1. Rajesh Mehrotra received the Prof VS Rao CR Mitra foundation best faculty award.It came with a citation and cash prize of Rs 1,00,000.
2. Indira Gandhi education excellence award ,2017 by International business council from IIEM, New Delhi.
3. Prof Rajesh Mehrotra received best educationist award 2017 for undergraduate and postgraduate teaching and research in Biology.
4. Recepient of INSA Bilateral exchange award to visit University of Edinburgh, Scotland (2016)
5. Prestigious visiting fellowship of Okinawa Institute of Science and Technology Japan, from June 15 - July 15, 2015, for studying the role of topoisomerase on dividing fission yeast cell in late mitosis using ICRF-193, an inhibitor of topoisomeraseII.
6. International travel award of DST 2014 for attending the conference in Dublin Ireland.
7. Visiting Foreign Scientist Okinawa Institute of Science and Technology, ( July-Dec 2013).
8. Among 73 finalist out of 5641 nominations in Pearson Teaching award 2013.
9. Chair the session in ICERT conference held in Malaysia 2012 in Penang (May 30th June 1st).
10. Visiting Foreign Scientist Okinawa Institute of Science and Technology, (June -July 2012)
11. Fellow Society of Applied Biotechnology, 2011.
12. Visiting Foreign Scientist Louisiana State University Feb 2011.
13. Visiting Foreign Scientist Kyoto University, May 30th 2009 –June 30th 2009 (Japanese Science and Technology Ministry)
14. Visiting Foreign Scientist Kyoto University, Dec 15th 2008 –Jan 15th 2009 (Japanese Science and Technology Ministry)
15. Visiting Foreign Scientist Kyoto University, June 1st 2008–July 25th 2008(Japanese Science and Technology Ministry)
16. DST young Scientist Project was awarded (2008).
17. Best poster award at the conference, Emerging trends in Biological Sciences, organized by Deptt. of Biotechnology and microbiology, Hindustan College of Arts & Science, Coimbatore India on Aug. 18th-19th 2005.
18. Council of scientific and Industrial research, Government of India, Senior research fellow 2002-2005.
19. Council of scientific and Industrial research, Government of India, Junior research fellow 2000-2002.
20. Qualified Indian Council of Agricultural Research (ICAR) National Examination Test in Genetics in 2002.
21. Qualified Graduate Aptitude test in Engineering (2001).All India rank 84.
22. All India topper in the Entrance test conducted by Banaras Hindu university (1998-99).

Academic Editor/ Reviewer for the journals

1. PLOS ONE
2. Journal of Molecular catalysis
3. American Oil chemistry society Journals
4. Plant Molecular Biology
5. Plant Biotechnology Journal
6. Plant Journal
7. Journal of Genetics

Academic Press Journals.Membership of Society:

1. Life membership of the Biotechnology Society of INDIA.