Lipidomic and metabolomic profiles of Coffea canephora L. beans cultivated in Southwestern Nigeria

Coffee (Coffea spp.) is one of the most popular refreshing beverages globally. Coffee lipid diversity has untapped potential for improving coffee marketability because lipids contribute significantly to both the health benefits and cup quality of coffee. However, in spite of its potential importance, there have not been extensive studies of lipids among C. canephora genotypes. In this study, ultra-performance liquid chromatography coupled with mass spectrometry (UPLC–MS) profiling of lipid molecules was performed for 30 genotypes consisting of 15 cultivated and 15 conserved genotypes of C. canephora in Southwestern Nigeria. We identified nine classes of lipids in the 30 genotypes which belong to the ‘Niaouli’, ‘Kouillou’ and ‘Java Robusta’ group: among these, the most abundant lipid class was the triacylglycerols, followed by the fatty acyls group. Although ‘Niaouli’ diverged from the ‘Kouillou’ and ‘Java Robusta’ genotypes when their lipid profiles were compared, there was greater similarity in their lipid composition by multivariate analysis, compared to that observed when their primary metabolites and especially their secondary metabolite profiles were examined. However, distinctions could be made among genotypes. Members of the fatty acyls group had the greatest power to discriminate among genotypes, however, lipids that were low in abundance e.g. a cholesterol ester (20:3), and phosphotidylethanolamine (34:0) were also helpful to understand the relationships among C. canephora genotypes. The divergent lipid profiles identified among the C. canephora genotypes, correlated with their Single Nucleotide Polymorphism grouping as assessed by genotype-by-sequencing, and will be exploited to improve coffee cup quality.

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Lipidomic and metabolomic profiles of Coffea canephora L. beans cultivated in South-western Nigeria

10.1101/2020.06.03.131623 ◽

2020 ◽

Author(s):

Chinyere F. Anagbogu ◽

Jiaqi Zhou ◽

Festus O. Olasupo ◽

Mohammed Baba-Nitsa ◽

Diane M. Beckles

Keyword(s):

Coffea Canephora ◽

Ultra Performance Liquid Chromatography ◽

Southwestern Nigeria ◽

Single Nucleotide ◽

Primary Metabolites ◽

Metabolite Profiles ◽

Genotype By Sequencing ◽

Fatty Acyls ◽

Cup Quality

AbstractCoffee (Coffea spp.) is one of the most popular refreshments globally. Coffee lipid diversity has untapped potential for improving coffee marketability because lipids contribute significantly to both the health benefits and cup quality of coffee. However, there have not been extensive studies of lipids of C. canephora genotypes. In this study, Ultra-performance liquid chromatography coupled with mass spectrometry (UPLC–MS) profiling of lipid molecules was performed for 30 genotypes consisting of 15 cultivated and 15 conserved genotypes of C. canephora in Southwestern Nigeria. We identified nine classes of lipids in the 30 genotypes which belong to the ‘Niaouli’, ‘Kouillou’ and ‘Java Robusta’ group: among these, the most abundant lipid class was the triacylglycerols, followed by the fatty acyls group. Although ‘Niaouli’ diverged from the ‘Kouillou’ and ‘Java Robusta’ genotypes when their lipid profiles were compared, there was greater similarity in their lipid composition by multivariate analysis, compared to that observed when their primary metabolites and especially their secondary metabolite profiles were examined. However, distinctions could be made among genotypes. Members of the fatty acyls group had the greatest power to discriminate among genotypes, however, lipids that were low in abundance e.g. a cholesterol ester (20:3), and phosphotidylethanolamine (34:0) were also helpful to understand the relationships among C. canephora genotypes. The lipid diversity identified among the C. canephora genotypes examined correlated with their overall Single Nucleotide Polymorphism diversity assessed by genotype-by-sequencing, supporting the relevance of this study to coffee cup quality improvement.

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Gas Chromatography-Mass Spectrometry and Single Nucleotide Polymorphism-Genotype-By-Sequencing Analyses Reveal the Bean Chemical Profiles and Relatedness of Coffea canephora Genotypes in Nigeria

Plants ◽

10.3390/plants8100425 ◽

2019 ◽

Vol 8 (10) ◽

pp. 425

Author(s):

Chinyere F. Anagbogu ◽

Christopher O. Ilori ◽

Ranjana Bhattacharjee ◽

Olufemi O. Olaniyi ◽

Diane M. Beckles

Keyword(s):

Gas Chromatography ◽

Single Nucleotide Polymorphism ◽

Coffea Canephora ◽

Gas Chromatography Mass Spectrometry ◽

P Value ◽

Polymorphism Analysis ◽

Nucleotide Polymorphism ◽

Single Nucleotide ◽

Chemical Profiles ◽

Genotype By Sequencing

The flavor and health benefits of coffee (Coffea spp.) are derived from the metabolites that accumulate in the mature bean. However, the chemical profiles of many C. canephora genotypes remain unknown, even as the production of these coffee types increases globally. Therefore, we used Gas Chromatography-Mass Spectrophotometry to determine the chemical composition of C. canephora genotypes in Nigeria—those conserved in germplasm repositories and those cultivated by farmers. GC-MS revealed 340 metabolites in the ripe beans, with 66 metabolites differing (p-value < 0.05) across the represented group. Univariate and multivariate approaches showed that the ‘Niaouli’ genotypes could be clearly distinguished from ‘Kouillou’ and ‘Java’ genotypes, while there was almost no distinction between ‘Kouillou’ and ‘Java,’. Varietal genotyping based on bean metabolite profiling was synchronous with that based on genome-wide Single Nucleotide Polymorphism analysis. Across genotypes, the sucrose-to-caffeine ratio was low, a characteristic indicative of low cup quality. The sucrose-to-caffeine ratio was also highly correlated, indicative of common mechanisms regulating the accumulation of these compounds. Nevertheless, this strong correlative link was broken within the ‘Niaouli’ group, as caffeine and sucrose content were highly variable among these genotypes. These ‘Niaouli’ genotypes could therefore serve as useful germplasm for starting a Nigerian C. canephora quality improvement breeding program.

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Effects of different drying rates on the physiological quality of Coffea canephora Pierre seeds

Brazilian Journal of Plant Physiology ◽

10.1590/s1677-04202005000200002 ◽

2005 ◽

Vol 17 (2) ◽

pp. 199-205 ◽

Cited By ~ 13

Author(s):

Sttela Dellyzete Veiga Franco da Rosa ◽

Delacyr da Silva Brandão Júnior ◽

Édila Vilela de Resende Von Pinho ◽

André Delly Veiga ◽

Luiz Hildebrando de Castro e Silva

Keyword(s):

Water Content ◽

Storage Temperature ◽

Removal Rate ◽

Coffea Canephora ◽

Development Stage ◽

Seed Vigor ◽

Drying Rate ◽

Physiological Quality ◽

Drying Rates

Desiccation tolerance in seeds depends on the species, development stage and drying conditions, especially the water removal rate. Coffea seeds are considered of intermediate performance, because they tolerate relative dehydration compared to orthodox seeds and are sensitive to low temperatures. The objective of this study was to verify the effect of different drying rates on the viability and storability of Coffea canephora seeds. A complete randomized experimental design was used, in a factorial 3 x 5 x 2 design, with three drying rates (fast, intermediate and slow), five final mean water contents after drying (51, 42, 33, 22 and 15 %) and two storage temperatures (10 and 20°C). The germination and seed vigor assessments, using radicle protrusion, cotyledon leaf opening, seedling emergence and emergence speed index, were performed shortly after drying and after two and four months storage. It was observed that with reduction in the water content there was reduction in the germination values and seed vigor, for all the drying rates. The greatest reductions in physiological quality occurred when the seeds were dried quickly and the best results were obtained at the intermediate drying rate. There was an effect of drying rate and storage temperature on the physiological quality of the seeds, and lower germination and vigor values were observed in seeds with lower water content stored at 20°C. C. canephora seeds were tolerant to desiccation down to 15 % water content and can be stored for four months at 10°C. A temperature of 20ºC can be used to store C. canephora seeds, as long as the water content is not reduced to values below 22 % water content.

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Trend research of vitamin D receptor: Bibliometric analysis

Health Informatics Journal ◽

10.1177/14604582211043158 ◽

2021 ◽

Vol 27 (4) ◽

pp. 146045822110431

Author(s):

Mohamed Abouzid ◽

Anna K. Główka ◽

Marta Karaźniewicz-Łada

Keyword(s):

Vitamin D ◽

Vitamin D Receptor ◽

Polycystic Ovary ◽

The United States ◽

Single Nucleotide ◽

Alcoholic Fatty Liver ◽

University Of Wisconsin ◽

The University ◽

Nucleolar Rna

Studies on vitamin D receptor (VDR) and its association with multiple disorders are expanding. This bibliometric study aims to find and summarize VDR-related publications, and compare them across various countries, organizations, and journals to demonstrate trends in VDR research. VOSviewer and Excel 2019 were used to classify and summarize Web of Science articles from 1900 to mid-2021. Total records of 8762 articles were analyzed, and maps of co-citations bibliometric keywords co-occurrence were designed. In conclusion, relative research interest and published papers related to VDR were growing in the past 30 years. The United States of America dominates the research regarding VDR. The highest quality of VDR research was achieved by the University of California System, University of Wisconsin System, and Harvard University. J Steroid Biochem Mol Biol, PLoS One, and J Biol Chem are the leading three productive journals on VDR. Various aspects of vitamin D deficiency associated disorders and genetic studies regarding VDR, including single nucleotide polymorphism, gene variants, epigenome, long non-coding ribonucleic acid (lncRNA), and small nucleolar RNA host gene 6 are potentially the recent research hotspot in this field. Moreover, coronavirus disease, polycystic ovary syndrome, non-alcoholic fatty liver disease, gut microbiota, gestational diabetes, systemic sclerosis, and chemoresistance are the trending medical conditions associated with VDR.

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Impact of the Coffea canephora gene introgression on beverage quality of C. arabica

Theoretical and Applied Genetics ◽

10.1007/s00122-003-1203-6 ◽

2003 ◽

Vol 107 (3) ◽

pp. 387-394 ◽

Cited By ~ 65

Author(s):

B. Bertrand ◽

B. Guyot ◽

F. Anthony ◽

P. Lashermes

Keyword(s):

Coffea Canephora ◽

Gene Introgression

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Physical Bean Quality of Arabica Coffee (Coffea Arabica) Cultivated at High and Medium Altitude

Pelita Perkebunan (a Coffee and Cocoa Research Journal) ◽

10.22302/iccri.jur.pelitaperkebunan.v32i3.241 ◽

2016 ◽

Vol 32 (3) ◽

pp. 151-161

Author(s):

Dwi Nugroho ◽

Panjisakti Basunanda ◽

Suryadi Mw

Keyword(s):

Coffea Arabica ◽

Block Design ◽

Research Station ◽

Physical Quality ◽

Arabica Coffee ◽

Randomized Complete Block Design ◽

Before And After ◽

Coffee Cultivation ◽

Cup Quality

Reducing productivity, outbreak of insects and diseases, and decreasingin physical and cup quality are major problems for Arabica coffee cultivation inmedium altitude. The aim of this study was to investigate the effect of altitude onphysical quality in eight genotypes of Arabica coffee. This research was conductedat two locations i.e. Andungsari Research Station-Bondowoso (1250 m asl. ashigh altitude) and Kalibendo Estate-Banyuwangi (700 m asl. as medium altitude).Randomized complete block design was used with three replications. Collecteddata consisted of outturn, weight of 100 beans, shape bean normality, apparentswelling, bulk density before and after roasting. Combined analysis on the physicalquality traits of green bean showed genotype x altitude interactions on weight of100 beans, percentage of normal beans and percentage of empty bean. Altitudesignificantly influenced coffee outturn. Decreasing in altitude from 1.250 m asl.to 700 m asl. caused declining in the outturn as much 32.9%. BP 700A, K 29, K34, K 79, and K 99 were genotypes that stable to produce normal bean and emptybeans at high and medium altidute, while K 8, K 130, and SIG were genotypeswith high normal beans at high altitude but not stable. Genotype x altitude interactiondid not occur for physical quality of other variables of outturn, bulk densitybefore and after roasting, apparent swelling, percentage of round beans,percentage of elephant beans, and percentage of triage beans. Altitude showedsignificant effect on all of physical quality of bean variables.

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Comparison of Nutritional and Nutraceutical Properties of Burdock Roots Cultivated in Fengxian and Peixian of China

Foods ◽

10.3390/foods10092095 ◽

2021 ◽

Vol 10 (9) ◽

pp. 2095

Author(s):

Xiaoxiao Zhang ◽

Daniela D. Herrera-Balandrano ◽

Wuyang Huang ◽

Zhi Chai ◽

Trust Beta ◽

...

Keyword(s):

Antioxidant Capacity ◽

Food Industry ◽

Ultra Performance Liquid Chromatography ◽

Chromatography Tandem Mass Spectrometry ◽

Liquid Chromatography Tandem Mass ◽

Development And Utilization ◽

Protein Amino Acids ◽

Nutraceutical Properties

This study aimed to analyze and compare the nutritional quality of powders of burdock root from Fengxian (FX) and Peixian (PX) in China. The nutrient composition including carbohydrates, protein, amino acids, vitamin C, carotenoids, as well as total phenols, total flavonoids and phenolic compounds were investigated in addition to in vitro antioxidant capacity. The results showed that the basic nutrients of burdock root powder (BRP) in both locations did not have significant differences (p > 0.05), although the in vitro antioxidant capacity of BRP of Fengxian (F-BRP) was greater than that of PX (p < 0.05). The burdock root peel powder (BRPP) possessed more phenolics and stronger in vitro antioxidant capacity than the burdock root powder (BRP) and peeled burdock root powder (PBRP) (p < 0.05). Moreover, better quality burdock root was obtained from FX. F-BRP was consequently analyzed by ultra-performance liquid chromatography tandem mass spectrometry for its phenolic composition. Seventeen phenolics, mainly caffeoylquinic acids, were detected. In addition, a total of 181 volatile compounds belonging to eight types were detected including alcohols, aldehydes, ketones, alkenes, esters, acids, linear or aromatic hydrocarbons, and others. The diverse compounds found in this study can provide a theoretical basis for the development and utilization of burdock in the food industry.

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The dental calculus metabolome in modern and historic samples

10.1101/136176 ◽

2017 ◽

Cited By ~ 1

Author(s):

Irina M. Velsko ◽

Katherine A. Overmyer ◽

Camilla Speller ◽

Matthew Collins ◽

Louise Loe ◽

...

Keyword(s):

Dental Plaque ◽

Ultra Performance Liquid Chromatography ◽

Oral Microbiome ◽

Chemical Degradation ◽

Dental Calculus ◽

Metabolite Profiles ◽

Free Nucleotides ◽

Liquid Chromatography Tandem Mass ◽

Long Time

AbstractIntroductionDental calculus is a mineralized microbial dental plaque biofilm that forms throughout life by precipitation of salivary calcium salts. Successive cycles of dental plaque growth and calcification make it an unusually well-preserved, long-term record of host-microbial interaction in the archaeological record. Recent studies have confirmed the survival of authentic ancient DNA and proteins within historic and prehistoric dental calculus, making it a promising substrate for investigating oral microbiome evolution via direct measurement and comparison of modern and ancient specimens.ObjectiveWe present the first comprehensive characterization of the human dental calculus metabolome using a multi-platform approach.MethodsUltra performance liquid chromatography-tandem mass spectrometry (UPLC-MS/MS) quantified 285 metabolites in modern and historic (200 years old) dental calculus, including metabolites of drug and dietary origin. A subset of historic samples was additionally analyzed by high-resolution gas chromatography-MS (GC-MS) and UPLC- MS/MS for further characterization of polar metabolites and lipids, respectively. Metabolite profiles of modern and historic calculus were compared to identify patterns of persistence and loss.ResultsDipeptides, free amino acids, free nucleotides, and carbohydrates substantially decrease in abundance and ubiquity in archaeological samples, with some exceptions. Lipids generally persist, and saturated and mono-unsaturated medium and long chain fatty acids appear to be well-preserved, while metabolic derivatives related to oxidation and chemical degradation are found at higher levels in archaeological dental calculus than fresh samples.ConclusionsThe results of this study indicate that certain metabolite classes have higher potential for recovery over long time scales and may serve as appropriate targets for oral microbiome evolutionary studies.

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FUZZY LOGIC IN THE SPATIAL AND TEMPORAL DISTRIBUTION IN THE QUALITY OF THE BEVERAGE IN CONILON COFFEE

Coffee Science ◽

10.25186/cs.v14i2.1563 ◽

2019 ◽

Vol 14 (2) ◽

pp. 163

Author(s):

Abel Souza Da Fonseca ◽

Julião Soares De Souza Lima ◽

Samuel De Assis Silva ◽

Maria Christina Junger Delôgo Dardengo ◽

Alexandre Candido Xavier

Keyword(s):

Spatial Dependence ◽

Temporal Variability ◽

Temporal Distribution ◽

Spherical Model ◽

Coffea Canephora ◽

Descriptive Statistics ◽

Fuzzy Classification ◽

Spatial And Temporal Variability ◽

Mouth Feel

<p>The objective in this study was to evaluate the spatial and temporal variability of the beverage quality by applying the fuzzy classification in the final global sensory analysis, for Coffea canephora Pierre ex A. Froehner, in two consecutive harvests. The studied variables were: fragrance (aroma), flavor, bitterness (sweetness), set, balance, cleaning, aftertaste, mouth feel, uniformity, salinity (acidity) and drink (global note). To the average overall scores of the drinks obtained on the cup-tasting at 80.0 points of a sampling, the mesh has applied the function of association of the fuzzy classification linear model to determine the degree of pertinence. The data were analyzed by the descriptive statistics and then by geostatistics to verify the existence and quantify the degree of spatial dependence of the variables. In the interval classified as “very good coffee” is found in the global average grade, in the two harvests. The methodology fuzzy applied in the global beverage note of the coffee conilon seminal made it possible to determine their spatial variability in the same distribution pattern in the two harvests, close ranges, and adjustments to the spherical model, which was confirmed by the spatial correlation of 61.6% among the fuzzy maps for the global score</p>

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Environmental factors affecting coffee (Coffea arabica L., Var. Castillo) quality in Colombia Southern

Revista de Ciencias Agrícolas ◽

10.22267/rcia.203702.140 ◽

2020 ◽

Vol 37 (2) ◽

Author(s):

Claudia Patricia Criollo-Velásquez ◽

Johana Alixa Muñoz-Belalcazar ◽

Tulio César Lagos-Burbano

Keyword(s):

Climatic Factors ◽

Principal Component ◽

Average Score ◽

Nutritional Factors ◽

Factors Affecting ◽

Thermal Amplitude ◽

And Cluster Analysis ◽

Soil Climate ◽

Cup Quality

The determinant factors of coffee cup quality are highly variable and depend on their interaction with coffee production and benefit. This study aimed to analyze soil and climatic factors and their association with the cup quality of Castillo coffee variety of three to five years of age from production units in ecotypes 220A and 221A of the Department of Nariño. The study farms were located in three different altitudinal ranges: ≤1500 m, between 1501 and 1700 m, and >1700 m. Soil, climate, and coffee cup quality variables were analyzed through principal component analysis and cluster analysis. A low level of association was found between climatic and soil nutritional factors and coffee cup quality. Soil Mn, Fe, and Cu contents showed the highest association levels with cup quality, indicated by an average score of 80.89. The highest values of photosynthetically active radiation -PAR- and thermal amplitude were found in La Unión - Nariño, and these variables were associated with the group that obtained the highest cup quality score (82.58). Cup quality was not associated with elevation since the highest scores (85.5 and 82.33) were obtained from production units located at ≤1500 m.a.s.l. and >1700 m.a.s.l, respectively.

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