PUBLICATIONS
Journal
  1. Prabhu VR, Arjun MS, Bhavana K, Kamalakkannan R and  Nagarajan M. (2019). Complete mitochondrial genome of Indian mithun, Bos frontalis and its phylogenetic implications. Molecular Biology Reports, 46, 2561–2566.
  2. Kamalakkannan R, Jose J, Thomas S, Vandana R. Prabhu and Nagarajan M. (2018). Genetic diversity and maternal lineages of south Indian goats. Molecular Biology Reports. DOI: 10.1007/s11033-018-4322-5
  3. Kameshpandian P, Thomas S & Nagarajan M. (2016) Genetic diversity and relationship of Indian Muscovy duck populations. Mitochondrial DNA Part A. DOI: 10.1080/24701394.2016.1261851.
  4. Nagarajan M, Nimisha K and Kumar S. (2015). Mitochondrial DNA Variability of River Buffalo (Bubalus bubalis) populations: Genetic Evidence for Origin and Domestication of River Buffalo in India. Genome Biology and Evolution 7:1252–1259.
  5. Nagarajan M, Raja  M and Vikram P. (2015). Genetic characterization of Bagarius species using cytochrome c oxidase I and cytochrome b genes. Mitochondrial DNA Part A .
  6. Filleton F, Chuffart F, Nagarajan M and Yvert G. (2015). The complex pattern of epigenomic variation between natural yeast strains at single-nucleosome resolution. Epigenetics & Chromatin 8:1-8.
  7. Abraham, A-L*., Nagarajan, M*., Veyrieras, J-B., Bottin, Steinmetz, L, and Yvert, G 2013, Genetic dissection of quantitative epigenomic variation in yeast. Epigenetics & Chromatin. 1756-8935.
  8. Abraham, A-L*., Nagarajan, M*., Veyrieras, J-B., Bottin, Steinmetz, L, and Yvert, G. (2012). Genetic Modifiers of Chromatin Acetylation Antagonize the Reprogramming of Epi-Polymorphisms. PLoS Genetics 8(9): e1002958.  * Equal contribution.
  9. Babar M.E.  Hussain T., Imran M., Nagarajan M. and Kumar S. (2011). Mitochondrial DNA diversity patterns in Pakistani buffalo. Animal Genetics, doi: 10.1111/j.1365-2052.2011.02250.x
  10.  Nagarajan, M., Veyrieras, J-B., Dieuleveult, M., Bottin, H., Fehrmann, S., Abraham, A-L., Croze, S., Steinmetz, L, Gidrol, X. and Yvert, G. (2010). Natural Single-Nucleosome Epi-Polymorphisms in Yeast. PLoS Genetics, 6(4): e1000913.
  11. Nagarajan, M., Kumar, N., Nishanth, G., Hari Baskar, R., Karthikeyani, T.P., Gupta, J., Mishra, M., Vaidhegi, R., Kumar, S., Ranjan, A. and Kumar, S., (2009). Microsatellite markers of water buffalo, Bubalus bubalis - development, characterization and linkage disequilibrium studies. BMC Genetics 10:68 doi:10.1186/1471-2156-10-68.
  12. Ansel, J., Bottin, H., Rodriguez-Beltran C., Damon, C., Nagarajan, M., Fehrmann, S., Francois, J., Yvert, G. (2008). Cell-to-cell stochastic variation in gene expression is a complex genetic trait. PLoS Genetics 4(4): e1000049. doi:10.1371/journal.pgen.1000049.
  13. Kumar, S., Nagarajan, M., Sandhu, J., Kumar N. and Behl, V. (2007). Phylogeography of Indian domestic buffaloes. BMC Evolutionary Biology 7:186 doi:10.1186/1471-2148-7-186.
  14. Kumar, S., Nagarajan, M., Sandhu, J., Kumar, N. Behl, V. and Nishanth, G. (2007). Mitochondrial DNA analysis of Indian water buffalo support a distinct genetic origin of river and swamp buffalo. Animal Genetics 38: 227–232. 
  15. Haniffa, M. A., Nagarajan, M., Gopalakrishnan, A. and Musammilu, K. K. (2007). Allozyme variation in a threatened freshwater fish spotted murrel Channa punctatus in South Indian  river systems, Biochemical Genetics 45: 363-374.
  16. Haniffa, M. A., Allen benziger, P. S., Jesu Arockia Raj, A.  Nagarajan, M. and Siby, P. (2007). Breeding Behaviour and Embryonic Development of Koi Carp (Cyprinus carpio). Taiwania, 52: 93-99.
  17. Kumar, S., Gupta, J., Kumar, N., Dikshit, K., Navani, N., Jain, P. and Nagarajan, M. (2006). Genetic variation and relationships among eight Indian buffalo breeds. Molecular  Ecology 15: 593-600.
  18. Nagarajan, M., Haniffa, M. A., Gopalakrishnan, A. and Basheer, V. S. (2006). Genetic variability of Channa punctatus populations using Randomly Amplified Polymorphic DNA. Aquaculture Research 37: 1151-1155.
  19. Haniffa, M. A., Nagarajan, M. and Allen benziger, P. S. (2006). Seed production of the spotted murrel - a promise for the future. Infofish 1:19-21.
  20. Haniffa, M. A., Nagarajan, M. and Gopalakrishnan, A. (2006). Length weight relationship of Channa punctata (Bloch, 1793) from Western Ghats Rivers of Tamil Nadu. Journal of Applied Ichthyology 22: 308–309.
  21. Haniffa, M. A., Marimuthu, K., Nagarajan, M., Jesu Arockia Raj, A. and Kumar, D. (2004). Breeding behaviour and parental care of the induced bred spotted murrel Channa punctatus under captivity. Current Science 86: 1375-1376. 
  22. Haniffa, M. A., Sridhar, S. and Nagarajan, M. (2004). Induction of triploidy and  tetraploidy in stinging catfish Heteropneustes fossilis (Bloch) using heat shock. Aquaculture Research 35: 937-942. 
  23. Haniffa, M. A. Sridhar, S. and Nagarajan, M. (2004). Hormonal sex manipulation in stinging catfish Heteropneustes fossilis (Bloch). Current Science 86: 1012-1017.
  24. Haniffa, M. A., Jesu Arockia Raj, A. Nagarajan, M., Raja Raja Perumalsamy, P., Seetharaman, S. and Sing. S. P. (2004). Natural Breeding in captivity- a possibility for conservation of threatened freshwater feather back Notopterus notopterus. Aquaculture Asia IX: 36-38.
  25. Muruganandam, M., Nagarajan, M. and Raja Raja Perumalsamy, P. (2004). Supplementary effect of Vitamin A on growth performance of Catla catla fry. Environment & Ecology 22: 239-241.
  26. Haniffa, M. A., Nagarajan, M., Marimuthu, K. and Jesu Arockia Raj, A. (2002). Embryonic and larval development of spotted murrel Channa punctatus. Indian Journal of Fisheries 50: 355 – 362
Book Chaptters
  1. Nagarajan M, Vandana R. Prabhu, Kamalakkannan R (2017). Metagenomics: Implications in Oral Health and Disease: In Muniyandi Nagarajan (ed), Metagenomics: Perspectives, Methods, and Applications. Academic Press, Elsevier, USA.
  2. Nagarajan M and Vandana R Prabhu (2016). Genome-Wide Mapping of Nucleosome Position and Histone Code Polymorphisms in Yeast. In: Big Data Analytics in Genomics (ed. Ka-Chun Wong) Springer, New York
  3. Nagarajan M, K Nimisha, AK Nimisha and PA Sinu. (2016). The Promise of Genomics in Plant-Animal Interaction Studies. In: Mutualistic Interactions between Flowering Plants and Animals (eds. Palatty Allesh Sinu, KR Shivanna), pp 275-289, Manipal University Press (MUP), Manipal, India.