{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,15]],"date-time":"2026-10-15T21:47:29Z","timestamp":1792100849752,"version":"4.4.0"},"reference-count":120,"publisher":"Wiley","issue":"5","license":[{"start":{"date-parts":[[2020,10,18]],"date-time":"2020-10-18T00:00:00Z","timestamp":1602979200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100007565","name":"Citrus Research and Development Foundation","doi-asserted-by":"publisher","award":["18\u2010010"],"award-info":[{"award-number":["18\u2010010"]}],"id":[{"id":"10.13039\/100007565","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007565","name":"Citrus Research and Development Foundation","doi-asserted-by":"publisher","award":["724"],"award-info":[{"award-number":["724"]}],"id":[{"id":"10.13039\/100007565","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["The Plant Journal"],"published-print":{"date-parts":[[2020,12]]},"abstract":"<jats:title>SUMMARY<\/jats:title>\n                  <jats:p>\n                    Trifoliate orange (\n                    <jats:italic>Poncirus trifoliata<\/jats:italic>\n                    ), a deciduous close relative of evergreen\n                    <jats:italic>Citrus<\/jats:italic>\n                    , has important traits for citrus production, including tolerance\/resistance to citrus greening disease (Huanglongbing, HLB) and other major diseases, and cold tolerance. It has been one of the most important rootstocks, and one of the most valuable sources of resistance and tolerance genes for citrus. Here we present a high\u2010quality, chromosome\u2010scale genome assembly of\n                    <jats:italic>P. trifoliata<\/jats:italic>\n                    . The 264.9\u2010Mb assembly contains nine chromosomal pseudomolecules with 25\u00a0538 protein\u2010coding genes, covering 97.2% of the estimated gene space. Comparative analyses of\n                    <jats:italic>P. trifoliata<\/jats:italic>\n                    and nine\n                    <jats:italic>Citrus<\/jats:italic>\n                    genomes revealed 605 species\u2010specific genes and six rapidly evolving gene families in the\n                    <jats:italic>P. trifoliata<\/jats:italic>\n                    genome.\n                    <jats:italic>Poncirus trifoliata<\/jats:italic>\n                    has evolved specific adaptation in the\n                    <jats:italic>C\u2010repeat\/DREB binding factor<\/jats:italic>\n                    (\n                    <jats:italic>CBF<\/jats:italic>\n                    )\u2010dependent and\n                    <jats:italic>CBF<\/jats:italic>\n                    \u2010independent cold signaling pathways to tolerate cold. We identified candidate genes within quantitative trait loci for HLB tolerance, and at the loci for resistance to citrus tristeza virus and citrus nematode. Genetic diversity analysis of\n                    <jats:italic>Poncirus<\/jats:italic>\n                    accessions and\n                    <jats:italic>Poncirus<\/jats:italic>\n                    \/\n                    <jats:italic>Citrus<\/jats:italic>\n                    hybrids shows a narrow genetic base in the US germplasm collection, and points to the importance of collecting and preserving more natural genetic variation. Two phenotypically divergent\n                    <jats:italic>Poncirus<\/jats:italic>\n                    accessions are found to be clonally related, supporting a previous conjecture that dwarf Flying Dragon originated as a mutant of a non\u2010dwarfing type. The high\u2010quality genome reveals features and evolutionary insights of\n                    <jats:italic>Poncirus<\/jats:italic>\n                    , and it will serve as a valuable resource for genetic, genomic and molecular research and manipulation in citrus.\n                  <\/jats:p>","DOI":"10.1111\/tpj.14993","type":"journal-article","created":{"date-parts":[[2020,9,27]],"date-time":"2020-09-27T22:48:30Z","timestamp":1601246910000},"page":"1215-1232","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":115,"title":["A chromosome\u2010scale reference genome of trifoliate orange (\n                    <i>Poncirus trifoliata<\/i>\n                    ) provides insights into disease resistance, cold tolerance and genome evolution in\n                    <i>Citrus<\/i>"],"prefix":"10.1111","volume":"104","author":[{"given":"Ze","family":"Peng","sequence":"first","affiliation":[{"name":"Department of Environmental Horticulture Gulf Coast Research and Education Center University of Florida IFAS 14625 County Road 672 Wimauma FL 33598 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jessen V.","family":"Bredeson","sequence":"additional","affiliation":[{"name":"Molecular and Cell Biology Department University of California, Berkeley Berkeley CA 94720 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Guohong A.","family":"Wu","sequence":"additional","affiliation":[{"name":"US Department of Energy Joint Genome Institute Lawrence Berkeley National Lab 1 Cyclotron Road Berkeley CA 94720 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shengqiang","family":"Shu","sequence":"additional","affiliation":[{"name":"US Department of Energy Joint Genome Institute Lawrence Berkeley National Lab 1 Cyclotron Road Berkeley CA 94720 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nidhi","family":"Rawat","sequence":"additional","affiliation":[{"name":"Department of Environmental Horticulture Gulf Coast Research and Education Center University of Florida IFAS 14625 County Road 672 Wimauma FL 33598 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dongliang","family":"Du","sequence":"additional","affiliation":[{"name":"Citrus Research and Education Center University of Florida, IFAS 700 Experiment Station Rd Lake Alfred FL 33850 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Saroj","family":"Parajuli","sequence":"additional","affiliation":[{"name":"Department of Environmental Horticulture Gulf Coast Research and Education Center University of Florida IFAS 14625 County Road 672 Wimauma FL 33598 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qibin","family":"Yu","sequence":"additional","affiliation":[{"name":"Citrus Research and Education Center University of Florida, IFAS 700 Experiment Station Rd Lake Alfred FL 33850 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qian","family":"You","sequence":"additional","affiliation":[{"name":"Department of Environmental Horticulture Gulf Coast Research and Education Center University of Florida IFAS 14625 County Road 672 Wimauma FL 33598 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daniel S.","family":"Rokhsar","sequence":"additional","affiliation":[{"name":"Molecular and Cell Biology Department University of California, Berkeley Berkeley CA 94720 USA"},{"name":"US Department of Energy Joint Genome Institute Lawrence Berkeley National Lab 1 Cyclotron Road Berkeley CA 94720 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"suffix":"Jr","given":"Frederick G.","family":"Gmitter","sequence":"additional","affiliation":[{"name":"Citrus Research and Education Center University of Florida, IFAS 700 Experiment Station Rd 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