Download or read book Insight into plant spatial omics Mass spectrometry imaging written by Xiaodong Wang and published by Frontiers Media SA. This book was released on 2023-09-19 with total page 114 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Mass Spectrometry Imaging written by and published by . This book was released on 2017 with total page 18 pages. Available in PDF, EPUB and Kindle. Book excerpt: In our short review provides perspective regarding the use of mass spectrometry imaging (MSI) to study the rhizosphere. It also serves to complement the multi-omic-focused review by White et al. in this journals' issue. MSI is capable of elucidating chemical distributions within samples of interest in situ, and thus can provide spatial context to MS omics data in complementary experimental endeavors. Most MSI-based studies of plant-microbe interactions have focused on the phyllosphere and on the "associated rhizosphere" (our term for material that is not removed during harvesting). Sample preparation for these in situ analyses tends to be a limiting factor. Our studies, however, have provided valuable insights into the spatial arrangement of proteins, peptides, lipids, and other metabolites within these systems. We intend this short review to be a primer on the fundamentals of MSI and its role in plant-microbe analysis. Finally, we offer a perspective on the future of MSI and its use in understanding the molecular transformations beyond what we call the associated rhizosphere, one which extends to the rest of rhizosphere and into the bulk soil.
Download or read book Matrix Assisted Laser Desorption ionization mass Spectrometry Imaging MALDI MSI for Direct Visualization of Plant Metabolites in Situ written by and published by . This book was released on 2015 with total page 8 pages. Available in PDF, EPUB and Kindle. Book excerpt: Direct visualization of plant tissues by matrix assisted laser desorption ionization-mass spectrometry imaging (MALDI-MSI) has revealed key insights into the localization of metabolites in situ. Recent efforts have determined the spatial distribution of primary and secondary metabolites in plant tissues and cells. Strategies have been applied in many areas of metabolism including isotope flux analyses, plant interactions, and transcriptional regulation of metabolite accumulation. Technological advances have pushed achievable spatial resolution to subcellular levels and increased instrument sensitivity by several orders of magnitude. Furthermore, it is anticipated that MALDI-MSI and other MSI approaches will bring a new level of understanding to metabolomics as scientists will be encouraged to consider spatial heterogeneity of metabolites in descriptions of metabolic pathway regulation.
Download or read book MALDI Mass Spectrometry Imaging written by Tiffany Siegel Porta and published by Royal Society of Chemistry. This book was released on 2021-12-03 with total page 541 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book gathers knowledge about matrix-assisted laser desorption ionisation (MALDI) mass spectrometry imaging for postgraduate and professional researchers in academia and in industry where it has direct application to clinical research.
Download or read book Introduction to Spatial Mapping of Biomolecules by Imaging Mass Spectrometry written by Bindesh Shrestha and published by Elsevier. This book was released on 2021-04-23 with total page 272 pages. Available in PDF, EPUB and Kindle. Book excerpt: Imaging mass spectrometry (MS) techniques are often utilized without an understanding of their underlying principles, making it difficult for scientists to determine when and how they can exploit MS to visualize their biomolecules of interest. Introduction to Spatial Mapping of Biomolecules by Imaging Mass Spectrometry is an essential reference to help scientists determine the status and strategies of biomolecule analysis, describing its many applications for diverse classes of biomolecules. The book builds a foundation of imaging MS knowledge by introducing ionization sources, sample preparation, visualization guidelines, molecule identification, quantification, data analysis, etc. The second section contains chapters focused on case studies on analyzing a biomolecule class of molecules. Case studies include an introduction/background, and a summary of successful imaging MS studies with illustrative figures and future directions. - Provides the introductory foundations of imaging mass spectrometry for those new to the technique - Organized by topic to facilitate a quick deep dive, allowing researchers to immediately apply the imaging MS techniques to their work - Includes case studies summarizing the imaging MS techniques developed for the class of molecules
Download or read book Mass Spectrometry Imaging of Small Molecules written by Lin He and published by Humana. This book was released on 2016-09-22 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume presents new developments in the field of mass spectrometry imaging, covering imaging, software, data analysis, new instrumentations, and new methodological approaches. Chapters provide detailed operational instructions from sample preparation to method selection, from comparative quantification to structural identification and from data collection to visualization of small molecule mapping in complex samples. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Mass Spectrometry Imaging of Small Molecules aims to to bring the rapidly maturing methods of metabolic imaging to life science researchers and to minimize technical intimidation in adapting new technological platforms in biological research.
Download or read book Omics Science for Rhizosphere Biology written by Ramesh Namdeo Pudake and published by Springer Nature. This book was released on 2021-05-08 with total page 279 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents a timely review of the latest advances in rhizosphere biology, which have been facilitated by the application of omics tools. It includes chapters on the use of various omics tools in rhizosphere biology, focusing on understanding plant and soil microbe interactions. The role of proteomics and metagenomics in research on symbiotic association is also discussed in detail. The book also includes chapters on the use of omics tools for the isolation of functional biomolecules from rhizospheric microorganisms. The book’s respective sections describe and provide detailed information on important omics tools, such as genomics, transcriptomics, proteomics, metabolomics and meta-epigenomics. In turn, the book promotes and describes the combined use of plant biology, microbial ecology, and soil sciences to design new research strategies and innovative methods in soil biology. Lastly, it highlights the considerable potential of the rhizosphere in terms of crop productivity, bioremediation, ecological engineering, plant nutrition and health, as well as plant adaptation to stress conditions. This book offers both a practical guide and reference source for all scientists working in soil biology, plant pathology, etc. It will also benefit students studying soil microbiology, and researchers studying rhizosphere structure.
Download or read book The Tea Plant Genome written by Liang Chen and published by Springer Nature. This book was released on with total page 509 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Omics and its Integration A Systems Biology Approach to Understanding Plant Physiology written by Kashif Ali and published by Frontiers Media SA. This book was released on 2023-11-27 with total page 155 pages. Available in PDF, EPUB and Kindle. Book excerpt: Due to the complexity and interconnectivity of many biological processes, an integrative systems biology approach is required to better understand them. The integration of various omics data (including genomics, proteomics, transcriptomics, and metabolomics data) will provide a holistic view that highlights the relationship among the various biomolecules and their functions in plant growth, resistance, quality, and many other important traits. Recent advances in analytical power and in the ability to process large data sets has enabled researchers to integrate multi-omics data and have a much deeper knowledge of the cell, tissue, organ, or even an entire organism being studied. The goal of this Research Topic is not only to publish high-quality and reliable omics data but also to answer the bigger question of how to integrate and correlate different data sets from multiple omics studies. Can one omics data set be used as a primary data set for the design and execution of another omics study? If so, then how it can be done? What are its pre-requisites? How can we plan research involving multi-omics approach to reach a meaningful conclusion? These are the questions that need our attention and their answers are critical for the future of omics-based research. For this Research Topic, we welcome contributors to submit manuscripts related to the following themes: • Studies on plant-based genomics, transcriptomics, proteomics, and metabolomics; • Development of new analytical methods for omics utilizing in plants; • Advancements in the current analytical methods for utilizing omics in plants; • Integration of multi-omics data sets; • Development of new statistical methods for data analysis.
Download or read book Mass Spectrometry Imaging written by Stanislav S. Rubakhin and published by Humana Press. This book was released on 2012-10-13 with total page 490 pages. Available in PDF, EPUB and Kindle. Book excerpt: Mass spectrometry (MS) offers unmatched capabilities for the detection, characterization, and identification of a broad range of analytes. Mass spectrometry imaging (MSI) integrates MS data with information on the spatial distributions of the analytes, further enhancing the applicability of MS. In Mass Spectrometry Imaging: Principles and Protocols, expert practitioners from academia, industry, and the clinic contribute cutting-edge protocols describing the application of MSI to investigations of analyte localization in a variety of specimens, from microorganisms to plant and animal tissues. Divided into three sections, this volume presents the principles of MS, current and future trends of MSI, and qualitative and quantitative protocols to measure and identify endogenous metabolites and xenobiotics. An array of MSI approaches and technologies for characterizing peptide and protein distributions are described in detail. Written in the highly successful Methods in Molecular BiologyTM series format, protocol chapters include introductions to their respective topics, lists of the necessary materials and reagents, and step-by-step, readily reproducible laboratory procedures. Also included are notes providing tips to avoid experimental pitfalls and helpful suggestions for method troubleshooting. Comprehensive and up-to-date, Mass Spectrometry Imaging: Principles and Protocols is written for scientists, biological and chemical engineers, and clinicians who are interested in applying MSI in their work and those who would benefit from having detailed experimental guidelines available in a single, convenient source.
Download or read book Root Galling Disease of Vegetable Plants written by Faheem Ahmad and published by Springer Nature. This book was released on 2023-11-22 with total page 346 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides the most comprehensive and up-to-date review of research on vegetable plants associated with root-galls disease caused by root-knot nematodes (RKNs), Meloidogyne spp. Vegetables retain a key position in cultural cuisines and their consumption worldwide due to rich sources of micronutrients, including vitamins, minerals and antioxidants, but root galls disease of these crops caused by RKNs steals both quantity and quality from production. The field of plant nematology has experienced exponential growth over the past decade, and these RKNs are now known as widely damaging obligate plant parasites of vegetable plants. Advances are being made in understanding their biology, parasitism in the root system, giant cell development, root gall formation, chemical signalling, root-knot disease complexes, and management systems. This compilation provides an invaluable resource for studying root-galls disease of vegetable plants to those readers associated with plant nematology, plant pathology, plant protection, and agricultural science, including researchers, teachers, advanced undergraduates and graduate students, and even agricultural extension agents and farmers.
Download or read book Development of High spatial and High mass Resolution Mass Spectrometric Imaging MSI and Its Application to the Study of Small Metabolites and Endogenous Molecules of Plants written by and published by . This book was released on 2012 with total page 164 pages. Available in PDF, EPUB and Kindle. Book excerpt: High-spatial and high-mass resolution laser desorption ionization (LDI) mass spectrometric (MS) imaging technology was developed for the attainment of MS images of higher quality containing more information on the relevant cellular and molecular biology in unprecedented depth. The distribution of plant metabolites is asymmetric throughout the cells and tissues, and therefore the increase in the spatial resolution was pursued to reveal the localization of plant metabolites at the cellular level by MS imaging. For achieving high-spatial resolution, the laser beam size was reduced by utilizing an optical fiber with small core diameter (25 [mu]m) in a vacuum matrix-assisted laser desorption ionization-linear ion trap (vMALDI-LTQ) mass spectrometer. Matrix application was greatly improved using oscillating capillary nebulizer. As a result, single cell level spatial resolution of ~ 12 [mu]m was achieved. MS imaging at this high spatial resolution was directly applied to a whole Arabidopsis flower and the substructures of an anther and single pollen grains at the stigma and anther were successfully visualized. MS imaging of high spatial resolution was also demonstrated to the secondary roots of Arabidopsis thaliana and a high degree of localization of detected metabolites was successfully unveiled. This was the first MS imaging on the root for molecular species. MS imaging with high mass resolution was also achieved by utilizing the LTQ-Orbitrap mass spectrometer for the direct identification of the surface metabolites on the Arabidopsis stem and root and differentiation of isobaric ions having the same nominal mass with no need of tandem mass spectrometry (MS/MS). MS imaging at high-spatial and high-mass resolution was also applied to cer1 mutant of the model system Arabidopsis thaliana to demonstrate its usefulness in biological studies and reveal associated metabolite changes in terms of spatial distribution and/or abundances compared to those of wild-type. The spatial distribution of targeted metabolites, mainly waxes and flavonoids, was systematically explored on various organs, including flowers, leaves, stems, and roots at high spatial resolution of ~ 12-50 [mu]m and the changes in the abundance level of these metabolites were monitored on the cer1 mutant with respect to the wild-type. This study revealed the metabolic biology of CER1 gene on each individual organ level with very detailed high spatial resolution. The separate MS images of isobaric metabolites, i.e. C29 alkane vs. C28 aldehyde could be constructed on both genotypes from MS imaging at high mass resolution. This allows tracking of abundance changes for those compounds along with the genetic mutation, which is not achievable with low mass resolution mass spectrometry. This study supported previous hypothesis of molecular function of CER1 gene as aldehyde decarbonylase, especially by displaying hyper accumulation of aldehydes and C30 fatty acid and decrease in abundance of alkanes and ketones in several plant organs of cer1 mutant. The scope of analytes was further directed toward internal cell metabolites from the surface metabolites of the plant. MS profiling and imaging of internal cell metabolites were performed on the vibratome section of Arabidopsis leaf. Vibratome sectioning of the leaf was first conducted to remove the surface cuticle layer and it was followed by enzymatic treatment of the section to induce the digestion of primary cell walls, middle lamella, and expose the internal cells underneath to the surface for detection with the laser by LDI-MS. The subsequent MS imaging onto the enzymatically treated vibratome section allowed us to map the distribution of the metabolites in the internal cell layers, linolenic acid (C18:3 FA) and linoleic acid (C18:2 FA). The development of an assay for relative quantification of analytes at the single subcellular/organelle level by LDI-MS imaging was attempted and both plausibility and significant obstacles were seen. As ...
Download or read book Microbiomes of Soils Plants and Animals written by Rachael E. Antwis and published by Cambridge University Press. This book was released on 2020-03-12 with total page 251 pages. Available in PDF, EPUB and Kindle. Book excerpt: A comparative, holistic synthesis of microbiome research, spanning soil, plant, animal and human hosts.
Download or read book Recent Advances in Polyphenol Research Volume 6 written by Heidi Halbwirth and published by John Wiley & Sons. This book was released on 2019-01-04 with total page 453 pages. Available in PDF, EPUB and Kindle. Book excerpt: Plant polyphenols are secondary metabolites that constitute one of the most common and widespread groups of natural products. They are crucial constituents of a large and diverse range of biological functions and processes, and provide many benefits to both plants and humans. Many polyphenols, from their structurally simplest representatives to their oligo/polymeric versions, are notably known as phytoestrogens, plant pigments, potent antioxidants, and protein interacting agents. This sixth volume of the highly regarded Recent Advances in Polyphenol Research series is edited by Heidi Halbwirth, Karl Stich, Véronique Cheynier and Stéphane Quideau, and is a continuance of the series’ tradition of compiling a cornucopia of cutting-edge chapters, written by some of the leading experts in their respective fields of polyphenol sciences. Highlighted herein are some of the most recent and pertinent developments in polyphenol research, covering such major areas as: Chemistry and physicochemistry Biosynthesis, genetics & metabolic engineering Roles in plants and ecosystems Food, nutrition & health Applied polyphenols This book is a distillation of the most current information, and as such, will surely prove an invaluable source for chemists, biochemists, plant scientists, pharmacognosists and pharmacologists, biologists, ecologists, food scientists and nutritionists.
Download or read book Concepts and Techniques in OMICS and System Biology written by Asmat Farooq and published by Elsevier. This book was released on 2024-08-23 with total page 258 pages. Available in PDF, EPUB and Kindle. Book excerpt: Concepts and Techniques in OMICS and Systems Biology provides a concise and lucid account on the technical aspects of omics, system biology and their application in fields of different life science. With a strong focus on the fundamental principles understanding of metabolomics, ionomics and system biology, the book also gives an updated account on technical aspects of omics and system biology. Since both omics and systems biology fields are fast advancing filed of biological sciences, its significance and applications need to be understood from the baseline. In 10 chapters Concepts and Techniques in OMICS and Systems Biology introduces the reader to both Proteomics, Metabolomics and Ionomics, and System Biology, the technical applications, describes both the software in for proteomics as metabolomic enumeration and preludes Omics technologies and their applications. The chapters are designed in a well-defined chronology such that readers will understand the concepts and techniques involved in omics and system biology. This compilation will be ideal reading material for students, researchers and people working in the industries related to biological sciences. Provides an in-depth explanation of fundamental principles regarding the understanding of metabolomics, ionomics and system biology. Gives updated account on technical aspects of omics and system biology. Includes unique content in its theoretical background, technical approaches and advancements made in omics and systems biology
Download or read book Annual Plant Reviews Biology of Plant Metabolomics written by Robert D. Hall and published by John Wiley & Sons. This book was released on 2011-02-25 with total page 574 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biology of Plant Metabolomics is an exciting new volume in Wiley-Blackwell's highly successful Annual Plant Reviews series. Concentrating on the biology and biological relevance of plant metabolomics, each chapter, written by internationally-acknowledged experts in the field from at least two different research groups, combines a review of the existing biological results with an extended assessment of possible future developments and the impact that these will have on the type of research needed for the future. Following a general introduction, this exciting volume includes details of metabolomics of model species including Arabidopsis and tomato. Further chapters provide in-depth coverage of abiotic stress, data integration, systems biology, genetics, genomics, chemometrics and biostatisitcs. Applications of plant metabolomics in food science, plant ecology and physiology are also comprehensively covered. Biology of Plant Metabolomics provides cutting edge reviews of many major aspects of this new and exciting subject. It is an essential purchase for plant scientists, plant geneticists and physiologists. All libraries in universities and research establishments where biological sciences are studied and taught should have a copy of this Annual Plant Reviews volume on their shelves.
Download or read book Evolution of Translational Omics written by Institute of Medicine and published by National Academies Press. This book was released on 2012-09-13 with total page 354 pages. Available in PDF, EPUB and Kindle. Book excerpt: Technologies collectively called omics enable simultaneous measurement of an enormous number of biomolecules; for example, genomics investigates thousands of DNA sequences, and proteomics examines large numbers of proteins. Scientists are using these technologies to develop innovative tests to detect disease and to predict a patient's likelihood of responding to specific drugs. Following a recent case involving premature use of omics-based tests in cancer clinical trials at Duke University, the NCI requested that the IOM establish a committee to recommend ways to strengthen omics-based test development and evaluation. This report identifies best practices to enhance development, evaluation, and translation of omics-based tests while simultaneously reinforcing steps to ensure that these tests are appropriately assessed for scientific validity before they are used to guide patient treatment in clinical trials.
