A Powerful New Quantitative Genetics Platform, Combining Caenorhabditis elegans High-Throughput Fitness Assays with a Large Collection of Recombinant Strains

G3 : Genes - Genomes - Genetics
Erik C AndersenLeonid Kruglyak

Abstract

The genetic variants underlying complex traits are often elusive even in powerful model organisms such as Caenorhabditis elegans with controlled genetic backgrounds and environmental conditions. Two major contributing factors are: (1) the lack of statistical power from measuring the phenotypes of small numbers of individuals, and (2) the use of phenotyping platforms that do not scale to hundreds of individuals and are prone to noisy measurements. Here, we generated a new resource of 359 recombinant inbred strains that augments the existing C. elegans N2xCB4856 recombinant inbred advanced intercross line population. This new strain collection removes variation in the neuropeptide receptor gene npr-1, known to have large physiological and behavioral effects on C. elegans and mitigates the hybrid strain incompatibility caused by zeel-1 and peel-1, allowing for identification of quantitative trait loci that otherwise would have been masked by those effects. Additionally, we optimized highly scalable and accurate high-throughput assays of fecundity and body size using the COPAS BIOSORT large particle nematode sorter. Using these assays, we identified quantitative trait loci involved in fecundity and growth under normal growth condit...Continue Reading

References

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Apr 17, 2013·G3 : Genes - Genomes - Genetics·Daniel A Pollard, Matthew V Rockman

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Citations

Sep 2, 2016·Journal of the Royal Society, Interface·Alex Gomez-MarinAndré E X Brown
Mar 31, 2018·PLoS Neglected Tropical Diseases·Mostafa ZamanianErik C Andersen
Aug 10, 2018·Environmental and Molecular Mutagenesis·Caren WeinhousePatrick Allard
Jun 7, 2019·Genetics·Shannon C BradyErik C Andersen
Jan 22, 2020·Database : the Journal of Biological Databases and Curation·Basten L SnoekHarm Nijveen
May 10, 2020·G3 : Genes - Genomes - Genetics·Kathryn S Evans, Erik C Andersen
Aug 19, 2017·Nature Communications·Daehan LeeJunho Lee
Oct 21, 2018·Genetics·Kathryn S EvansErik C Andersen
Jul 29, 2017·Scientific Reports·Joseph R DanieleAndrew Dillin
Oct 23, 2019·Evolution Letters·Max R BernsteinMatthew V Rockman
Jun 20, 2019·Nature Communications·Alejandro BurgaLeonid Kruglyak
Jul 8, 2020·Nature Protocols·Tobias TheskaRalf J Sommer
May 13, 2017·Science·Eyal Ben-DavidLeonid Kruglyak
Jun 9, 2017·Genetics·Henrique TeotónioCharles F Baer
Feb 23, 2021·Journal of Toxicology and Environmental Health. Part B, Critical Reviews·Jessica H HartmanJoel N Meyer
Mar 16, 2021·PLoS Pathogens·Kathryn S EvansErik C Andersen
Nov 30, 2020·International Journal for Parasitology. Drugs and Drug Resistance·Steffen R HahnelDaniel Kulke
Apr 21, 2021·International Journal for Parasitology. Drugs and Drug Resistance·Janneke WitErik C Andersen
Aug 1, 2019·Genetics·Shannon C BradyErik C Andersen
May 14, 2021·G3 : Genes - Genomes - Genetics·Gaotian ZhangErik C Andersen

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Methods Mentioned

BETA
PCR
genotyping
Profiler

Software Mentioned

R
COPASutils
custom
qtl
COPASutils R package
COPAS
COPAS BIOSORT
mclust R package

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