title: Tunicate pregnane X receptor (PXR) orthologs: transcript characterization and natural variation.
abstract: Vertebrate pregnane X receptor (PXR, NR1I2), a ligand-activated nuclear receptor (NR), regulates expression of detoxification genes. Vertebrate PXR orthologs may adaptively evolve to bind deleterious/toxic xenobiotics typically encountered by organisms from their diet. Tunicates (phylum Chordata) are marine filter-feeders that form a sister clade to the Vertebrata. Genomes of two tunicate taxa, Ciona intestinalis and Botryllus schlosseri, encode at least two PXR orthologs (abbreviated VDR/PXRα and β). Here we report characterization of the transcript structures and sequence variation of three tunicate PXR orthologs: C. intestinalis VDR/PXRα and β, and B. schlosseri VDR/PXRα. The three predicted proteins consist of both DNA-binding (DBD) and ligand-binding (LBD) domains typical of NRs. The C. intestinalis VDR/PXRβ LBD may be significantly larger than that of the VDR/PXRα orthologs. In both tunicate taxa, the mRNAs were characterized by high frequencies of single nucleotide polymorphisms (SNPs, ca. 3 SNPs/100 base pairs). The majority of SNPs were synonymous and standard tests (Tajima's D, dN/dS ratios) indicated strong purifying selection. However, one base pair frameshift allelic variants were found in the C. intestinalis VDR/PXRα and β genes. The predicted proteins consisted of a DBD but lacked an LBD. The persistence of these variants may possibly reflect constitutive expression of detoxification genes as a selective advantage in the marine environment. These results provide a foundation for further investigations into the molecular evolution, population genetics and functioning of tunicate receptors involved in detection of marine bioactive compounds.
authors.affiliation: Coastal and Freshwater Group, Cawthron Institute, Private Bag 2, Nelson 7012, New Zealand; School of Biological Science, Victoria University of Wellington, PO Box 600, Wellington 6140, New Zealand. Electronic address: Ingrid.Richter@cawthron.org.nz.
authors.forename: Ingrid
authors.initials: I
authors.lastname: Richter
authors.affiliation: Coastal and Freshwater Group, Cawthron Institute, Private Bag 2, Nelson 7012, New Zealand; Maurice Wilkins Centre for Molecular Biodiscovery, University of Auckland, Auckland 1142, New Zealand; Institute of Marine Science, University of Auckland, Auckland 1142, New Zealand.
authors.forename: Andrew E
authors.initials: AE
authors.lastname: Fidler
mesh_terms: D000818:Animals; D018076:DNA, Complementary; D005786:Gene Expression Regulation / Q000502:physiology*; D008958:Models, Molecular; D010802:Phylogeny; D000077297:Pregnane X Receptor; D011487:Protein Conformation; D012313:RNA / Q000235:genetics; D011987:Receptors, Steroid / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D014561:Urochordata / Q000235:genetics / Q000378:metabolism*
chemical_list: D018076:DNA, Complementary; D000077297:Pregnane X Receptor; D011987:Receptors, Steroid; D012313:RNA
keywords: Botryllus schlosseri; Ciona intestinalis; Marine Bioactives; Nuclear receptor; SNPs; Xenobiotics