Literature DB >> 18677319

Caenorhabditis elegans mutant allele identification by whole-genome sequencing.

Sumeet Sarin1, Snehit Prabhu, M Maggie O'Meara, Itsik Pe'er, Oliver Hobert.   

Abstract

Identification of the molecular lesion in Caenorhabditis elegans mutants isolated through forward genetic screens usually involves time-consuming genetic mapping. We used Illumina deep sequencing technology to sequence a complete, mutant C. elegans genome and thus pinpointed a single-nucleotide mutation in the genome that affects a neuronal cell fate decision. This constitutes a proof-of-principle for using whole-genome sequencing to analyze C. elegans mutants.

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Year:  2008        PMID: 18677319      PMCID: PMC2574580          DOI: 10.1038/nmeth.1249

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   28.547


  7 in total

Review 1.  Whole-genome re-sequencing.

Authors:  David R Bentley
Journal:  Curr Opin Genet Dev       Date:  2006-10-18       Impact factor: 5.578

2.  Genetic screens for Caenorhabditis elegans mutants defective in left/right asymmetric neuronal fate specification.

Authors:  Sumeet Sarin; M Maggie O'Meara; Eileen B Flowers; Celia Antonio; Richard J Poole; Dominic Didiano; Robert J Johnston; Sarah Chang; Surinder Narula; Oliver Hobert
Journal:  Genetics       Date:  2007-08       Impact factor: 4.562

3.  Whole-genome sequencing and variant discovery in C. elegans.

Authors:  LaDeana W Hillier; Gabor T Marth; Aaron R Quinlan; David Dooling; Ginger Fewell; Derek Barnett; Paul Fox; Jarret I Glasscock; Matthew Hickenbotham; Weichun Huang; Vincent J Magrini; Ryan J Richt; Sacha N Sander; Donald A Stewart; Michael Stromberg; Eric F Tsung; Todd Wylie; Tim Schedl; Richard K Wilson; Elaine R Mardis
Journal:  Nat Methods       Date:  2008-01-20       Impact factor: 28.547

4.  Genomic mapping by fingerprinting random clones: a mathematical analysis.

Authors:  E S Lander; M S Waterman
Journal:  Genomics       Date:  1988-04       Impact factor: 5.736

5.  The genetics of Caenorhabditis elegans.

Authors:  S Brenner
Journal:  Genetics       Date:  1974-05       Impact factor: 4.562

6.  A transcriptional regulatory cascade that controls left/right asymmetry in chemosensory neurons of C. elegans.

Authors:  Sarah Chang; Robert J Johnston; Oliver Hobert
Journal:  Genes Dev       Date:  2003-09-01       Impact factor: 11.361

7.  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 in total
  138 in total

1.  RNAi screening to identify postembryonic phenotypes in C. elegans.

Authors:  Katherine K Beifuss; Tina L Gumienny
Journal:  J Vis Exp       Date:  2012-02-13       Impact factor: 1.355

2.  SNP-Ratio Mapping (SRM): identifying lethal alleles and mutations in complex genetic backgrounds by next-generation sequencing.

Authors:  Heike Lindner; Michael T Raissig; Christian Sailer; Hiroko Shimosato-Asano; Rémy Bruggmann; Ueli Grossniklaus
Journal:  Genetics       Date:  2012-05-29       Impact factor: 4.562

3.  Whole-genome profiling of mutagenesis in Caenorhabditis elegans.

Authors:  Stephane Flibotte; Mark L Edgley; Iasha Chaudhry; Jon Taylor; Sarah E Neil; Aleksandra Rogula; Rick Zapf; Martin Hirst; Yaron Butterfield; Steven J Jones; Marco A Marra; Robert J Barstead; Donald G Moerman
Journal:  Genetics       Date:  2010-05-03       Impact factor: 4.562

4.  A strategy for direct mapping and identification of mutations by whole-genome sequencing.

Authors:  Steven Zuryn; Stéphanie Le Gras; Karine Jamet; Sophie Jarriault
Journal:  Genetics       Date:  2010-07-06       Impact factor: 4.562

5.  Maintenance of neuronal laterality in Caenorhabditis elegans through MYST histone acetyltransferase complex components LSY-12, LSY-13 and LIN-49.

Authors:  M Maggie O'Meara; Feifan Zhang; Oliver Hobert
Journal:  Genetics       Date:  2010-10-05       Impact factor: 4.562

6.  Membrane fluidity is regulated by the C. elegans transmembrane protein FLD-1 and its human homologs TLCD1/2.

Authors:  Mario Ruiz; Rakesh Bodhicharla; Emma Svensk; Ranjan Devkota; Kiran Busayavalasa; Henrik Palmgren; Marcus Ståhlman; Jan Boren; Marc Pilon
Journal:  Elife       Date:  2018-12-04       Impact factor: 8.140

7.  A screenable in vivo assay to study proteostasis networks in Caenorhabditis elegans.

Authors:  Alexandra Segref; Serena Torres; Thorsten Hoppe
Journal:  Genetics       Date:  2011-02-01       Impact factor: 4.562

8.  Type II protein arginine methyltransferase 5 (PRMT5) is required for circadian period determination in Arabidopsis thaliana.

Authors:  Sunghyun Hong; Hae-Ryong Song; Kerry Lutz; Randall A Kerstetter; Todd P Michael; C Robertson McClung
Journal:  Proc Natl Acad Sci U S A       Date:  2010-11-19       Impact factor: 11.205

9.  Overlapping pools for high-throughput targeted resequencing.

Authors:  Snehit Prabhu; Itsik Pe'er
Journal:  Genome Res       Date:  2009-05-15       Impact factor: 9.043

10.  The mitochondrial unfolded protein response activator ATFS-1 protects cells from inhibition of the mevalonate pathway.

Authors:  Manish Rauthan; Parmida Ranji; Nataly Aguilera Pradenas; Christophe Pitot; Marc Pilon
Journal:  Proc Natl Acad Sci U S A       Date:  2013-03-25       Impact factor: 11.205

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