scholarly journals Interspecies Systems Biology Uncovers Metabolites Affecting C. elegans Gene Expression and Life History Traits

Cell ◽  
2014 ◽  
Vol 156 (4) ◽  
pp. 759-770 ◽  
Author(s):  
Emma Watson ◽  
Lesley T. MacNeil ◽  
Ashlyn D. Ritter ◽  
L. Safak Yilmaz ◽  
Adam P. Rosebrock ◽  
...  
Keyword(s):  
Gene Expression ◽  
Life History ◽  
Systems Biology ◽  
Life History Traits ◽  
C Elegans

scholarly journals Interspecies Systems Biology Uncovers Metabolites Affecting C. elegans Gene Expression and Life History Traits

Cell ◽  
2014 ◽  
Vol 156 (6) ◽  
pp. 1336-1337 ◽  
Author(s):  
Emma Watson ◽  
Lesley T. MacNeil ◽  
Ashlyn D. Ritter ◽  
L. Safak Yilmaz ◽  
Adam P. Rosebrock ◽  
...  
Keyword(s):  
Gene Expression ◽  
Life History ◽  
Systems Biology ◽  
Life History Traits ◽  
C Elegans

scholarly journals Natural variation in fecundity is correlated with species-wide levels of divergence in Caenorhabditis elegans

2021 ◽  
Author(s):  
Gaotian Zhang ◽  
Jake D Mostad ◽  
Erik C Andersen
Keyword(s):  
Life History ◽  
Caenorhabditis Elegans ◽  
Life History Traits ◽  
Life History Trait ◽  
Selective Sweeps ◽  
C Elegans ◽  
Genome Wide ◽  
Genetic Complexity ◽  
Genomic Regions ◽  
Global Population

Abstract Life history traits underlie the fitness of organisms and are under strong natural selection. A new mutation that positively impacts a life history trait will likely increase in frequency and become fixed in a population (e.g. a selective sweep). The identification of the beneficial alleles that underlie selective sweeps provides insights into the mechanisms that occurred during the evolution of a species. In the global population of Caenorhabditis elegans, we previously identified selective sweeps that have drastically reduced chromosomal-scale genetic diversity in the species. Here, we measured the fecundity of 121 wild C. elegans strains, including many recently isolated divergent strains from the Hawaiian islands and found that strains with larger swept genomic regions have significantly higher fecundity than strains without evidence of the recent selective sweeps. We used genome-wide association (GWA) mapping to identify three quantitative trait loci (QTL) underlying the fecundity variation. Additionally, we mapped previous fecundity data from wild C. elegans strains and C. elegans recombinant inbred advanced intercross lines that were grown in various conditions and detected eight QTL using GWA and linkage mappings. These QTL show the genetic complexity of fecundity across this species. Moreover, the haplotype structure in each GWA QTL region revealed correlations with recent selective sweeps in the C. elegans population. North American and European strains had significantly higher fecundity than most strains from Hawaii, a hypothesized origin of the C. elegans species, suggesting that beneficial alleles that caused increased fecundity could underlie the selective sweeps during the worldwide expansion of C. elegans.

scholarly journals Loci, genes, and gene networks associated with life history variation in a model ecological organism,Daphnia pulex(complex)

2018 ◽  
Author(s):  
Jacob W. Malcom ◽  
Thomas E. Juenger ◽  
Mathew A. Leibold
Keyword(s):  
Gene Expression ◽  
Genetic Variation ◽  
Life History ◽  
Molecular Basis ◽  
Life History Traits ◽  
Evolutionary Dynamics ◽  
Daphnia Pulex ◽  
Life History Trait ◽  
Life History Variation ◽  
Trait Variation

ABSTRACTBackgroundIdentifying the molecular basis of heritable variation provides insight into the underlying mechanisms generating phenotypic variation and the evolutionary history of organismal traits. Life history trait variation is of central importance to ecological and evolutionary dynamics, and contemporary genomic tools permit studies of the basis of this variation in non-genetic model organisms. We used high density genotyping, RNA-Seq gene expression assays, and detailed phenotyping of fourteen ecologically important life history traits in a wild-caught panel of 32Daphnia pulexclones to explore the molecular basis of trait variation in a model ecological species.ResultsWe found extensive phenotypic and a range of heritable genetic variation (~0 < H2< 0.44) in the panel, and accordingly identify 75-261 genes—organized in 3-6 coexpression modules—associated with genetic variation in each trait. The trait-related coexpression modules possess well-supported promoter motifs, and in conjunction with marker variation at trans- loci, suggest a relatively small number of important expression regulators. We further identify a candidate genetic network with SNPs in eight known transcriptional regulators, and dozens of differentially expressed genes, associated with life history variation. The gene-trait associations include numerous un-annotated genes, but also support several a priori hypotheses, including an ecdysone-induced protein and several Gene Ontology pathways.ConclusionThe genetic and gene expression architecture ofDaphnialife history traits is complex, and our results provide numerous candidate loci, genes, and coexpression modules to be tested as the molecular mechanisms that underlieDaphniaeco-evolutionary dynamics.

scholarly journals A sensitive mass spectrometry platform identifies metabolic changes of life history traits in C. elegans

2017 ◽  
Vol 7 (1) ◽  
Author(s):  
Arwen W. Gao ◽  
Iliana A. Chatzispyrou ◽  
Rashmi Kamble ◽  
Yasmine J. Liu ◽  
Katharina Herzog ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Life History ◽  
Life History Traits ◽  
Metabolic Changes ◽  
C Elegans

Exposure to heavy metal-contaminated sediments disrupts gene expression, lipid profile, and life history traits in the midge Chironomus riparius

2020 ◽  
Vol 168 ◽  
pp. 115165 ◽  
Author(s):  
Hélène Arambourou ◽  
Lola Llorente ◽  
Iñigo Moreno-Ocio ◽  
Óscar Herrero ◽  
Carlos Barata ◽  
...  
Keyword(s):  
Gene Expression ◽  
Heavy Metal ◽  
Life History ◽  
Lipid Profile ◽  
Life History Traits ◽  
Contaminated Sediments ◽  
Chironomus Riparius

scholarly journals Immune challenge reduces gut microbial diversity and triggers fertility-dependent gene expression changes in a social insect

BMC Genomics ◽  
2020 ◽  
Vol 21 (1) ◽  
Author(s):  
Matteo Antoine Negroni ◽  
Francisca H. I. D. Segers ◽  
Fanny Vogelweith ◽  
Susanne Foitzik
Keyword(s):  
Gene Expression ◽  
Life History ◽  
Immune System ◽  
Gut Microbiome ◽  
Life History Traits ◽  
Fat Body ◽  
Molecular Regulation ◽  
Immune Challenge ◽  
Microbiome Composition ◽  
Immune Genes

Abstract Background The gut microbiome can influence life history traits associated with host fitness such as fecundity and longevity. In most organisms, these two life history traits are traded-off, while they are positively linked in social insects. In ants, highly fecund queens can live for decades, while their non-reproducing workers exhibit much shorter lifespans. Yet, when fertility is induced in workers by death or removal of the queen, worker lifespan can increase. It is unclear how this positive link between fecundity and longevity is achieved and what role the gut microbiome and the immune system play in this. To gain insights into the molecular regulation of lifespan in social insects, we investigated fat body gene expression and gut microbiome composition in workers of the ant Temnothorax rugatulus in response to an experimental induction of fertility and an immune challenge. Results Fertile workers upregulated several molecular repair mechanisms, which could explain their extended lifespan. The immune challenge altered the expression of several thousand genes in the fat body, including many immune genes, and, interestingly, this transcriptomic response depended on worker fertility. For example, only fertile, immune-challenged workers upregulated genes involved in the synthesis of alpha-ketoglutarate, an immune system regulator, which extends the lifespan in Caenorhabditis elegans by down-regulating the TOR pathway and reducing oxidant production. Additionally, we observed a dramatic loss in bacterial diversity in the guts of the ants within a day of the immune challenge. Yet, bacterial density did not change, so that the gut microbiomes of many immune challenged workers consisted of only a single or a few bacterial strains. Moreover, the expression of immune genes was linked to the gut microbiome composition, suggesting that the ant host can regulate the microbiome in its gut. Conclusions Immune system flare-ups can have negative consequence on gut microbiome diversity, pointing to a previously underrated cost of immunity. Moreover, our results provide important insights into shifts in the molecular regulation of fertility and longevity associated with insect sociality.

scholarly journals Natural variation in fertility is correlated with species-wide levels of divergence inCaenorhabditis elegans

2021 ◽  
Author(s):  
Gaotian Zhang ◽  
Jake D. Mostad ◽  
Erik C. Andersen
Keyword(s):  
Life History ◽  
Life History Traits ◽  
Life History Trait ◽  
Selective Sweeps ◽  
C Elegans ◽  
Genome Wide ◽  
Fertility Variation ◽  
The Face ◽  
Fertility Data ◽  
Genomic Regions

ABSTRACTLife history traits underlie the fitness of organisms and are under strong natural selection in the face of environmental challenges. A new mutation that positively impacts a life history trait will likely increase in frequency and become fixed in a population (e.g.selective sweep). The identification of the beneficial alleles that underlie selective sweeps provides insights into the mechanisms that occurred during the evolution of species. In the global population ofCaenorhabditis elegans,we previously identified selective sweeps that have drastically reduced chromosomal-scale genetic diversity in the species. Here, we measured the fertility (viable offspring) of a collection of wildC. elegansstrains, including many recently isolated divergent strains from the Hawaiian islands and found that strains with larger swept genomic regions on multiple chromosomes have significantly higher fertility than strains that do not have evidence of the recent selective sweeps. We used genome-wide association (GWA) mapping to identify three quantitative trait loci (QTL) underlying the fertility variation. Additionally, we mapped previous fertility data of wildC. elegansstrains andC. elegansrecombinant inbred advanced intercross lines (RIAILs) that were grown in various conditions and detected eight QTL across the genome using GWA and linkage mappings. These QTL show the genetic complexity of life history traits such as fertility across this species. Moreover, the haplotype structure in each GWA QTL region revealed correlations with recent selective sweeps in theC. eleganspopulation. North American and European strains had significantly higher fertility than most strains from Hawaii, a hypothesized origin of theC. elegansspecies, suggesting that beneficial alleles that cause increased fertility could underlie the selective sweeps during the worldwide expansion ofC. elegans.

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