_____________________________________________________________________________________________________ *Corresponding author: E-mail: neha.chakrawarti.amj19@aau.ac.in; International Journal of Plant & Soil Science 34(20): 365-377, 2022; Article no.IJPSS.87731 ISSN: 2320-7035 Basic Concepts of High throughput Metabolomics in Plants Neha Chakrawarti a* , Rajshree Verma b , Thirangtha Brahma c , Apurba Das d , Prety R. Narzary e , Sanjib Sharma f , Soumitro Goswami f , Manuranjan Gogoi g and Roshmi Dutta d a Department of Genetics and Plant Breeding, GBPUAT, Pantnagar, India. b Department of Plant Pathology, GBPUAT, Pantnagar, India. c Department of Genetics and Plant Breeding, AAU, Jorhat, India. d Department of Plant Pathology, AAU, Jorhat, India. e College of Sericulture, AAU, Jorhat, India. f Department of Horticulture, AAU, Jorhat, India. g Department of Tea Husbandry and Technology, AAU, Jorhat, India. Authors’ contributions This work was carried out in collaboration among all authors. All authors read and approved the final manuscript. Article Information DOI: 10.9734/IJPSS/2022/v34i2031164 Open Peer Review History: This journal follows the Advanced Open Peer Review policy. Identity of the Reviewers, Editor(s) and additional Reviewers, peer review comments, different versions of the manuscript, comments of the editors, etc are available here: https://www.sdiarticle5.com/review-history/87731 Received 05 April 2022 Accepted 10 June 2022 Published 22 June 2022 ABSTRACT Each cell contains many different metabolites and chemical molecules which are generated during cellular process. All the metabolites present in a cell at a particular time is called metabolome. The study of all the metabolites and their modification in a particular condition is called metabolomics. Metabolome is closely linked with genotype, physiology and environment. So,in a nutshell, metabolomics is the study of substrates and products of metabolism which are influenced by the genetic and environmental factors. In plants, metabolomics has now been frequently developed and studied in biotic and abiotic stress resistance. High throughput metabolomics includes time efficient and effective metabolite profiling techniques. These techniques are chromatography based and chromatography free methods. Chromatographic methods are NMR, GC-MS and LC-MS . Chromatographv free techniques include DI-MS,FI-MS,MALDI and Ambient MS . This paper will give an idea about how metabolomics work in elucidating plants phenotype, how sample is prepared for metabolite profiling, different techniques of metabolite profiling and various metabolomic databases. Review Article