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This eBook is a collection of articles from a Frontiers Research Topic. Frontiers Research Topics are very popular trademarks of the Frontiers Journals Series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area! Find out more on how to host your own Frontiers Research Topic or contribute to one as an author by contacting the Frontiers Editorial Office: frontiersin.org/about/contact

gut microbiome --- Infectious Disease --- Cancer --- Autoimmunity --- Gut metabolome

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Genomics --- Genomics. --- Metabolomics. --- Genome research --- Genomes --- Metabonomics --- Metabolomic --- Metabonomic --- Research --- Molecular genetics --- Nutrigenomics --- Metabolome --- Human Genome Project --- Genome --- Comparative Genomics --- Comparative Genomic --- Genomic, Comparative --- Genomics, Comparative

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Orchids are fascinating, with attractive flowers that sell in the markets and an increasing demand around the world. Additionally, some orchids are edible or scented and have long been used in preparations of traditional medicine.This book presents recent advances in orchid biochemistry, including original research articles and reviews. It provides in-depth insights into the biology of flower pigments, floral scent formation, bioactive compounds, pollination, and plant–microbial interaction as well as the biotechnology of protocorm-like bodies in orchids. It reveals the secret of orchid biology using molecular tools, advanced biotechnology, multi-omics, and high-throughput technologies and offers a critical reference for the readers.This book explores the knowledge about species evolution using comparative transcriptomics, flower spot patterning, involving the anthocyanin biosynthetic pathways, the regulation of flavonoid biosynthesis, which contributes to leaf color formation, gene regulation in the biosynthesis of secondary metabolites and bioactive compounds, the mechanism of pollination, involving the biosynthesis of semiochemicals, gene expression patterns of volatile organic compounds, the symbiotic relationship between orchids and mycorrhizal fungi, techniques using induction, proliferation, and regeneration of protocorm-like bodies, and so on. In this book, important or model orchid species were studied, including Anoectochilus roxburghii, Bletilla striata, Cymbidium sinense, Dendrobium officinale, Ophrys insectifera, Phalaenopsis ‘Panda’, Pleione limprichtii.

Phalaenopsis --- transcriptome --- microRNA --- anthocyanin biosynthesis --- molecular mechanism --- coelonin --- Bletilla striata --- anti-inflammation --- signal pathway --- cell-cycle arrest --- PTEN --- Dendrobium officinale --- PLP_deC --- bioinformatics --- expression pattern analysis --- evolution --- Pleione limprichtii --- flower color polymorphism --- variation within populations --- metabolome analysis --- anthocyanin biosynthetic pathway --- RNA sequencing --- transcription factor --- Dendrobium --- molecular identification --- endophytic fungi --- pathogenicity --- protocorm --- seedling --- Anoectochilus roxburghii --- Ceratobasidium sp. --- metabolome and transcriptome analyses --- flavonoid --- HPLC-MS/MS --- qRT-PCR --- Ophrys --- sexual deception --- semiochemicals --- fly orchid --- pollination --- comparative transcriptome --- active ingredients --- different tissues --- biotechnology --- breeding --- mass propagation --- Orchidaceae --- protocorm-like bodies --- somaclonal variation --- somatic embryogenesis --- Cymbidium --- floral scents --- volatile organic compounds --- metabolomic analysis --- differential metabolites --- enzyme activity --- gene expression --- leaf color --- Cymbidium sinense --- n/a

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Metabolomics has been a useful method for various study fields. However, its application in animal science does not seem to be sufficient. Metabolomics will be useful for various studies in animal science: Animal genetics and breeding, animal physiology, animal nutrition, animal products (milk, meat, eggs, and their by-products) and their processing, livestock environment, animal biotechnology, animal behavior, and animal welfare. More application examples and protocols for animal science will promote more motivation to use metabolomics effectively in the study field. Therefore, in this Special Issue, we introduced some research and review articles for “Metabolomic Applications in Anmal Science”. The main methods used were mass spectrometry or nuclear magnetic resonance spectroscopy. Not only a non-targeted, but also a targeted, analysis of metabolites is shown. The topics include dietary and pharmacological interventions and protocols for metabolomic experiments.

albumen --- breed --- chicken --- feed --- metabolome --- yolk --- arachidonic acid --- omega-3 fatty acids --- lipidomics --- mass spectrometry --- dietary fat --- fatty acid metabolism --- pork --- meat --- skeletal muscle --- fiber type --- cooking --- beef --- Wagyu --- Holstein --- captive giraffes --- urine --- metabolomics --- 1H-NMR --- NMR --- metabotype --- transition --- ketosis --- cattle --- chemometrics --- spectral correction --- authentication --- biomarker --- feeding --- meat quality traits --- metabolite --- postmortem aging --- processing --- chickens --- heat stress --- lipid peroxidation --- orotic acid --- feed efficiency --- biomarkers --- SNPs --- GWAS --- RFI --- pigs --- pathways --- metabolic profile --- transition period --- livestock --- methyl donor --- one-carbon metabolism --- negative energy balance --- pasture legumes --- phytoestrogens --- flavonoids --- coumestans --- polyphenols --- proanthocyanidins --- metabolic profiling --- biosynthesis --- linear model --- transcriptomics --- horse --- metabolomic --- metabolism --- exercise --- saliva --- anabolic practices --- testosterone --- plasma --- CE-TOFMS --- intramuscular fat --- meat quality --- porcine

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In the past few decades, awareness of the basic role that endophytic fungi play in shaping the fitness of both wild and crop plants has increased significantly. The number of papers on the subject is so large that it is becoming difficult to have a complete overview of the state-of-the-art with reference to specific crops. In the absence of readily available documents providing circumstantial information on the endophytic assemblage of plants, the isolation of a certain fungal species may appear to be occasional or trivial; hence, many important findings are at risk of going unnoticed. This Special Issue aims to present a collection of papers dealing with the occurrence and functions of endophytic fungi in crop species. It may represent a useful tool for stakeholders in this particular research field, with a view to stimulating a more thorough consideration of the opportunities deriving from their discoveries.

endophytic fungi --- Fusarium --- species complexes --- mycotoxins --- fusaric acid --- trichothecenes --- biosynthetic gene clusters --- Citrus spp. --- endophytes --- antagonism --- defensive mutualism --- plant growth promotion --- bioactive compounds --- entomopathogens --- crop protection --- integrated pest management --- Cordycipitaceae --- Alternaria --- Illumina MiSeq --- secondary raw materials --- compositae --- fungi --- herbs --- secondary metabolites --- symbiosis --- mutualism --- plant fitness --- latent pathogens --- Botryosphaeria rhodina --- Botryodiplodia theobromae --- onions --- amaryllis --- endosphere --- endobiome --- metabolome --- sage --- bioprospecting --- medicinal plants --- Lamiaceae --- biocontrol --- biostimulants --- induced systemic resistance --- ISR --- plant pathogens --- fungal entomopathogens --- Acacia --- Albizia --- Bauhinia --- Berberis --- Caesalpinia --- Cassia --- Cornus --- Hamamelis --- Jasminus --- Ligustrum --- Lonicera --- Nerium --- Robinia --- EFSA --- high-risk plants --- n/a