Diversifying selection detected in only a minority of xenobiotic-metabolizing <i>CYP1-3</i> genes among primate species

Chaney, Morgan E.; Romine, Melia G.; Piontkivska, Helen; Tosi, Anthony J.

doi:10.1080/00498254.2020.1785580

Cited by 2 publications

(5 citation statements)

References 62 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…For this first portion of the study, we used only species for which each CYP1-3 locus could be wholly collected from a single scaffold or reasonably reconstructed if not found on a single scaffold using the process described above. In order to model the events of gene birth and death in this subset of lemur species, our alignment strategy followed a similar workflow as outlined in previous work with other datasets (Chaney et al, 2018(Chaney et al, , 2020, but several modifications were made for this project in order to allow for more standardization and automation across subfamilies. First, all of the P450 genes were extracted from each species' locus according to the annotation file associated with its confamilial reference.…”

Section: Inference Of Gene Birth and Deathmentioning

confidence: 99%

“…murinus lineage (see Fig. S9), but anthropoids and at least some lorisiforms appear to possess only a single CYP2F gene as well (Chaney et al, 2020;Chaney, 2023). Therefore, the ancestral primate number of CYP2F orthologs is uncertain without the inclusion of a more basal species in the analysis.…”

Section: Heightened Gene Loss Within the Bamboo-lemur Lineagementioning

confidence: 99%

“…simus and H. griseus should exhibit a clear pattern of cytochrome P450 (1) gene loss and (2) signatures of relaxed natural selection, because the specialist diet contains a narrow set of PSMs, of which the primary toxin (i.e., cyanide), is not even metabolized by P450s. Similar to previous work (Chaney et al, 2020), we focus on P450 genes in the CYP1-3 subfamilies. Briefly, this decision was made because of these subfamilies' monophyletic placement within the cytochrome P450 superfamily of genes (Kirischian et al, 2011) and the presence of genes encoding both xenobiotic and endobiotic metabolizers within that gene-clade (see Guengerich, 2015).…”

Section: Introductionmentioning

confidence: 99%

“…Among mammals, a large proportion of xenobiotic compounds are transformed or detoxified by enzymes within the cytochrome P450 superfamily. Because of this role that P450s play in mediating potential environmental toxins and because species vary in their diets and exposure to such compounds, selective pressure has induced non-random additive and adaptive changes in genetic sequence and copy number among species (Chaney et al, 2018(Chaney et al, , 2020Ingelman-Sundberg, 2022;Kawashima & Satta, 2014;Kirischian et al, 2011;Skopec et al, 2022). The effect of evolving toxin resistance has been especially well-documented for pest insect species because of the economic importance of pesticides and insects' evolutionary responses to those substances (Wondji et al 2009;Feyereisen 2011;Bass et al 2014;Wang et al 2014;Walsh et al 2018;Joussen and Heckel 2021).…”

Section: Introductionmentioning

confidence: 99%

“…The copyright holder for this preprint this version posted December 8, 2023. ; https://doi.org/10.1101/2023.12.06.570463 doi: bioRxiv preprint previous work (Chaney et al, 2020), we focus on P450 genes in the CYP1-3 subfamilies. Briefly, this decision was made because of these subfamilies' monophyletic placement within the cytochrome P450 superfamily of genes (Kirischian et al, 2011) and the presence of genes encoding both xenobiotic and endobiotic metabolizers within that gene-clade (see Guengerich, 2015).…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

Hyper-specialized primates possess a reduced suite of xenobiotic-metabolizing cytochrome P450 genes

Chaney,

Tosi,

Bergey

2023

Preprint

Self Cite

View full text Add to dashboard Cite

Subfamilies of cytochrome P450 proteins have been strongly linked to the metabolism of physiologically disruptive compounds such as alkaloids, terpenoids, and other xenobiotics. Consistent with this function, these genes have adaptively evolved in response to environmental pressures exerted on animals, such as herbivores, that consume elevated amounts of toxic xenobiotics or plant secondary metabolites (PSMs). Theory on evolutionary tradeoffs predicts that highly specialized herbivores should exhibit a relatively narrow toolkit of adaptations to accommodate the concomitantly narrow arrays of PSMs in their diets. The bamboo lemurs of Madagascar (genera Prolemur and Hapalemur) represent an interesting test case for this theory because of their dietary hyper-specialization, as these lemurs consume bamboo and grasses at rates otherwise unseen in the order Primates. To test whether the hyper-specialized folivory of these primates is reflected in a similarly specialized and narrow P450 gene suite, we assembled a dataset of confidently assembled CYP1-3 genes for two species of bamboo lemur and 13 additional lemur species. With this dataset, we tested the predictions that bamboo lemurs would exhibit, first, greater rates of gene loss for xenobiotic-metabolizing P450s and, second, relaxed selection on xenobiotic-metabolizing P450 subfamilies relative to lemurs without such dietary hyper-specialization. We found support for the prediction of gene loss in the CYP2B, CYP2C, CYP2D, CYP2J, and CYP3A subfamilies, all of which encode xenobiotic metabolizers. We inferred relaxation of selection for the CYP1A and CYP2D subfamilies. The CYP2F subfamily exhibited a signal of significant intensification of selection in the bamboo-lemur lineage. The evolution of the P450 genes in bamboo lemurs provides support for the evolutionary tradeoff hypothesis, and we further hypothesize that, rather than adapting to a general array of PSMs, bamboo lemurs have instead adapted to the primary toxin in their diet, the highly potent poison cyanide.

show abstract

Section: Inference Of Gene Birth and Deathmentioning

confidence: 99%

Section: Heightened Gene Loss Within the Bamboo-lemur Lineagementioning

confidence: 99%