Development and validation of an undergraduate laboratory activity exploring the dna analysis of pet food

2018 ◽  
Vol 46 (5) ◽  
pp. 536-546 ◽  
Author(s):  
Jennifer Turner Waldo ◽  
Melanie Pereira ◽  
Mohammad Rahman ◽  
Jessica Siconolfi
Keyword(s):  
Dna Analysis ◽  
Pet Food ◽  
Laboratory Activity ◽  
Undergraduate Laboratory ◽  
Development And Validation

scholarly journals An undergraduate laboratory activity on molecular dynamics simulations

2016 ◽  
Vol 44 (2) ◽  
pp. 130-139 ◽  
Author(s):  
Benjamin Spitznagel ◽  
Paige R. Pritchett ◽  
Troy C. Messina ◽  
Mark Goadrich ◽  
Juan Rodriguez
Keyword(s):  
Molecular Dynamics ◽  
Molecular Dynamics Simulations ◽  
Laboratory Activity ◽  
Undergraduate Laboratory ◽  
Dynamics Simulations

scholarly journals Integrating Statistics with a Microbiology Laboratory Activity

2005 ◽  
Vol 6 (1) ◽  
pp. 14-19
Author(s):  
WILLIAM LOROWITZ ◽  
ELIZABETH SAXTON ◽  
MOHAMMAD SONDOSSI ◽  
KAREN NAKAOKA
Keyword(s):  
Assessment Tool ◽  
Clinical Laboratory ◽  
Cell Concentration ◽  
National Committee ◽  
Microbiology Laboratory ◽  
Laboratory Activity ◽  
Undergraduate Laboratory ◽  
Disk Diffusion Assay ◽  
Diffusion Assay ◽  
Analyze Data

Statistics is an important tool for microbiologists but is virtually absent from undergraduate laboratory activities. The variables in a stringent protocol, the antibiotic disk diffusion assay described by the National Committee for Clinical Laboratory Standards, were examined by the authors as a means for introducing hypothesis testing and the application of elementary statistical tools. After several experiments, a lab activity was developed where students examine the effect of cell concentration on antibiotic activity and analyze data with the t test. They also collect data independently from the same samples and compare their measurements using analysis of variance (ANOVA). The outcome of the activity, including an assessment tool, indicated that students learned the appropriate use of the t test and ANOVA, gained an appreciation for standardized protocols, and enjoyed the experience.

scholarly journals Development and validation of a novel multiplexed DNA analysis system, InnoTyper® 21

2017 ◽  
Vol 29 ◽  
pp. 80-99 ◽  
Author(s):  
Hiromi Brown ◽  
Robyn Thompson ◽  
Gina Murphy ◽  
Dixie Peters ◽  
Bobby La Rue ◽  
...  
Keyword(s):  
Dna Analysis ◽  
Analysis System ◽  
Development And Validation

scholarly journals A Novel Panel of 43 Insertion/Deletion Loci for Human Identifications of Forensic Degraded DNA Samples: Development and Validation

2021 ◽  
Vol 12 ◽  
Author(s):  
Rui Jin ◽  
Wei Cui ◽  
Yating Fang ◽  
Xiaoye Jin ◽  
Hongdan Wang ◽  
...  
Keyword(s):  
Dna Analysis ◽  
Detection Efficiency ◽  
Individual Identification ◽  
Degraded Dna ◽  
Internal Validation ◽  
Asian Populations ◽  
Multiplex Amplification ◽  
The Individual ◽  
Development And Validation ◽  
Polymorphic Insertion

Insertion/deletion polymorphism is a promising genetic marker in the forensic genetic fields, especially in the forensic application of degraded sample at crime scene. In this research, a novel five-dye multiplex amplification panel containing 43 highly polymorphic Insertion/deletion (InDel) loci and one Amelogenin gene locus is designed and constructed in-house for the individual identification in East Asian populations. The amplicon sizes of 43 InDel loci are less than 200 bp, which help to ensure that full allele profiles can be obtained from degraded DNA sample. A series of optimizations and developmental validations including optimization of PCR conditions, detection efficiency of the degraded and casework samples, sensitivity, reproducibility, precision, tolerance for inhibitors, species specificity and DNA mixtures are performed according to the Scientific Working Group on DNA Analysis Methods (SWGDAM) guideline. The results of the internal validation demonstrated that this novel InDel panel was a reliable, sensitive and accurate system with good tolerances to different inhibitors, and performed the considerable detection efficiency for the degraded or mixed samples, which could be used in the forensic applications.

scholarly journals Laboratory Exercise to Measure Plasmid Copy Number by qPCR

2021 ◽  
Author(s):  
Benjamin David ◽  
Jinbei Li ◽  
Faisal Masood ◽  
Caroline Blassick ◽  
Paul Jensen ◽  
...  
Keyword(s):  
Copy Number ◽  
Recombinant Dna ◽  
Quantitative Information ◽  
Plasmid Copy Number ◽  
Recombinant Dna Technology ◽  
Plasmid Copy ◽  
Laboratory Activity ◽  
Laboratory Exercise ◽  
Laboratory Courses ◽  
Undergraduate Laboratory

Quantitative PCR (qPCR) has numerous applications in biology. In an education setting, qPCR provides students an opportunity to better understand the PCR mechanism by providing both quantitative information about the reactions and also data to troubleshoot PCRs (e.g., melt curves). Here, we present a relatively short (2-h) laboratory activity to demonstrate qPCR to quantify plasmid copy number (CN) by measuring the cycle threshold ( C T ) values for a genomic gene and a plasmid gene using transformed cells as a template. The activity can be combined with additional laboratory exercises, including bacterial transformation, to create the template to be used in the qPCRs. This lab activity is ideal for undergraduate laboratory courses that include recombinant DNA technology.

scholarly journals Feasibility and promise of circulating tumor DNA analysis in dogs with naturally-occurring sarcoma

2020 ◽  
Author(s):  
Patricia Filippsen Favaro ◽  
Samuel D. Stewart ◽  
Bradon R. McDonald ◽  
Jacob Cawley ◽  
Tania Contente-Cuomo ◽  
...  
Keyword(s):  
Dna Analysis ◽  
Malignant Tumors ◽  
Cost Effective ◽  
Circulating Tumor Dna ◽  
Molecular Heterogeneity ◽  
Naturally Occurring ◽  
Cost Effective Approach ◽  
Ctdna Analysis ◽  
Development And Validation ◽  
Tumor Dna

AbstractComparative studies of naturally-occurring canine cancers have provided new insight into many areas of cancer research. The inclusion of pet dogs in the development and validation of circulating tumor DNA (ctDNA) diagnostics may be uniquely informative for human translation for many reasons, including: high incidence of certain spontaneous cancers, repeated access to blood and tumor from the same individuals during the course of disease progression, and molecular heterogeneity of naturally-occurring cancers in dogs. Here, we present a feasibility study of ctDNA analysis performed in 9 healthy dogs and 39 dogs with either benign or malignant splenic tumors (hemangiosarcoma) using shallow whole genome sequencing (sWGS) of cell-free DNA. To enable detection and quantification of ctDNA using sWGS, we adapted two informatic approaches and compared their performance for the canine genome. At presentation, mean ctDNA tumor fraction in dogs with malignant splenic tumors was 11.2%, significantly higher than dogs with benign lesions (3.2%; p 0.001), achieving an AUC of 0.84. ctDNA tumor fraction was 14.3% and 9.0% in dogs with metastatic and localized disease, respectively although this difference was not statistically significant (p 0.227). In paired analysis, ctDNA fraction decreased from 11.0% to 7.9% after resection of malignant tumors (p 0.047). Our results demonstrate that ctDNA analysis is feasible in dogs with hemangiosarcoma using a cost-effective approach such as sWGS. Future studies are underway to validate these findings, and further evaluate the role of ctDNA to assess burden of disease and treatment response during drug development.

Development and Validation of an ED-XRF Method for the Fast Quantification of Mineral Elements in Dry Pet Food Samples

2016 ◽  
Vol 10 (5) ◽  
pp. 1469-1478 ◽  
Author(s):  
Loïc Perring ◽  
Marine Nicolas ◽  
Daniel Andrey ◽  
Céline Fragnière Rime ◽  
Janique Richoz-Payot ◽  
...  
Keyword(s):  
Mineral Elements ◽  
Food Samples ◽  
Pet Food ◽  
Development And Validation
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