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Data from: Analysis of pigment-dispersing factor neuropeptides and their receptor in a velvet worm

Citation

Hering, Lars et al. (2021), Data from: Analysis of pigment-dispersing factor neuropeptides and their receptor in a velvet worm, Dryad, Dataset, https://doi.org/10.5061/dryad.b2rbnzsg0

Abstract

Pigment-dispersing factor neuropeptides (PDFs) occur in a wide range of protostomes including ecdysozoans (= molting animals) and lophotrochozoans (mollusks, annelids, flatworms, and allies). Studies in insects revealed that PDFs play a role as coupling factors of circadian pacemaker cells, thereby controlling rest-activity rhythms. While the last common ancestor of protostomes most likely possessed only one pdf gene, two pdf homologs, pdf-I and pdf-II, might have been present in the last common ancestors of Ecdysozoa and Panarthropoda (Onychophora + Tardigrada + Arthropoda). One of these homologs, however, was subsequently lost in the tardigrade and arthropod lineages followed by independent duplications of pdf-I in tardigrades and decapod crustaceans. Due to the ancestral set of two pdf genes, the study of PDFs and their receptor (PDFR) in Onychophora might reveal the ancient organization and function of the PDF/PDFR system in panarthropods. Therefore, we deorphanized the PDF receptor and generated specific antibodies to localize the two PDF peptides and their receptor in the onychophoran Euperipatoides rowelli. We further conducted bioluminescence resonance energy transfer (BRET) experiments on cultured human cells (HEK293T) using an Epac-based sensor (Epac-L) to examine cAMP responses in transfected cells and to reveal potential differences in the interaction of PDF-I and PDF-II with PDFR from E. rowelli. These data show that PDF-II has a tenfold higher potency than PDF-I as an activating ligand. Double immunolabeling revealed that both peptides are co-expressed in E. rowelli but their respective levels of expression differ between specific cells: some neurons express the same amount of both peptides, while others exhibit higher levels of either PDF-I or PDF-II. The detection of the onychophoran PDF receptor in cells that additionally express the two PDF peptides suggests autoreception, whereas spatial separation of PDFR- and PDF-expressing cells supports hormonal release of PDF into the hemolymph. This suggests a dual role of PDF peptides—as hormones and as neurotransmitters/neuromodulators—in Onychophora.

Methods

Illumina short reads from two specimens (male and female) of Euperipatoides rowelli, sequenced as part of the i5K initiative (Thomas et al. 2020), were obtained from the short read archive (SRA) of GenBank (ER9 female: accession number SRR1946792; ER10 male: accession number SRR1946791). Prior to the assembly step, sequencing adapters were trimmed using cutadapt v1.8.1 (Martin 2011) (parameters: –max-n = 0 -u 10 -u-5 -U 10 -U-5) and short reads with more than five bases below a Phred quality score of 15 were removed using ConDeTri v2.2 (Smeds and Künstner 2011) (-hq = 14 -lq = 10 -sc = 33 -frac = 0.95 -minlen = 85). Both data sets were then assembled de novo using the software IDBA-Tran v1.1.1 (Peng et al. 2013) (–mink 20 –maxk 85 –step 5 –max_isoforms 1 –min_contig 100) yielding 92,426 unique contigs for ER9 (mean contig length = 717, N50 = 851) and 59,131 for ER10 (mean contig length = 707, N50 = 817), respectively. BUSCO values (Seppey et al. 2019) based on the metazoan dataset (954 BUSCO) were assessed in transcriptome mode using default parameters.

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Funding

Deutsche Forschungsgemeinschaft

Universität Kassel