Publications

TCA cycle tailoring facilitates optimal growth of proton pumping NADH dehydrogenase-dependent Escherichia coli. Microbiology Spectrum (2023). Nikita Goel#, Stuti Srivastav#, Arjun Patel, Akshay Shirsath, Tushar Ranjan Panda, Malay Patra, Adam M. Feist, Amitesh Anand*

#co-first authors; *corresponding author

Lab evolution, transcriptomics, and modeling reveal mechanisms of paraquat tolerance. Cell Reports (2023). Kevin Rychel, Justin Tan, Arjun Patel, Cameron Lamoureux, Ying Hefner, Richard Szubin, Josefin Johnsen, Elsayed Tharwat Tolba Mohamed, Patrick V. Phaneuf, Amitesh Anand, Connor A. Olson, Joon Ho Park, Anand V. Sastry, Laurence Yang, Adam M. Feist, Bernhard O. Palsson.

Synthesis, biological evaluation and docking studies of silicon incorporated diarylpyrroles as MmpL3 inhibitors: An effective strategy towards development of potent anti-tubercular agents. EJMC (2023). N. Vasudevan, Zenia Motiwala, Remya Ramesh, Sachin B. Wagh, Rahul D. Shingare, Revansiddha Katte, Amitesh Anand, Sushil Choudhary, Ajay Kumar, Rajesh S. Gokhale, Kiran A. Kulkarni, D. Srinivasa Reddy.

Innovative Nanobiosensors for Infectious Disease Diagnosis. Book Chapter, CRC Press (2022). Amitesh Anand*, Vijay Soni*.

*corresponding authors

Lab evolution, transcriptomics, and modeling reveal mechanisms of paraquat tolerance. bioRxiv (2022). Kevin Rychel, Justin Tan, Arjun Patel, Cameron Lamoureux, Ying Hefner, Richard Szubin, Josefin Johnsen, Elsayed Tharwat Tolba Mohamed, Patrick V. Phaneuf, Amitesh Anand, Connor A. Olson, Joon Ho Park, Anand V. Sastry, Laurence Yang, Adam M. Feist, Bernhard O. Palsson.

Laboratory evolution of synthetic electron transport system variants reveals a larger metabolic respiratory system and its plasticity. Nature Communications (2022). Amitesh Anand*, Arjun Patel, Ke Chen, Connor A Olson, Patrick Victor Phaneuf, Cameron Lamoureux, Ying Hefner, Richard Szubin, Adam Feist, Bernhard Palsson*.

*corresponding authors

Machine learning of bacterial transcriptomes reveals responses underlying differential antibiotic susceptibility. Msphere (2021). Anand V Sastry, Nicholas Dillon, Amitesh Anand, Saugat Poudel, Ying Hefner, Sibei Xu, Richard Szubin, Adam M Feist, Victor Nizet, Bernhard Palsson.

Environmental conditions dictate differential evolution of vancomycin resistance in Staphylococcus aureus. Communications Biology (2021). Henrique Machado, Yara Seif, George Sakoulas, Connor A Olson, Ying Hefner, Amitesh Anand, Ying Z Jones, Richard Szubin, Bernhard O Palsson, Victor Nizet, Adam M Feist.

Restoration of fitness lost due to dysregulation of the pyruvate dehydrogenase complex is triggered by ribosomal binding site modifications. Cell Reports (2021). Amitesh Anand, Connor Olson, Anand V Sastry, Arjun Patel, Richard Szubin, Laurence Yang, Adam M Feist, Bernhard O Palsson. 

Bacterial fitness landscapes stratify based on proteome allocation associated with discrete aero-types. PLOS Computational Biology (2021). Ke Chen, Amitesh Anand, Connor Olson, Troy E Sandberg, Ye Gao, Nathan Mih, Bernhard O Palsson. 

RNA and bacterial infection. Book Chapter, Elsevier Academic Press (2020). Amitesh Anand (Corresponding author), Vijay Soni. 

Revealing 29 sets of independently modulated genes in Staphylococcus aureus, their regulators, and role in key physiological response. PNAS (2020). Saugat Poudel, Hannah Tsunemoto, Yara Seif, Anand V Sastry, Richard Szubin, Sibei Xu, Henrique Machado, Connor A Olson, Amitesh Anand, Joe Pogliano, Victor Nizet, Bernhard O Palsson. 

Metabolic and genetic basis for auxotrophies in Gram-negative species. PNAS (2020). Yara Seif, Kumari Sonal Choudhary, Ying Hefner, Amitesh Anand, Laurence Yang, Bernhard O Palsson. 

OxyR Is a Convergent Target for Mutations Acquired during Adaptation to Oxidative Stress-Prone Metabolic States. Molecular Biology and Evolution (2020). Amitesh Anand, Ke Chen, Edward Catoiu, Anand V Sastry, Connor A Olson, Troy E Sandberg, Yara Seif, Sibei Xu, Richard Szubin, Laurence Yang, Adam M Feist, Bernhard O Palsson. 

Adaptive evolution reveals a tradeoff between growth rate and oxidative stress during naphthoquinone-based aerobic respiration. PNAS (2019). Amitesh Anand, Ke Chen, Laurence Yang, Anand V Sastry, Connor A Olson, Saugat Poudel, Yara Seif, Ying Hefner, Patrick V Phaneuf, Sibei Xu, Richard Szubin, Adam M Feist, Bernhard O Palsson.

Cellular responses to reactive oxygen species are predicted from molecular mechanisms. PNAS (2019). Laurence Yang, Nathan Mih, Amitesh Anand, Joon Ho Park, Justin Tan, James T Yurkovich, Jonathan M Monk, Colton J Lloyd, Troy E Sandberg, Sang Woo Seo, Donghyuk Kim, Anand V Sastry, Patrick Phaneuf, Ye Gao, Jared T Broddrick, Ke Chen, David Heckmann, Richard Szubin, Ying Hefner, Adam M Feist, Bernhard O Palsson. 

Pseudogene repair driven by selection pressure applied in experimental evolution. Nature Microbiology (2019). Amitesh Anand, Connor A Olson, Laurence Yang, Anand V Sastry, Edward Catoiu, Kumari Sonal Choudhary, Patrick V Phaneuf, Troy E Sandberg, Sibei Xu, Ying Hefner, Richard Szubin, Adam M Feist, Bernhard O Palsson. 

Machine learning and structural analysis of Mycobacterium tuberculosis pan-genome identifies genetic signatures of antibiotic resistance. Nature Communications (2018). Erol S Kavvas, Edward Catoiu, Nathan Mih, James T Yurkovich, Yara Seif, Nicholas Dillon, David Heckmann, Amitesh Anand, Laurence Yang, Victor Nizet, Jonathan M Monk, Bernhard O Palsson. 

Antimicrobial Efficacy of Synthetic Pyranochromenones and (Coumarinyloxy)acetamides. Indian Journal of Microbiology (2017). Abhishek K Singh, Suchita Prasad, Bipul Kumar, Shiv Kumar, Amitesh Anand, Shashank S Kamble, Sunil K Sharma, Hemant K Gautam. 

Repurposing of a drug scaffold: Identification of novel sila analogues of rimonabant as potent antitubercular agents. European Journal of Medicinal Chemistry (2016). Remya Ramesh, Rahul D Shingare, Vinod Kumar, Amitesh Anand, Swetha B, Sridhar Veeraraghavan, Srikant Viswanadha, Ramesh Ummanni, Rajesh Gokhale, D Srinivasa Reddy. 

Shape and size engineered cellulosic nanomaterials as broad spectrum anti-microbial compounds. International Journal of Biological Macromolecules (2016). Priyanka R Sharma, Sunil Kamble, Dhiman Sarkar, Amitesh Anand, Anjani J Varma. 

Polyketide Quinones Are Alternate Intermediate Electron Carriers during Mycobacterial Respiration in Oxygen-Deficient Niches. Molecular Cell (2015). Amitesh Anand, Priyanka Verma, Anil Kumar Singh, Sandeep Kaushik, Rajesh Pandey, Ce Shi, Harneet Kaur, Manbeena Chawla, Chandra Kumar Elechalawar, Dhirendra Kumar, Yong Yang, Neel S Bhavesh, Rajkumar Banerjee, Debasis Dash, Amit Singh, Vivek T Natarajan, Anil K Ojha, Courtney C Aldrich, Rajesh S Gokhale. 

Insight into the role of physicochemical parameters in a novel series of amphipathic peptides for efficient DNA delivery. Molecular Pharmaceutics (2013). Rajpal Sharma, Shivangi Shivpuri, Amitesh Anand, Ankur Kulshreshtha, Munia Ganguli.