Polygenicity and Epistasis Underlie Fitness-Proximal Traits in the<i>Caenorhabditis elegans</i>Multiparental Experimental Evolution (CeMEE) Panel

Noble, Luke M.; Chelo, Ivo M.; Guzella, Thiago; Afonso, Bruno; Riccardi, David D.; Ammerman, Patrick; Dayarian, Adel; Carvalho, Sara; Crist, Anna; Pino‐Querido, Ania; Shraiman, Boris I.; Rockman, Matthew V.; Teotónio, Henrique

doi:10.1534/genetics.117.300406

Cited by 79 publications

(95 citation statements)

References 180 publications

(237 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Potentially, this starvation difference could be responsible for the fitness differences of the strains. Consistent with both hypotheses, a number of experimental crosses or competition experiments between parental strains that are polymorphic for npr-1 have resulted in enrichment of the derived allele of npr-1 , suggesting it confers a fitness advantage under standard lab husbandry ( Gloria-Soria and Azevedo, 2008 ; Noble et al, 2017 ; Weber et al, 2010 ).…”

Section: Introductionmentioning

confidence: 67%

“…Nevertheless, the ability of positive selection to act upon the derived npr-1 allele can be observed in current experiments. A recent example is provided by Noble and colleagues, who created a large mapping population between 16 parental strains (including N2 and CB4856) to create a large panel recombinant inbred lines (RILs) ( Noble et al, 2017 ). During the outcrossing phase of construction, the N2 allele of npr-1 spread through the population to fixation, consistent with its dominant action and the strong selective advantage of this allele.…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Changes to social feeding behaviors are not sufficient for fitness gains of the Caenorhabditis elegans N2 reference strain

Zhao

Long

et al. 2018

eLife

View full text Add to dashboard Cite

The standard reference Caenorhabditis elegans strain, N2, has evolved marked behavioral changes in social feeding behavior since its isolation from the wild. We show that the causal, laboratory-derived mutations in two genes, npr-1 and glb-5, confer large fitness advantages in standard laboratory conditions. Using environmental manipulations that suppress social/solitary behavior differences, we show the fitness advantages of the derived alleles remained unchanged, suggesting selection on these alleles acted through pleiotropic traits. Transcriptomics, developmental timing, and food consumption assays showed that N2 animals mature faster, produce more sperm, and consume more food than a strain containing ancestral alleles of these genes regardless of behavioral strategies. Our data suggest that the pleiotropic effects of glb-5 and npr-1 are a consequence of changes to O2 -sensing neurons that regulate both aerotaxis and energy homeostasis. Our results demonstrate how pleiotropy can lead to profound behavioral changes in a popular laboratory model.

show abstract

Section: Introductionmentioning

confidence: 67%

Section: Discussionmentioning

confidence: 99%

Changes to social feeding behaviors are not sufficient for fitness gains of the Caenorhabditis elegans N2 reference strain

Zhao

Long

et al. 2018

eLife

View full text Add to dashboard Cite

show abstract

“…Embryos were A. Intrachromosomal linkage decays to near background levels by 0.5 cM on average and interchromosomal disequilibrium is weak (r 2 0.99, 0.95 quantiles = 0.538, 0.051 within chromosomes vs. 0.037, and 0.022) across chromosomes. Adapted from Noble et al, 2017. harvested via bleaching and immediately placed onto OP50 seeded plates at a density of ~5000 individuals/100 mm petrie plate. When populations reached the L3 larval stage, additional OP50 was added in excess so individuals could feed ad libitum.…”

Section: Phenotyping Of Starvation Response Using Microfluidicsmentioning

confidence: 99%

“…The CeMEE strains used here contained 352,665 SNPs spread across 72 recombinant inbred lines (Noble et al, 2017, Supplemental Table 1). Using Plink v.1.9, SNPs with more than 10% missing calls across the lines were filtered from the analysis (www.coggenomics.org/plink/1.9/; Chang et al, 2015).…”

Section: Genome Wide Association Testmentioning

confidence: 99%

“…We couple the scale, resolution, and throughput of microfluidics with whole-genome data for association mapping of adult starvation response in C. elegans using 72 recombinant inbred lines (RILs) from the C. elegans multiparental experimental evolution (CeMEE) panel (Noble et al, 2017). These lines were created by hybridization of 16 wild isolates, followed by 140 generations of mixed selfing and outcrossing then a further 50 generations selfing, all under standard laboratory conditions ( Figure 1).…”

mentioning

confidence: 99%

See 1 more Smart Citation

A naturally segregating polymorphism balancing semelparous reproduction versus reproductive diapause revealed via microfluidic assessment of starvation stress inCaenorhabditis elegans

Archer

Banse

Blue

et al. 2019

Preprint

View full text Add to dashboard Cite

Caenorhabditis elegans typically feeds on rotting fruit and plant material in a fluctuating natural habitat, a boom-and-bust lifestyle. Moreover, stage specific developmental responses to low food concentration suggest that starvation-like conditions are a regular occurrence. In order to assess variation in the C. elegans starvation response under precisely controlled conditions and simultaneously phenotype a large number of individuals with high precision, we have developed a microfluidic device that, when combined with image scanning technology, allows for highthroughput assessment at a temporal resolution not previously feasible and applied this to a large mapping panel of fully sequenced intercross lines. Under these conditions worms exhibit a markedly reduced adult lifespan with strain-dependent variation in starvation resistance, ranging from <24 hours to ~120 hours. Genome-wide mapping of the responses of more than 7,855 individuals identified four quantitative trait loci (QTL) of large effects. Three of these loci are associated with single genes (ash-2, exc-6, and dpy-28) and the fourth is a ~26 KB region on Chromosome V encompassing several genes. Backcross with selection confirmed the effect of the Chromosome V locus. Segregating natural variation for starvation response in this species suggests that different isolates may use different strategies (facultative vivipary versus reproductive diapause) for dealing with extreme food deprivation.

show abstract

Microbes are potential key players in the evolution of life histories and aging in Caenorhabditis elegans

Santos,

Matos,

Flatt

et al. 2023

Ecology and Evolution

View full text Add to dashboard Cite

Microbes can have profound effects on host fitness and health and the appearance of late‐onset diseases. Host–microbe interactions thus represent a major environmental context for healthy aging of the host and might also mediate trade‐offs between life‐history traits in the evolution of host senescence. Here, we have used the nematode Caenorhabditis elegans to study how host–microbe interactions may modulate the evolution of life histories and aging. We first characterized the effects of two non‐pathogenic and one pathogenic Escherichia coli strains, together with the pathogenic Serratia marcescens DB11 strain, on population growth rates and survival of C. elegans from five different genetic backgrounds. We then focused on an outbred C. elegans population, to understand if microbe‐specific effects on the reproductive schedule and in traits such as developmental rate and survival were also expressed in the presence of males and standing genetic variation, which could be relevant for the evolution of C. elegans and other nematode species in nature. Our results show that host–microbe interactions have a substantial host‐genotype‐dependent impact on the reproductive aging and survival of the nematode host. Although both pathogenic bacteria reduced host survival in comparison with benign strains, they differed in how they affected other host traits. Host fertility and population growth rate were affected by S. marcescens DB11 only during early adulthood, whereas this occurred at later ages with the pathogenic E. coli IAI1. In both cases, these effects were largely dependent on the host genotypes. Given such microbe‐specific genotypic differences in host life history, we predict that the evolution of reproductive schedules and senescence might be critically contingent on host–microbe interactions in nature.

show abstract

Polygenicity and Epistasis Underlie Fitness-Proximal Traits in theCaenorhabditis elegansMultiparental Experimental Evolution (CeMEE) Panel

Abstract: Using a new experimentally evolved multiparent mapping resource for C. elegans, Noble et al. have outlined the genetic architecture of worm fertility..

Cited by 79 publications

References 180 publications

Changes to social feeding behaviors are not sufficient for fitness gains of the Caenorhabditis elegans N2 reference strain

Changes to social feeding behaviors are not sufficient for fitness gains of the Caenorhabditis elegans N2 reference strain

A naturally segregating polymorphism balancing semelparous reproduction versus reproductive diapause revealed via microfluidic assessment of starvation stress inCaenorhabditis elegans

Microbes are potential key players in the evolution of life histories and aging in Caenorhabditis elegans

Contact Info

Product

Resources

About