Amit Kumar Subudhi

Research Scientists

Research Scientist




Research Interests

My current research interests include comparative genomics and transcriptomics of Apicomplexan parasites and understanding the role of non-coding RNAs in  Plasmodium genome regulation.​ 

Selected Publications

  • AK Subudhi, JL Green, R Satyam, RP Salunke, T Lenz, M Shuaib, et al., DNA-binding protein PfAP2-P regulates parasite pathogenesis during malaria parasite blood stages, Nature Microbiology, 1-16, 2023, 10.1038/s41564-023-01497-6
  • AK Subudhi, AL Bienvenu, G Bonnot, R Abu-Shamma, F Khamis, et al., The first case of artemisinin treatment failure of Plasmodium falciparum imported to Oman from Tanzania, Journal of Travel Medicine, 30 (3), taac092, 2023, 10.1093/jtm/taac092
  • B Franke-Fayard, C Marin-Mogollon, FJA Geurten, S Chevalley-Maurel, ..., AK Subudhi et al., Creation and preclinical evaluation of genetically attenuated malaria parasites arresting growth late in the liver, npj Vaccines, 7 (1), 139, 2022, 10.1038/s41541-022-00558-x
  • T Mourier, M Shuaib, S Hala, S Mfarrej, F Alofi, R Naeem, A Alsomali, ..., AK Subudhi et al., SARS-CoV-2 genomes from Saudi Arabia implicate nucleocapsid mutations in host response and increased viral load, Nature communications, 13 (1), 601, 2022, 10.1038/s41467-022-28287-8
  • M Zeeshan, R Pandey, AK Subudhi, DJP Ferguson, G Kaur, R Rashpa, et al., Protein phosphatase 1 regulates atypical mitotic and meiotic division in Plasmodium sexual stages, Communications Biology, 4 (1), 760, 2021, 10.1038/s42003-021-02273-0
  • T Mourier, M Shuaib, S Hala, S Mfarrej, F Alofi, R Naeem, A Alsomali, ..., AK Subudhi et al., RNA-Seq HEK293T cells transfected with plasmids expressing SARS-CoV-2 Nucleocapsid protein, NCBI, , 2021
  • Z Ali, R Aman, A Mahas, GS Rao, M Tehseen, T Marsic, R Salunke, ..., AK Subudhi et al., iSCAN: An RT-LAMP-coupled CRISPR-Cas12 module for rapid, sensitive detection of SARS-CoV-2,Virus research, 288, 198129, 2020, 10.1016/j.virusres.2020.198129
  • AC Balestra, M Zeeshan, E Rea, C Pasquarello, L Brusini, T Mourier, ..., AK Subudhi et al., A divergent cyclin/cyclin-dependent kinase complex controls the atypical replication of a malaria parasite during gametogony and transmission, Elife, 9, e56474, 2020, 10.7554/eLife.56474
  • AK Subudhi, AJ O’Donnell, A Ramaprasad, HM Abkallo, A Kaushik, et al., Malaria parasites regulate intra-erythrocytic development duration via serpentine receptor 10 to coordinate with host rhythms, Nature communications, 11 (1), 2763, 2020, 10.1038/s41467-020-16593-y
  • A Ramaprasad, AK Subudhi, R Culleton, A Pain, A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites, Malaria Journal, 18, 1-11, 2019, 10.1186/s12936-019-2659-4
  • M Boot, S Commandeur, AK Subudhi, M Bahira, TC Smith, AM Abdallah, et al., Accelerating early antituberculosis drug discovery by creating mycobacterial indicator strains that predict mode of action, Antimicrobial Agents and Chemotherapy, 62 (7), 10.1128/aac. 00083-18, 2018
  • KF Prior, DR van der Veen, AJ O’Donnell, K Cumnock, D Schneider, ..., AK Subudhi et al., Timing of host feeding drives rhythms in parasite replication, PLoS pathogens, 14 (2), e1006900, 2018, 10.1371/journal.ppat.1006900
  • I Pandey, R Kaur, AK Subudhi, PA Boopathi, RC Mugasimangalam, et al., A tiling array-based comparative genomic hybridization approach to predict copy number variations between Plasmodium falciparum field isolates from …, F1000Research 7, 1033, 2018
  • PA Boopathi, AK Subudhi, S Middha, J Acharya, RC Mugasimangalam, et al., Design, construction and validation of a Plasmodium vivax microarray for the transcriptome profiling of clinical isolates, Acta Tropica, 164, 438-447, 2016, 10.1016/j.actatropica.2016.10.002
  • HR Ansari, TJ Templeton, AK Subudhi, A Ramaprasad, J Tang, F Lu, et al., Genome-scale comparison of expanded gene families in Plasmodium ovale wallikeri and Plasmodium ovale curtisi with Plasmodium malariae and with other Plasmodium species, International journal for parasitology, 46 (11), 685-696, 2016, 10.1016/j.ijpara.2016.05.009
  • AK Subudhi, PA Boopathi, S Middha, J Acharya, SN Rao, et al., A cross strain Plasmodium falciparum microarray optimized for the transcriptome analysis of Plasmodium falciparum patient derived isolates, Genomics Data, 9, 118-125, 2016, 10.1016/j.gdata.2016.07.006
  • AK Subudhi, PA Boopathi, I Pandey, R Kaur, S Middha, J Acharya, et al., Disease specific modules and hub genes for intervention strategies: A co-expression network based approach for Plasmodium falciparum clinical isolates, Infection, Genetics and Evolution, 35, 96-108, 2015, 10.1016/j.meegid.2015.08.007
  • AK Subudhi, PA Boopathi, I Pandey, R Kohli, R Karwa, S Middha, et al., Plasmodium falciparum complicated malaria: modulation and connectivity between exportome and variant surface antigen gene families, Molecular and Biochemical Parasitology, 201 (1), 31-46, 2015, 10.1016/j.molbiopara.2015.05.005
  • PA Boopathi, AK Subudhi, S Garg, S Middha, J Acharya, D Pakalapati, et al., Dataset of natural antisense transcripts in P. vivax clinical isolates derived using custom designed strand-specific microarray, Genomics data, 2, 199-201, 2014, 10.1016/j.gdata.2014.06.024


  • ​Ph.D. in Biotechnology (2015), Birla Institute of Technology and Science (BITS), Pilani, Rajasthan, India.
  • M.Sc. in Biotechnology (2006), Alagappa University, Karaikudi, Tamil Nadu, India.​

Research Interests Keywords

Bioinformatics Genomics Biological networks and interactions Non-coding RNAs