scholarly journals Total Nucleic Acid Extraction from Single Zebrafish Embryos for Genotyping and RNA-seq

BIO-PROTOCOL ◽  
2022 ◽  
Vol 12 (1) ◽  
Author(s):  
Neha Wali ◽  
Munise Merteroglu ◽  
Richard White ◽  
Elisabeth M Busch-Nentwich
Keyword(s):  
Nucleic Acid ◽  
Zebrafish Embryos ◽  
Acid Extraction ◽  
Total Nucleic Acid ◽  
Rna Seq ◽  
Nucleic Acid Extraction

Comparative Analysis of Three Different Total Nucleic Acid Extraction Protocols for the Diagnosis of Geminiviruses in Squash (Cucurbita moschata)

2011 ◽  
Vol 160 (1) ◽  
pp. 19-25
Author(s):  
Eduardo J. Hernández ◽  
Floribeth Mora-Umaña ◽  
Federico Albertazzi ◽  
James P. Karkashian ◽  
Pilar Ramírez
Keyword(s):  
Comparative Analysis ◽  
Nucleic Acid ◽  
Acid Extraction ◽  
Cucurbita Moschata ◽  
Total Nucleic Acid ◽  
Nucleic Acid Extraction

scholarly journals Quantification of SARS-CoV-2 and cross-assembly phage (crAssphage) from wastewater to monitor coronavirus transmission within communities

2020 ◽  
Author(s):  
Hyatt Green ◽  
Maxwell Wilder ◽  
Frank A. Middleton ◽  
Mary Collins ◽  
Ariana Fenty ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acids ◽  
Cumulative Incidence ◽  
Small Volume ◽  
Acid Extraction ◽  
Total Nucleic Acid ◽  
Nucleic Acid Extraction ◽  
Wastewater Infrastructure ◽  
Scalable Methods ◽  
Human Specific

Wastewater surveillance of SARS-CoV-2 has become an attractive tool for combating the spread of COVID-19 by assessing the presence or levels of the virus shed in a population. However, the methods to quantify viral RNA and to link those quantities to the level of infection within the community vary. In this study, we sought to identify and optimize scalable methods for recovery of viral nucleic acids from wastewater and attempted to use a constitutive member of the gut virome, human-specific crAssphage, to help account for unknown levels of SARS-CoV-2 decay and dilution in the wastewater infrastructure. Results suggest that ultracentrifugation of a small volume of wastewater through a 50% sucrose cushion followed by total nucleic acid extraction yielded quantifiable virus in an area with a modest number of COVID-19 cases. Further, the ratio of log10(SARS-CoV-2):log10(crAssphage) appears to be associated with the cumulative incidence of COVID-19 in the Syracuse, NY area. In areas where ultracentrifuges are available, these methods may be used to link SARS-CoV-2 quantities in wastewater to levels of transmission within communities with sewer service.

scholarly journals Total nucleic acid extraction - Maxwell(R) HT Environmental TNA Kit, custom (Promega) v2

2021 ◽  
Author(s):  
Adélaïde Roguet
Keyword(s):  
Nucleic Acid ◽  
Acid Extraction ◽  
Total Nucleic Acid ◽  
Nucleic Acid Extraction

Total nucleic acid extraction from wastewater using Maxwell(R) HT Environmental TNA Kit, custom (Promega)

Optimization of total nucleic acid extraction method for detecting Coconut cadang-cadang viroid variants in oil palm

2017 ◽  
Vol 46 (3) ◽  
pp. 235-237
Author(s):  
R. Kanavedee ◽  
G. Vadamalai ◽  
W. H. Lau ◽  
N. D. Roslan ◽  
S. Sundram
Keyword(s):  
Nucleic Acid ◽  
Oil Palm ◽  
Extraction Method ◽  
Acid Extraction ◽  
Total Nucleic Acid ◽  
Nucleic Acid Extraction

scholarly journals Epitachophoresis is a novel versatile total nucleic acid extraction method

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Vladimira Datinska ◽  
Pantea Gheibi ◽  
Keynttisha Jefferson ◽  
Jaeyoung Yang ◽  
Sri Paladugu ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Nucleic Acid ◽  
Extraction Method ◽  
Acid Extraction ◽  
Total Nucleic Acid ◽  
Next Generation ◽  
Nucleic Acid Extraction ◽  
Dna And Rna ◽  
Generation Sequencing

AbstractEpitachophoresis is a novel next generation extraction system capable of isolating DNA and RNA simultaneously from clinically relevant samples. Here we build on the versatility of Epitachophoresis by extracting diverse nucleic acids ranging in lengths (20 nt–290 Kbp). The quality of extracted miRNA, mRNA and gDNA was assessed by downstream Next-Generation Sequencing.

scholarly journals Differing Effects of Standard and Harsh Nucleic Acid Extraction Procedures on Diagnostic Helminth Real-Time PCRs Applied to Human Stool Samples

Pathogens ◽  
2021 ◽  
Vol 10 (2) ◽  
pp. 188
Author(s):  
Tanja Hoffmann ◽  
Andreas Hahn ◽  
Jaco J. Verweij ◽  
Gérard Leboulle ◽  
Olfert Landt ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Real Time ◽  
Real Time Pcr ◽  
Acid Extraction ◽  
Nucleic Acid Extraction ◽  
Pcr Assay ◽  
Bead Beating ◽  
Stool Samples ◽  
Pcr Assays ◽  
Human Stool

This study aimed to assess standard and harsher nucleic acid extraction schemes for diagnostic helminth real-time PCR approaches from stool samples. A standard procedure for nucleic acid extraction from stool and a procedure including bead-beating as well as proteinase K digestion were compared with group-, genus-, and species-specific real-time PCR assays targeting helminths and nonhelminth pathogens in human stool samples. From 25 different in-house and commercial helminth real-time PCR assays applied to 77 stool samples comprising 67 historic samples and 10 external quality assessment scheme samples positively tested for helminths, higher numbers of positive test results were observed after bead-beating-based nucleic acid extraction for 5/25 (20%) real-time PCR assays irrespective of specificity issues. Lower cycle threshold values were observed for one real-time PCR assay after the standard extraction scheme, and for four assays after the bead-beating-based scheme. Agreement between real-time PCR results after both nucleic acid extraction strategies according to Cohen’s kappa ranged from poor to almost perfect for the different assays. Varying agreement was observed in eight nonhelminth real-time PCR assays applied to 67 historic stool samples. The study indicates highly variable effects of harsh nucleic acid extraction approaches depending on the real-time PCR assay used.

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