Bioinformatics Section

Bioinformatics Section

About the Department

Dr. Pankaj Kumar is a Professor (Biochemistry & Physiology) and Head, Bioinformatics at College of Biotechnology, SVPUAT, Meerut. He is the Principle Coordinator, Centre of Excellence in Ag- Biotechnology (CST, UP funded) and also Co-coordinator of the Bioinformatics Infrastructure Facility (BIF) (DBT funded). Prof. Pankaj has over twenty-two year’s research experience in abiotic stress management and nutritional enrichment in pulses through molecular biology and proteomics approaches. He has authored or co-authored over 100 papers published in refereed journals, as well as books and a number of chapters contributed to books. His current research interests are Molecular Biology and Bioinformatics. He is reviewer of many International journals viz. Life, Plants, Genes, and Molecules etc.
Lab Technician:

Arun Kumar, Technician  Mob. 09456452936;           e-mail: arun.tech@svpuat.edu.in     


Courses Program offered by the Department:

Elective IV. Bioinformatics

BAS 322

Programming for Bioinformatics

4(2-0-2)

BAS 323

Computational Methods for Data Analysis

2(1-0-1)

BTI/BTR 328

Bioinformatics Tools and Biological Databases

3(2-0-1)

BTI/BTR 329

Structural Bioinformatics

3(2-0-1)

BTI/VPT 330

Pharmacogenomics

3(2-0-1)

BTB/BAS327

Metabolomics and System Biology

3(2-0-1)


Research and Extension activity

  • NGS base identification and characterization of Known and unknown Plant viruses.
  • Identification and molecular characterization of Plant infecting Phytoplasma
  • NGS and annotation of Plant transcriptome
  • NGS based study on soil microbiome
  • NGS based identification and characterization of immune responsive gene of insects.
  • NGS and annotation of different insect transcriphome. 


Facilities

  • Centre of Excellence in Agri-Biotechnology
  • Bioinformatics Infrastructure Facilities

Time table of PG and PhD degree program

As issued by Dean Office


Gallery:

Publication

Research article:

  • Malyaj R Prajapati,Ravi Shanker, Reetesh Pratap Singh, Rajendra Singh, Jitender Singh, Pankaj Kumar. (2023) Molecular Characterization and Virulence of Beauveria isolated from infected Spodoptera frugiperda in Maize fields of Western Uttar Pradesh, India. (Egyptian Journal of Biological Pest Control) (Under review)
  • Malyaj R Prajapati, Jitender Singh, Pankaj Kumar, Ravindra Kumar, and V. K. Baranwal. "Identification of a novel member of the alphaendornavirus genus in Plantago ovata through transcriptome dataset mining." South African Journal of Botany 157 (2023): 135-137.
  • Ravi Shanker, Malyaj R Prajapati, Reetesh Pratap Singh, Rajendra Singh, Jitender Singh, Pankaj Kumar. (2022) Isolation, molecular characterization of indigenous Metarhizium anisopliae (Metchnikoff) isolate, using ITS-5.8s rDNA region and its efficacy against the Helicoverpa armigera (Hubner) (Lepidoptera: Noctuidae). Egyptian Journal of Biological Pest Control33, 23 (2023)
  • Malyaj R Prajapati, Jitender Singh, Pankaj Kumar, and Virendra Kumar Baranwal. "Genome sequence of a papaya ringspot virus from khejri (Prosopis cineraria) transcriptome from India." Acta virologica 66 (2022): 374-377.
  • Malyaj R Prajapati, Jitender Singh, Pankaj Kumar, and V. K. Baranwal. "First report of blackberry virus E (BVE) infecting garlic (Allium sativum L.) in India." Journal of Plant Pathology (2022): 1-2.
  • Saxena, Varun, Mahesh Kumar Bharti, Pankaj Kumar, Jitender Singh, and Vishwa Bandhu Patel. "Effect of zinc uptake on alcohol dehydrogenase, protein and mineral contents of hydroponically grown chickpea (Cicer arietinum)." Journal of Plant Nutrition (2022): 1-10.
  • Malyaj R Prajapati, Aakansha Manav, Pankhuri Singhal, Venkidusamy K. Sidharthan, Ujjwal Sirohi, Mukesh Kumar, Mahesh Kumar Bharti,Jitender Singh, Pankaj Kumar,Ravindra Kumar and V. K. Baranwal. "Complete Genomic RNA Sequence of Tuberose Mild Mosaic Virus and Tuberose Mild Mottle Virus Acquired by High-Throughput Sequencing." Pathogens 11, no. 8 (2022): 861.
  • Prajapati, M. R., Manav, A., Singh, J., Pankaj Kumar, Kumar, A., Kumar, R., Prakash, S., and Baranwal, V. K (2022). "Identification and Characterization of a Garlic Virus E Genome in Garlic (Allium sativum L.) Using High-Throughput Sequencing from India." Plants 11, no. 2: 224.
  • Manav, A., Prajapati, M. R., Jitender Singh, Pankaj Kumar, and Virendra Kumar Baranwal (2022). "First report of garlic mite-borne filamentous virus (GarMbFV) infecting garlic (Allium sativum L.) in India." Journal of Plant Pathology: 1-2.
  • Manav, Aakansha, Prajapati, M. R., Jitender Singh, Amit Kumar, Pankaj Kumar, R. P. Pant, and V. K. Baranwal. "First report of natural infection by two potyviruses on amaryllis (Hippeastrum hybridum) plants from India." VirusDisease 32, no. 4 (2021): 830-833.
  • Prajapati, M. R., Manav, A., Singh, J., Singh, M. K., Ranjan, K., Kumar, A., P Kumar, R Kumar & Baranwal, V. K. (2021). Identification of Garlic virus A infecting Allium sativum L. through next generation sequencing technology. The Journal of Horticultural Science and Biotechnology, 1-10.
  • Shweta, Singh, J., Poonam Kashyap, Pankaj Kumar, R. Kumar, A. S. Panwar, and V. K. Baranwal. "Molecular identification of citrus greening bacterium associated with Kinnow Mandarin in Western Uttar Pradesh, India." Indian Phytopathology 74, no. 4 (2021): 1135-1141.
  • Pooja Sharma, Singh, J., Pankaj Kumar, Mukesh Kumar, R. Kumar, Anil Sirohi and V. K Baranwal (2020). Epidemiological Studies and Molecular Characterization of Phytoplasma Associated with Sugarcane.  Phyropathogenic Mollicutes 10(2);194-202.
  • Singh, J., Thao Ngoc Truong, Dinh My An, Malyaj R Prajapati, Aakansha Manav, Quoc Nguyen Bao, Koushlesh Ranjan, Amit Kumar, Pankaj Kumar, Ravindra Kumar and V. K. Baranwal (2020). Complete Genome Sequence and Genetic Organization of a Garlic Virus D Infecting Garlic (Allium sativum) from northen India. Acta Virologica64(4):301-306 doi: 10.4149/av_2020_405
  • Madhuri Gupta, Shivani khanna, Jyoti singh, Singh, J., Pankaj Kumar and Anil Sirohi (2020). Identification and Molecular cloning of abiotic stress tolerant gene(s) and stress induced biochemical changes in lentil (Lens culinaris) Plant Cell Biotechnology and Molecular Biology, 21(13-14), 74-85. http://www.ikprress.org/index.php/PCBMB/article/view/5094
  • Annu Yadav, Himanshi, Shruti, Singh, J., Pankaj Kumar, Shivani Khanna, Anil Sirohi (2020). Identification and Expression Analysis of Stress Responsive Genes in Lentil (Lens culinaris). Biotechnology Journal International, 24(3), 24-34. https://doi.org/10.9734/bji/2020/v24i330105
  • Surendra Upadhyay, Anamika Bhordia, Malayaj R. Prajapati, Himanshu Maurya, Karishma Kaushik, Harshit Verma, Amit Kumar, Singh, J., Pankaj Kumar and Ravindra Kumar (2020). Prevalence and antimicrobial resistance pattern of E. coli and staphylococcus spp isolated from the clinical cases of cattle metritis Progressive Research 15 (1): 55-57.
  • Singh, J., Manoj Kumar Singh, Koushlesh Ranjan, Amit Kumar, Pankaj Kumar, Anil Sirohi, and V. K. Baranwal (2020). "First complete genome sequence of garlic virus X infecting Allium sativum-G282 from India." Genomics 112, no. 2: 1861-1865.
  • Khanna, Shivani, Sonali Rana, Singh, J., Manisha Goyal, Pankaj Kumar, Neetu Singh, R. P. Pant, and V. K. Baranwal. "First report of association of begomovirus in yellow mosaic disease of bur cucumber in India." Indian Phytopathology 72, no. 1 (2019): 181-184.
  • Arya, S., Kumar, S., Kumar, P., Singh, J. and Sirohi, A., (2018). Pigeonpea (Cajanus cajan) urease immobilized on alginate beads, showing improved stability and operational parameters. South Asian Journal of Food Technology and Environment, 4(1): 631-642
  • Goyal, M., Singh, J., Pankaj Kumar and Anil Sirohi (2017). Mechanistic insights into longan (Dimocarpous longan Lour.) transcriptome for physiological characterization for defensive genes and differential gene expression analysis with Longan embryogenic callus transcriptome. POJ 10(05):219-231 doi: 10.21475/poj.10.05.17.pne721.
  • Singh, J., Khanna, S., Ranjan, K., Pant, R.P., Pankaj Kumar, Sirohi, A. and Baranwal, V. K. (2017). Evidence of Association of Begomovirus with the Yellow vein Disease of an Ornamental Plant Pot Marigold (Calendula officinalis) from Western Uttar Pradesh. Journal of Pure and Applied Microbiology. 11(3): 1609-1615
  • Shivani Khanna, Singh, J., Rupali Singh, Pankaj Kumar, Teena Rani, V.K Baranwal Anil Sirohi and Assunta Berticcina (2015). Evidence of association of a ‘Candidatus Phytoplasma cynodontis’ with Bermuda grass (Cynodon dactylon) and ‘Candidatus Phytoplasma asteris’ with Periwinkle (Catharanthus roseus) from Western Uttar Pradesh, India. Crop Protection 74: 138-144 doi 10.1016/j.cropro.2015.04.017
  • Singh, J., Aastha Singh, Pankaj Kumar, Anchal Rani, V. K Baranwal, Anil Sirohi (2015). First report of mixed infection of Phytoplasma and Begomovirus in eggplant (Solanum melongena) in India.  Phytopathogenic Mollicutes(1-Supplement) S97-S98 doi: 10.5958/2249-4677.2015.00041.9
  • Rani Rosy, Singh, J., Kumar Pankaj, Kumar Amit, Rani Anchal, Shukla Pradeep and Misra Pragati (2015). Cloning, In-Silico Characterization and Homology Modelling of Phaseolin gene from Common Bean (Phaseolus vulgaris). Research Journal of Biotechnology10(1):1-10
  • Singh, J., Aastha Singh, Anchal Rani, Pankaj Kumar, V. K Baranwal and Anil Sirohi (2015). Evidence of a mixed infection of Candidatus Phytoplasma trifolii’ and a begomovirus in eggplant (Solanum melongena)” Journal of Pure and Applied Microbiology9(1); 663-670

Lead Lectures

  • Micronutrient Biofortification of food Crops: Present Status and Future Perspectives, ASEAN–INDIA WORKSHOP PROGRAMME 20th 28th SEPTEMBER, 2019, IGIB, New-Delhi.
  • Biofortification of Food Crops: Present status and Future perspectives, 15- Days Training & Skill Development Programme on Food Science & Technology Oct 16-30, 2021, CCSU, Meerut.
  • Biofortification of Food Crops: Present status and Future perspectives, 15- Days Training & Skill Development Programme on Food Science & Technology Oct 16-30, 2021, CCSU, Meerut.

Review Articles/Book chapters/Proceedings:

  • Malyaj R Prajapati, Jitender Singh and Pankaj Kumar (2021). Antimicrobial Resistance in Food Chain (Chapter-2), Involvement and Impact of Pollutants and Carcinogens in Food.(page no. 2-10).ISBN 978-93-54700-786-5
  • Siddique R.A., Shabana, M. K. Bharti, K. Ranjan, Khan M.A., Pankaj Kumar and M.K. Tripathi, Ali N (2021). Alarming Air Pollution negatively impacting on Human and Animal Health(Chapter-4), Involvement and Impact of Pollutants and Carcinogens in Food.(page no. 30-48).ISBN 978-93-54700-786-5
  • Mahesh Kumar Bharti, Pankaj Kumar, Deepika Chandra, Naresh P. Singh Varun Saxena (2021). Impact of Heavy Metal Toxicity in Animals(Chapter-7), Involvement and Impact of Pollutants and Carcinogens in Food.(page no. 66-80).ISBN 978-93-54700-786-5
  • Ankit Agarwal, Neelesh Kapoor, Pankaj Kumar, Naresh Pratap Singh, Rekha Dixit and Anil Sirohi (2021). Biomarkers: A Novel Approach for Environmental Pollution Biomonitoring(Chapter-9), Involvement and Impact of Pollutants and Carcinogens in Food.(page no. 100-107).ISBN 978-93-54700-786-5
  • Rekha Dixit, Shailendra Pratap Singh, Naresh Pratap Singh, Pankaj Kumar, R.Kumar & Anupam Dixit (2021) Effect of Heavy Metal Accumulation on Human Health(Chapter-11), Involvement and Impact of Pollutants and Carcinogens in Food.(page no. 115-119).ISBN 978-93-54700-786-5
  • Malyaj R Prajapati, Jitender Singh, Pankaj Kumar and Sandeep Kumar (2021). Aflatoxin in Agricultural Crops: Identification and Their Management (Chapter-6), Involvement and Impact of Pollutants and Carcinogens in Food.(page no. 54-62).ISBN 978-93-54700-786-5
  • Aakansha Manav, Malyaj R Prajapati, Jitender Singh and Pankaj Kumar (2021). Aflatoxin in Agricultural Crops: Identification and Their Management (Chapter-8), Involvement and Impact of Pollutants and Carcinogens in Food.(page no. 78-96).ISBN 978-93-54700-786-5
  • Annu Yadav, Jitender Singh, Koushlesh Ranjan, Pankaj Kumar, Shivani Khanna, Madhuri Gupta, Vinay Kumar, Shabir Hussain Wani, and Anil Sirohi (2020). Heat Shock Proteins: Master Players for Heat-stress Tolerance in Plants during Climate Change (Chapter-9) 167-212 in Book Heat Stress Tolerance in Plants: Physiological, Molecular and Genetic Perspectives edited by Shabir H. Wani and Vinay Kumar p ublished by Wiley [ISBN: 978-1119-43236-4].
  • Goyal M., Singh J., Kumr P., Sirohi A. (2018) Pulses for Human Nutritional Security. In: Wani S., Jain M. (eds) Pulse Improvement. Springer, Cham Chapter 1: 1-11 https://doi.org/10.1007/978 030 01743 9_1 .
  • Madhuri Gupta, Pankaj Kumar, Jitender Singh, Shivani Khanna and Mini Sharma (2017). Abiotic Stress Management in Pulse Crops Abiotic And Biotic Stress Management In Plants: Volume One Abiotic Stress Chapter 9 1:227-258.