Metabolomics and Microbiomics Book

Metabolomics and Microbiomics


  • Author : Vassilios Fanos
  • Publisher : Academic Press
  • Release Date : 2016-08-30
  • Genre: Medical
  • Pages : 144
  • ISBN 10 : 9780128054505

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Metabolomics and Microbiomics Excerpt :

Metabolomics and Microbiomics: Personalized Medicine from the Fetus to the Adult encompasses the most recent advances on the usage of metabolomics and microbiome research to improve disease diagnosis and healthcare. Medicine is changing from epidemiologic, descriptive, reductionist, and reactive approaches to individualized, predictive, and holistic ones by applying microbiomics to understand the functionality of the human body. The book discusses topics such as systems biology approaches, omics technologies, perinatal programming, and personalized medicine. It also discusses the ethical implications of microbiomics research and new pathways of research, such as renal regenerative medicine, gender medicine in perinatology, and animals and the science of healing. The book is a valuable resource for medical professionals and researchers in metabolomics, nutrition, microbiology, and personalized-predictive medicine. The book also will appeal to non-specialized professionals who may take advantage of its captivating and simple language. Covers the latest scientific discoveries in order to improve health and early diagnosis of diseases Brings a holistic and perinatal programming approach—from fetus to adulthood—to early and long-term prevention of diseases Provides illustrations and diagrams to facilitate understanding for readers Discusses the ethical implications of microbiomics research and new pathways of research, such as renal regenerative medicine, gender medicine in perinatology, and animals and the science of healing

Metabolomics Reveals the Impact of Xenobiotics on the Host metabolite microbiome Interaction Book

Metabolomics Reveals the Impact of Xenobiotics on the Host metabolite microbiome Interaction


  • Author : Jingwei Cai
  • Publisher : Unknown
  • Release Date : 2018
  • Genre: Uncategoriezed
  • Pages : null
  • ISBN 10 : OCLC:1050729007

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Metabolomics Reveals the Impact of Xenobiotics on the Host metabolite microbiome Interaction Excerpt :

The diversity and composition of the bacterial community inhabiting the human gastrointestinal tract contributes to the evolutionary fitness of the host through its role in extracting energy from diet and producing signaling molecules (e.g., short chain fatty acid [SCFA] and bile acid) to regulate metabolic and immunological function. Further, the gut microbiome composition and function can be perturbed by environmental stressors (xenobiotics, toxicants, drugs), change in diet (nutrition) or lifestyle (smoking, exercise, stress), and thus greatly influence the host metabolic phenotype and disease risk. A better understanding of how the xenobiotic-microbiome-host interaction contributes to disease risk may identify new therapeutic targets for metabolic and inflammatory disorders like obesity and diabetes.High-throughput metabolomics approaches including liquid chromatography coupled with mass spectrometry (LC-MS), gas chromatography coupled with mass spectrometry (GC-MS) and nuclear magnetic resonance (NMR) spectroscopy inform metabolic changes by creating a metabolite dictionary to decipher the metabolite chatter between the host and the gut microbiota. Moreover, robust genomics approaches, including 16S rRNA gene sequencing, metagenomics and metatranscriptomics, provide an additional perspective to view and understand the microbiome community structure and function. By combining those approaches, the correlation between microbial community structure, metabolic profiles and phenotypes of microbiome and host can be established to develop a deeper understanding of microbiota-host interaction. Therefore, the central hypothesis of the dissertation is metabolomics in addition with other informative techniques enables the comprehensive and complementary understanding of the mechanistic interplay between the host and microbiome.Given the biological and clinical significance of microbiota and microbial-derived metabolites like SCFAs and bile acids, reliable and efficient me

A Metabolomic Modelling Approach for Functional Microbiome Analysis Book

A Metabolomic Modelling Approach for Functional Microbiome Analysis


  • Author : Jasmine Chong
  • Publisher : Unknown
  • Release Date : 2022
  • Genre: Uncategoriezed
  • Pages : 0
  • ISBN 10 : OCLC:1342593401

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A Metabolomic Modelling Approach for Functional Microbiome Analysis Excerpt :

"The gut microbiome is a complex biological system that impacts many aspects of human health. While several studies have identified long lists of microbes implicated in disease, why they are associated with differential host phenotypes remains unclear. Metabolomics can complement sequencing-based approaches by providing a snapshot of host-microbial co-metabolism, however, its use in the field of microbiomics is still in its infancy. The objectives of my project are therefore to (i) to become proficient in metabolomics data processing and analysis and translate this knowledge into the development of bioinformatics tools for metabolomics data, (ii) to improve biological insights obtained from untargeted metabolomics data in an open-source and transparent matter, and (iii) to implement a novel bioinformatic framework to integrate untargeted metabolomics data and taxonomic microbial data to model changes in microbial metabolism. Ultimately, this framework will permit researchers to understand metabolic mechanisms of the gut microbiome and aide the design of novel therapeutics"--

An Integrated Analysis of Microbiomes and Metabolomics Book

An Integrated Analysis of Microbiomes and Metabolomics


  • Author : Yinglin Xia
  • Publisher : American Chemical Society
  • Release Date : 2022-03-25
  • Genre: Science
  • Pages : 100
  • ISBN 10 : 9780841299542

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An Integrated Analysis of Microbiomes and Metabolomics Excerpt :

Because the microbial community is dynamic, an individual’s microbiota at a given time is varied, and many factors, including age, host genetics, diet, and the local environment, significantly change the microbiota. Thus, microbiome researchers have naturally expanded their research to look for insights into the interaction of the microbiome with other “omics”. Metabolites (small molecules) are the intermediate or end products of metabolism. Metabolites have various functions. The microbial-derived metabolites play an important role in the function of the microbiome. Thus, the advancement in microbiome studies is becoming particularly critical for the integration of microbial DNA sequencing data with other omics data, especially microbiome-metabolomics integration.

Translational Systems Medicine and Oral Disease Book

Translational Systems Medicine and Oral Disease


  • Author : Stephen Sonis
  • Publisher : Academic Press
  • Release Date : 2019-09-14
  • Genre: Medical
  • Pages : 458
  • ISBN 10 : 9780128137635

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Translational Systems Medicine and Oral Disease Excerpt :

Translational Systems Medicine and Oral Disease bridges the gap between discovery science and clinical oral medicine, providing opportunities for both the scientific and clinical communities to understand how to apply recent findings in cell biology, genomic profiling, and systems medicine to favorably impact the diagnosis, treatment and management of oral diseases. Fully illustrated chapters from leading international contributors explore clinical applications of genomics, proteomics, metabolomics, microbiomics and epigenetics, as well as analytic methods and functional omics in oral medicine. Disease specific chapters detail systems approaches to periodontal disease, salivary gland diseases, oral cancer, bone disease, and autoimmune disease, among others. In addition, the book emphasizes biological synergisms across disciplines and their translational impact for clinicians, researchers and students in the fields of dentistry, dermatology, gastroenterology, otolaryngology, oncology and primary care. Presents the work of leading international researchers and clinicians who speak on the clinical applications of genomics, proteomics, metabolomics, microbiomics, and epigenetics, as well as analytic methods and functional omics in oral medicine Provides full-color, richly illustrated chapters that examine systems approaches to periodontal disease, salivary gland diseases, oral cancer, bone disease and autoimmune diseases Includes clinical case studies that illustrate examples of oral disease diagnostics and management, highlighting points of key importance for the reader Emphasizes biological synergisms across disciplines and their translational impact for clinicians, researchers, and students in the fields of dentistry, dermatology, gastroenterology, otolaryngology, oncology, and primary care

Statistical Data Analysis of Microbiomes and Metabolomics Book

Statistical Data Analysis of Microbiomes and Metabolomics


  • Author : Yinglin Xia
  • Publisher : American Chemical Society
  • Release Date : 2022-02-03
  • Genre: Science
  • Pages : 100
  • ISBN 10 : 9780841299160

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Statistical Data Analysis of Microbiomes and Metabolomics Excerpt :

Compared with other research fields, both microbiome and metabolomics data are complicated and have some unique characteristics, respectively. Thus, choosing an appropriate statistical test or method is a very important step in the analysis of microbiome and metabolomics data. However, this is still a difficult task for those biomedical researchers without a statistical background and for those biostatisticians who do not have research experiences in these fields. Statistical Data Analysis of Microbiomes and Metabolomics focuses on data analysis, statistical methods, and models. The general goal of this primer is to provide our readers with: (1) The challenges of analyzing microbiome and metabolomics data using the standard models and methods. (2) The new specifically designed methods and models developed to target the unique characteristics of microbiome data. (3) The strengths and weaknesses of the newly developed methods and models. (4) A comparison of the same categories of methods, based on their nature and capabilities, including whether the methods fit different types of data. (5) Explanations for whether the tested methods and used models with their assumptions and attributes are amenable to the tested data. (6) References to real studies to illustrate each of the important methods and models. Graduate students studying microbiome and metabolomics; statisticians, working on microbiome and metabolomics projects, either for their own research, or for their collaborative research for experimental design, grant application, and data analysis; and researchers who investigate biomedical and biochemical projects with the microbiome, metabolome, and multi-omics data analysis will benefit from reading this work.

The Human Microbiome  Diet  and Health Book

The Human Microbiome Diet and Health


  • Author : Food Forum
  • Publisher : National Academies Press
  • Release Date : 2013-02-27
  • Genre: Medical
  • Pages : 161
  • ISBN 10 : 9780309265867

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The Human Microbiome Diet and Health Excerpt :

The Food Forum convened a public workshop on February 22-23, 2012, to explore current and emerging knowledge of the human microbiome, its role in human health, its interaction with the diet, and the translation of new research findings into tools and products that improve the nutritional quality of the food supply. The Human Microbiome, Diet, and Health: Workshop Summary summarizes the presentations and discussions that took place during the workshop. Over the two day workshop, several themes covered included: The microbiome is integral to human physiology, health, and disease. The microbiome is arguably the most intimate connection that humans have with their external environment, mostly through diet. Given the emerging nature of research on the microbiome, some important methodology issues might still have to be resolved with respect to undersampling and a lack of causal and mechanistic studies. Dietary interventions intended to have an impact on host biology via their impact on the microbiome are being developed, and the market for these products is seeing tremendous success. However, the current regulatory framework poses challenges to industry interest and investment.

EVALUATING PREDICTIVE METABOLIC MODELLING TOOLS USING MICROBIOME SEQUENCING METABOLOMIC DATA  Book

EVALUATING PREDICTIVE METABOLIC MODELLING TOOLS USING MICROBIOME SEQUENCING METABOLOMIC DATA


  • Author : Chris Tang
  • Publisher : Unknown
  • Release Date : 2021
  • Genre: Uncategoriezed
  • Pages : 0
  • ISBN 10 : OCLC:1340916584

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EVALUATING PREDICTIVE METABOLIC MODELLING TOOLS USING MICROBIOME SEQUENCING METABOLOMIC DATA Excerpt :

Metabolomic technologies have been utilized increasingly in tandem with sequencing technologies in microbiome studies. Combined microbiome-metabolome approaches have fueled the discovery of many convincing associations between disease-associated metabolites and the microbial taxa and genes driving their variation, and new computational tools to integrate these datasets are just emerging. A subset of these tools can mathematically predict the metabolic activity of the microbiome using the genomic content encoded in the microbiome. If these tools are accurate, they could allow researchers to circumvent the difficult and time-consuming process of performing metabolomics experiments by generating metabolite data using microbiome sequencing data alone, however few groups have validated their predictions against experimentally measured data. I sought to examine the performances of six metabolic modelling tools by calculating the correlations between predicted and experimentally measured metabolite profiles using paired sequencing and metabolomic data taken from the human gut and vaginal microbiomes. Out of all surveyed tools, MelonnPan generated predictions that were correlated best to experimentally measured data, although the observed correlations were generally poor across all tools and varied depending on sample characteristics such as donor disease status and sampling site. I did not observe any metabolites that were robustly predicted across all datasets and tools, and in addition all tools generally performed poorly in identifying differentially abundant metabolites. In this work, I have demonstrated the feasibility of predicting metabolites solely from microbiome sequencing data, while raising important limitations relating to the robustness of these predictions.

Metabolic Profiling Book

Metabolic Profiling


  • Author : Georgios A. Theodoridis
  • Publisher : Humana
  • Release Date : 2019-04-30
  • Genre: Science
  • Pages : 291
  • ISBN 10 : 149399252X

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Metabolic Profiling Excerpt :

This volume explores the different approaches and techniques used by researchers to study the recent challenges and developments in metabolic profiling. This book is divided into IV parts. Part I contains chapters that highlight basic concepts, such as experimental design, data treatment, metabolite identification, and harmonization. Part II describes experimental protocols for both targeted and untargeted metabolomics covering the basic analytical technologies: LC-MS, GC-MS, NMR and CE-MS. In addition the protocols describe methods for the study of tissues, feces, blood and other types of biological samples as well as the application of chemical derivatization for GC-MS. Parts III and IV present the use of metabolomics in the study of food, plants and the life sciences, with examples from the quest for the discovery of disease biomarkers, physical exercise omics and metabolic profiling of food, fruit and wine. 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 thorough, Metabolic Profiling: Methods and Protocols is a valuable resource for researchers who are interested in expanding their knowledge of this rapidly developing field.

Microbiome and Metabolome in Diagnosis  Therapy  and other Strategic Applications Book

Microbiome and Metabolome in Diagnosis Therapy and other Strategic Applications


  • Author : Joel Faintuch
  • Publisher : Academic Press
  • Release Date : 2019-01-03
  • Genre: Science
  • Pages : 504
  • ISBN 10 : 9780128152508

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Microbiome and Metabolome in Diagnosis Therapy and other Strategic Applications Excerpt :

Microbiome and Metabolome in Diagnosis, Therapy, and Other Strategic Applications is the first book to simultaneously cover the microbiome and the metabolome in relevant clinical conditions. In a pioneering fashion, it addresses not only the classic intestinal environment, but also the oral, gastric, lung, skin and vaginal microbiome that is in line with the latest investigations. Nonbacterial microbiomes, such as fungi and viruses are not overlooked, and the plasma microbiome is also discussed. As plasma, brain, placenta, tumor cells, and other sterile fluids and tissues, are increasingly recognized to potentially host a microbiome, albeit a limited one, this is a timely resource. The book's editors were fortunate to have the input of renowned collaborators from nearly all continents. This is truly an international effort that brings the latest in the field to students and professionals alike. Provides comprehensive coverage on diagnosis, therapy, pharmacotherapy and disease prevention in context of the microbiome and metabolome Focuses on the proposed physiological or pathological conditions Presents an up-to-date, useful reference

Comprehensive Natural Products III Book

Comprehensive Natural Products III


  • Author : Anonim
  • Publisher : Elsevier
  • Release Date : 2020-07-22
  • Genre: Science
  • Pages : 4238
  • ISBN 10 : 9780081026915

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Comprehensive Natural Products III Excerpt :

Comprehensive Natural Products III, Third Edition, updates and complements the previous two editions, including recent advances in cofactor chemistry, structural diversity of natural products and secondary metabolites, enzymes and enzyme mechanisms and new bioinformatics tools. Natural products research is a dynamic discipline at the intersection of chemistry and biology concerned with isolation, identification, structure elucidation, and chemical characteristics of naturally occurring compounds such as pheromones, carbohydrates, nucleic acids and enzymes. This book reviews the accumulated efforts of chemical and biological research to understand living organisms and their distinctive effects on health and medicine and to stimulate new ideas among the established natural products community. Provides readers with an in-depth review of current natural products research and a critical insight into the future direction of the field Bridges the gap in knowledge by covering developments in the field since the second edition published in 2010 Split into 7 sections on key topics to allow students, researchers and professionals to find relevant information quickly and easily Ensures that the knowledge within is easily understood by and applicable to a large audience

Food Allergy  An Issue of Immunology and Allergy Clinics of North America Book

Food Allergy An Issue of Immunology and Allergy Clinics of North America


  • Author : Amal Assa’Ad
  • Publisher : Elsevier Health Sciences
  • Release Date : 2021-04-22
  • Genre: Medical
  • Pages : 240
  • ISBN 10 : 9780323813204

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Food Allergy An Issue of Immunology and Allergy Clinics of North America Excerpt :

This issue of Immunology & Allergy Clinics, guested edited by Dr. Amal Assa’ad, focuses on Food Allergy. Topics include, but are not limited to: Food Allergy: An example of translational Research, The Phenotype of the Food Allergic Patient, Psychosocial aspects of food allergy: Resiliency, challenges and opportunities, Racial/Ethnic Differences in Food Allergy, Tackling Food Allergy in Infancy, Developing National and International guidelines, Dietary Management of Food Allergy, Biologics and Novel Therapies for Food Allergy, The Infant Microbiome and Its Impact on Development of Food Allergy, Genetics of Food Allergy, The Unmet Needs of Patients with Food Allergies, Food Allergy, the Present and the Future, and more.

Innovative Technologies and Signal Processing in Perinatal Medicine Book

Innovative Technologies and Signal Processing in Perinatal Medicine


  • Author : Danilo Pani
  • Publisher : Springer Nature
  • Release Date : 2020-10-20
  • Genre: Technology & Engineering
  • Pages : 232
  • ISBN 10 : 9783030544034

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Innovative Technologies and Signal Processing in Perinatal Medicine Excerpt :

Pregnancy is a critical time for the health of the mother and the fetus, with important potential risks for both. Tools for antenatal diagnosis and pregnancy monitoring can support prevention and management of potential risks and complications. In particular, the perinatal period, spanning from the third trimester of pregnancy up to one month after birth, is the most critical for the baby. For this reason, in the last decades, biomedical engineering supported and fostered the scientific research towards the identification of new models, parameters, algorithms, and tools that can improve the quality of fetal monitoring, predict the outcomes and allow physicians to intervene in an appropriate manner to ensure a healthy future for the baby. This book follows the First International Summer School on Technologies and Signal Processing in Perinatal Medicine and reflects some of its most important master lectures. It represents a valuable guide for students and young researchers approaching this topic for the first time, as well as experienced researchers and practitioners looking for a clear representation of the themes and techniques presented by recognized experts in the field. Presents current and innovative technologies for fetal and neonatal monitoring Emphasis on both technology/signal processing and clinical aspects Offers a clear didactic approach to the subject matter

Metabolic Modeling based Tools for Integrative Microbiome Data Analysis Book

Metabolic Modeling based Tools for Integrative Microbiome Data Analysis


  • Author : Cecilia Anne Buuck Noecker
  • Publisher : Unknown
  • Release Date : 2019
  • Genre: Uncategoriezed
  • Pages : 187
  • ISBN 10 : OCLC:1101443910

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Metabolic Modeling based Tools for Integrative Microbiome Data Analysis Excerpt :

Complex communities of microbes reside in and on humans, where they closely interact with their hosts by performing a massively diverse array of metabolic reactions. Genomic and metabolomic technologies can now describe both the taxonomic profile of these communities and their metabolic products in unprecedented detail. By measuring both microbial composition and metabolite phenotypes from the same samples, and using the resulting datasets to make and evaluate predictions on the links between microbes and metabolites, it may be possible to infer and characterize metabolic mechanisms occurring in complex natural communities. However, relatively few computational analysis tools exist to integrate and make sense of such “microbiome-metabolome” datasets. In this dissertation, I describe the development and application of methods that use these datasets and reference databases to identify and evaluate relationships between microbes and metabolites. After introducing the current state of knowledge and available tools in the study of how microbial metabolites impact human health and disease, I present an initial framework for integrating microbiome and metabolomics datasets using metabolic modeling. I demonstrate its ability to predict and explain metabolic shifts in bacterial vaginosis, and further illustrate its application in two case studies, deciphering diet-microbiome interactions in mice and characterizing metabolic mechanisms in the microbiota of children with autism spectrum disorder. In order to compare this approach with alternatives and gain a better understanding of the limiting factors in microbiome-metabolome data analysis, I next describe a comprehensive framework for defining gold-standard mechanistic links between microbes and metabolites and using simulations to evaluate and compare our ability to recover them across different datasets and analysis methods. Finally, informed by the previous applications and evaluations, I introduce MIMOSA2, an update