Literature DB >> 32070230

Guidelines for Sanger sequencing and molecular assay monitoring.

Beate M Crossley1,2,3,4,5,6, Jianfa Bai1,2,3,4,5,6, Amy Glaser1,2,3,4,5,6, Roger Maes1,2,3,4,5,6, Elizabeth Porter1,2,3,4,5,6, Mary Lea Killian1,2,3,4,5,6, Travis Clement1,2,3,4,5,6, Kathy Toohey-Kurth1,2,3,4,5,6.   

Abstract

Genetic sequencing, or DNA sequencing, using the Sanger technique has become widely used in the veterinary diagnostic community. This technology plays a role in verification of PCR results and is used to provide the genetic sequence data needed for phylogenetic analysis, epidemiologic studies, and forensic investigations. The Laboratory Technology Committee of the American Association of Veterinary Laboratory Diagnosticians has prepared guidelines for sample preparation, submission to sequencing facilities or instrumentation, quality assessment of nucleic acid sequence data performed, and for generating basic sequencing data and phylogenetic analysis for diagnostic applications. This guidance is aimed at assisting laboratories in providing consistent, high-quality, and reliable sequence data when using Sanger-based genetic sequencing as a component of their laboratory services.

Keywords:  Sanger sequencing; quality score; validation

Mesh:

Year:  2020        PMID: 32070230      PMCID: PMC7649556          DOI: 10.1177/1040638720905833

Source DB:  PubMed          Journal:  J Vet Diagn Invest        ISSN: 1040-6387            Impact factor:   1.279


  20 in total

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Authors:  F Sanger; A R Coulson
Journal:  J Mol Biol       Date:  1975-05-25       Impact factor: 5.469

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Journal:  J Mol Biol       Date:  1990-10-05       Impact factor: 5.469

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Authors:  Andrey V Tataurov; Yong You; Richard Owczarzy
Journal:  Biophys Chem       Date:  2007-12-23       Impact factor: 2.352

4.  MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

Authors:  Sudhir Kumar; Glen Stecher; Koichiro Tamura
Journal:  Mol Biol Evol       Date:  2016-03-22       Impact factor: 16.240

5.  Identification of common molecular subsequences.

Authors:  T F Smith; M S Waterman
Journal:  J Mol Biol       Date:  1981-03-25       Impact factor: 5.469

6.  DNA sequence analysis: a general, simple and rapid method for sequencing large oligodeoxyribonucleotide fragments by mapping.

Authors:  E Jay; R Bambara; R Padmanabhan; R Wu
Journal:  Nucleic Acids Res       Date:  1974-03       Impact factor: 16.971

7.  DNA sequencing with chain-terminating inhibitors.

Authors:  F Sanger; S Nicklen; A R Coulson
Journal:  Proc Natl Acad Sci U S A       Date:  1977-12       Impact factor: 11.205

8.  Dramatic reduction of sequence artefacts from DNA isolated from formalin-fixed cancer biopsies by treatment with uracil- DNA glycosylase.

Authors:  Hongdo Do; Alexander Dobrovic
Journal:  Oncotarget       Date:  2012-05

9.  Purification, concentration and recovery of small fragments of DNA from Giardia lamblia and their use for other molecular techniques.

Authors:  Fabiola Santos; Saúl Gómez-Manzo; Edgar Sierra-Palacios; Abigail González-Valdez; Adriana Castillo-Villanueva; Horacio Reyes-Vivas; Jaime Marcial-Quino
Journal:  MethodsX       Date:  2017-09-08

Review 10.  Stepping stones in DNA sequencing.

Authors:  Henrik Stranneheim; Joakim Lundeberg
Journal:  Biotechnol J       Date:  2012-08-08       Impact factor: 4.677

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  11 in total

1.  Best practices for performance of real-time PCR assays in veterinary diagnostic laboratories.

Authors:  Kathy L Toohey-Kurth; Donna M Mulrooney; Susanne Hinkley; Mary Lea Killian; Janice C Pedersen; Mangkey A Bounpheng; Roman Pogranichniy; Steve Bolin; Roger Maes; Rebecca L Tallmadge; Laura B Goodman; Beate M Crossley
Journal:  J Vet Diagn Invest       Date:  2020-09-30       Impact factor: 1.279

2.  Suggested guidelines for validation of real-time PCR assays in veterinary diagnostic laboratories.

Authors:  Kathy Toohey-Kurth; Monica M Reising; Rebecca L Tallmadge; Laura B Goodman; Jianfa Bai; Steven R Bolin; Janice C Pedersen; Mangkey A Bounpheng; Roman M Pogranichniy; Jane Christopher-Hennings; Mary Lea Killian; Donna M Mulrooney; Roger Maes; Shri Singh; Beate M Crossley
Journal:  J Vet Diagn Invest       Date:  2020-09-28       Impact factor: 1.279

3.  Detection of the ABCB11930_1931del TC Mutation in Two Suspected Ivermectin-Sensitive Cats and Their Relatives by a Novel TaqMan Allelic Discrimination Assay.

Authors:  Daniela Nürnberger; Lisa Wagner; Simon F Müller; Silke Leiting; Regina Leidolf; Jörg Alber; Melanie Hamann; Joachim Geyer
Journal:  Front Vet Sci       Date:  2022-02-21

4.  Genotyping of familial Mediterranean fever gene (MEFV)-Single nucleotide polymorphism-Comparison of Nanopore with conventional Sanger sequencing.

Authors:  Jonas Schmidt; Sandro Berghaus; Frithjof Blessing; Holger Herbeck; Josef Blessing; Peter Schierack; Stefan Rödiger; Dirk Roggenbuck; Folker Wenzel
Journal:  PLoS One       Date:  2022-03-17       Impact factor: 3.240

Review 5.  Teaching cancer imaging in the era of precision medicine: Looking at the big picture.

Authors:  Christopher N Chin; Ty Subhawong; James Grosso; Jeremy R Wortman; Lacey J McIntosh; Ryan Tai; Marta Braschi-Amirfarzan; Patricia Castillo; Francesco Alessandrino
Journal:  Eur J Radiol Open       Date:  2022-03-15

6.  Direct Detection of Antibiotic Resistance in Chinese Helicobacter pylori Clinical Isolates by Sequencing-Based Approach.

Authors:  Lixia Tian; Yi Yao; Li Yin; Lanxiang Wang; Ze An; Lin Kang; Chenglin Ru; Jinping Li
Journal:  J Healthc Eng       Date:  2022-04-15       Impact factor: 3.822

7.  Diagnosis of Mycoplasma hominis Meningitis with Metagenomic Next-Generation Sequencing: A Case Report.

Authors:  Yukang Dong; Yingying He; Xia Zhou; Xia Lv; Jia Huang; Yaqi Li; Xin Qian; Fangfang Hu; Jiaying Zhu
Journal:  Infect Drug Resist       Date:  2022-08-12       Impact factor: 4.177

Review 8.  Diagnosis and Treatment of Invasive Candidiasis.

Authors:  Natalia Barantsevich; Elena Barantsevich
Journal:  Antibiotics (Basel)       Date:  2022-05-26

9.  Isolation and identification of monkeypox virus MPXV-ROK-P1-2022 from the first case in the Republic of Korea.

Authors:  Jin-Won Kim; Minji Lee; Hwachul Shin; Chi-Hwan Choi; Myung-Min Choi; Jee Woong Kim; Hwajung Yi; Cheon-Kwon Yoo; Gi-Eun Rhie
Journal:  Osong Public Health Res Perspect       Date:  2022-08-31

10.  Special issue on applied next-generation sequencing in veterinary diagnostic laboratories.

Authors:  Laura Goodman; Kevin Lahmers
Journal:  J Vet Diagn Invest       Date:  2021-03       Impact factor: 1.279

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