Raja Ragupathy, Ph. D.

Image Raja Ragupathy
Research Scientist

Crop Breeding & Genomics. He has unique expertise in both field-based plant breeding and lab-based, state of the art genomics. His research is focused on developing perennial cereals (wheat and rye) towards sustainable agriculture and enhancing the genetic potential of Fall-rye and winter triticale adapted to western Canada.

Current research and/or projects

Plant breeding and genomic research, especially in winter cereals, with the objectives of improving crop yield, adaptation to both abiotic and biotic stresses and enhancing cropping system sustainability. Specifically, his research is focused on developing perennial cereals (in wheat and rye) towards sustainable agriculture and enhancing the genetic potential of fall-rye and winter triticale adapted to western Canada. He will be using modern genomics, epigenetic and bioinformatics tools for understanding the molecular basis of economically important traits and translating the knowledge to breed improved cereal cultivars, to retain Canada's pre eminent position in the world.

Research and/or project statements

  • Genomic prediction for cold tolerance and fusarium head blight (FHB) resistance in winter durum for western Canada. (2019-2023)
  • Identifying novel genes in perennial wheatgrass for stripe rust and FHB (Co-Lead)
  • Using agronomy to reduce ergot susceptibility in fall-rye (WGRF) (Co-Lead)
  • Developing winter durum wheat for Southern Alberta (WGRF/AWC) (Co-Lead)
  • Integration of agronomy and breeding to reduce disease susceptibility in fall-rye (SWCDC) (Co-Lead)
  • Organic cluster - Developing winter triticale and fall-rye cultivars for no-tillage cultivation (Co-Lead)

Professional activities / interests

  • Genomics and Breeding research in perennial cereals, and winter cereals
  • Mentoring students
  • Expert reviewer for funding organizations in Canada
  • Peer Reviewer for manuscripts submitted to Crop Science, Scientific Reports, BMC Genomics, Canadian Journal of Plant Science, Plant Molecular Biology, International Journal of Plant Genomics, Indian Journal of Genetics and Plant Breeding, Journal of Genetics, Genome and Plant Cell Reports

 

Education and awards

Ph.D.              University of Manitoba, Canada; 2004-2008  Major: Plant Science  

M.Sc. (Ag.)     Tamil Nadu Agricultural University, India; 1994-1996; Major: Plant Breeding and Genetics

B.Sc. (Ag.)             Tamil Nadu Agricultural University, India; 1989-1993; Major: Agriculture

Awards and Scholarships:

2009-2012

Visiting Fellowship from the Canadian Government Laboratory

2004-2008

University of Manitoba Graduate Fellowship

2004-2008

Manitoba Graduate Scholarship awarded by the Ministry of Advanced Education of the Government of Manitoba for outstanding international students in the province of Manitoba

2007

Plant Science Graduate Student Travel Award

2004, 2007

William B. Malchy Graduate Fellowship

2004

Clarence-Bougardus Sharp Memorial Scholarship

1999-2000

SRF from the Council of Scientific and Industrial Research, India

1997-1999

SRF from the Indian Council of Agricultural Research (ICAR)

1997

Qualified in the National Eligibility Test (NET) for lectureship conducted by ICAR in the discipline of Plant Breeding

1996

Qualified in the NET for lectureship in the discipline of Genetics

1994-1996

Junior Research Fellowship from ICAR

1993

Awarded the gold medal for outstanding performance in the Bachelor of Agriculture programme

International experience and/or work

During the period from June 2000 to May 2009, Raja Ragupathy served as an Assistant Professor of Plant Breeding and Genetics at the Pandit Jawaharlal Nehru College of Agriculture and Research Institute (https://www.pajancoa.ac.in/, a government of Puducherry institution, with academic affiliation to Pondicherry University, http://www.pondiuni.edu.in/) in India.  He also co-ordinated multilocation field trials associated with the all India coordinated rice improvement project (AICRIP) trials in India.

During the period from December 2014 to May 2015, he served as a Senior Scientist (Genomics) at the Indian Rice Research Institute, Cuttack, India (http://www.icar-iirr.org) for the Federal government of India.

Key publications

  1. Ravichandran, S., Ragupathy, R., Edwards, T., Domaratzki, M., Cloutier, S. (2019). Microrna-guided regulation of heat stress response in wheat, 20(1), http://dx.doi.org/10.1186/s12864-019-5799-6

    2019 - View publication details

  2. Ravichandran S, Ragupathy R, Edwards T, Robinson S, Domaratzki M, Cloutier S (2017) MicroRNA guided post-transcriptional gene regulation in response to heat stress in wheat. Joint Meeting Canadian Society of Plant Biologists and Canadian Society for Horticultural Science, Vancouver, July 4-7 (oral)

    2017 - View publication details

  3. House M, Ragupathy R, Vasudevan A, You FM, Jia G, Robinson S, Booker H (2017) Genome-wide approaches to identifying the basis of early flowering in epimutagenized royal Flax. Proc 25th Plant and Animal Genome Conference, San Diego, CA, January 14-18, W327 (workshop oral talk).

    2017 - View publication details

  4. Cloutier, S., Deyholos, M.K., Ragupathy, R., Zhu, T., Li, P., Luo, M.-C., and You, F.M. (2016). "BioNano optical map improves the flax reference genome.", XXIV Plant and Animal Genome Conference, San Diego, USA, January 9-13, 2016.

    2016 - View publication details

  5. You, F.M., Li, P., Ragupathy, R., Kumar, S., Zhu, T., Luo, M.-C., Duguid, S.D., Rashid, K.Y., Booker, H.M., Deyholos, M.K., Fu, Y.B., Sharpe, A.G., and Cloutier, S. (2016). "The Draft Flax Genome Pseudomolecules.", 66th Flax Institute of the United States, Holiday Inn, Fargo, North Dakota, USA, March 31-April 1, 2016, pp. 17-24.

    2016 - View publication details

  6. You FM, Li P, Ragupathy R, Kumar S, Zhu T, Luo M-C, Duguid SD, Rashid K, Booker H, Deyholos M, Fu Y-B, Sharpe A, Cloutier S (2016) The draft flax genome pseudomolecules. 66th Flax Institute of the United States, Fargo, North Dakota, March 31-April 1, 2016.

    2016 - View publication details

  7. Ragupathy, R., Ravichandran, S., Mahdi, M.S.R., Huang, D., Reimer, E., Domaratzki, M., Cloutier, S. (2016). Deep sequencing of wheat sRNA transcriptome reveals distinct temporal expression pattern of miRNAs in response to heat, light and UV, 6 http://dx.doi.org/10.1038/srep39373

    2016 - View publication details

  8. Xiao J, Sekhwal MK, Li P, Ragupathy R, Cloutier S, Wang X, You FM (2016) Pseudogenes and Their Genome-Wide Prediction in Plants. Int J Mol Sci. 17(12). pii: E1991.

    2016 - View publication details

  9. Ravichandran S, Ragupathy R, Edwards T, Mahdi MSR, Lévesque-Lemay M, Domaratzki M, Cloutier S (2016) Heat stress-responsive miRNA are transiently expressed to impart stress tolerance in wheat plants. Proc 3rd Can Wheat Symposium, Ottawa, Nov22-25, S29

    2016 - View publication details

  10. Ravichandran S, Ragupathy R, Mahdi MSR, Huang D, Reimer E, Domaratzki M, Cloutier S (2016) Sequencing of small RNA transcriptome demonstrates distinct temporal expression pattern of stress regulated miRNA in wheat. Canadian Society of Agronomy Annual Meeting, Montreal, 24-26 July, P22

    2016 - View publication details

  11. Thambugala D, Ragupathy R, Cloutier S (2016) Structural organization of fatty acid desaturase loci in linseed lines with contrasting linolenic acid contents. Funct Integr Genomics 16:429-439

    2016 - View publication details

  12. You, F.M., Ragupathy, R., Shan, Y.F., and Cloutier, S. (2015). "LTRAnnotator: automated identification and annotation of LTR retrotransposons in plant genomes.", 2015 International Conference on Bioinformatics and Computer Engineering (ICBCE 2015), Chengdu, China, April 18-19, 2015, Oral presentations; won best paper in the bioinformatics section.

    2015 - View publication details

  13. Cloutier, S., Mahdi, S.R., Domaratzki, M., Ravichandran, S., and Ragupathy, R. (2015). "Small RNAs underlying genetic and epigenetic mechanisms of adaptation to abiotic stresses in T. aestivum cv Glenlea.", 9th International Wheat Conference 2015, Sydney, Australia, September 20-25, 2015.

    2015 - View publication details

  14. You, F.M., Cloutier, S., Shan, Y.F., and Ragupathy, R. (2015). "LTR Annotator: Automated Identification and Annotation of LTR Retrotransposons in Plant Genomes.", International Journal of Bioscience, Biochemistry and Bioinformatics, 5(3), pp. 165-174. doi : 10.17706/ijbbb.2015.5.3.165-174

    2015 - View publication details

  15. You, F.M., Li, P., Kumar, S., Ragupathy, R., Banik, M., Duguid, S.D., Booker, H.M., Deyholos, M.K., Fu, Y.B., Sharpe, A.G., and Cloutier, S. (2015). "The refined flax genome, its evolution and application.", XXIII Plant and Animal Genome Conference, San Diego, CA, USA, January 10-14, 2015, P1039. (Poster)

    2015 - View publication details

  16. You F, Li P, Kumar S, Ragupathy R, Banik M, Duguid S, Booker H, Deyholos M, Fu Y-B, Sharpe AG, Cloutier S (2015) The refined flax genome, its evolution and application. Proc 23rd Plant and Animal Genome meeting, San Diego, CA, 10-15 Jan, P1039

    2015 - View publication details

  17. You, F.M., Li, P., Kumar, S., Ragupathy, R., Li, Z.N., Fu, Y.B., and Cloutier, S. (2014). "Genome-wide Identification and Characterization of the Gene Families Controlling Fatty Acid Biosynthesis in Flax (Linum usitatissimum L).", Journal of Proteomics & Bioinformatics, 7(10), pp. 310-326. doi : 10.4172/jpb.1000334

    2014 - View publication details

  18. Ragupathy, R., Madhi, S.R., Domaratzki, M., and Cloutier, S. (2014). "Micro RNAs and siRNAs underlying genetic and epigenetic mechanisms of adaptation to abiotic stresses in Triticum aestivum cutivar Glenlea.", 2nd Wheat Genetics Symposium, Saskatoon, SK, Canada, June 2014, pp. 8. (Poster)

    2014 - View publication details

  19. Ragupathy, R., You, F.M., and Cloutier, S. (2013). "Genome-wide comparative analysis of LTR retrotransposon dynamics In flax (Linum usitatissimum) and Its related genomes, cassava (Manihot esculenta) and poplar (Populus trichocarpa).", Plant & Animal Genome XXI Conference, Town & Country Convention Center, San Diego, CA, USA, January 12-16, 2013.

    2013 - View publication details

  20. You, F.M., Kumar, S., Banik, M., Ragupathy, R., Deyholos, M.K., Fu, Y.B., Sharpe, A.G., and Cloutier, S. (2013). "Ordering the draft genome sequence of flax (Linum usitatissimum).", Plant & Animal Genome XXI Conference, Town & Country Convention Center, San Diego, CA, USA, January 12-16, 2013.

    2013 - View publication details

Research facility

5403 1st Avenue South
Lethbridge, AB T1J 4B1
Canada

Affiliations

• Member, Canadian Society of Plant Biologists (2013 - present)

• Member, American Association for the Advancement of Science (2008 - present)

• Member, Crop Science Society of America

• Life Member, Indian Society of Genetics and Plant Breeding

• Member, Prairie Recommending Committee for Wheat, Rye & Triticale

• Member, Alberta Regional Variety Advisory Committee (fall-rye)

• Member, Saskatchewan Variety Performance Group (fall-rye)

Language

English

Other languages

Tamil