{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,16]],"date-time":"2026-10-16T07:50:00Z","timestamp":1792137000258,"version":"4.4.0"},"reference-count":130,"publisher":"Wiley","issue":"20","license":[{"start":{"date-parts":[[2026,10,16]],"date-time":"2026-10-16T00:00:00Z","timestamp":1792108800000},"content-version":"vor","delay-in-days":15,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"},{"start":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T00:00:00Z","timestamp":1790812800000},"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"],"published-print":{"date-parts":[[2026,10]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:p>\n                    There are multiple mechanisms that can underlie parallel adaptation to similar habitats at the genetic level, including\n                    <jats:italic>de novo<\/jats:italic>\n                    mutations, introgression, and shared standing variation. While evidence for each pathway is emerging, few studies have directly examined how demographic processes, range expansion and introgression interact to shape the fate of adaptive alleles. In the\n                    <jats:italic>Phalaenopsis amabilis<\/jats:italic>\n                    complex, we applied a dimensionality reduction approach to identify environmental extremes and link alleles to ecological gradients. By combining gene\u2013environment association analyses with demographic inference and historical gene flow reconstruction, we evaluated whether repeated adaptation arises from\n                    <jats:italic>de novo<\/jats:italic>\n                    convergent mutations or introgression. The candidate SNP set departed strongly from neutral expectations in DMC analyses; standing variation was the best\u2010fitting model, although its separation from migration was modest. We also found heterogeneous allele sharing and historical introgression involving range\u2010margin populations, coinciding with demographic expansion. These findings suggest that standing variation, demographic history, and heterogeneous introgression may jointly contribute to repeated genomic responses across ecological gradients. A limited subset of environmentally associated candidates also overlapped with floral morphology\u2010associated candidates, but the magnitude of overlap was strongly threshold\u2010 and denominator\u2010dependent. These overlaps identify hypotheses concerning ecological and floral trait differentiation, but do not establish pleiotropy or a shared causal architecture. This work highlights how parallel adaptation in plants may emerge from the interplay of neutral and adaptive evolutionary mechanisms in recently diverged lineages.\n                  <\/jats:p>","DOI":"10.1111\/mec.70597","type":"journal-article","created":{"date-parts":[[2026,10,16]],"date-time":"2026-10-16T07:29:47Z","timestamp":1792135787000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Parallel Genomic Responses to Ecological Gradients in the\n                    <i>Phalaenopsis amabilis<\/i>\n                    Complex"],"prefix":"10.1111","volume":"35","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-4130-310X","authenticated-orcid":false,"given":"Pei\u2010Wei","family":"Sun","sequence":"first","affiliation":[{"name":"Department of Ecology and Evolutionary Biology Yale University  New Haven Connecticut USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yu\u2010Hsin","family":"Huang","sequence":"additional","affiliation":[{"name":"Department of Life Science National Taiwan Normal University  Taipei Taiwan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6778-4629","authenticated-orcid":false,"given":"Chien\u2010Ti","family":"Chao","sequence":"additional","affiliation":[{"name":"Department of Life Science National Taiwan Normal University  Taipei Taiwan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3893-045X","authenticated-orcid":false,"given":"Jenn M.","family":"Coughlan","sequence":"additional","affiliation":[{"name":"Department of Ecology and Evolutionary Biology Yale University  New Haven Connecticut USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0139-7914","authenticated-orcid":false,"given":"Ashley R.","family":"Field","sequence":"additional","affiliation":[{"name":"Queensland Herbarium, Department of Environment and Science Brisbane Botanic Gardens  Toowong Queensland Australia"},{"name":"Australian Tropical Herbarium James Cook University  Cairns Queensland Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0459-5991","authenticated-orcid":false,"given":"Katharina","family":"Nargar","sequence":"additional","affiliation":[{"name":"Australian Tropical Herbarium James Cook University  Cairns Queensland Australia"},{"name":"National Research Collections Australia Commonwealth Industrial and Scientific Research Organisation (CSIRO)  Canberra Australian Capital Territory Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9994-2003","authenticated-orcid":false,"given":"Yung\u2010I","family":"Lee","sequence":"additional","affiliation":[{"name":"Institute of Ecology and Evolutionary Biology National Taiwan University  Taipei Taiwan"},{"name":"Department of Life Science National Taiwan University  Taipei Taiwan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1733-5504","authenticated-orcid":false,"given":"Pei\u2010Chun","family":"Liao","sequence":"additional","affiliation":[{"name":"Department of Life Science National Taiwan Normal University  Taipei Taiwan"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2026,10,16]]},"reference":[{"key":"e_1_2_11_2_1","doi-asserted-by":"publisher","DOI":"10.1093\/evolut\/qpaf049"},{"key":"e_1_2_11_3_1","doi-asserted-by":"publisher","DOI":"10.1534\/genetics.112.147785"},{"issue":"9","key":"e_1_2_11_4_1","doi-asserted-by":"crossref","first-page":"1655","DOI":"10.1101\/gr.094052.109","article-title":"Fast Model\u2010Based Estimation of Ancestry in Unrelated Individuals","volume":"19","author":"Alexander D. 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