{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,9]],"date-time":"2026-09-09T17:07:55Z","timestamp":1788973675084,"version":"build-2803163510"},"reference-count":76,"publisher":"Wiley","issue":"4","license":[{"start":{"date-parts":[[2026,8,26]],"date-time":"2026-08-26T00:00:00Z","timestamp":1787702400000},"content-version":"vor","delay-in-days":25,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2026,8,1]],"date-time":"2026-08-01T00:00:00Z","timestamp":1785542400000},"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":["The Plant Journal"],"published-print":{"date-parts":[[2026,8]]},"abstract":"<jats:title>SUMMARY<\/jats:title>\n                  <jats:p>\n                    The\n                    <jats:italic>JAGGED<\/jats:italic>\n                    transcription factor family regulates lateral organ development across angiosperms. In soybean (\n                    <jats:italic>Glycine max<\/jats:italic>\n                    Merr.), a D9H mutation in the EAR repression motif of\n                    <jats:italic>GmJAG1<\/jats:italic>\n                    causes a narrow\u2010leaflet phenotype and explains over 70% of phenotypic variance in leaf shape. Because this mutation does not affect the zinc finger DNA\u2010binding domain, both alleles bind identical targets but differ in repressor recruitment. Previous studies mapped\n                    <jats:italic>GmJAG1<\/jats:italic>\n                    binding sites, but the functional targets controlling leaf morphology are uncharacterized. Here, we used comparative transcriptomics across four soybean genotypes with contrasting leaf shape, spanning a developmental time series from shoot apex to mature leaf, and identified 1567 putative candidate target genes.\n                    <jats:italic>GmJAG1<\/jats:italic>\n                    expression was confined to the shoot apex, yet 99.1% of candidate targets maintained differential expression throughout development. We found that neither Kip\u2010Related Protein (\n                    <jats:italic>KRP<\/jats:italic>\n                    ) cell cycle inhibitors nor Cyclin\u2010Dependent Kinases (CDKs) showed differential expression despite binding evidence in Arabidopsis. However, D\u2010type cyclins were upregulated in narrow\u2010leaf genotypes suggesting that soybean\n                    <jats:italic>GmJAG1<\/jats:italic>\n                    acts through cyclin\u2010mediated rather than\n                    <jats:italic>KRP<\/jats:italic>\n                    \u2010mediated cell cycle regulation described in Arabidopsis\u2013 a divergence in regulatory logic between the two species. Pathway analysis revealed enrichment of auxin (1.8\u2010fold,\n                    <jats:italic>P<\/jats:italic>\n                    \u2009=\u20090.02) and salicylic acid (fourfold,\n                    <jats:italic>P<\/jats:italic>\n                    \u2009=\u20090.016) genes among JAG1\n                    <jats:sub>D9H<\/jats:sub>\n                    targets. Filtering by differential expression, binding data, phenotype correlation, and co\u2010expression network membership identified 79 high\u2010confidence targets, including orthologs of\n                    <jats:italic>NPH3<\/jats:italic>\n                    (phototropin\u2010mediated leaf flattening),\n                    <jats:italic>MIK2<\/jats:italic>\n                    (cell wall integrity sensing),\n                    <jats:italic>RD22<\/jats:italic>\n                    (ABA\u2010responsive stress signaling), and\n                    <jats:italic>SCL23<\/jats:italic>\n                    (GRAS transcription factor in bundle sheath development). These candidates provide targets for functional validation and breeding in legumes.\n                  <\/jats:p>","DOI":"10.1111\/tpj.71088","type":"journal-article","created":{"date-parts":[[2026,8,26]],"date-time":"2026-08-26T21:35:51Z","timestamp":1787780151000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Natural leaf shape variation reveals diverse transcriptional targets of\n                    <i>GmJAG1<\/i>\n                    during soybean leaf development"],"prefix":"10.1111","volume":"127","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4991-6354","authenticated-orcid":false,"given":"Bishal G.","family":"Tamang","sequence":"first","affiliation":[{"name":"Department of Crop Sciences University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"},{"name":"Department of Plant Biology University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"},{"name":"Institute for Genomic Biology University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Casey","family":"Kramer","sequence":"additional","affiliation":[{"name":"Department of Crop Sciences University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"},{"name":"Department of Plant Biology University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"},{"name":"Institute for Genomic Biology University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3199-8999","authenticated-orcid":false,"given":"Elizabeth A.","family":"Ainsworth","sequence":"additional","affiliation":[{"name":"Department of Crop Sciences University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"},{"name":"Department of Plant Biology University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"},{"name":"Institute for Genomic Biology University of Illinois at Urbana\u2010Champaign  Urbana Illinois 61801 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2026,8,26]]},"reference":[{"key":"e_1_2_9_2_1","doi-asserted-by":"publisher","DOI":"10.1242\/dev.106195"},{"key":"e_1_2_9_3_1","first-page":"117","volume-title":"Soybeans: Improvement, Production, and Uses","author":"Bernard R.L.","year":"1973"},{"key":"e_1_2_9_4_1","doi-asserted-by":"publisher","DOI":"10.1105\/tpc.106.047159"},{"key":"e_1_2_9_5_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp348"},{"key":"e_1_2_9_6_1","doi-asserted-by":"publisher","DOI":"10.1104\/pp.111.186999"},{"key":"e_1_2_9_7_1","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2022.961619"},{"key":"e_1_2_9_8_1","article-title":"From reads to genes to pathways: differential expression analysis of RNA\u2010seq experiments using Rsubread and the edgeR 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