1. S. Jyothsna, Minu M. Nair & Manickavelu Alagu (2025). "Functional divergence of LncRNAs in wheat-fungal interactions: insights from stem rust-responsive wheat transcriptomes". Physiology and Molecular Biology of Plants, https://doi.org/10.1007/s12298-025-01599-x


2. Jyothsna S, Alagu Manickavelu (2025). "Comprehensive in silico analysis to decipher the role of long non-coding RNAs in bread wheat during fusarium head blight and leaf rust interactions". Academia Molecular Biology and Genomics, 2 (1)


3. Maya Peringottillam, Krishna T Sundaram, Alagu Manickavelu (2023). "Genetic potential of grain-related traits in rice landraces: phenomics and multi-locus association analyses". Molecular Biology Reports, https://doi.org/10.1007/s11033-023-08807-5


4. Minu M. Nair, S. Hari Krishna Kumar, S. Jyothsna, Krishna T. Sundaram, C. Manjunatha, M. Sivasamy & Manickavelu Alagu (2022). "Stem and leaf rust–induced miRNAome in bread wheat near-isogenic lines and their comparative analysis". Applied Microbiology and Biotechnology, https://doi.org/10.1007/s00253-022-12268-4


5. Jyothsna, Manickavelu (2022). "Role of phasiRNAs in plant-pathogen interactions: molecular perspectives and bioinformatics tools". Physiology and Molecular Biology of Plants, https://doi.org/10.1007/s12298-022-01189-1


6. Maya Peringottillam, Smitha Kunhiraman Vasumathy, Hari Krishna Kumar Selvakumar, Manickavelu Alagu (2022). "Genetic diversity and population structure of rice (Oryza sativa L.) landraces from Kerala, India analyzed through genotyping‑by‑sequencing". Molecular Genetics and Genomics, https://doi.org/10.1007/s00438-021-01844-4


7. Radha Beena, Silvas Kirubakaran, Narayanan Nithya, Alagu Manickavelu, Rameshwar Prasad Sah, Puthenpeedikal Salim Abida, Janardanan Sreekumar, Poolakkal Muhammed Jaslam, Rajendrakumar Rejeth, Vijayalayam Gengamma Jayalekshmy, Stephen Roy, Ramakrishnan Vimala Manju, Mariasoosai Mary Viji and Kadambot M Siddique (2021). "Association mapping of drought tolerance and agronomic traits in rice landraces". BMC Plant Biology, 21:484


8. Smitha Kunhiraman Vasumathy, Manickavelu Alagu (2021). "SSR marker based genetic diversity analysis and SNP haplotyping of genes associating abiotic and biotic stress tolerance, rice growth and development and yield across 93 rice landraces". Molecular Biology Reports, 48:5943-5953


9. Minu M Nair and Alagu Manickavelu (2020). "MicroRNAs as fine-tuners of gene regulation in plant–microbe interactions". Current Science, 119:1282


10. Smtiha KV, Maya P, Krsihna TS, Hari Krishna Kumar S, Manickavelu A (2020). "Genome- wide structural and functional variant discovery of rice landraces using genotyping by sequencing". Molecular Biology Reports, https://doi.org/10.1007/s11033-020-05794-9


11. Minu M Nair, Krishna T. S and Alagu Manickavelu (2019). "Bioinformatics insights into microRNA mediated gene regulation in Triticum aestivum during multiple fungal diseases". Plant Gene, 21: 100210


12. Manickavelu A, Hattori T, Yamaoka S, Yoshimura K, Kondou Y, Onogi A, Matsui M, Iwata H, Ban T (2017). "Genetic nature of elemental content in wheat grains and its genomic prediction: Toward the effective use of wheat landraces from Afghanistan". PloS one, doi:10.1371/journal.pone.0169416


13. Kondou Y, Manickavelu A, Komatsu K, Arifi M, Kawashima M, Ishii T, Hattori T, Iwata H, Tsujimoto H, Ban T, and Matsui M (2016). "Analysis of elemental composition and identification of best genotypes in Afghan wheat landraces". Breeding Science, 66: 676-682


14. Manickavelu A, Reem J, Abdulqader J, Lan C, Julio H, Stanikzai AS, Kilian A, Singh RP and Ban T (2016). "Genome wide association mapping of stripe rust resistance in Afghan wheat landraces". Plant Science, 252:222-229


15. Abdulqader J, Manickavelu A, Farid M, Murari S, Ogbonnaya FC (2016). "Genomic regions linked to multiple disease resistance and their interactions in synthetic hexaploid wheat". Molecular Breeding, 36:127

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