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Dissertation
Biological characterisation of a new virus threatening vegetable crops: Physostegia chlorotic mottle virus (PhCMoV)
Authors: --- --- --- --- --- et al.
Year: 2021 Publisher: Liège Université de Liège (ULiège)

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Abstract

Physostegia chlorotic mottle alphanucleorhabdovirus (PhCMoV) was first detected by High-Throughput Sequencing in 2014 in Austria. Subsequent multiple detections of the virus across Europe, together with severe associated symptoms and resulting yield losses on vegetable crops, suggest that this viral pathogen could be an emergent threat. Due to the recent discovery of this virus, very little is known about its biology. This is why this study tried to investigate the biological characteristics of PhCMoV, with the ultimate aim of evaluating the phytosanitary risk it may represent. To do so, trials were conducted to define the impact of PhCMoV on various greenhouse-grown and mechanically inoculated solanaceous hosts. PhCMoV was found to cause a 70% to 93% reduction of marketable yields of tomatoes inoculated at the 3.5-week stage, depending on the cultivar tested. Despite the total yield was sometimes affected, drops in marketable productions were mostly attributable to a downgrading of tomato fruits. Quality disorders on culls mainly resulted from uneven ripening, mottling, and various chlorotic patterns. While PhCMoV infection did not reduce the number of fruits per plant, the average weight of infected tomatoes was up to more than 40% lower than that of virus-free fruits. Overall, PhCMoV infection was also associated with impaired growth, vein clearing and deformation of leaves, irrespective of the host species. Nevertheless, plants may remain asymptomatic, sometimes until fruiting or regrowth development. Remarkably, the plant's developmental stage at the time of inoculation was proven to be of a considerable influence on the impact of the virus. Alongside those bioassays, sequences from tomato plants from diverse locations were subjected to bioinformatic processing and the whole genome of PhCMoV, when detected, was reconstituted. The purity of the isolate used as inoculation source was ensured and phylogenetic analyses suggested a low mutation rate of the virus, as seen for other viruses of this genus transmitted in a persistent propagative manner by their insect vector. Despite the latter is still unknown for PhCMoV, various leafhopper species found in PhCMoV-infected fields were identified by DNA barcoding, and some of them were subjected to a transmission assay. The results encourage further studies to focus on Anaceratagallia lithuanica and Eupteryx atropunctata as potential vectors. The considerable impact of this virus demonstrated in this trial underlines the crucial need for further research on this virus so that appropriate control strategies can be implemented in case of an outbreak of the disease. Le Physostegia chlorotic mottle alphanucleorhabdovirus (PhCMoV) a été détecté pour la première fois par séquençage à haut débit en 2014 en Autriche. Les multiples détections du virus à travers l'Europe dans les années qui ont suivies, ainsi que les graves symptômes associés et les pertes de rendement qui en résultent sur les cultures légumières, suggèrent que ce pathogène viral pourrait représenter une menace émergente. En raison de la découverte récente de ce virus, sa biologie est très peu connue. C'est pourquoi cette étude a tenté de mieux caractériser le PhCMoV, dans le but ultime d'évaluer le risque phytosanitaire qu'il pourrait représenter. Pour ce faire, des essais en serre ont été menés afin de définir l'impact du PhCMoV sur divers cultures hôtes de solanacées inoculées mécaniquement. Il a été constaté que le PhCMoV entraînait des pertes de 70% à 93% du rendement commercialisable de tomates inoculées au stade de 3.5 semaines, selon le cultivar testé. Les chutes de productions commercialisables étaient principalement attribuables à un déclassement des tomates, ainsi qu'à une à éventuelle réduction du rendement total. Alors que l'infection par le PhCMoV n'a pas réduit le nombre de fruits par plante, le poids moyen des tomates infectées était inférieur jusqu'à plus de 40% de celui des fruits exempts du virus. Les défauts de qualité des fruits invendables résultaient principalement d'un mûrissement inégal, de marbrures et de divers motifs chlorotiques. De manière globale, l'infection par PhCMoV était également associée à des anomalies de croissance, à un éclaircissement des nervures et à une déformation des feuilles, quelle que soit l'espèce hôte. Néanmoins, les plantes malades pouvaient rester asymptomatiques, parfois jusqu'à la fructification ou le développement de repousses. Par ailleurs, le stade de développement de la plante au moment de l'inoculation s'est révélé exercer une influence considérable sur l'impact du virus. Parallèlement à ces bio-essais, des séquences de plants de tomates provenant de divers sites ont été soumises à des analyses bio-informatiques et le génome entier du PhCMoV, lorsqu'il a été détecté, a été reconstitué. La pureté de l'isolat utilisé comme source d'inoculation a été assurée et des analyses phylogénétiques ont suggéré un faible taux de mutation du virus, comme observé pour les autres virus de ce genre dont le mode de transmission par vecteur est de type persistant multipliant. Bien que ce vecteur soit toujours inconnu, diverses espèces de cicadelles trouvées dans les champs infectés par le PhCMoV ont été identifiées par codage à barres de l'ADN, et certaines d'entre elles ont été soumises à un test de transmission. Les résultats encouragent les études futures à se concentrer sur Anaceratagallia lithuanica et Eupteryx atropunctata en tant que vecteurs potentiels. L'impact considérable de ce virus, démontré au cours de cet essai, souligne le besoin crucial de poursuivre les recherches sur ce virus, afin de pouvoir mettre en œuvre des stratégies de contrôle appropriées en cas d'épidémie.


Book
DNA Barcodes : Methods and Protocols
Authors: ---
ISBN: 9781493958672 9781617795909 9781617795916 1617795909 1617795917 Year: 2012 Publisher: Totowa, NJ : Humana Press : Imprint: Humana,

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Abstract

A DNA barcode in its simplest definition is one or more short gene sequences taken from a standardized portion of the genome that is used to identify species through reference to DNA sequence libraries or databases. In DNA Barcodes: Methods and Protocols expert researchers in the field detail many of the methods which are now commonly used with DNA barcodes. These methods include the latest information on techniques for generating, applying, and analyzing DNA barcodes across the Tree of Life including animals, fungi, protists, algae, and plants. Written in the highly successful  Methods in Molecular Biology™ series format, the chapters include the kind of detailed description and implementation advice that is crucial for getting optimal results in the laboratory.   Thorough and intuitive, DNA Barcodes: Methods and Protocols aids scientists in continuing to study methods from wet-lab protocols, statistical, and ecological analyses along with guides to future, large-scale collections campaigns.

Keywords

DNA Barcoding, Taxonomic --- Data Mining --- Genetic markers. --- DNA data banks. --- Marqueurs génétiques --- Banques de données génétiques (Génétique légale) --- methods --- Genetic markers --- DNA data banks --- Information Storage and Retrieval --- Publication Formats --- Sequence Analysis, DNA --- Molecular Typing --- Investigative Techniques --- Medical Informatics Applications --- Information Science --- Sequence Analysis --- Genetic Techniques --- Analytical, Diagnostic and Therapeutic Techniques and Equipment --- Publication Characteristics --- Medical Informatics --- Laboratory Manuals --- Methods --- Biology --- Health & Biological Sciences --- Genetics --- Marqueurs génétiques --- Banques de données génétiques (Génétique légale) --- Methodological Studies --- Methodological Study --- Procedures --- Studies, Methodological --- Study, Methodological --- Method --- Procedure --- Text Mining --- Mining, Data --- Mining, Text --- DNA Barcode, Taxonomic --- Phylogenetic DNA Barcode --- Phylogenetic DNA Barcoding --- Taxonomic DNA Barcode --- Taxonomic DNA Barcodes --- Taxonomic DNA Barcoding --- Barcode, Phylogenetic DNA --- Barcode, Taxonomic DNA --- Barcodes, Phylogenetic DNA --- Barcodes, Taxonomic DNA --- Barcoding, Phylogenetic DNA --- Barcoding, Taxonomic DNA --- Barcodings, Phylogenetic DNA --- Barcodings, Taxonomic DNA --- DNA Barcode, Phylogenetic --- DNA Barcodes, Phylogenetic --- DNA Barcodes, Taxonomic --- DNA Barcoding, Phylogenetic --- DNA Barcodings, Phylogenetic --- DNA Barcodings, Taxonomic --- Phylogenetic DNA Barcodes --- Phylogenetic DNA Barcodings --- Taxonomic DNA Barcodings --- Computer Science, Medical --- Health Information Technology --- Informatics, Clinical --- Informatics, Medical --- Information Science, Medical --- Clinical Informatics --- Medical Computer Science --- Medical Information Science --- Health Information Technologies --- Information Technologies, Health --- Information Technology, Health --- Medical Computer Sciences --- Medical Information Sciences --- Science, Medical Computer --- Technologies, Health Information --- Technology, Health Information --- Genetic Technic --- Genetic Technics --- Genetic Technique --- Technic, Genetic --- Technics, Genetic --- Technique, Genetic --- Techniques, Genetic --- Analysis, Sequence --- Determination, Sequence --- Determinations, Sequence --- Sequence Determinations --- Sequence Determination --- Analyses, Sequence --- Sequence Analyses --- Information Sciences --- Science, Information --- Sciences, Information --- Application, Medical Informatics --- Applications, Medical Informatics --- Informatics Applications, Medical --- Informatics Application, Medical --- Medical Informatics Application --- Investigative Technics --- Investigative Technic --- Investigative Technique --- Technic, Investigative --- Technics, Investigative --- Technique, Investigative --- Techniques, Investigative --- Typing, Molecular --- Analysis, DNA Sequence --- DNA Sequence Determination --- DNA Sequence Determinations --- DNA Sequencing --- Determination, DNA Sequence --- Determinations, DNA Sequence --- Sequence Determinations, DNA --- DNA Sequence Analysis --- Sequence Determination, DNA --- Analyses, DNA Sequence --- DNA Sequence Analyses --- Sequence Analyses, DNA --- Sequencing, DNA --- Data Files --- Data Linkage --- Data Retrieval --- Data Sources --- Data Storage --- Data Storage and Retrieval --- Information Extraction --- Information Storage --- Machine-Readable Data Files --- Information Retrieval --- Data File --- Data File, Machine-Readable --- Data Files, Machine-Readable --- Data Source --- Extraction, Information --- Files, Machine-Readable Data --- Information Extractions --- Machine Readable Data Files --- Machine-Readable Data File --- Retrieval, Data --- Storage, Data --- DNA bank databases --- DNA banking databases --- DNA databanks --- DNA databases --- Chromosome markers --- DNA markers --- Medicine. --- Human genetics. --- Plant genetics. --- Animal genetics. --- Biomedicine. --- Human Genetics. --- Animal Genetics and Genomics. --- Plant Genetics & Genomics. --- Plants --- Heredity, Human --- Human biology --- Physical anthropology --- Clinical sciences --- Medical profession --- Life sciences --- Medical sciences --- Pathology --- Physicians --- Plant Genetics and Genomics.


Book
Isolation and Analysis of Characteristic Compounds from Herbal and Plant Extracts
Authors: ---
Year: 2022 Publisher: Basel MDPI - Multidisciplinary Digital Publishing Institute

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Abstract

Herbal and plant extracts show diverse activities and have been used for centuries as natural medicines for many health problems and diseases. Through the isolation and analysis of the compounds in the extracts, it is possible to understand why the extracts exhibit those activities, as well as the chemical metabolism of compounds that occur in plants and herbs. Recently, there have been increasing attempts to develop herbal and plant extracts into functional foods and drugs, but the legal requirements are becoming stricter. We need sophisticatedly defined extracts through the isolation and analysis of compounds comprising them in order to meet the legal requirements and to pursue quality control strategies in the production of functional foods and drugs. This Special Issue Book compiled the 15 recent research and review articles that highlight the isolation, profiling, and analysis of compounds in herbal and plant extracts, as well as quality control and standardized processing strategies for extracts with characteristic compounds.

Keywords

Research & information: general --- Biology, life sciences --- Polygala tenuifolia --- phenolic glycosides --- saponins --- anti-inflammatory effect --- bioactive compound --- isatidis folium --- HPLC-PDA-ESI-MS/MS --- antiwrinkle activity --- quality control --- response surface methodology --- Boesenbergia rotunda --- Zingiberaceae --- flavonoid --- 4-hydroxypanduratin --- vasorelaxation --- tribe Clauseneae --- DNA barcode --- volatile compounds --- antioxidant activity --- ACE inhibitory activity --- anticancer activity --- α-glucosidase inhibitory activity --- avocado oil --- fatty acids --- hearing loss --- zebrafish --- hair cell --- Schisandra chinensis --- Omija --- dibenzocyclooctadiene lignans --- seed --- flower --- fermented beverage --- dried tepals --- total phenolic content --- total anthocyanin content --- vitamin C --- ultrasound assisted extraction --- biorefining --- fibrosarcoma --- metastasis --- natural products --- plants --- protease inhibitors --- tumor cells --- bombacoideae --- pharmacology --- phytochemical ingredients --- bioactive compounds --- medicine --- Hippophae rhamnoides --- Elaeagnaceae --- citrate derivatives --- nuclear magnetic resonance (NMR) --- electronic circular dichroism (ECD) --- Dendrobium --- Orchidaceae --- D. nobile --- D. candidum --- D. nobile × candidum --- gamma-irradiated mutant --- metabolomics --- cytotoxicity --- Morus sp. pl. --- cultivar --- mulberry --- 1-DNJ --- HPLC-ESI-MS --- HILIC --- Inonotus obliquus --- inotodiol --- noncompartment analysis --- pharmacokinetic study --- Coreopsis rosea --- Coreopsis verticillata --- mutant cultivar --- dipeptidyl peptidase-IV --- analytical tools --- data analysis --- genetically modified crops --- mass spectrometry --- metabolomics databases --- metabolomics software tools --- omics --- plant biology --- n/a


Book
Isolation and Analysis of Characteristic Compounds from Herbal and Plant Extracts
Authors: ---
Year: 2022 Publisher: Basel MDPI - Multidisciplinary Digital Publishing Institute

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Abstract

Herbal and plant extracts show diverse activities and have been used for centuries as natural medicines for many health problems and diseases. Through the isolation and analysis of the compounds in the extracts, it is possible to understand why the extracts exhibit those activities, as well as the chemical metabolism of compounds that occur in plants and herbs. Recently, there have been increasing attempts to develop herbal and plant extracts into functional foods and drugs, but the legal requirements are becoming stricter. We need sophisticatedly defined extracts through the isolation and analysis of compounds comprising them in order to meet the legal requirements and to pursue quality control strategies in the production of functional foods and drugs. This Special Issue Book compiled the 15 recent research and review articles that highlight the isolation, profiling, and analysis of compounds in herbal and plant extracts, as well as quality control and standardized processing strategies for extracts with characteristic compounds.

Keywords

Research & information: general --- Biology, life sciences --- Polygala tenuifolia --- phenolic glycosides --- saponins --- anti-inflammatory effect --- bioactive compound --- isatidis folium --- HPLC-PDA-ESI-MS/MS --- antiwrinkle activity --- quality control --- response surface methodology --- Boesenbergia rotunda --- Zingiberaceae --- flavonoid --- 4-hydroxypanduratin --- vasorelaxation --- tribe Clauseneae --- DNA barcode --- volatile compounds --- antioxidant activity --- ACE inhibitory activity --- anticancer activity --- α-glucosidase inhibitory activity --- avocado oil --- fatty acids --- hearing loss --- zebrafish --- hair cell --- Schisandra chinensis --- Omija --- dibenzocyclooctadiene lignans --- seed --- flower --- fermented beverage --- dried tepals --- total phenolic content --- total anthocyanin content --- vitamin C --- ultrasound assisted extraction --- biorefining --- fibrosarcoma --- metastasis --- natural products --- plants --- protease inhibitors --- tumor cells --- bombacoideae --- pharmacology --- phytochemical ingredients --- bioactive compounds --- medicine --- Hippophae rhamnoides --- Elaeagnaceae --- citrate derivatives --- nuclear magnetic resonance (NMR) --- electronic circular dichroism (ECD) --- Dendrobium --- Orchidaceae --- D. nobile --- D. candidum --- D. nobile × candidum --- gamma-irradiated mutant --- metabolomics --- cytotoxicity --- Morus sp. pl. --- cultivar --- mulberry --- 1-DNJ --- HPLC-ESI-MS --- HILIC --- Inonotus obliquus --- inotodiol --- noncompartment analysis --- pharmacokinetic study --- Coreopsis rosea --- Coreopsis verticillata --- mutant cultivar --- dipeptidyl peptidase-IV --- analytical tools --- data analysis --- genetically modified crops --- mass spectrometry --- metabolomics databases --- metabolomics software tools --- omics --- plant biology --- n/a


Book
Isolation and Analysis of Characteristic Compounds from Herbal and Plant Extracts
Authors: ---
Year: 2022 Publisher: Basel MDPI - Multidisciplinary Digital Publishing Institute

Loading...
Export citation

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Bookmark

Abstract

Herbal and plant extracts show diverse activities and have been used for centuries as natural medicines for many health problems and diseases. Through the isolation and analysis of the compounds in the extracts, it is possible to understand why the extracts exhibit those activities, as well as the chemical metabolism of compounds that occur in plants and herbs. Recently, there have been increasing attempts to develop herbal and plant extracts into functional foods and drugs, but the legal requirements are becoming stricter. We need sophisticatedly defined extracts through the isolation and analysis of compounds comprising them in order to meet the legal requirements and to pursue quality control strategies in the production of functional foods and drugs. This Special Issue Book compiled the 15 recent research and review articles that highlight the isolation, profiling, and analysis of compounds in herbal and plant extracts, as well as quality control and standardized processing strategies for extracts with characteristic compounds.

Keywords

Polygala tenuifolia --- phenolic glycosides --- saponins --- anti-inflammatory effect --- bioactive compound --- isatidis folium --- HPLC-PDA-ESI-MS/MS --- antiwrinkle activity --- quality control --- response surface methodology --- Boesenbergia rotunda --- Zingiberaceae --- flavonoid --- 4-hydroxypanduratin --- vasorelaxation --- tribe Clauseneae --- DNA barcode --- volatile compounds --- antioxidant activity --- ACE inhibitory activity --- anticancer activity --- α-glucosidase inhibitory activity --- avocado oil --- fatty acids --- hearing loss --- zebrafish --- hair cell --- Schisandra chinensis --- Omija --- dibenzocyclooctadiene lignans --- seed --- flower --- fermented beverage --- dried tepals --- total phenolic content --- total anthocyanin content --- vitamin C --- ultrasound assisted extraction --- biorefining --- fibrosarcoma --- metastasis --- natural products --- plants --- protease inhibitors --- tumor cells --- bombacoideae --- pharmacology --- phytochemical ingredients --- bioactive compounds --- medicine --- Hippophae rhamnoides --- Elaeagnaceae --- citrate derivatives --- nuclear magnetic resonance (NMR) --- electronic circular dichroism (ECD) --- Dendrobium --- Orchidaceae --- D. nobile --- D. candidum --- D. nobile × candidum --- gamma-irradiated mutant --- metabolomics --- cytotoxicity --- Morus sp. pl. --- cultivar --- mulberry --- 1-DNJ --- HPLC-ESI-MS --- HILIC --- Inonotus obliquus --- inotodiol --- noncompartment analysis --- pharmacokinetic study --- Coreopsis rosea --- Coreopsis verticillata --- mutant cultivar --- dipeptidyl peptidase-IV --- analytical tools --- data analysis --- genetically modified crops --- mass spectrometry --- metabolomics databases --- metabolomics software tools --- omics --- plant biology --- n/a


Book
Advances in Food Analysis
Authors: ---
ISBN: 3039217437 3039217429 Year: 2019 Publisher: MDPI - Multidisciplinary Digital Publishing Institute

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Abstract

This Topical Collection of Molecules provides the most recent advancements and trends within the framework of food analysis, confirming the growing public, academic, and industrial interest in this field. The articles broach topics related to sample preparation, separation science, spectroscopic techniques, sensors and biosensors, as well as investigations dealing with the characterization of macronutrients, micronutrients, and other biomolecules. It offers the latest updates regarding alternative food sources (e.g., algae), functional foods, effects of processing, chiral or achiral bioactive compounds, contaminants, and every topic related to food science that is appealing to readers. Nowadays, the increasing awareness of the close relation among diet, health, and social development is stimulating demands for high levels of quality and safety in agro-food production, as well as new studies to fill gaps in the actual body of knowledge about food composition. For these reasons, modern research in food science and human nutrition is moving from classical methodologies to advanced instrumental platforms for comprehensive characterization. Nondestructive spectroscopic and imaging technologies are also proposed for food process monitoring and quality control in real time.

Keywords

high resolution mass spectrometry --- multiple reaction monitoring (MRM) --- PAT detection --- ?13C-IRMS --- thiamphenicol --- phospholipids --- HRMS --- chemometrics --- Box–Behnken design --- ultra-fast liquid chromatography (UFLC)–TripleTOF MS --- review --- chiral stationary phases --- blends --- validation --- microwave-assisted hydrodistillation --- carbohydrates --- antioxidant --- chiral --- quality control --- fruit juice --- modified electrode --- extraction techniques --- food composition --- nitrite detection --- HPLC fingerprint --- milk --- hops extracts --- real-time quantitative PCR --- apple juice --- Q-Orbitrap --- myrtle --- phylogeny --- fermentation --- aptamers --- antibiotics --- flavor profile --- carotenoids --- polyelectrolyte composite film --- hydrodistillation --- food quality --- amino acids --- bottle aging --- flavokavains --- qualitative and quantitative PCR --- high-throughput sequencing technology --- mass fragmentation --- fruit jams --- ASE --- walnut varieties --- anti-inflammatory --- Pol gene --- systematic evolution of ligands by exponential enrichment --- enantiomers --- agro-biodiversity --- florfenicol --- cuprous oxide nanoparticles --- geographical origin --- HPLC --- sunset yellow --- poultry eggs --- adulteration --- dimerization --- Lactarius deliciosus --- Scenedesmus --- HPLC–QTOF–MS/MS --- ultrasound-assisted extraction --- food --- UPLC-FLD --- hard clams --- NMR --- confirmatory method --- cyclic voltammetry --- 1H-NMR --- molecular identification --- bioactive compounds --- immature honey --- chemical composition --- differential pulse voltammetry --- kavalactones --- Polygonatum cyrtonema --- oligosaccharides --- Chia seed oil --- kiwifruit (Actinidia chinensis) --- biogenic amines --- supercritical fluid extraction --- rosé wines --- spectrum-effect relationship --- DNA barcode --- saccharides --- bifunctional polymer arms --- single-laboratory validation --- lipid-lowering effect --- microalgae --- essential oil --- polarity --- food process control --- food authentication --- Meretrix lyrata --- anthocyanins --- molecular species of phospholipid --- microwave-assisted extraction --- principal component analysis (PCA) --- fat-soluble vitamins --- Croatian wines --- mass spectra --- 1H NMR --- carbamates --- Marynka strain --- IMS --- Myrtus communis L. --- clenbuterol --- mycotoxin --- closures --- Piper methysticum (kava) --- liquid chromatography mass spectrometry --- florfenicol amine --- polyunsaturated fatty acid --- white wines --- second-derivative linear sweep voltammetry --- gold nanoparticles biosensor --- chemometric analysis --- multi-physicochemical parameters --- antihyperglycemic --- antioxidants --- phenolic compounds --- enhanced product ion (EPI) --- steaming --- fatty acids composition --- reduced graphene oxide --- Tricholoma matsutake --- PLS --- phenolic acids --- Sojae semen praeparatum (SSP) --- muscle --- Myrtus communis --- pesticide residues --- quercetin --- collagen peptide --- conversion --- DNA extraction --- fatty acids --- isomerization --- lipid classes --- natural mature honey --- milk powder --- fructose --- molecular weight --- UHPLC-UV --- food adulteration --- metabolites --- food safety --- acidity --- food security --- impedimetric aptasensor --- ?-blockers --- screen-printed interface

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