National Institute of Plant Genome Research
Digital India     
    Dr. Manoj Prasad
    FNASc, FNAAS, FNA, Staff Scientist VII & J. C. Bose National Fellow
    Ph.D: Calcutta University
    Postdoctoral Fellow: Institute for Plant Genetics & Crop Plant Research (AvH fellow), Gatersleben, Germany
    Tel: 91-11-26741612,14,17 Ext. - 160
    Direct - 26735160, Fax: 91-11-26741658
    Webpage: Google Scholar   Research Gate
Staff Scientist VII, National Institute of Plant Genome Research (2019-present).
Staff Scientist VI, National Institute of Plant Genome Research (2016-2019).
Staff Scientist V, National Institute of Plant Genome Research (2012-2016).
Staff Scientist IV, National Institute of Plant Genome Research (2008-2012).
Staff Scientist III, National Institute of Plant Genome Research (2004-2008).
Post Doctoral Fellow, Institute for Plant Genetics & Crop Plant Research, Gatersleben, Germany (2000-2003).
Research Associate, Ch. Charan Singh University, Meerut (1998-2000).
 Awards and Honours
J. C. Bose National Fellow - by the DST-SERB, Govt. of India (2018).
Fellow, The Indian National Science Academy (INSA), India (2017).
Fellow, Indian Virological Society (IVS), India (2015).
Fellow, The National Academy of Agricultural Sciences (NAAS), India (2013).
Fellow, The National Academy of Sciences (NASI), India (2012).
TATA Innovation Fellowship by the Department of Biotechnology, Govt. of India (2016)
National Bioscience Award - 2014 from Department of Biotechnology, Govt. of India.
Academic/Associate Editor of Nature Scientific Reports, BMC Plant Biology, PLoS ONE, Plant Molecular Biology Reporter, Plant Cell Reports, Plant Cell, Tissue and Organ Culture, Molecular Biology Reports, Acta Physiologiae Plantarum, Plant Breeding, Journal of Genetics
Coordinator, International Climate-Resilient Crop Genomics Consortium (ICRCGC)
Prof. Hira Lal Chakravarty Memorial award, Indian Science Congress Association, India (2010-2011)
Visiting Scientist, Dept. of Plant Pathology, Univ. of Minnesota, USA (2007)
Biotechnology Overseas Associateship, Department of Biotechnology, India (2006-2007)
NAAS Associateship, The National Academy of Agricultural Sciences (NAAS), India (2006-2010)
NAAS Young Scientist, The National Academy of Agricultural Sciences (NAAS), India (2003-2004)
Research Scientist, IPK, Gatersleben, Germany (2002-2003).
Alexander von Humboldt Fellow, AvH foundation, Bonn, Germany (2000-2001)
National Merit Scholarship, Government of India (1992-1994)
Medal and Certificate of Honour, Ramkrishna Mission V. C. Collage, Calcutta University, (1992)
 Research Area
Plant Molecular Genetics and Genomics, Stress Biology.
 Research Program
Development of genomic resources for the model plant, foxtail millet

Foxtail millet [Setaria italica (L.) BEAUV] is the world’s second largely produced millet crop. Its prominent attributes such as small genome size (~515 Mb), less repetitive DNA, in-breeding nature and genetic close-relatedness to bioenergy grasses has promoted the crop as a tractable experimental model system. Noteworthy, it is one of the oldest domesticated diploid C4 Panicoid crop with potential abiotic stress tolerance, particularly towards drought and salinity. Hence it is imperative to understand and analyse its genome for generating novel tools such as DNA markers to encourage molecular breeding for crop improvement. Considering this, we have generated novel intron length polymorphic (ILP) markers and genomic simple sequence repeat (SSR) markers in foxtail millet. The release of genome sequence in 2012 had motivated us to conduct genome-wide analyses for generating large-scale genomic SSRs, genic SSRs and ILP markers. We had also demonstrated the utility of these markers in germplasm characterization, transferability, phylogenetics and comparative mapping studies in millets and bioenergy grass species. With the availability of large-scale molecular markers and high-density physical and comparative maps, we had constructed Foxtail millet Marker Database (FmMDb) to provide the breeders an unrestricted access to the developed genomic resources. Thus our database promisingly bridges the gap between researchers and breeders in hastening molecular breeding for crop improvement of both millet and bioenergy grass species. Using the developed markers, we performed genetic diversity, population structure and association mapping analysis for 20 yield contributing agronomic traits in a core-collection of 184 foxtail millet accessions. Noteworthy, this is the first report on association mapping in Indian foxtail millet germplasm and this will serve as a base in foxtail millet breeding to further uncover marker-trait associations with a large number of markers.

Seamlessly, we are engaged in developing more genomic resources and our on-going research in this area includes;

  1. Development of novel molecular markers in large-scale for genome analysis.
  2. Genome-wide association mapping of important agronomic and drought related traits using high-throughput sequencing platforms.
Dissecting the molecular mechanism of abiotic stress response in foxtail millet
Being sessile, plants are continually challenged by an array of environmental stresses which pose devastating threat to its existence and development. Of the diverse abiotic stresses, salinity and drought-stress contributes extensively to the yield reduction in agronomically valued crops. This urged us to decipher the molecular mechanism involved in resistant plants towards these abiotic stresses and so we selected foxtail millet as our experimental model. In this context, we examined the transcript profiles of foxtail millet at different time points of dehydration and salinity stress and identified a distinct set of genes in response to these stresses. Further we showed that only 10% genes coincided under both the stresses suggesting a distinct mechanism to perceive and respond to salt- and dehydration-stress conditions. Recently we had characterized DREB- and NAC- transcription factors, which regulate the expression of various stress-inducible genes for conferring drought and salinity tolerance, respectively. Noteworthy, our genome-wide studies of NAC transcription factors and WD40 proteins were the first reports on elucidating the expression profiling, structural and evolutionary analyses, and molecular modeling of respective gene/protein families in foxtail millet.

Long term goal of our research is the molecular dissection of transcriptional machinery e.g. identification and characterization of transcription factors controlling the expression of drought and salt-induced genes for understanding the drought/salt-induced signal transduction events and eventually leading towards development of crop varieties superior in stress-tolerance by genetic manipulation.

We had reported our landmark findings in reputed journals such as PLoS ONE, Plant Cell Tiss Organ Cult, Genomics, Mol Biotechnol, J Exp Bot, Protoplasma, J Plant Physiol, Biochem Biophy Res Commun, Mol Biotechnol, Plant Breed, J Plant Biochem Biotechnol, and published comprehensive reviews in Trends Plant Sci, Crit Rev Biotechnol, J of Exp Bot, J Plant Biochem Biotechnol .

The on-going studies in this area include:

  1. Genome-wide comparative methylome analysis of drought and salinity stress.
  2. Identifying and elucidating the role of stress-responsive microRNAs.
  3. Molecular characterization of stress-responsive proteins conferring stress tolerance.
  4. Conducting genome-wide surveys, expression profiling, structural and evolutionary analyses of gene families which play a crucial role in stress tolerance.
Investigating the biotic stress response of tomato towards Tomato Leaf Curl Virus
Tomato (Solanum lycopersicum L.) is the second most important and popular vegetable crop after potatoes in the world. Tomato leaf curl disease (ToLCD), caused by the Tomato Leaf Curl Virus (ToLCV) is one of the most devastating diseases of tomato, especially in tropical and subtropical climates. The disease is reported to be caused by different species of whitefly-transmitted Geminiviruses (Genus: begomovirus) which has mono-/bi-partite genome. Monopartite begomoviruses infecting tomato have been reported in different parts of Southern India, whereas bipartite begomoviruses have been reported from northern and western parts. Among these divergent begomoviruses, Tomato leaf curl New Delhi Virus (ToLCNDV) has very wide distribution and host range. We focused our study towards understanding the defense mechanism employed by all the available resistance sources and introgress them into one cultivar for raising a strong and durable resistance.

To study the defense-related host gene expression, we implied the suppression subtractive hybridization technique and reported a total of 106 differentially expressed genes in a tolerant cultivar of tomato. Recently, we had also reported the existence of siRNA-mediated defense in the tolerant cultivar, suggesting the fact that increased level of siRNAs may have a possible correlation with the lower level of viral replication in this cultivar. Subsequently, we mapped the target regions for post-transcriptional and DNA methylation-specific RNA silencing in the ToLCV genome and showed that targeting the viral genomic regions could be a better alternate defense strategy for generating transgenics to prevent yield loss in tomato. This is important because various host factors are involved in assisting in viral replication as well as in the counter defending of viral multiplication. This involves defensive action of the ubiquitin-proteasome system (UPS) as well as epigenetic interference and miRNA-based control. In this regard, studies on detailed mechanistic insight of virus tolerance in tomato are currently being undertaken in our laboratory under the following key objectives:
  1. Deciphering the mechanism of siRNA mediated resistance.
  2. Functional characterization of UPS component gene(s) as novel virus defense components in tolerant tomato cultivar.
  3. Enhancing tolerance of susceptible tomato cultivar through over-expression of candidate gene(s).

Our prime findings on this topic are published in International journals such as Mol Biotechnol, Mol Plant Pathol, and published reviews in Plant Cell Rep, J Biosci, Mol Biotechnol, Protoplasma. , Funct Integr Genomics
Mapping of Mungbean Yellow Mosaic India Virus (MYMIV) resistance loci in Soybean
Mungbean Yellow Mosaic India Virus (MYMIV), a bipartite Geminivirus infects several economically important legume crops and causes severe yield loss. In particular, its infection in Soybean (Glycine max) is devastating and it imposes serious threat to National food security.  Hence, with the aim of generating elite cultivars tolerant to MYMIV, we attempted to develop molecular markers linked with MYMIV-resistance loci in soybean. Screening for MYMIV tolerance among the recombinant inbred line (RIL) population derived from a cross between a resistant cultivar UPSM534 and susceptible cv. JS335 was performed at NIPGR experimental field and selected for mapping the resistance loci. A low-depth whole-genome re-sequencing using Illumina HiSeq 2000 has also been performed for two parents (cv. JS-335 and cv. UPSM-534) for large-scale identification of high-quality polymorphic SNP/InDels markers to map the MYMIV resistance loci.
 Databases Developed (Download Flyer)
Foxtail millet Marker Database (FmMDb)

Foxtail millet Transcription Factor Database (FmTFDb)

Foxtail millet miRNA Database (FmMiRNADb)

Foxtail millet Transposable Elements-based Marker Database (FmTEMDb)

 Special Issues
Research topic Journal Editors Year
Abiotic Stress Signaling in Plants: Functional Genomic Intervention Frontiers in Plant Science Pandey GK, Prasad M, Pandey A, Boemer M 2016
Integrating plant genetics and genomics for delineating climate resilience and health benefitting characteristics from millets Frontiers in Plant Science Prasad M, Yadav R 2017
Harnessing Crop Biodiversity and Genomics Assisted Pre-Breeding Approaches for Next Generation Climate-Smart Varieties Frontiers in Plant Science Vikram P, Prasad M, Singh S, Raman H, Septiningsih EM 2017
 Books Edited
The Foxtail Millet Genome
Prasad, Manoj (Ed.)
Springer International Publishing
eBook ISBN: 978-3-319-65617-5
DOI: 10.1007/978-3-319-65617-5
 Group Members
 Selected Publications (View Complete List)
 Publication 2017 - 2018
Research Articles :-
Salinity induced differential methylation patterns in contrasting cultivars of foxtail millet (Setaria italica L.)
Pandey G, Yadav CB, Sahu PP, Muthamilarasan M, Prasad M
Plant Cell Reports 36: 759-772
  Reviews :-
An insight into plant-Tomato leaf curl New Delhi virus interaction
Sharma N, Prasad M
The Nucleus 60: 335-348
A Functional Genomic Perspective on Drought Signalling and its Crosstalk with Phytohormone-mediated Signalling Pathways in Plants
Tiwari S, Lata C, Chauhan PS, Prasad V, Prasad M
Current Genomics 18: 469-482
Geminiviruses and plant hosts: A closer examination of the molecular arms race
Pandey G, Sharma N, Sahu PP, Prasad M
Viruses 9: E256
Millets for Next Generation Climate-Smart Agriculture
Bandyopadhyay T*, Muthamilarasan M*, Prasad M
(*co-first authors)
Frontiers in Plant Science 8: 1266
  Book Chapters :-
Foxtail Millet: An Introduction
Singh RK, Muthamilarasan M, Prasad M
In: The Foxtail Millet Genome [Prasad M (ed)]
Springer, Doi: 10.1007/978-3-319-65617-5_1
Foxtail Millet Genome Sequencing, Assembly, Annotation, and Application
Muthamilarasan M, Shweta S, Prasad M
In: The Foxtail Millet Genome [Prasad M (ed)]
Springer, Doi: 10.1007/978-3-319-65617-5_2
Transposable Elements in Setaria genomes
Yadav CB, Prasad M
In: The Foxtail Millet Genome [Prasad M (ed)]
Springer, Doi: 10.1007/978-3-319-65617-5_3
Exploiting Genome Sequence Information to Develop Genomic Resources for Foxtail Millet Improvement
Muthamilarasan M, Prasad M
In: The Foxtail Millet Genome [Prasad M (ed)]
Springer, Doi: 10.1007/978-3-319-65617-5_4
Genome-Wide Association Studies for Improving Agronomic Traits in Foxtail Millet
Singh RK, Prasad M
In: The Foxtail Millet Genome [Prasad M (ed)]
Springer, Doi: 10.1007/978-3-319-65617-5_6
Genetic Transformation of Setaria: A new perspective
Sood P, Prasad M
In: The Foxtail Millet Genome [Prasad M (ed)]
Springer, Doi: 10.1007/978-3-319-65617-5_9
Nutrition Potential of Foxtail Millet in Comparison to Other Millets and Major Cereals
Bandyopadhyay T, Jaiswal V, Prasad M
In: The Foxtail Millet Genome [Prasad M (ed)]
Springer, Doi: 10.1007/978-3-319-65617-5_10
Regulation of development and stress response by miRNAs
Yadav A, Hari-Gowthem G, Muthamilarasan M, Prasad M
In: The Foxtail Millet Genome [Prasad M (ed)]
Springer, Doi: 10.1007/978-3-319-65617-5_11
Genomics resources for abiotic stress tolerance in Solanaceae crops
Sharma S, Pandey S, Muthamilarasan M, Chaudhry V, Dulani P, Prasad M
In: The Potato Genome [Chakrabarti SK, Xie C, Tiwari JK (eds)]
Springer, Doi: 10.1007/978-3-319-66135-3_12
Plants' Defense and Survival Strategies versus Pathogens' AntiDefense and Infection Capabilities: The HormoneBased Mechanisms
Sahu PP, Sharma N, Prasad M
In: Mechanism of Plant Hormone Signaling under Stress [Pandey GK (ed)]
Wiley, Doi: 10.1002/9781118889022.ch31
Genomics-Assisted Breeding for Improving Stress Tolerance of Graminaceous Crops to Biotic and Abiotic Stresses: Progress and Prospects
Singh RK, Sahu PP, Muthamilarasan M, Dhaka A, Prasad M
In: Plant Tolerance to Individual and Concurrent Stresses [Senthil-Kumar M (ed)]
Springer pp. 59-81
 Publication 2015 - 2016
Research Articles :-
Structure, organization and evolution of ADP-ribosylation factors in rice and foxtail millet, and their expression in rice
Muthamilarasan M, Mangu VR, Zandikarimi H, Prasad M, Baisakh N
Scientific Reports 6: 24008
Integrative analysis and expression profiling of secondary cell wall genes in C4 biofuel model Setaria italica reveals targets for lignocellulose bioengineering
Muthamilarasan M, Khan Y, Jaishankar J, Shweta S, Lata C, Prasad M
Frontiers in Plant Science 6: 965
Global analysis of WRKY transcription factor superfamily in Setaria identifies potential candidates involved in abiotic stress signalling
Muthamilarasan M, Bonthala V, Khandelwal R, Jaishankar J, Shweta S, Nawaz K, Prasad M
Frontiers in Plant Science, 6: 910 DOI: 10.3389/fpls.2015.00910
Unraveling 14-3-3 proteins in C4 panicoids with emphasis on model plant Setaria italica reveals phosphorylation-dependent subcellular localization of RS splicing factor
Kumar K, Muthamilarasan M, Bonthala VS, Roy R, Prasad M
PLoS ONE, DOI: 10.1371/journal.pone.0123236
Genome-wide SNP identification and characterization in two soybean cultivars with contrasting Mungbean Yellow Mosaic India Virus disease resistance traits
Yadav CB, Bhareti P, Muthamilarasan M, Mukherjee M, Khan Y, Rathi P, Prasad M
PLoS ONE, DOI: 10.1371/journal.pone.0123897
Chilli leaf curl virus infection highlights the differential expression of genes involved in protein homeostasis and defense in resistant chilli plants
Kushwaha N, Sahu PP, Prasad M, Chakraborty S
Applied Microbiology and Biotechnology DOI: 10.1007/s00253-015-6415-6
  Reviews :-
Leaf crinkle disease in urdbean (Vigna mungo L. Hepper): An overview on causal agent, vector and host
Gautam NK, Kumar K, Prasad M
Protoplasma, 253 (3): 729-746
Plant chromatin responses to abiotic stress
Pandey G, Sharma N, Sahu PP, Prasad M
Current Genomics (In Press)
Exploration of millet models for developing nutrient rich graminaceous crops
Muthamilarasan M, Dhaka A, Yadav R, Prasad M
Plant Science, DOI: 10.1016/j.plantsci.2015.08.023
Application of genomics-assisted breeding for generation of climate resilient crops: Progress and prospects
Kole C*, Muthamilarasan M, Henry R, Edwards D, Sharma R, Abberton M, Batley J, Bentley A, Blakeney M, Bryant J, Cai H, Cakir M, Cseke LJ, Cockram J, Oliveira AC, Pace CD, Dempewolf H, Ellison S, Gepts P, Greenland A, Hall A, Hori K, Howe GT, Hughes S, Humphreys MW, Iorizzo M, Ismail AM, Marshall A, Mayes S, Nguyen HT, Ogbonnaya FC, Ortiz R, Paterson AH, Simon PW, Tohme J, Tuberosa R, Valliyodan B, Varshney RK, Wullschleger SD, Yano M, Prasad M* (*Co-corresponding author)
Frontiers in Plant Science, 6: 563 DOI: 10.3389/fpls.2015.00563
Application of molecular antiviral compounds: Novel approach for durable resistance against geminiviruses
Sahu PP, Prasad M
Molecular Biology Reports, DOI: 10.1007/s11033-015-3852-3
  Book Chapters :-
Genetic determinants of drought stress tolerance in Setaria
Muthamilarasan M, Prasad M
In: Genetics and Genomics of Setaria [Doust A, Diao X (eds)] Springer (In press)
Role of Genomics in Enhancing Nutrition Content of Cereals
Muthamilarasan M, Prasad M
In: Advances in Plant Breeding Strategies, Vol 2: Agronomic, Abiotic and Biotic Stress Traits [Al-Khayri JM, Jain SM, Johnson DV (eds)]
Springer pp. 77-96
Advances in Plant Sciences for Nutritional Security
Muthamilarasan M, Prasad M
In: Horticulture for Nutrition Security [Peter KV (ed)]
Astral International Pvt. Ltd. pp. 125–139
Drought stress responses and signal transduction in plants
Lata S, Muthamilarasan M, Prasad M
In: Elucidation of Abiotic Stress Signaling in Plants [Pandey GK (ed)]
Springer pp. 195-225
  General Articles for the Interest of Science Community :-
Establishment of epigenetic mechanism to control geminivirus infection in tomato
Sahu PP, Sharma N, Prasad M
Virus Research News, 3: 3
 Publication 2013 - 2014
  Research Articles
Genome-Wide Investigation and Expression Profiling of AP2/ERF Transcription Factor Superfamily in Foxtail Millet (Setaria italica L.)
Lata S, Mishra AK, Muthamilarasan M, Bonthala VS, Khan Y,Prasad M
PLoS ONE, 9 (11): e113092
Genome-wide development of transposable elements-based markers in foxtail millet and construction of an integrated database
Yadav CB, Bonthala VS, Muthamilarasan M, Pandey G, Khan Y, Prasad M
DNA Research, DOI: 10.1093/dnares/dsu039.
Differential expression of peroxidase and ABC transporter as the key regulatory components for degradation of azo dyes by Penicillium oxalicum SAR-3
Saroj S, Kumar K, Prasad M, Singh RP
Functional and Integrative Genomics DOI: 10.1007/s10142-014-0405-0.
Genetic diversity analysis in a set of Caricaceae accessions using resistance gene analogues
Sengupta S, Das B, Acharyya P, Prasad M, Ghose T
BMC Genetics 15:137.
Identification and molecular characterization of MYB transcription factor superfamily in C4 model plant foxtail millet (Setaria italica L.)
Muthamilarasan M, Khandelwal R, Yadav CB, Bonthala VS, Khan Y, Prasad M
PLoS ONE,  9(10): e109920.
FmTFDb: A foxtail millet transcription factors database for expediting functional genomics in millets
Bonthala VS, Muthamilarasan M , Roy R, Prasad M
Molecular Biology Reports, DOI: 10.1007/s11033-014-3574-y
Genetic diversity of the conserved motifs of six bacterial leaf blight resistance genes in a set of rice landraces
Das B, Sengupta S, Prasad M, Ghose TK
BMC Genetics 15 :82
Development of novel microRNA-based genetic markers in foxtail millet for genotyping applications in related grass species
Yadav CB, Muthamilarasan M, Pandey G, Khan Y, Prasad M
Molecular Breeding, DOI:10.1007/s11032-014-0137-9
C2H2-type of zinc finger transcription factors in foxtail millet define response to abiotic stresses
Muthamilarasan M , Bonthala VS , Mishra AK, Khandelwal R, Khan Y, Roy R, Prasad M
Functional and Integrative Genomics, DOI: 10.1007/s10142-014-0383-2
Identification and validation of an ISSR marker linked to Tomato leaf curl New Delhi virus resistant gene in a core set of tomato accessions
Rai NK, Sahu PP, Gupta S, Reddy MK, Ravishankar KV, Singh M, Sadashiva T, Prasad M
Vegetable Science, 40(1): 1-6.
Identification, characterization and expression profiling of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in foxtail millet
Yadav CB, Muthamilarasan M, Pandey G, Prasad M
Plant Molecular Biology Reporter, (In Press).
Comprehensive genome-wide identification and expression profiling of foxtail millet [Setaria italica (L.)] miRNAs in response to abiotic stress and development of miRNA database
Khan Y, Yadav A, Suresh VB, Muthamilarasan M, Yadav CB, Prasad M
Plant Cell, Tissue and Organ Culture, DOI:10.1007/s11240-014-0480-x
Post-transcriptional and epigenetic arms of RNA silencing: A defense machinery of naturally tolerant tomato plant against Tomato Leaf Curl New Delhi Virus
Sahu PP, Sharma N, Puranik S, Prasad M*
Plant Molecular Biology Reporter, DOI: 10.1007/s11105-014-0708-2
Population structure and association mapping of yield contributing agronomic traits in foxtail millet
Gupta S, Kumari K, Muthamilarasan M, Parida SK and Prasad M
Plant Cell Reports, DOI: 10.1007/s00299-014-1564-0
Genome-wide investigation and expression analyses of WD40 protein family in the model plant foxtail millet (Setaria italica L.)
AK Mishra, M Muthamilarasan, Y Khan, SK Parida, M Prasad
PLoS ONE, DOI:10.1371/journal.pone.0086852
Development of 5123 Intron length polymorphic (ILP) markers for large-scale genotyping applications in foxtail millet [Setaria italica (L.)]
Muthamilarasan M, Suresh BV, Pandey G, Kumari K, Parida SK and Prasad M*
DNA Research, 21(1): 41-52
Genome-wide development and use of microsatellite markers for large-scale genotyping applications in foxtail millet [Setaria italica (L.)].
Pandey G*, Misra G*, Kumari K*, Gupta S, Parida SK, Chattopadhyay D, Prasad M [*equal contribution]
DNA Research 20: 197-207
FmMDb: A versatile database of foxtail millet markers for millets and bioenergy grasses research
Suresh BV*, Muthamilarasan M*, Misra G, Prasad M [*equal contribution]
PLoS ONE 8(8): e71418

Development of eSSR-markers in Setaria italica and their applicability in studying genetic diversity, cross-transferability and comparative mapping in millet and non-millet species
Kumari K*, Muthamilarasan M*, Misra G, Gupta S, Subramanian A, Parida SK, Chattopadhyay D, Prasad M [*equal contribution]
PLoS ONE 8(6): e67742
Comprehensive genome-wide survey, genomic constitution and expression profiling of the NAC transcription factor family in foxtail millet (Setaria italica L.)
Puranik S, Sahu PP, Mandal SN, Suresh BV, Parida SK, Prasad M
PLoS ONE 8(5): e64594
Reference genes for quantitative Real-time PCR analysis in the model plant foxtail millet (Setaria italica L.) subjected to abiotic stress conditions
Kumar K, Muthamilarasan M, Prasad M
Plant Cell, Tissue and Organ Culture | 115(1):3-22
Transcript profiling identifies novel transcripts with unknown functions as primary response components to osmotic stress in wheat (Triticum aestivum L.)
Garg B, Puranik S, Misra S, Tripathi BN, Prasad M
Plant Cell, Tissue and Organ Culture 113: 91-101
Genetic diversity and population structure of rice landraces from Eastern and North Eastern States of India
B Das, S Sengupta, SK Parida, B Roy, M Ghosh, M Prasad, TK Ghose
BMC Genetics 14:71
  Reviews :-
Advances in Setaria genomics for genetic improvement of cereals and bioenergy grasses
Muthamilarasan M, Prasad M
Theoretical and Applied Genetics, DOI: 10.1007/s00122-014-2399-3.
Review on different mechanisms of sex determination and sex- linked molecular markers in dioecious crops - A current update
Heikrujam M, Sharma, K, Prasad M, Agarwal V
Euphytica, 201(2): 161-194.
An overview of wheat genome sequencing and its implications for crop improvement
Muthamilarasan M, Prasad M
Journal of Genetics, DOI: 10.1007/s12041-014-0455-z.
Advances in wheat genomics and its potential in ensuring food security in the scenario of climate change
Muthamilarasan M, Parida SK, Prasad M
Proceedings of the Indian National Science Academy 80: 325-331.
Foxtail millet: A model crop for genetic and genomic studies in bioenergy grasses
Lata C, Gupta S, Prasad M
Critical Reviews in Biotechnology | 33(3):328-343
Involvement of host regulatory pathways during geminivirus infection: a novel platform for generating durable resistance
Sahu PP, Sharma N, Puranik S, Muthamilarasan M, Prasad M
Functional & Integrative Genomics | DOI:DOI 10.1007/s10142-013-0346-z
Epigenetic mechanisms of plant stress responses and adaptation
Sahu PP, Pandey G, Sharma N, Puranik S, Muthamilarasan M, Prasad M
Plant Cell Reports | 32(8):1151-1159
Plant innate immunity: an updated insight in defense mechanism
Muthamilarasan M, Prasad M
Journal of Biosciences 38: 433-449
Recent advances in plant-virus interaction with emphasis on small interfering RNAs (siRNAs)
Sharma N, Sahu PP, Puranik S, Prasad M
Molecular Biotechnology | 55(1):63-77
  Book Chapters :--
Transcription Factors: Modulating plant adaption in the scenario of changing climate
Puranik S, Prasad M
In: Climate Change and Abiotic Stress Tolerance [Tuteja N & Gill SS (eds)]
Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, Germany DOI: 10.1002/9783527675265.ch22.
  General Articles for the Interest of Science Community :--
Impact of Impact Factor in quantifying the quality of scientific research
Muthamilarasan M, Prasad M
Current Science107(8): 1233-1234.
Recent advances in crop genomics for ensuring food security
Muthamilarasan M, Theriappan P, Prasad M
Current Science 105(2): 155-158
Setaria genome sequencing: an overview
Lata C, Prasad M
Journal of Plant Biochemistry and Biotechnology 22: 257-260
Barley genome sequence emerges as a promising candidate in genetic research and breeding
Muthamilarasan M, Prasad M
Current Science 104: 998-999
Cutting-edge research on plant miRNAs
Muthamilarasan M, Prasad M
Current Science 104: 287-289

Wheat genome sequencing: A milestone in cereal genomics and its future potentials
Muthamilarasan M, Prasad M
Current Science 104: 286

9th Solanaceae Conference 2012
Prasad M
National Academy Science Letters 36: 111-114

 Publication 2011 - 2012
Research Ariticles :-
A study of the role of gene TaMYB2 and an associated SNP in dehydration tolerance in common wheat
Garg B, Lata C, Prasad M
Molecular Biology Reports 39: 10865-10871
The DNA-binding activity of an AP2 protein is involved in transcriptional regulation of a stress-responsive gene, SiWD40, in foxtail millet
Mishra AK*, Puranik S*, Bahadur RP, Prasad M [*equal contribution]
Genomics 100: 252-263
Dynamics of defense related components in two contrasting genotypes of tomato upon infection with Tomato Leaf Curl New Delhi Virus
Sahu PP, Rai NK, Puranik S, Roy A, Khan M, Prasad M
Molecular Biotechnology 52: 140-150
Transcriptome analysis of differentially expressed genes during embryosac development in apomeiotic non parthenogenetic interspecific hybrid of Pennisetum glaucum
Sahu PP, Gupta S, Malaviya DR, Roy AK, Kaushal P, Prasad M
Molecular Biotechnology 51: 262-271
Sequence based novel genomic microsatellite markers for robust genotyping purposes in foxtail millet [Setaria italica (L.) P. Beauv.]
Gupta S, Kumari K, Sahu PP, Vidapu S, Prasad M
Plant Cell Reports 31: 323-337
Development and utilization of novel intron length polymorphic markers in foxtail millet [Setaria italica (L.) P. Beauv.]
Gupta S, Kumari K, Das J, Lata C, Puranik S, Prasad M
Genome 54: 586-602
Molecular cloning and characterization of a membrane associated NAC family gene, SiNAC from foxtail millet [Setaria italica (L.) P. Beauv.]
Puranik S, Bahadur RP, Srivastava PS, Prasad M
Molecular Biotechnology 49: 138-150
Association of an SNP in a novel DREB2-like gene SiDREB2 with stress tolerance in foxtail millet [Setaria italica (L.)]
Lata C, Bhutty S, Bahadur RP, Majee M, Prasad M
Journal of Experimental Botany 62: 3387-3401
Differential antioxidative responses to dehydration-induced oxidative stress in core set of foxtail millet cultivars [Setaria italica (L.)]
Lata C*, Jha S*, Dixit V, Sreenivasulu N, Prasad M [*equal contribution]
Protoplasma 248: 817-828
Comparative transcriptome analysis of contrasting foxtail millet cultivars in response to short-term salinity stress
Puranik S, Jha S, Srivastava PS, Sreenivasulu N, Prasad M
Journal of Plant Physiology 168: 280-287
  Reviews :-
NAC proteins: regulation and role in stress tolerance
Puranik S, Sahu PP, Srivastava PS, Prasad M
Trends in Plant Science 17: 369-381
Recent advances in tomato functional genomics: utilization of VIGS
Sahu PP*, Puranik S*, Khan M, Prasad M [*equal contribution]
Protoplasma 249:1017-1027
Role of DREBs in regulation of abiotic stress responses in plants
Lata C, Prasad M
Journal of Experimental Botany 62: 4731-4748
  Book Chapters :-
Millets: Genetic and Genomic Resources
Dwivedi S, Upadhyaya H, Senthilvel S, Hash C, Fukunaga K, Diao X, Santra D, Baltensperger D, Prasad M
In: Plant Breeding Reviews (Vol. 35) [Janick J (ed)]
John Wiley & Sons, Inc., USA, ISBN: 978-1-118-09679-6, pp. 247-375
Molecular marker systems and compilation of genetic linkage maps of cultivated plants
Gupta S, Ghose TK, Jaiswal JP, Prasad M
In: Biotechnology in Medicine and Agriculture: Principles and Practices [Kumar A, Arora S, Ambwani S (eds)]
IK International Publishers, New Delhi, pp. 479-507
Role of NACs in regulation of abiotic stress responses in plants
Puranik S, Prasad M
In: Frontiers on Recent Developments in Plant Science [Goyal A & Maheshwari P (eds)]
Bentham Science Publisher, USA, ISBN: 2213-2708, pp. 137-148-296
Role of plant transcription factors in abiotic stress tolerance
Lata C, Yadav A, Prasad M
In: Abiotic Stress [Shanker A (ed)]
INTECH Open Access Publishers, ISBN 979-953-307-195-3, pp. 269-296
 Publication 2009 - 2010
 Publication 2007 - 2008
cDNA-AFLP analysis reveals differential gene expression in response to salt stress in foxtail millet (Setaria italica L.)
Jayaraman A*, Puranik S*, Rai NK, Vidapu S, Sahu PP, Lata C, Prasad M [*equal contribution]
Molecular Biotechnology 40: 241-251
EST-derived single nucleotide polymorphism markers for assembling genetic and physical map of the barley genome
Kota R, Varshney RK, Prasad M, Zhang H, Stein N, Graner A
Functional and Integrative Genomics 8: 223-233
A 1000 loci transcript map of the barley genome new anchoring points for integrative grass genomics
Stein N*, Prasad M*, Scholz U, Thiel T, Zhang H, Wolf M, Kota R, Varshney RK, Perovich D, Grosse I, Graner A [*equal contribution]
Theoretical and Applied Genetics 114: 823-839

 Publication 2005 - 2006
Mapped Ds/T-DNA launch pads for functional genomics in barley
Zhao T, Palotta M, Langridge P, Prasad M, Graner A, Schulze-Lefert P, Koprek T
Plant Journal 47: 811-826
Genetic mapping and BAC assignment of EST-derived SSR markers shows non-uniform distribution of genes in the barley genome
Varshney RK, Grosse I, Haehnel U, Siefken R, Prasad M, Stein N, Langridge P, Altschmied L, Graner A
Theoretical and Applied Genetics 113: 239-250
Expression genetics and haplotype analysis reveal cis regulation of serine carboxypeptidese I (Cxp 1), a candidate gene for malting quality in barley (Hordeum vulgare L.)
Potokina E, Prasad M, Malysheva L, Roeder MS, Graner A
Functional and Integrative Genomics 6: 25-35
 Publication 2003 - 2004
Functional association between malting quality trait components and cDNA array based expression patterns in barley (Hordeum vulgare L.)
Potokina E, Caspers M, Prasad M, Kota R, Zhang H, Sreenivasulu N, Wang M, Graner A
Molecular Breeding 14: 153-170

An integrated approach for comparative mapping in rice and barley with special reference to the Rph16 resistance locus
Perovich D, Steins N, Zhang H, Drescher A, Prasad M, Kota R, Kopahnke D, Graner A
Functional and Integrative Genomics 4(2): 74-83

QTL analysis for grain protein content using SSR markers and validation studies using NILs in bread wheat
Prasad M, Kumar N, Kulwal PL, Roeder MS, Balyan HS, Dhaliwal HS, Gupta PK
Theoretical and Applied Genetics 106: 659-667
 Publication 2001 - 2002