National Institute of Plant Genome Research
 
    Dr. Swarup K. Parida
    Staff Scientist II
    Ph.D. (Biotechnology), Jamia Hamdard University, New Delhi
    Post Doctoral Fellow, National Research Centre on Plant Biotechnology (NRCPB), New Delhi
    Tel. No.: 91-11-26741612, 14, 17 (Ext. 228)
    Direct: 91-11-26735228
    Fax: 91-11-26741658
    E-mail: swarup@nipgr.ac.in, swarupdbt@gmail.com
 Career
Staff Scientist II, National Institute of Plant Genome Research (NIPGR), New Delhi (2011 onwards)
Post Doctoral Fellow, National Research Centre on Plant Biotechnology (NRCPB), New Delhi (2010-11)
Ph.D. (Biotechnology), Jamia Hamdard University, New Delhi (2006-10)
Senior Research Fellow, National Research Centre on Plant Biotechnology (NRCPB), New Delhi (2004-09)
M.Sc. (Agricultural Biotechnology), Indira Gandhi Agricultural University (IGAU), Raipur, Chhattisgarh (2001-03)
B.Sc. (Agriculture), Orissa University of Agriculture and Technology (OUAT), Bhubaneswar, Orissa (1997-2001)
 Awards, Honours and Fellowships
Editor (Plant Biology): Nature Scientific Reports (2014 onwards)
Associate Editor (Plant Genomics): BMC Genomics (2014 onwards)
Academic Editor: PLOS ONE (2014 onwards)
Review Editor (Plant Genetics and Genomics): Frontiers in Plant Science (2014 onward)
Selected member to the Genetics Society of UK (2014 onwards)
Indian Council of Agricultural Research (ICAR) Jawaharlal Nehru Award in Plant Biotechnology-2011
National Academy of Sciences India (NASI) Young Scientist Platinum Jubilee Award-2011
Indian National Science Academy (INSA) Young Scientist Award - (2010)
Junior and Senior Research Fellowship from CSIR - (2003-04)
CEEB-JNU Fellowship from DBT during M.Sc. (Agricultural Biotechnology) - (2001-03)
OUAT Merit Scholarship from Govt. of Orissa during B.Sc. (Agriculture) - (1997-2001)
NRTS Merit Scholarship from Govt. of India - (1992-96)
 Research Area
Plant Molecular Genetics and Genomics
 Research Interest
Genomics of Seed and Pod Traits in Chickpea
The pod (fruit) and seed are the defining characteristics of chickpea and most importantly have high economic value as human diet. The seed and pod characters are also major yield contributing traits of chickpea and vary widely among cultivated desi and kabuli types, landraces and wild species accessions. Narrow genetic base and lack of requisite genetic variation in the cultivated chickpea species is the major limiting factor for the identification and fine mapping of genes for the traits contributing to higher pod and seed yield in chickpea. Molecular analysis and characterization of available diverse genetic resources of chickpea with considerable trait variation for seed and pod characteristics using new generation genomics tools and modern bioinformatics approaches could accelerate the discovery of sufficient numbers of informative genetic markers like single nucleotide polymorphisms (SNPs) and useful novel alleles in target genes and their regulatory sequences. Further, association of these candidate gene based genotypic information with the phenotypic information of specific seed and pod traits of the contrasting types would be an attractive solution for identification of genes and alleles for traits contributing to higher seed and pod yield in chickpea. Besides, validation of such genes and alleles identified by genetic association analysis in bi-parental mapping population and in different developmental stages of pod and seed of contrasting chickpea germplasm lines through expression profiling and functional analysis would enable identification of novel functionally relevant genes and alleles for major pod and seed traits and understanding their transcriptional regulation during developmental process of seed and pod formation in chickpea and other multi-seeded/podded legume species like Vigna. Keeping the above in view, the research work will be undertaken for (1) identification of genes and novel alleles for traits contributing to higher seed and pod yield in chickpea through candidate gene based association analysis and gene expression profiling, (2) functional validation of the identified genes/alleles in transgenic systems, and (3) combination and use of the identified genes/alleles in genetic enhancement of target species.
 Group Members
Dr. Maneesha S. SaxenaNIPGR Postdoc
Ms. Alice KujurPh.D Student
Mr. Deepak Bajaj Junior Research Fellow
 Selected Publications
Saxena MS, Bajaj D, Kujur A, Shouvik S, Saurabh B, Kumar V, Singh M, Bansal KC, Tyagi AK, Parida SK (2014) Natural allelic diversity, genetic structure and linkage disequilibrium pattern in wild chickpea. PLOS ONE (In Press).
Kujur A, Bajaj D, Saxena MS, Tripathi S, Upadhyaya HD, Gowda CLL, Singh S, Tyagi AK, Jain M, Parida SK (2014) An efficient and cost-effective approach for genic microsatellite marker-based large-scale trait association mapping: identification of candidate genes for seed weight in chickpea. Molecular Breeding 34: 241-265.
Tiwari KK, Singh A, Pattnaik S, Sandhu M, Kaur S, Jain S, Tiwari S, Mehrotra S, Anumalla M, Samal R, Bhardwaj J, Dubey N, Sahu V, Kharshing GA, Zeliang PK, Sreenivasan K, Kumar P, Parida SK, Mithra SVA, Rai V, Tyagi W, Agarwal PK, Rao AK, Pattanayak A, Chandel G, Singh AK, Bisht IS, Bhat KV, Rao GJN, Khurana JP, Singh NK, Mohapatra T (2014) Identification of a mini-core set from Indian rice germplasm collection. Plant Breeding (First online).
Gupta S, Kumari K, Muthamilarasan M, Parida SK and Prasad M (2014) Population structure and association mapping of yield contributing agronomic traits in foxtail millet.Plant Cell Reports 881: 893.
Mishra AK, Muthamilarasan M, Khan Y, Parida SK, Prasad M (2014) Genome-wide investigation and expression analyses of WD40 protein family in the model plant foxtail millet (Setaria italica L.) PLoS ONE 9: e86852.
Muthamilarasan M, Venkata SB, Pandey G, Kumari K, Parida SK, Prasad M (2014) Development of 5123 Intron length polymorphic (ILP) markers for large-scale genotyping applications in foxtail millet. DNA Research 21: 41-52.
Muthamilarasan M, Parida SK, Prasad M (2014) Advances in wheat genomics and its potential in ensuring food security in the scenario of climate change. Proceedings of the Indian National Science Academy (In Press)
Kujur A, Bajaj D, Saxena MS, Tripathi S, Upadhyaya HD, Gowda CLL, Singh S, Jain M, Tyagi AK, Parida SK* (2013) Functionally relevant microsatellite markers from chickpea transcription factor genes for efficient genotyping applications and trait association mapping. DNA Research 20: 355-374. (*As corresponding author)
Kujur A, Saxena MS, Bajaj D, Laxmi and Parida SK (2013) Integrated genomics and molecular breeding approaches for dissecting the complex quantitative traits in crop plants. Journal of Biosciences 38: 1-17.
Pandey G, Misra G, Kumari K, Gupta S, Parida SK, Chattopadhyay D and Prasad M (2013) Genome-wide development and use of microsatellite markers for large-scale genotyping applications in foxtail millet [Setaria italica (L.)]. DNA Research 20:197-207.
Puranik S, Sahu PP, Mandal SN, Parida SK and Prasad M (2013) Comprehensive genome-wide survey, genomic constitution and expression profiling of the NAC transcription factor family in foxtail millet [Setaria italica (L.)]. PLoS ONE 8:e64594.
Thakur JK, Agarwal P, Parida SK, Bajaj D and Pasrija R (2013) Sequence and expression analyses of KIX domain proteins suggest their importance in seed development and determination of seed size in rice, and genome stability in Arabidopsis. Molecular Genetics and Genomics 288:329-346.
Das A and Parida SK (2013) Advances in biotechnological applications in three important food legumes. Plant Biotechnology Reports DOI: 10.1007/s11816-013-0299-7.
Kumari K, Muthamilarasan M, Misra G, Gupta S, Subramanian A, Parida SK, Chattopadhyay D and Prasad M (2013) Development of eSSR-markers in Setaria italica and their applicability in studying genetic diversity, cross-transferability and comparative mapping in millet and non-millet species. PLoS ONE 8:e67742.
Das B, Sengupta S, Parida SK, Roy B, Ghosh M, Prasad M, Ghose TK (2013) Genetic diversity and population structure of rice landraces from Eastern and North Eastern States of India. BMC Genetics 14:71.
Jhanwar S, Priya P, Garg R, Parida SK, Tyagi AK and Jain M (2012) Transcriptome sequencing of wild chickpea as a rich resource for marker development. Plant Biotechnology Journal 10: 690-702.
Agarwal G, Jhanwar S, Priya P, Singh VK, Saxena MS, Parida SK, Garg R, Tyagi AK, Jain M (2012) Comparative analysis of kabuli chickpea transcriptome with desi and wild chickpea provides a rich resource for development of functional markers. PLoS ONE 7: e52443.
Dixit N, Dokku P, Amitha Mithra SV, Parida SK, Singh AK, Singh NK, Mohapatra T (2013) Haplotype structure in grain weight gene GW2 and its association with grain characteristics in rice. Euphytica 192:55-61.
Parida SK, Mukerji M, Singh AK, Singh NK and Mohapatra T (2012) SNPs in stress-responsive rice genes: validation, genotyping, functional relevance and population structure. BMC Genomics 13:426.
Parida SK, Kalia SK, Kaul S, Dalal V, Pandit A, Gaikwad K, Sharma TR, Srivastava PS, Singh NK and Mohapatra T (2012) Single nucleotide polymorphism in sugar pathway and disease resistance genes in sugarcane. Theoretical and Applied Genetics (In Press).
Bharathi LK, Parida SK*, Munshi AD, Behera TK, Raman KV and Mohapatra T (2011) Molecular diversity and phylogeny of Momordica spp. of Indian occurrence. Genetic Resources and Crop Evolution 59:937-948. (*As joint first author)
Parida SK, Pandit A, Gaikwad K, Sharma TR, Srivastava PS, Singh NK and Mohapatra T (2010). Functionally relevant microsatellites in sugarcane unigenes. BMC Plant Biology 10:251.
Parida SK, Yadava DK and Mohapatra T (2010). Microsatellites in Brassica unigenes: Relative abundance, marker design and use in comparative physical mapping and genome analysis. Genome 53:55-67.
Ngangkham Umakanta, Parida SK*, Dey SK, Raj Kumar KA, Singh AK, Singh NK and Mohapatra T (2010). Genic markers for WA cytoplasm based male sterility and its fertility restoration in rice. Molecular Breeding 26:275-292. (*As joint first author)
Naik PK, Alam MA, Singh H, Goyal V, Parida SK, Kalia S and Mohapatra T (2010) Assessment of genetic diversity through RAPD, ISSR and AFLP markers in Podophyllum hexandrum: a medicinal herb from the Northwestern Himalayan region. Physiol. Mol. Biol. Plants 16:1-13.
Parida SK and Mohapatra T (2010) Whole Genome Sequencing. In: Kole C, Abbott AG (Eds) Principles and Practices of Plant Genomics, Vol 3, Advanced Genomics, Science Publishers, Inc, New Hampshire and Edenbridge Ltd, British Isles, pp 120-174.
Parida SK, Dalal V, Singh NK and Mohapatra T (2009) Genic non-coding microsatellites in the rice genome: characterization, marker design and use in assessing genetic and evolutionary relationships among domesticated groups. BMC Genomics 10:140.
Parida SK, Kalia SK, Kaul S, Dalal V, Hemaprabha G, Selvi A, Pandit A, Singh A, Gaikwad K, Sharma TR, Srivastava PS, Singh NK and Mohapatra T (2009) Informative genomic microsatellite markers for efficient genotyping applications in sugarcane. Theoretical and Applied Genetics 118:327-338.
Yadava, DK, Parida SK, Dwivedi VK, Varshney A, Ghazi IA, Sujata V and Mohapatra T (2009). Cross-transferability and polymorphic potential of genomic STMS markers of Brassica species. Journal of Plant Biochemistry and Biotechnology 18:29-36.
Sonah H, Desmukh R, Parida SK and Kotasthane A (2009) Morphological and genetic variation among different isolates of Magnaporthe grisea collected from Chhattisgarh. Indian Phytopathology 62:469-477.
Koundal V, Parida SK, Yadava DK, Ali A, Koundal KR and Mohapatra T (2008). Evaluation of microsatellite markers for Genome mapping in Indian Mustard (Brassica juncea L.). Journal of Plant Biochemistry and Biotechnology 17:69-72.
Verma VK, Behera TK, Munshi AD, Parida SK and Mohapatra T (2007). Genetic diversity of ash gourd [(Benincasa hispida (Thunb.) Cogn.] inbred lines based on RAPD and ISSR markers and their hybrid performance. Scientia Horticulturae 113:231-237.
Parida SK Raj Kumar KA, Dalal V, Singh NK and Mohapatra T (2006) Unigene derived microsatellite markers for the cereal genomes. Theoretical and Applied Genetics 112:808-817.