Quantitative and qualitative evaluation of nine different extraction methods for nucleic acids on soya bean food samples

1998 ◽  
Vol 207 (2) ◽  
pp. 81-90 ◽  
Author(s):  
Andreas Zimmermann ◽  
Jürg Lüthy ◽  
U. Pauli
Keyword(s):  
Nucleic Acids ◽  
Qualitative Evaluation ◽  
Extraction Methods ◽  
Food Samples ◽  
Soya Bean

Isolation of serum nucleic acids for fetal DNA analysis: comparison of manual and automated extraction methods

2008 ◽  
Vol 28 (13) ◽  
pp. 1227-1231 ◽  
Author(s):  
Irina Banzola ◽  
Inès Kaufmann ◽  
Olav Lapaire ◽  
Sinuhe Hahn ◽  
Wolfgang Holzgreve ◽  
...  
Keyword(s):  
Nucleic Acids ◽  
Dna Analysis ◽  
Extraction Methods ◽  
Automated Extraction ◽  
Fetal Dna

A qualitative and quantitative comparison between Web scraping and API methods for Twitter credibility analysis

2021 ◽  
Vol ahead-of-print (ahead-of-print) ◽  
Author(s):  
Irvin Dongo ◽  
Yudith Cardinale ◽  
Ana Aguilera ◽  
Fabiola Martinez ◽  
Yuni Quintero ◽  
...  
Keyword(s):  
San Francisco ◽  
Data Extraction ◽  
Qualitative Evaluation ◽  
Application Programming Interface ◽  
Extraction Methods ◽  
Content Type ◽  
Qualitative And Quantitative ◽  
Advantages And Disadvantages ◽  
Web Scraping ◽  
Shared Information

Purpose This paper aims to perform an exhaustive revision of relevant and recent related studies, which reveals that both extraction methods are currently used to analyze credibility on Twitter. Thus, there is clear evidence of the need of having different options to extract different data for this purpose. Nevertheless, none of these studies perform a comparative evaluation of both extraction techniques. Moreover, the authors extend a previous comparison, which uses a recent developed framework that offers both alternates of data extraction and implements a previously proposed credibility model, by adding a qualitative evaluation and a Twitter-Application Programming Interface (API) performance analysis from different locations. Design/methodology/approach As one of the most popular social platforms, Twitter has been the focus of recent research aimed at analyzing the credibility of the shared information. To do so, several proposals use either Twitter API or Web scraping to extract the data to perform the analysis. Qualitative and quantitative evaluations are performed to discover the advantages and disadvantages of both extraction methods. Findings The study demonstrates the differences in terms of accuracy and efficiency of both extraction methods and gives relevance to much more problems related to this area to pursue true transparency and legitimacy of information on the Web. Originality/value Results report that some Twitter attributes cannot be retrieved by Web scraping. Both methods produce identical credibility values when a robust normalization process is applied to the text (i.e. tweet). Moreover, concerning the time performance, Web scraping is faster than Twitter API and it is more flexible in terms of obtaining data; however, Web scraping is very sensitive to website changes. Additionally, the response time of the Twitter API is proportional to the distance from the central server at San Francisco.

scholarly journals Current Perspectives on High-Throughput Sequencing (HTS) for Adventitious Virus Detection: Upstream Sample Processing and Library Preparation

Viruses ◽  
2018 ◽  
Vol 10 (10) ◽  
pp. 566 ◽  
Author(s):  
Siemon Ng ◽  
Cassandra Braxton ◽  
Marc Eloit ◽  
Szi Feng ◽  
Romain Fragnoud ◽  
...  
Keyword(s):  
Sample Preparation ◽  
Nucleic Acids ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Virus Detection ◽  
Extraction Methods ◽  
Control Measures ◽  
Acid Extraction ◽  
Library Preparation ◽  
Sample Processing

A key step for broad viral detection using high-throughput sequencing (HTS) is optimizing the sample preparation strategy for extracting viral-specific nucleic acids since viral genomes are diverse: They can be single-stranded or double-stranded RNA or DNA, and can vary from a few thousand bases to over millions of bases, which might introduce biases during nucleic acid extraction. In addition, viral particles can be enveloped or non-enveloped with variable resistance to pre-treatment, which may influence their susceptibility to extraction procedures. Since the identity of the potential adventitious agents is unknown prior to their detection, efficient sample preparation should be unbiased toward all different viral types in order to maximize the probability of detecting any potential adventitious viruses using HTS. Furthermore, the quality assessment of each step for sample processing is also a critical but challenging aspect. This paper presents our current perspectives for optimizing upstream sample processing and library preparation as part of the discussion in the Advanced Virus Detection Technologies Interest group (AVDTIG). The topics include: Use of nuclease treatment to enrich for encapsidated nucleic acids, techniques for amplifying low amounts of virus nucleic acids, selection of different extraction methods, relevant controls, the use of spike recovery experiments, and quality control measures during library preparation.

scholarly journals Artificial rearing of pigs

1980 ◽  
Vol 44 (2) ◽  
pp. 161-170 ◽  
Author(s):  
M. J. Newport ◽  
H. D. Keal
Keyword(s):  
Nucleic Acids ◽  
Crude Protein ◽  
Ph Value ◽  
Skim Milk ◽  
Live Weight ◽  
Single Cell Protein ◽  
Soya Bean ◽  
Cell Protein ◽  
Milk Diet ◽  
Protein Nitrogen

1. Spray-dried diets were prepared containing (g/kg): dried skim-milk 665, dried whey 65, soya-bean oil 270 (diet U); or single-cell protein (Pruteen; SCP) 308, dried whey 440, soya-bean oil 252 (diet X). The diets had a crude protein (nitrogen × 6·25) content (g/kg) of 250 (diet U) and 240 (diet X), excluding nucleic acids (36 g/kg) in diet X.2. The diets were reconstituted (200 g dry matter/l) and mixtures of diets U and X prepared to give diets supplying 0 (diet U), and approximately 400 (diet V), 600 (diet W) and 800 (diet X) g crude protein from SCP/kg total protein. All diets were supplemented with vitamins, and minerals to equalize the calcium, phosphorous, sodium and potassium concentrations.3. Pigs weaned at 2 d of age were given the diets at hourly intervals on a scale based on live weight. At 28 d age the experiment was terminated and pigs killed 1 h after a feed for a study of protein digestion. Polyethylene glycol (PEG) was fed in the diets (0.5 g/l) for 24 h before slaughter.4. Performance of pigs fed on diet V was as good as on the all-milk diet U. Greater levels of replacement by SCP (diets W and X) reduced performance. Mortality was greater on the all-milk diet, but protein source had no effect on the incidence of scouring. N retention (g/d per kg live weight) was similar for all diets but declined with age.5. SCP appeared to stimulate secretion of pepsin and chymotrypsin, and reduced the pH value in digesta in the stomach. Enzyme adaptation may have been insufficient to digest high levels of SCP in the diet, and together with the decreased transit time observed using PEG as a marker, may account for the poorer performance when 600 or 800 g/kg milk protein was replaced.6. Nucleic acids from SCP were metabolized and not retained for tissue synthesis. Allantoin excretion accounted for 75% of the theoretical maximum for complete excretion of nucleic acids, and uric acid excretion was also increased.

scholarly journals IN VITRO BINDING OF NUCLEIC ACIDS TO TISSUE SECTIONS AFTER REMOVAL OF TISSUE NUCLEIC ACIDS

1964 ◽  
Vol 12 (8) ◽  
pp. 640-645 ◽  
Author(s):  
R. DAOUST
Keyword(s):  
Nucleic Acids ◽  
Extraction Methods ◽  
Organ Specificity ◽  
Chemical Extraction ◽  
Nucleic Acid Binding ◽  
Cytoplasmic Staining ◽  
Tissue Sections ◽  
In Vitro Binding ◽  
Vitro Binding

Rat tissue sections were freed from nucleic acids by enzymatic or chemical extraction methods, immersed in solutions of nucleic acids from various sources and stained with toluidine blue. Tissue sections immersed in solutions of DNA showed intense nuclear and cytoplasmic staining; similar results were obtained with tissue sections placed in solutions of RNA. Thus both DNA and RNA can bind to nuclear and cytoplasmic sites in tissue sections freed from nucleic acids. The experiments indicated however that in vitro binding of nucleic acids to tissue sections was not specific to original sites of nucleic acid binding and the reactions showed no particular species or organ specificity.

scholarly journals Determining the optimal method for DNA isolation from fruit jams

2018 ◽  
Vol 36 (No. 2) ◽  
pp. 126-132
Author(s):  
Sovová Tereza ◽  
Křížová Barbora ◽  
Ovesná Jaroslava
Keyword(s):  
Dna Extraction ◽  
Dna Isolation ◽  
Extraction Methods ◽  
Food Samples ◽  
Pcr Analysis ◽  
Uv Spectrophotometry ◽  
Pcr Assay ◽  
Optimal Method ◽  
Ctab Method ◽  
Dna Extraction Methods

DNA extraction is a crucial step in PCR analysis especially when analysing food samples that can be degraded and can potentially contain PCR-inhibiting substances. In this study, we compared the suitability of three DNA extraction methods – two kits: DNeasy<sup>®</sup> Plant Mini Kit and NucleoSpin<sup>®</sup> Food, and the CTAB method – for DNA extraction from commercial fruit jams. Fourteen jams with different contents of fruit, sugar and other additives were extracted in triplicate using the above-mentioned methods directly and after a washing step. The concentration and optical density were analysed using UV spectrophotometry and the amplifiability of the obtained DNA was evaluated using a PCR assay targeting a sequence coding for chloroplast tRNA-Leu. Samples isolated using the NucleoSpin<sup>®</sup> Food kit contained non-amplifiable DNA in eight cases, and samples isolated using the CTAB method could not be quantified. The DNeasy<sup>®</sup> Plant Mini Kit thus proved to be the most suitable method, since well-amplifiable DNA was obtained for all the analysed samples.

scholarly journals Extraction methods and test techniques for detection of vegetable proteins in meat products:I. Qualitative detection of soya derivatives

1976 ◽  
Vol 76 (3) ◽  
pp. 329-336 ◽  
Author(s):  
N. ST G. Hyslop
Keyword(s):  
Sodium Dodecyl Sulphate ◽  
Vegetable Protein ◽  
Sodium Dodecyl ◽  
Meat Products ◽  
Extraction Methods ◽  
Soya Bean ◽  
Animal Origin ◽  
Polyacrylamide Gels ◽  
Migration Rates ◽  
Qualitative Detection

SUMMARYExtracts of 3 soya bean preparations, used commercially in certain countries to replace part of the meat in popular meat products, were made by treatment with (i) sodium dodecyl sulphate, (ii) Triton-X100 or (iii) n–Butanol. Similar extracts were made from beef and pork.All extracts were examined by electrophoretic and immunological techniques. Stained polyacrylamide gels revealed distinctive protein bands after electrophoresis. The migration rates of corresponding bands differed between beef and pork extracts. However, the migration rates of vegetable bands revealed certain similarities, but differed very greatly from those of animal origin. Characteristic fast-migrating S-bands were distinguishable only in extracts of vegetable protein. Immunodiffusion tests, using antisera produced in rabbits against each extract, revealed varying degrees of similarity between extracts of vegetable origin, but the antisera were specific for either vegetable or animal protein.

scholarly journals Sticky problems: extraction of nucleic acids from molluscs

2021 ◽  
Vol 376 (1825) ◽  
Author(s):  
Coen M. Adema
Keyword(s):  
Nucleic Acids ◽  
Dna Extraction ◽  
Extraction Methods ◽  
Biological Properties ◽  
Alternative Methods ◽  
28S Rrna ◽  
Future Directions ◽  
Dna And Rna ◽  
Standard Quality ◽  
Dna Extraction Methods

Traditional molecular methods and omics-techniques across molluscan taxonomy increasingly inform biology of Mollusca. Recovery of DNA and RNA for such studies is challenged by common biological properties of the highly diverse molluscs. Molluscan biomineralization, adhesive structures and mucus involve polyphenolic proteins and mucopolysaccharides that hinder DNA extraction or copurify to inhibit enzyme-catalysed molecular procedures. DNA extraction methods that employ the detergent hexadecyltrimethylammoniumbromide (CTAB) to remove these contaminants importantly facilitate molecular-level study of molluscs. Molluscan pigments may stain DNA samples and interfere with spectrophotometry, necessitating gel electrophoresis or fluorometry for accurate quantification. RNA can reliably be extracted but the ‘hidden break’ in 28S rRNA of molluscs (like most protostomes) causes 18S and 28S rRNA fragments to co-migrate electrophoretically. This challenges the standard quality control based on the ratio of 18S and 28S rRNA, developed for deuterostome animals. High-AT content in molluscan rRNA prevents the effective purification of polyadenylated mRNA. Awareness of these matters aids the continuous expansion of molecular malacology, enabling work also with museum specimens and next-generation sequencing, with the latter imposing unprecedented demands on DNA quality. Alternative methods to extract nucleic acids from molluscs are available from literature and, importantly, from communications with others who study the molecular biology of molluscs. This article is part of the Theo Murphy meeting issue ‘Molluscan genomics: broad insights and future directions for a neglected phylum’.

scholarly journals Extraction methods of fat from food samples and preparation of fatty acid methyl esters for gas chromatography: A review

2020 ◽  
Vol 13 (8) ◽  
pp. 6865-6875 ◽  
Author(s):  
Geeth G. Hewavitharana ◽  
Dilini N. Perera ◽  
S.B. Navaratne ◽  
I. Wickramasinghe
Keyword(s):  
Gas Chromatography ◽  
Fatty Acid ◽  
Fatty Acid Methyl Esters ◽  
Methyl Esters ◽  
Extraction Methods ◽  
Food Samples ◽  
Acid Methyl
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