Literature DB >> 28060408

Next-Generation Sequencing for Identification of EMS-Induced Mutations in Caenorhabditis elegans.

Nicolas J Lehrbach1,2, Fei Ji1,2, Ruslan Sadreyev1,3.   

Abstract

Forward genetic analysis using chemical mutagenesis in model organisms is a powerful tool for investigation of molecular mechanisms in biological systems. In the nematode, Caenorhabditis elegans, mutagenesis screens using ethyl methanesulfonate (EMS) have led to important insights into genetic control of animal development and physiology. A major bottleneck to this approach is identification of the causative mutation underlying a phenotype of interest. In the past, this has required time-consuming genetic mapping experiments. More recently, next-generation sequencing technologies have allowed development of new methods for rapid mapping and identification of EMS-induced lesions. In this unit we describe a protocol to map and identify EMS-induced mutations in C. elegans. © 2017 by John Wiley & Sons, Inc.
Copyright © 2017 John Wiley & Sons, Inc.

Entities:  

Keywords:  C. elegans; EMS mutagenesis; next-generation sequencing

Mesh:

Substances:

Year:  2017        PMID: 28060408      PMCID: PMC5303615          DOI: 10.1002/cpmb.27

Source DB:  PubMed          Journal:  Curr Protoc Mol Biol        ISSN: 1934-3647


  14 in total

Review 1.  Genetic mapping and manipulation: chapter 1--Introduction and basics.

Authors:  David Fay
Journal:  WormBook       Date:  2006-02-17

Review 2.  Maintenance of C. elegans.

Authors:  Theresa Stiernagle
Journal:  WormBook       Date:  2006-02-11

3.  CloudMap: a cloud-based pipeline for analysis of mutant genome sequences.

Authors:  Gregory Minevich; Danny S Park; Daniel Blankenberg; Richard J Poole; Oliver Hobert
Journal:  Genetics       Date:  2012-10-10       Impact factor: 4.562

4.  C. elegans mutant identification with a one-step whole-genome-sequencing and SNP mapping strategy.

Authors:  Maria Doitsidou; Richard J Poole; Sumeet Sarin; Henry Bigelow; Oliver Hobert
Journal:  PLoS One       Date:  2010-11-08       Impact factor: 3.240

5.  Whole genome sequencing and the transformation of C. elegans forward genetics.

Authors:  Patrick J Hu
Journal:  Methods       Date:  2014-05-27       Impact factor: 3.608

6.  Rapid single nucleotide polymorphism mapping in C. elegans.

Authors:  M Wayne Davis; Marc Hammarlund; Tracey Harrach; Patrick Hullett; Shawn Olsen; Erik M Jorgensen
Journal:  BMC Genomics       Date:  2005-09-12       Impact factor: 3.969

7.  The million mutation project: a new approach to genetics in Caenorhabditis elegans.

Authors:  Owen Thompson; Mark Edgley; Pnina Strasbourger; Stephane Flibotte; Brent Ewing; Ryan Adair; Vinci Au; Iasha Chaudhry; Lisa Fernando; Harald Hutter; Armelle Kieffer; Joanne Lau; Norris Lee; Angela Miller; Greta Raymant; Bin Shen; Jay Shendure; Jon Taylor; Emily H Turner; LaDeana W Hillier; Donald G Moerman; Robert H Waterston
Journal:  Genome Res       Date:  2013-06-25       Impact factor: 9.043

8.  The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update.

Authors:  Enis Afgan; Dannon Baker; Marius van den Beek; Daniel Blankenberg; Dave Bouvier; Martin Čech; John Chilton; Dave Clements; Nate Coraor; Carl Eberhard; Björn Grüning; Aysam Guerler; Jennifer Hillman-Jackson; Greg Von Kuster; Eric Rasche; Nicola Soranzo; Nitesh Turaga; James Taylor; Anton Nekrutenko; Jeremy Goecks
Journal:  Nucleic Acids Res       Date:  2016-05-02       Impact factor: 16.971

9.  High-throughput capturing and characterization of mutations in essential genes of Caenorhabditis elegans.

Authors:  Jeffrey Shih-Chieh Chu; Shu-Yi Chua; Kathy Wong; Ann Marie Davison; Robert Johnsen; David L Baillie; Ann M Rose
Journal:  BMC Genomics       Date:  2014-05-12       Impact factor: 3.969

10.  Random and targeted transgene insertion in Caenorhabditis elegans using a modified Mos1 transposon.

Authors:  Christian Frøkjær-Jensen; M Wayne Davis; Mihail Sarov; Jon Taylor; Stephane Flibotte; Matthew LaBella; Andrei Pozniakovsky; Donald G Moerman; Erik M Jorgensen
Journal:  Nat Methods       Date:  2014-03-16       Impact factor: 28.547

View more
  8 in total

1.  Whole Genome Next-Generation Sequencing Mutation Identification in Pseudomonas aeruginosa.

Authors:  Murat Cetinbas; Shen Yu; Ruslan I Sadreyev
Journal:  Curr Protoc Mol Biol       Date:  2018-09-21

2.  SKN-1 regulates stress resistance downstream of amino catabolism pathways.

Authors:  Phillip A Frankino; Talha F Siddiqi; Theodore Bolas; Raz Bar-Ziv; Holly K Gildea; Hanlin Zhang; Ryo Higuchi-Sanabria; Andrew Dillin
Journal:  iScience       Date:  2022-06-09

3.  Identification of Substitutions and Small Insertion-Deletions Induced by Carbon-Ion Beam Irradiation in Arabidopsis thaliana.

Authors:  Yan Du; Shanwei Luo; Xin Li; Jiangyan Yang; Tao Cui; Wenjian Li; Lixia Yu; Hui Feng; Yuze Chen; Jinhu Mu; Xia Chen; Qingyao Shu; Tao Guo; Wenlong Luo; Libin Zhou
Journal:  Front Plant Sci       Date:  2017-10-27       Impact factor: 5.753

4.  Molybdenum cofactor transfer from bacteria to nematode mediates sulfite detoxification.

Authors:  Kurt Warnhoff; Gary Ruvkun
Journal:  Nat Chem Biol       Date:  2019-03-25       Impact factor: 15.040

5.  Chemogenomic Screen for Imipenem Resistance in Gram-Negative Bacteria.

Authors:  Jessica Y El Khoury; Alexandra Maure; Hélène Gingras; Philippe Leprohon; Marc Ouellette
Journal:  mSystems       Date:  2019-11-19       Impact factor: 6.496

6.  CLK-2/TEL2 is a conserved component of the nonsense-mediated mRNA decay pathway.

Authors:  Yanwu Guo; Cristina Tocchini; Rafal Ciosk
Journal:  PLoS One       Date:  2021-01-14       Impact factor: 3.240

Review 7.  Drug discovery: Insights from the invertebrate Caenorhabditis elegans.

Authors:  Sebastián Giunti; Natalia Andersen; Diego Rayes; María José De Rosa
Journal:  Pharmacol Res Perspect       Date:  2021-04

8.  The dual benefit of a dominant mutation in Arabidopsis IRON DEFICIENCY TOLERANT1 for iron biofortification and heavy metal phytoremediation.

Authors:  Reena Sharma; Kuo-Chen Yeh
Journal:  Plant Biotechnol J       Date:  2019-11-20       Impact factor: 9.803

  8 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.