery from next-generation transcriptome sequencing data and their validation using KASP assay in wheat (Triticum aestivum L.) Molecular Breeding 37: 92 DOI: 10.1007/s11032-017-0696-7 IF: 2.465

Chandra S, Kazmi AZ, Ahmed Z, Roychowdhury G, Kumari V, Kumar M, Mukhopadhyay K* (2017) Genome-wide identification and characterization of NB-ARC resistant genes in wheat (Triticum aestivum L.) and their expression during leaf rust infection. Plant Cell Reports 36:1097–1112 DOI: 10.1007/s00299-017-2141-0 IF: 3.08

Vyas P and Mukhopadhyay K* (2017) Elicitation of phenylpropanoids and expression analysis of PAL gene in suspension cell culture of Ocimum tenuiflorum L.  Proceedings of the National Academy of Sciences, India Section B: Biological Sciences DOI: 10.1007/s40011-017-0858-8 2013 IF 0.396

Chandra S., Haldar P., Kumar M., Mukhopadhyay K* (2017) Genome-wide identification, cloning and characterization of SNARE genes and their role against leaf rust in bread wheat (Triticum aestivum L.). Agri Gene 3:12-20

Kumar D, Dutta S, Singh D, Prabhu KV, Kumar M, Mukhopadhyay K* (2017) Uncovering leaf rust responsive miRNAs in wheat (Triticum aestivum L.) using high-throughput sequencing and prediction of their targets through degradome analysis. Planta (2017) 245:161–182 DOI 10.1007/s00425-016-2600-9 IF: 3.347


Chandra S, Singh D, Pathak J, Kumari S, Kumar M, Poddar R, Balyan HS, Gupta PK, Prabhu KV, Mukhopadhyay K* (2016). De novo assembled wheat transcriptomes delineate differentially expressed host genes in response to leaf rust infection. PLoS ONE 11(2): e0148453. Doi:10.1371/journal.pone.0148453 IF: 3.234


Dhariwal R, Gahlaut V, RG Bhaganagare, Singh D, Mathur S, Vyas S, Bandopadhyay R, Khurana JP, Tyagi AK, Prabhu KV, Mukhopadhyay K, Balyan H S, Gupta P K (2015) Stage-specific reprogramming of gene expression characterizes Lr48-mediated adult plant leaf rust resistance in wheat. Funct Integr Genomics 15(2):233-45 DOI 10.1007/s10142-014-0416-x IF: 2.265

Kumar A, Bhaskar A, Chandra S, Sasmal D., Mukhopadhyay K, Sharma N (2015) Mechanism of Deltamethrin induced Immunotoxicity: Current and Future Perspectives. Receptors & Clinical Investigation 2015; 2: e578. DOI: 10.14800/rci.578; © 2015

Kumar A, Bhaskar A, Chandra S, Sasmal D, Mukhopadhyay K, Sharma N (2015) Mechanism of Deltamethrin induced Immunotoxicity: Current and Future Perspectives. Receptors & Clinical Investigation 2015; 2: e578. doi: 10.14800/rci.578


Kumar D, Singh D, Kanodia P, Prabhu K V, Kumar M, Mukhopadhyay K* (2014) Discovery of novel leaf rust responsive microRNAs in wheat and prediction of their target genes. Journal of Nucleic Acids Article ID 570176 IF: 2.122

Kumar A, Sasmal D, Bhaskar A, Mukhopadhyay K, Thakur A, Sharma N (2014) Deltamethrin-Induced Oxidative Stress and Mitochondrial Caspase-Dependent Signaling Pathways in Murine Splenocytes Environmental Toxicology 31(7):808-819 DOI: 10.1002/tox.22091 IF: 2.868

Kamal S R,  Rani D, Mukhopadhyay K, Banerjee M (2014) Development of hairy root culture system of Phlogacanthus thyrsiflorus Nees. Journal of Applied Research on Medicinal and Aromatic Plants. 1 (3): 107–112 DOI: 10.1016/j.jarmap.2014.08.001

Satapathy L, Singh D, Ranjan P, Kumar D, Kumar M, Prabhu K V and Mukhopadhyay K* (2014) Transcriptome-wide analysis of WRKY transcription factors in wheat and their leaf rust responsive expression profiling. Molecular Genetics and Genomics 289 (6) 1289-1306. DOI: 10.1007/s00438-014-0890-9. IF: 2.622

Kumar D, Kapoor A, Singh D, Satapathy L, Singh A K, Kumar M, Prabhu KV, Mukhopadhyay K* (2014) Functional characterization of a WRKY Transcription Factor of wheat and its expression analysis during leaf rust pathogenesis Functional Plant Biology 41: 1295–1309 IF: 3.145

Vyas P, Haque I, Kumar M, Mukhopadhyay K* (2014) Photocontrol of differential gene expression and alterations in foliar anthocyanin accumulation: a comparative study using red and green forma Ocimum tenuiflorum. Acta Physiologiae Plantarum 36:2091-2102 DOI: 10.1007/s11738-014-1586-9 IF: 1.563

Sarkar B, Kumar D, Sasmal D, Mukhopadhyay K* (2014) Antioxidant and DNA damage protective properties of anthocyanin rich extracts from Hibiscus and Ocimum: a comparative study. Natural Product Research. 28(17):1393-1398 DOI: 10.1080/14786419.2014.904309 IF: 0.919

Vyas P.  Mukhopadhyay K* (2014) Development of a rapid and high frequency Agrobacterium rhizogenes mediated transformation protocol for Ocimum tenuiflorum. Biologia (Section Botany) 69/6: 765—770 DOI: 10.2478/s11756-014-0375-7 IF: 1.555

Renu IK, Haque I, Kumar M, Poddar R, Bandopadhyay R, Rai A, Mukhopadhyay K* (2014) Characterization and functional analysis of Eugenol O-methyltransferase gene reveal metabolite shifts, chemotype specific differential expression and developmental regulation in Ocimum tenuiflorum L. Mol Biol Rep 41:1857–1870 DOI 10.1007/s11033-014-3035-7-7 IF: 2.024


Shrivastava S, Shukla P, Deepalakshmi PD, Mukhopadhyay K* (2013) Characterization, cloning and functional expression of novel xylanase from Thermomyces lanuginosus SS-8 isolated from self-heating plant wreckage material. World J Microbiol Biotechnol 29(12):2407-15 DOI 10.1007/s11274-013-1409-y. IF: 1.532

Paramaguru RKD, Mitra Mazumder P, Sasmal D, Kumar D, Mukhopadhyay K* (2013) Evaluation of antioxidant and DNA nicking potential along with HPTLC ?ngerprint analysis of different parts of Pterospermum acerifolium (L.) Willd. Free Radicals and Antioxidants 3: 100-106 doi. /10.1016/j.fra.2013.05.002. IF: 1.873

Chaudhary B and Mukhopadhyay K* (2013) Solvent optimization for anthocyanin extraction from Syzygium cumini L. Skeels using response surface methodology International Journal of Food Sciences and Nutrition. 64(3):363-371. doi: 10.3109/09637486.2012.738647. IF: 1.451


Singh D, Bhaganagare G, Bandopadhyay R, Prabhu KV, Gupta PK and Mukhopadhyay K* (2012) Targeted spatio-temporal expression-based characterization of state of infection and time-point of maximum defense in wheat NILs during leaf rust infection. Mol Biol Rep 39:9373–9382 DOI 10.1007/s11033-012-1801-y. IF: 2.024

Mukhopadhyay K.*, Haque I., Bandopadhyay R., Covert S. and Porter D (2012) AFLP based assessment of genetic relationships among shiitake (Lentinula ssp.) mushrooms. Mol Biol Rep DOI 10.1007/s11033-011-1420-z IF: 2.024


Shrivastava S., Shukla P. and Mukhopadhyay K* (2011) Purification and preliminary characterization of a xylanase from Thermomyces lanuginosus strain SS-8. 3 Biotech 1(4): 255–259 DOI: 10.1007/s13205-011-0032-6 IF: 0.992


Haque I., Bandopadhyay R. and Mukhopadhyay K* (2010) Population genetic structure of the endangered and endemic medicinal plant Commiphora wightii.  Mol Biol Rep 37(2):847-854 DOI 10.1007/s11033-009-9661-9 IF: 2.024


Shrivastava S., Poddar R., Shukla P. and Mukhopadhyay K* (2009) Study of codon bias perspective of fungal xylanase gene by multivariate analysis. Bioinformation, 3(10): 425-429.

Haque I., Kumar M. and Mukhopadhyay K* (2009) Rapid and simultaneous determination of medicinally important E- and Z-guggulsterone from oleogum-resins of Commiphora wightii by ultra-performance liquid chromatography-tandem mass spectrometry. Chromatographia 70: 1613-1619.  DOI: 10.1365/s10337-009-1347-x. IF: 1.332

Haque I., Bandopadhyay R. and Mukhopadhyay K* (2009) Intraspecific variation in Commiphora wightii populations based on internal transcribed spacer (ITS1-5.8S-ITS2) sequences of rDNA. Diversity 1, 89-101; doi:10.3390/d1020089


Haque I., Bandopadhyay R. and Mukhopadhyay K* (2008) An optimized protocol for fast genomic DNA isolation from high secondary metabolites and gum containing plants. Asian J Plant Sci 7(3): 304-308. DOI: 10.3923/ajps.2008.304.308

Shrivastava S., Shukla P. and Mukhopadhyay K* (2008) Correlative characterization of changes in hyphal morphology during xylanase production in submerged culture by Thermomyces lanuginosus SS-8. The Internet J of Microbiol Volume 4, Number 2.


Bandopadhyay R., Mukhopadhyay K., Lavanya C. and Chaudhuri R K. (2007) Clarity in castorbean RAPD profiles after mild NaOH treatment of genomic DNAs. J Bot Soc Bengal 61(2): 153-156.

Mukhopadhyay K., Bacon C., Peck H.D and Datta N. (1996). Identification and characterization of bacterial endophytes of rice. Mycopathologia 134:151-159.

Mukhopadhyay K. and Roy S.C. (1994) In vitro induction of ‘runner’ – a quick method of micropropagation in orchid Scientia Horticulturae, 56: 331-337.

Book Chapters

Vyas P., Chaudhary B., Mukhopadhyay K. and Bandopadhyay R. (2009). Anthocyanins: looking beyond colors. (Chapter7) In: Advances in Biotechnology, Eds: Bhowmik P, Basu SK and Goyal A; Bentham Science Publishers Ltd. Oak Park, IL, USA. Pp 152-184

Bandopadhyay R., Haque I., Singh D. and Mukhopadhyay K. (2009). Levels and stability of expression of transgenes. In: Transgenic Crop Plants. Vol-I, Principles and Development. Eds: Chittaranjan Kole, Charles H. Michler, Albert G. Abbott and Timothy C. Hall, Springer-Verlag GmbH, Berlin Heidelberg, Germany.  (In Press).

R.K. Chaudhuri, K. Mukhopadhyay, I. Chaudhuri and R. Bandopadhyay (2004). Plant MADS-box genes: a review with a reference on inflorescence development in Ricinus communis L. In: Recent Advances in Life Science Ed: Nandan Bhattacharya; Research Signpost, pp. 25-43.

* - Corresponding Author

Proceedings International Symposia

Kumar D, Kumar M and Mukhopadhyay K (2014). Non-coding regulatory RNAs and crop improvement. National Symposium on Advances in Biotechnology for Crop Improvement. 12 July 2014. Eternal university, Baru Sahib, H. P.

Kumar D, Kapoor A, Satapathy L, Kumar M and Mukhopadhyay K (2013). Functional characterization of a wheat WRKY transcription factor with a protective role in leaf rust pathogenesis and AFM imaging of the protein-DNA complex. Poster Presented in BGRI Technical Workshop 2013, held in New Delhi, India.

Singh D, Bhaganagare G, Kumar M, Bandopadhyay R, Prabhu KV, Balyan H S, Gupta PK and    Mukhopadhyay K. Comprehensive transcriptome characterization of wheat NILs in        response to leaf rust disease using next generation SOLiD-SAGE sequence data. 13th      International Cereal Rust and Powdery Mildew Conference, 28 Aug to 01 Sept, 2012.   Beijing, China.

Kumar D, Kapoor A, Mukhopadhyay K and Kumar M. Molecular characterization and protein- DNA interaction analysis of a WRKY transcription factor during leaf rust infection in       wheat. BGRI 2012 Technical Workshop 01 to 04 Sept 2012. Beijing, China.

I. Haque, R. Bandopadhyay & K. Mukhopadhyay (2007) Molecular Analysis of Population Structure of Guggul (Commiphora wightii) Biotypes: A Rare and Endangered Medicinal Plant Endemic to India. Plant and Animal Genome International Conference (PAG XV), San Diego, California, USA; Jan 11 – 17, 2007.

V. Paritosh, I. Haque, I. K Renu, M. Kumar, R. Bandopadhyay & K. Mukhopadhyay (2007) Assessment of Genetic Variation Among the Chemotypes of Tulsi: The Indian Holy Basil Plant. Plant and Animal Genome International Conference (PAG XV), San Diego, California, USA; Jan 11 – 17, 2007.


  Current Sponsored Projects

Ongoing Research Projects

Title of Project

Funding Agency



Sanctioned amount (Lacs)

Identification and Molecular Characterization of SNARE Genes in Wheat (Triticum aestivum L.) in Response to Leaf Rust Disease


01.01.17 To 31.12.19


Completed Research Projects

Title of Project

Funding Agency


Sanctioned amount (INR)

Principal Investigator & Project Coordinator

Discovery, annotation, validation and validation of SNPs in wheat (Triticum aestivum L.) and haplotype structure determination using Next Generation Sequencing data.

Department of Biotechnology, Govt. of India

June, 12 To

May 16



Principal Investigator (at BIT Mesra)

To understand the nature of diversity in lac insects of Kerria spp. in India and the nature of insect x host interaction


Apr 09 To March 14


Principal Investigator

Overproduction of anthocyanin, the plant derived natural colourant, for food processing industries

Ministry of Food Processing Industries

Feb 08 TO

Feb 10



Principal Investigator

Study of Antioxidative and DNA protective properties of Anthocyanins

University Grants Commission

Jan 09 To

Jan 12


Principal Investigator & Project Coordinator

Analysis of Host-Pathogen interaction in leaf rust infection of wheat: A transcriptomic approach.

Department of Biotechnology, Govt. of India

Oct 07 TO

Nov 10




Development of Probes for early detection of microorganisms responsible for food spoilage during food processing and preservation

Ministry of Food Processing Industries

Jan 06 TO

Dec 08



Principal Investigator

Study of biodiversity and molecular documentation of Commiphora wightii biotypes using plant biotechnological approaches

Department of Biotechnology, Govt. of India

Nov 04


Nov 07



  Intellectual Property Rights (IPR)

Filled (Application number: 141/KOL/2010) “Novel ß-1, 4-endoxylanase from Thermomyces lanuginosus SS-8 and the mode of action thereof”. S. Shrivastava, P. Shukla, K. Mukhopadhyay