{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,26]],"date-time":"2026-10-26T13:33:39Z","timestamp":1793021619532,"version":"4.5.0"},"reference-count":83,"publisher":"Wiley","issue":"7","license":[{"start":{"date-parts":[[2026,8,30]],"date-time":"2026-08-30T00:00:00Z","timestamp":1788048000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2026,8,30]],"date-time":"2026-08-30T00:00:00Z","timestamp":1788048000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/doi.wiley.com\/10.1002\/tdm_license_1.1"}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Molecular Ecology Resources"],"published-print":{"date-parts":[[2026,10]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:p>\n                    Target capture is widely used to enrich endogenous DNA from calcium phosphate skeletal material in vertebrates, but its performance on calcium carbonate hard parts widely produced by invertebrates remains poorly understood. Here, we compared DNA recovery from four fresh and 12 ancient (eight radiocarbon\u2010dated to 1671\u20131135\u2009years old before present) deep\u2010sea vesicomyid clam shells, including species\n                    <jats:italic>Archivesica marissinica<\/jats:italic>\n                    ,\n                    <jats:italic>A. nanshaensis<\/jats:italic>\n                    and\n                    <jats:italic>A. okutanii<\/jats:italic>\n                    , using whole\u2010genome sequencing (WGS) or target capture of ultraconserved elements (UCEs). WGS achieved 16.65% on\u2010target read recovery of UCEs from fresh soft tissue, but &lt;\u20091% from shell specimens. By contrast, UCE capture in the same specimen increased on\u2010target reads by up to 155\u2010fold, reaching 29.84% in fresh shells and up to 72\u2010fold, reaching 19.89% in ancient shells. Target capture of UCEs recovered 142\u20131001 loci per sample compared to 0\u2013230 with WGS alone. Ancient shells of\n                    <jats:italic>A. marissinica<\/jats:italic>\n                    and\n                    <jats:italic>A. okutanii<\/jats:italic>\n                    , based on reads mapped with bwa\u2010mem2 and bbmap, exhibited characteristic post\u2010mortem DNA damage signals, with average 5\u2032\u2010end C\u2010to\u2010T misincorporation rates of 3.46% and 15.97%, respectively, exceeding the levels observed in fresh\n                    <jats:italic>A. marissinica<\/jats:italic>\n                    shells (maximum 1.24%). UCE\u2010based phylogenetic reconstructions incorporating shell ancient DNA recovered two major clades within Pliocardiinae, consistent with published phylogenomic trees. Together, these findings demonstrate that target\u2010capture enrichment enables effective recovery of highly degraded DNA from ancient mollusc shells and supports robust phylogenetic inference at the intrageneric scale, expanding the utility of shells\u2014one of the most abundant invertebrate remains\u2014for evolutionary, biogeographic and conservation studies.\n                  <\/jats:p>","DOI":"10.1111\/1755-0998.70199","type":"journal-article","created":{"date-parts":[[2026,8,31]],"date-time":"2026-08-31T05:07:35Z","timestamp":1788152855000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Target Capture of Ancient Shell\n                    <scp>DNA<\/scp>\n                    Enables Phylogenetic Reconstruction of Deep\u2010Sea Molluscs"],"prefix":"10.1111","volume":"26","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2023-2867","authenticated-orcid":false,"given":"Yi\u2010Xuan","family":"Li","sequence":"first","affiliation":[{"name":"Department of Biology Hong Kong Baptist University  Hong Kong SAR China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1639-7914","authenticated-orcid":false,"given":"Yanjie","family":"Zhang","sequence":"additional","affiliation":[{"name":"School of Life and Health Sciences, Hainan Province Key Laboratory of One Health, Collaborative Innovation Center of One Health Hainan University  Haikou China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0006-7813-9602","authenticated-orcid":false,"given":"Qi","family":"Dai","sequence":"additional","affiliation":[{"name":"Department of Biology Hong Kong Baptist University  Hong Kong SAR China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5035-4021","authenticated-orcid":false,"given":"Chong","family":"Chen","sequence":"additional","affiliation":[{"name":"X\u2010STAR, Japan Agency for Marine\u2010Earth Science and Technology (JAMSTEC)  Yokosuka Kanagawa Japan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1917-4460","authenticated-orcid":false,"given":"Crispin T. 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