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Dr. Raja Rajakani

Dr. Raja Rajakani

Assistant Professor, Biotechnology

raja.1@sharda.ac.in

About

Dr. Raja Rajakani is working as an “Assistant Professor” in the Department of Biotechnology, Sharda School of Engineering and Technology, Sharda University, Greater Noida, Uttar Pradesh, India. He worked as a postdoc fellow in the Laboratory of Chromatin Biology, Plant Plasticity Research Centre, Seoul National University, South Korea, from January 2022 to June 2025. His postdoc research focuses on “Identifying the molecular mechanisms of thermomorphogenesis during callus/shoot proliferation at warm temperatures” as well as “Identification of the mechanisms of action of key regulators at molecular and tissue levels during the reprogramming process of plant cells” in Arabidopsis model system using confocal microscopy, single-cell RNA-seq, deep RNA-seq, small RNA-seq, and other cutting-edge molecular and epigenetic techniques, including ChIP and Cut and Tag. He was awarded as a DBT-RA fellow (DBT_RA/2022JanuaryN/1642) funded by the Department of Biotechnology (DBT), Government of India, New Delhi. He also worked as a senior research fellow in India (MS Swaminathan Research Foundation) and jointly funded by Australia (University of Tasmania) collaborative project IABF titled “Developing salt-tolerant rice for food security in India and Australia. His work focused on Oryza coarctata, a halophytic wild rice model system to study salinity tolerance. He developed a novel method for isolating salt glands and generated transcriptomes from salt glands and other tissues of O. coarctata. He did physiological and molecular analysis of salt secretion in leaf hairs and its Na+ ion transport and compartmentalization in root, rhizome, and leaf with the help of confocal and MIFE systems and published it in the Journal of Experimental Botany. He visited the School of Science and Health, Western Sydney University, Australia, in 2019 and trained on confocal microscopy. He is involved in generating leading rice cultivars using plant genome editing via CRISPR Cas9 system. He also conducted studies in plant miRNAs and identified conserved SNP (G/A) in the pre-miR396c region of O. sativa that alters base pairing across the miRNA-miRNA* duplex, potentially affecting miRNA biogenesis, and published in Scientific Reports. He has earned his PhD in biological sciences from the AcSIR-Academy of Scientific & Innovative Research, CSIR-Central Institute of Medicinal and Aromatic Plants (CSIR-CIMAP), Lucknow, India, titled “Molecular cloning and studies on isoprenoid metabolism genes and gene regulatory components of Azadirachta indica and Artemisia annua.” His PhD work focused on the two medicinal plants Artemisia annua known for producing the antimalarial drug artemisinin, and Azadirachta indica, which produces the natural biopesticide azadirachtin. In Artemisia annua, secondary metabolism-related No Apical Meristem (NAC) and Ethylene Responsive Factor (ERF)-like TFs have been identified and characterized as negative-regulators in Artemisinin biosynthesis with the help of molecular and biochemical techniques, including yeast two-hybrid and HPTLC. In Azadirachta indica, a novel RNA protocol was developed (published), subtractive transcriptomes generated and miRNAs were identified for the first time (published) and two terpene synthase-like genes were functionally expressed in a yeast system and characterized using GCMS. He is a member of the American Society of Plant Biologists (ASPB). He has participated in international conferences and workshops and delivered talks at several national symposiums and webinars. He has also received the best oral presentation award at GIGYASA conference for, “Small molecules: A new way out for crops facing drought,” held at CSIR-CIMAP, Lucknow. He has guided numerous postgraduates and undergraduates in biotechnology. He has published 12 research articles in international journals and is also involved in the peer-reviewing process with several publishing groups.

Experience

Research Experience

  • Postdoc Fellow: Seoul National University, South Korea, from January 2022 to June 2025.
  • Senior Research Fellow: June 2017 to May 2021
  • Project Fellow: November 2010 to May 2015
  • Total experience: 14 years
Qualification
  • Ph.D. (Biological Sciences) awarded from Academy of Scientific and Innovative Research-Central Institute of Medicinal and Aromatic Plants, CSIR, Lucknow, Uttar Pradesh, India (2021).
Award & Recognition

  • Awarded as DBT-RA fellow (DBT_RA/2022JanuaryN/1642) funded by Department of Biotechnology (DBT), Government of India, New Delhi.

Research

  • Aparna S, Valarmathie P, Dinakaran K, Raja R (2024) Enhancing efficiency in agriculture: densely connected convolutional neural network for smart farming. Signal, Image and Video Processing, https://doi.org/10.1007/s11760-024-03330-x
  • Deepa Jaganathan#, Raja Rajakani# (Equal First Author), Dadakhalandar Doddamani, Divya Saravanan, Shalini Pulipati, Vivek Hari Sundar G, Gothandapani Sellamuthu, Shilpha Jayabalan, Kumkum Kumari, Pavithra Parthasarathy, Punitha S, Sivaprakash Ramalingam, Padubidri V. Shivaprasad, Gayatri Venkataraman* (2023) A conserved SNP variation in the pre-miR396c flanking region in Oryza sativa indica landraces correlates with mature miRNA abundance. Scientific Reports 13, 2195. https://doi.org/10.1038/s41598-023-28836-1.
  • Raja Rajakani*, Gothandapani Sellamuthu, Tetsuya Ishikawa, Subhashree Bharathan, Kumkum Kumari, Lana Shabala, Meixue Zhou, Zhong-Hua Chen, Sergey Shabala, Gayatri Venkataraman# (2021) Reduced apoplastic barriers in tissues of shoot-proximal rhizomes of Oryza coarctata are associates with Na+ sequestration. Journal of Experimental Botany, https://doi.org/10.1093/jxb/erab440.
  • Raja Rajakani*, Gothandapani Sellamuthu*, Saravanakumar V, Kannappan S, Lana Shabala, Holger Meinke, Zhonghua Chen, Meixue Zhou, Ajay Parida, Sergey Shabala#, Gayatri Venkataraman# (2019). Microhair on the adaxial leaf surface of salt secreting halophytic Oryza coarctata Roxb. show distinct morphotypes: Isolation for molecular and functional analysis. Plant science: an international journal of experimental plant biology, 285, 248–257. https://doi.org/10.1016/j.plantsci.2019.05.004.
  • Shilpha Jayabalan, Raja Rajakani, Kumkum Kumari, Shalini Pulipati, Raj Hariharan, Sowmiya Venkatesan, Deepa Jaganathan, Pavan Kancharla, Kalaimani Raju, Gayatri Venkataraman* (2022) Morpho-physiological, biochemical and molecular characterization of coastal rice landraces to identify novel genetic sources of salinity tolerance Plant Physiology and Biochemistry. 5;187:50-66. https://doi.org/10.1016/j.plaphy.2022.07.028.
  • Gothandapani Sellamuthu*, Vidya Jegadeeson*, Radha Sivarajan Sajeevan*, Raja Rajakani, Pavithra Parthasarathy, Kalaimani Raju, Lana Shabala, Zhong-Hua Chen, Meixue Zhou, Ramanathan Sowdhamini, Sergey Shabala and Gayatri Venkataraman (2020). Distinct Evolutionary Origins of Intron Retention Splicing Events in NHX1 Antiporter Transcripts Relate to Sequence Specific Distinctions in Oryza Species. Frontiers in Plant Science, 11, 267. https://doi.org/10.3389/fpls.2020.00267.
  • Raja Rajakani*, Pravin Prakash, Dolly Ghosliya, Ranjana Soni, Arpita Singh and Vikrant Gupta# (2021). Azadirachta indica MicroRNAs:Genome-Wide Identification, Target Transcript Prediction, and Expression Analyses.Applied biochemistry and biotechnology,193(6),1924–1944. https://doi.org/10.1007/s12010-021-03500-4.
  • Miing-Tiem Yong, Celymar Solis, Sam Amatoury, Gothandapani Sellamuthu, Raja Rajakani, Michelle Mak, Gayatri Venkataraman, Lana Shabala, Meixue Zhou, Oula Ghannoum, Paul Holford, Samsul Huda, Sergey Shabala, Zhong-hua Chen (2022) Proto Kranz-like leaf traits and cellular ionic regulation are associated with salinity tolerance in a halophytic wild rice, Stress Biology 2, 8. https://doi.org/10.1007/s44154-021-00016-z.
  • Raja Rajakani*, Lokesh Narnoliya, Neelam Singh Sangwan, Rajender Singh Sangwan, Vikrant Gupta# (2014) Subtractive transcriptomes of fruit and leaf reveal differential representation of transcripts in Azadirachta indica. Tree Genetics and Genomes, 10, 1331–1351. https://doi.org/10.1007/s11295-014-0764-7.
  • Lokesh Narnoliya*, Raja Rajakani, Neelam Singh Sangwan, Vikrant Gupta, Rajender Singh Sangwan # (2014) Comparative transcripts profiling of fruit mesocarp and endocarp relevant to secondary metabolism by suppression subtractive hybridization in Azadirachta indica (neem). Molecular Biology Reports, 41(5), 3147-3162. doi: 10.1007/s11033-014-3174-x.
  • Pravin Prakash*, Raja Rajakani, Vikrant Gupta# (2016) Transcriptome-wide identification of Rauvolfia serpentina microRNAs and prediction of their potential targets. Computational Biology and Chemistry 61, 62-74. https://doi.org/10.1016/j.compbiolchem.2015.12.002.
  • Raja Rajakani*, Lokesh Narnoliya, Neelam Singh Sangwan, Rajender Singh Sangwan, Vikrant Gupta# (2013) Activated charcoal-mediated RNA extraction method for Azadirachta indica and plants highly rich in polyphenolics, polysaccharides and other complex secondary compounds. BMC Research Notes 6,125.

Certifications

  • Attended in 15th International association for Plant Biotechnology Congress (IAPB), August 6-11, 2023, Daejeon convention center, Daejeon, South Korea
  • Attended in Korean Society for Molecular and Cell Biology (KSMCB) epigenetics symposium, December 14-17, 2022 & presented in RCPP Workshop at Sono felice, Korea
  • Mega Science Technology and Industrial Expo “India International Science Festival” 22nd -25th December 2020, Delhi.
  • Oral presentation in a Webinar on “Revolution in Plant Sequencing: First, Second and Third generation” in the theme of “Agricultural Biotechnology for Crop Improvement” held on (08th – 10th May, 2020) at the Sathyabama Institute of Science and Technology, Chennai.
  • Oral presentation on “Leaf microhair transcriptome and cell biological assessment of rhizomatous tissues reveal mechanisms of salinity adaptation responses of halophytic wild rice, Oryza coarctata” in Plant Genetics and Genomics Conference held on (23rd – 24th January, 2020) at the SRM Institute of Science and Technology, Chennai.
  • Interaction with Prof. M.S. Swaminathan “Strengthening Science for Climate Resilience” 7-9th August 2019, MS Swaminathan Research Foundation, Chennai.
  • Visited Prof. Zhonghua Chen Laboratory, School of Science and Health, Western Sydney University, Australia from (17th June – 31st July, 2019) and trained on Confocal Microscopy.
  • Poster on “Isolation of salt secretory microhairs from halophytic wild rice Oryza coarctata Roxb” in 4th International Plant Physiology Congress held on (2 – 5 Dec 2018) at CSIR-NBRI, Lucknow
  • Training on De novo Transcriptome Data Analysis (23rd–24th June, 2016), BIONIVID Technology Pvt Ltd, Lucknow.
  • Best oral presentation award in GIGYASA conference for “Small molecules: A new way out for crops facing drought” (28th – 29th November, 2015) held at CSIR-CIMAP, Lucknow.
  • Poster presented on “Analyses of small-scale subtractive transcriptomes from fruit and leaf of Azadirachta indica (Neem) in Zonal meeting of Indian Phytopathological Society (26th – 27th November, 2013) held at CSIR-NBRI, Lucknow.
  • Interaction with INSA Young Scientist Awardees “INSA Anniversary meet” 28th December 2011, Sanjay Gandhi Post Graduate Institute of Medical Sciences, Lucknow.
  • Oral presentation on “Chemotypes of Ocimum: Exploring the potential of pathway engineering” Ocimum Ancient Heritage to Modern Enigma conference held on (28th – 29th July, 2011) at CSIR-CIMAP, Lucknow.
  • Biotech Industrial Training Programme (23rd Nov 2009 – 22nd May 2010), at Xpression Biotek Pvt Ltd, Kanyakumari in the area of Embryonic stem cells.
  • “Structure Function and Design of Bio molecules” 28-29th 2010, Bharathiar University, Coimbatore.
  • Patent Awareness Programme” 18th Dec 2009, Manonmaniam Sundaranar University, Tirunelveli.
  • CIMAP Summer school (23rd June – 8th August 2008) on “Molecular Biology Techniques in Mircobial and Plant Biotechnology”, CSIR-CIMAP, Lucknow.
  • “Genome and proteome analysis” 07-09th 2008, Alagappa University, Karaikudi.
  • “Nanotechnology and Nanobiotechnology” 14-16th 2008, Sathyabama University, Chennai.
  • Tissue culture and Transgenics” 30th Sep – 01st Oct 2008, Holy Cross College, Nagercoil.
  • 8th International Symposium on Vectors and Vector Borne Diseases” 13-15th October 2006, Centre for Research in Medical Entomology, ICMR, Madurai.

Area of Interest

  • Plant abiotic stress tolerance
  • Plasticity and cell regeneration
  • Regulatory RNAs