Myriapod genomes reveal ancestral horizontal gene transfer and hormonal gene loss in millipedes
dc.contributor.author | So, WL | |
dc.contributor.author | Nong, W | |
dc.contributor.author | Xie, Y | |
dc.contributor.author | Baril, T | |
dc.contributor.author | Ma, H-Y | |
dc.contributor.author | Qu, Z | |
dc.contributor.author | Haimovitz, J | |
dc.contributor.author | Swale, T | |
dc.contributor.author | Gaitan-Espitia, JD | |
dc.contributor.author | Lau, KF | |
dc.contributor.author | Tobe, SS | |
dc.contributor.author | Bendena, WG | |
dc.contributor.author | Kai, Z-P | |
dc.contributor.author | Hayward, A | |
dc.contributor.author | Hui, JHL | |
dc.date.accessioned | 2022-08-26T09:47:04Z | |
dc.date.issued | 2022-05-30 | |
dc.date.updated | 2022-08-25T21:52:02Z | |
dc.description.abstract | Animals display a fascinating diversity of body plans. Correspondingly, genomic analyses have revealed dynamic evolution of gene gains and losses among animal lineages. Here we sequence six new myriapod genomes (three millipedes, three centipedes) at key phylogenetic positions within this major but understudied arthropod lineage. We combine these with existing genomic resources to conduct a comparative analysis across all available myriapod genomes. We find that millipedes generally have considerably smaller genomes than centipedes, with the repeatome being a major contributor to genome size, driven by independent large gains of transposons in three centipede species. In contrast to millipedes, centipedes gained a large number of gene families after the subphyla diverged, with gains contributing to sensory and locomotory adaptations that facilitated their ecological shift to predation. We identify distinct horizontal gene transfer (HGT) events from bacteria to millipedes and centipedes, with no identifiable HGTs shared among all myriapods. Loss of juvenile hormone O-methyltransferase, a key enzyme in catalysing sesquiterpenoid hormone production in arthropods, was also revealed in all millipede lineages. Our findings suggest that the rapid evolution of distinct genomic pathways in centipede and millipede lineages following their divergence from the myriapod ancestor, was shaped by differing ecological pressures. | en_GB |
dc.format.extent | 3010- | |
dc.format.medium | Electronic | |
dc.identifier.citation | Vol. 13, article 3010 | en_GB |
dc.identifier.doi | https://doi.org/10.1038/s41467-022-30690-0 | |
dc.identifier.uri | http://hdl.handle.net/10871/130537 | |
dc.identifier | ORCID: 0000-0001-7413-718X (Hayward, Alexander) | |
dc.language.iso | en | en_GB |
dc.publisher | Nature Research | en_GB |
dc.relation.url | https://www.ncbi.nlm.nih.gov/pubmed/35637228 | en_GB |
dc.relation.url | https://doi.org/10.5281/zenodo.571873479 | en_GB |
dc.relation.url | https://doi.org/10.5281/zenodo.648262594 | en_GB |
dc.rights | © The Author(s) 2022. Open Access. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ | en_GB |
dc.subject | Animals | en_GB |
dc.subject | Arthropods | en_GB |
dc.subject | Chilopoda | en_GB |
dc.subject | Gene Transfer, Horizontal | en_GB |
dc.subject | Genome | en_GB |
dc.subject | Phylogeny | en_GB |
dc.title | Myriapod genomes reveal ancestral horizontal gene transfer and hormonal gene loss in millipedes | en_GB |
dc.type | Article | en_GB |
dc.date.available | 2022-08-26T09:47:04Z | |
dc.identifier.issn | 2041-1723 | |
exeter.article-number | 3010 | |
exeter.place-of-publication | England | |
dc.description | This is the final version. Available on open access from Nature Research via the DOI in this record | en_GB |
dc.description | Data availability; The final assemblies were submitted to NCBI Assembly under accession numbers WWPM00000000 (Glomeris maerens), JAAFCF000000000 (Helicorthomorpha holstii), WWPL00000000 (Anaulaciulus tonginus), JAAIVG000000000 (Niponia nodulosa), JAAFCE000000000 (Trigoniulus corallinus), JAHWFP000000000 (Lithobius niger), JAHWFO000000000 (Rhysida immarginata) and JAFIDM000000000 (Thereuonema tuberculata) in NCBI. The raw reads generated in this study were deposited to the NCBI database under the BioProject accessions PRJNA598061 (Glomeris maerens), PRJNA564202 (Helicorthomorpha holstii), PRJNA598060 (Anaulaciulus tonginus), PRJNA606398 (Niponia nodulosa), PRJNA564195 (Trigoniulus corallinus), PRJNA738717 (Lithobius niger), PRJNA701115 (Rhysida immarginata) and PRJNA699399 (Thereuonema tuberculata). The genome annotation files were deposited in the Figshare (https://doi.org/10.6084/m9.figshare.15088722). The databases are available for download from the following websites: eggNOG http://eggnog5.embl.de/download/eggnog_5.0/, GO http://geneontology.org/, KEGG https://www.genome.jp/kegg/pathway.html, and KOG https://www.hsls.pitt.edu/obrc/index.php?page=URL1144075392. Source data are provided with this paper. | en_GB |
dc.description | Code availability: The scripts for carrying out analyses of this study were deposited in Zenodo: https://doi.org/10.5281/zenodo.571873479 and https://doi.org/10.5281/zenodo.648262594. | en_GB |
dc.identifier.eissn | 2041-1723 | |
dc.identifier.journal | Nature Communications | en_GB |
dc.relation.ispartof | Nat Commun, 13(1) | |
dc.rights.uri | https://creativecommons.org/licenses/by/4.0/ | en_GB |
dcterms.dateAccepted | 2022-05-12 | |
dc.rights.license | CC BY | |
rioxxterms.version | VoR | en_GB |
rioxxterms.licenseref.startdate | 2022-05-30 | |
rioxxterms.type | Journal Article/Review | en_GB |
refterms.dateFCD | 2022-08-26T09:45:22Z | |
refterms.versionFCD | VoR | |
refterms.dateFOA | 2022-08-26T09:47:18Z | |
refterms.panel | A | en_GB |
refterms.dateFirstOnline | 2022-05-30 |
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