{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,17]],"date-time":"2026-10-17T02:30:15Z","timestamp":1792204215500,"version":"4.4.0"},"reference-count":61,"publisher":"Oxford University Press (OUP)","issue":"7","license":[{"start":{"date-parts":[[2025,6,20]],"date-time":"2025-06-20T00:00:00Z","timestamp":1750377600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"funder":[{"DOI":"10.13039\/100004410","name":"European Molecular Biology Organization","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100004410","id-type":"DOI","asserted-by":"publisher"}]},{"name":"MSCA Postdoctoral Fellowship END-osperm"},{"DOI":"10.13039\/501100007492","name":"Bettencourt-Schueller foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100007492","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000781","name":"European Research Council","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000781","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003130","name":"Fonds Wetenschappelijk Onderzoek\u2014Vlaanderen","doi-asserted-by":"publisher","award":["G002620N"],"award-info":[{"award-number":["G002620N"]}],"id":[{"id":"10.13039\/501100003130","id-type":"DOI","asserted-by":"publisher"}]},{"name":"CIFRE","award":["N\u00b0 2018\/0480"],"award-info":[{"award-number":["N\u00b0 2018\/0480"]}]},{"name":"Open Doors Fellowship program"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,7,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>The endosperm is a transient nutritive tissue in plant seeds. During maize (Zea mays) grain development, 2 distinct endosperm cell death processes occur: in 1 process, the endosperm adjacent to the embryo scutellum (EAS) is completely dismantled; in the other, the starchy endosperm (SE) retains nutrient-packed cell corpses after grain filling. Here, we show that SE cell death degrades some organelles including the mitochondria and the endoplasmic reticulum, while preserving protein bodies, starch granules, and chromatin. In contrast, EAS cells undergo lytic cell death to remobilize stored nutrients through a complex corpse clearance process. Using single-cell transcriptome analysis, we identified 2 NAC transcription factors, KIRA-LIKE 1 (KIL1) and 2 (KIL2), as specifically upregulated in the EAS. Analyses using dominant and recessive loss-of-function kil mutants demonstrate that these genes redundantly promote cell death and corpse clearance in the EAS, but are not required for SE cell death. Reduced EAS cell death in kil loss-of-function mutants strongly impeded embryo growth, indicating that EAS elimination is crucial for optimal embryo development. Notably, kil1 and kil2 expression is regulated by DOSAGE-EFFECT DEFECTIVE1, an imprinted paternally expressed endosperm transcription factor. Our findings suggest paternal control over EAS cell death and the embryo-endosperm size ratio in maize, providing new leads to modulate this agronomically important trait.<\/jats:p>","DOI":"10.1093\/plcell\/koaf162","type":"journal-article","created":{"date-parts":[[2025,6,27]],"date-time":"2025-06-27T21:18:05Z","timestamp":1751059085000},"source":"Crossref","is-referenced-by-count":7,"title":["KIL transcription factors facilitate embryo growth in maize by promoting endosperm elimination via lytic cell death"],"prefix":"10.1093","volume":"37","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-5429-8920","authenticated-orcid":false,"given":"Nicolas M","family":"Doll","sequence":"first","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]},{"name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes, Univ Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE , Lyon F-69342 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0001-0281-5815","authenticated-orcid":false,"given":"Yannick","family":"Fierlej","sequence":"additional","affiliation":[{"name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes, Univ Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE , Lyon F-69342 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2878-1553","authenticated-orcid":false,"given":"Thomas","family":"Eekhout","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Single Cell Core, VIB , Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lisa","family":"Elias","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0007-4000-8794","authenticated-orcid":false,"given":"Cl\u00e9ment","family":"Bellot","sequence":"additional","affiliation":[{"name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes, Univ Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE , Lyon F-69342 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Geng","family":"Sun","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8962-3778","authenticated-orcid":false,"given":"Carolin","family":"Grones","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8787-7347","authenticated-orcid":false,"given":"Stijn","family":"Aesaert","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2285-5782","authenticated-orcid":false,"given":"Griet","family":"Coussens","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Riet","family":"De Rycke","sequence":"additional","affiliation":[{"name":"Department of Biomedical Molecular Biology, Ghent University \u00a0 Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center for Inflammation Research, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Bioimaging Core, Ghent University , 9052 Ghent ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria","family":"\u0160im\u00e1\u0161kov\u00e1","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Emilie","family":"Montes","sequence":"additional","affiliation":[{"name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes, Univ Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE , Lyon F-69342 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chlo\u00e9","family":"Plagnard","sequence":"additional","affiliation":[{"name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes, Univ Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE , Lyon F-69342 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Peter M","family":"Rogowsky","sequence":"additional","affiliation":[{"name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes, Univ Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE , Lyon F-69342 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9683-7355","authenticated-orcid":false,"given":"Yemisrach Melkie","family":"Abebaw","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]},{"name":"Department of Plant Biotechnology Research, Bio and Emerging Technology Institute (BETin) , P.O.Box:- 5954, Addis Ababa ,","place":["Ethiopia"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1661-1060","authenticated-orcid":false,"given":"Mohammed","family":"Bendahmane","sequence":"additional","affiliation":[{"name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes, Univ Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE , Lyon F-69342 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9551-042X","authenticated-orcid":false,"given":"Bert","family":"De Rybel","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0221-9052","authenticated-orcid":false,"given":"Laurens","family":"Pauwels","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6002-2306","authenticated-orcid":false,"given":"Thomas","family":"Widiez","sequence":"additional","affiliation":[{"name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes, Univ Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE , Lyon F-69342 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8918-7577","authenticated-orcid":false,"given":"Moritz K","family":"Nowack","sequence":"additional","affiliation":[{"name":"Department of Plant Biotechnology and Bioinformatics, Ghent University , Ghent 9052 ,","place":["Belgium"]},{"name":"VIB Center of Plant Systems Biology , VIB, Ghent 9052 ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2025,6,20]]},"reference":[{"key":"2025071606423245900_koaf162-B1","doi-asserted-by":"publisher","first-page":"883847","DOI":"10.3389\/fpls.2022.883847","article-title":"Optimized transformation and gene editing of the B104 public maize inbred by improved tissue culture and use of morphogenic regulators","volume":"13","author":"Aesaert","year":"2022","journal-title":"Front Plant Sci."},{"issue":"15","key":"2025071606423245900_koaf162-B2","doi-asserted-by":"publisher","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic\u202f: a flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics (Oxford, England)"},{"key":"2025071606423245900_koaf162-B3","doi-asserted-by":"publisher","first-page":"1018","DOI":"10.1038\/s41477-024-01706-y","article-title":"Parental conflict driven regulation of endosperm cellularization by a family of auxin response factors","volume":"10","author":"Butel","year":"2024","journal-title":"Nat Plants."},{"issue":"4","key":"2025071606423245900_koaf162-B4","doi-asserted-by":"publisher","first-page":"613","DOI":"10.1111\/jipb.13069","article-title":"Maize endosperm development","volume":"63","author":"Dai","year":"2021","journal-title":"J Integr Plant Biol."},{"issue":"1","key":"2025071606423245900_koaf162-B5","doi-asserted-by":"publisher","first-page":"5366","DOI":"10.1038\/s41467-022-33055-9","article-title":"Paternal imprinting of dosage-effect defective1 contributes to seed weight xenia in maize","volume":"13","author":"Dai","year":"2022","journal-title":"Nat Commun."},{"issue":"6","key":"2025071606423245900_koaf162-B6","doi-asserted-by":"publisher","first-page":"1222","DOI":"10.1242\/dev.103531","article-title":"Endosperm breakdown in Arabidopsis requires heterodimers of the basic helix-loop-helix proteins ZHOUPI and INDUCER OF CBP EXPRESSION 1","volume":"141","author":"Denay","year":"2014","journal-title":"Development (Cambridge, England)"},{"issue":"3","key":"2025071606423245900_koaf162-B7","doi-asserted-by":"publisher","first-page":"375","DOI":"10.1016\/j.molp.2017.01.008","article-title":"Signaling in early maize kernel development","volume":"10","author":"Doll","year":"2017","journal-title":"Mol Plant."},{"issue":"4","key":"2025071606423245900_koaf162-B8","doi-asserted-by":"publisher","first-page":"487","DOI":"10.1007\/s00299-019-02378-1","article-title":"Single and multiple gene knockouts by CRISPR-Cas9 in maize","volume":"38","author":"Doll","year":"2019","journal-title":"Plant Cell Rep."},{"issue":"1","key":"2025071606423245900_koaf162-B9","doi-asserted-by":"publisher","first-page":"293","DOI":"10.1146\/annurev-arplant-102820-091838","article-title":"Embryo-endosperm interactions","volume":"73","author":"Doll","year":"2022","journal-title":"Annu Rev Plant Biol."},{"issue":"4","key":"2025071606423245900_koaf162-B10","doi-asserted-by":"publisher","first-page":"833","DOI":"10.1105\/tpc.19.00756","article-title":"Transcriptomics at maize embryo\/endosperm interfaces identifies a transcriptionally distinct endosperm subdomain adjacent to the embryo scutellum","volume":"32","author":"Doll","year":"2020","journal-title":"Plant Cell."},{"key":"2025071606423245900_koaf162-B11","doi-asserted-by":"publisher","first-page":"4346","DOI":"10.1093\/jxb\/erae052","article-title":"Endosperm cell death\u202f: roles and regulation in angiosperms","author":"Doll","year":"2024","journal-title":"J Exp Bot."},{"issue":"17","key":"2025071606423245900_koaf162-B12","doi-asserted-by":"publisher","first-page":"3785","DOI":"10.1016\/j.cub.2023.08.003","article-title":"Endosperm cell death promoted by NAC transcription factors facilitates embryo invasion in Arabidopsis","volume":"33","author":"Doll","year":"2023","journal-title":"Curr Biol."},{"issue":"2","key":"2025071606423245900_koaf162-B13","doi-asserted-by":"publisher","first-page":"375","DOI":"10.1105\/tpc.17.00616","article-title":"OPAQUE11 is a central hub of the regulatory network for maize endosperm development and nutrient metabolism","volume":"30","author":"Feng","year":"2018","journal-title":"Plant Cell."},{"issue":"11","key":"2025071606423245900_koaf162-B14","doi-asserted-by":"publisher","first-page":"1807","DOI":"10.1016\/j.molp.2022.10.016","article-title":"MINI-EX\u202f: integrative inference of single-cell gene regulatory networks in plants","volume":"15","author":"Ferrari","year":"2022","journal-title":"Mol Plant."},{"key":"2025071606423245900_koaf162-B15","doi-asserted-by":"publisher","first-page":"1010030","DOI":"10.3389\/fpls.2022.1010030","article-title":"Evaluation of genome and base editing tools in maize protoplasts","volume":"13","author":"Fierlej","year":"2022","journal-title":"Front Plant Sci."},{"issue":"37","key":"2025071606423245900_koaf162-B16","doi-asserted-by":"publisher","first-page":"E8783","DOI":"10.1073\/pnas.1807501115","article-title":"Transcriptional switch for programmed cell death in pith parenchyma of sorghum stems","volume":"115","author":"Fujimoto","year":"2018","journal-title":"Proc Natl Acad Sci U S A."},{"issue":"3","key":"2025071606423245900_koaf162-B17","doi-asserted-by":"publisher","first-page":"756","DOI":"10.1093\/jxb\/22.3.756","article-title":"The use of non-permeating pigments for testing the survival of cells","volume":"22","author":"Gaff","year":"1971","journal-title":"J Exp Bot."},{"issue":"6","key":"2025071606423245900_koaf162-B18","doi-asserted-by":"publisher","first-page":"365","DOI":"10.1038\/s41477-018-0160-7","article-title":"KIRA1 and ORESARA1 terminate flower receptivity by promoting cell death in the stigma of Arabidopsis","volume":"4","author":"Gao","year":"2018","journal-title":"Nat Plants."},{"issue":"11","key":"2025071606423245900_koaf162-B19","doi-asserted-by":"publisher","first-page":"1366","DOI":"10.1111\/j.1365-3040.2007.01712.x","article-title":"Identification of a 150\u2005bp cis-acting element of the AtNRT2.1 promoter involved in the regulation of gene expression by the N and C status of the plant","volume":"30","author":"Girin","year":"2007","journal-title":"Plant Cell Environ."},{"key":"2025071606423245900_koaf162-B20","doi-asserted-by":"publisher","first-page":"116","DOI":"10.1016\/j.plantsci.2015.03.021","article-title":"Role of B3 domain transcription factors of the AFL family in maize kernel filling","volume":"236","author":"Grimault","year":"2015","journal-title":"Plant Sci."},{"issue":"3","key":"2025071606423245900_koaf162-B21","doi-asserted-by":"publisher","first-page":"574","DOI":"10.1111\/tpj.13024","article-title":"ZmZHOUPI, an endosperm-specific basic helix-loop-helix transcription factor involved in maize seed development","volume":"84","author":"Grimault","year":"2015","journal-title":"Plant J."},{"issue":"7","key":"2025071606423245900_koaf162-B22","doi-asserted-by":"publisher","first-page":"1614","DOI":"10.1038\/nprot.2007.241","article-title":"Agrobacterium-mediated transformation of maize","volume":"2","author":"Ishida","year":"2007","journal-title":"Nat Protoc."},{"key":"2025071606423245900_koaf162-B23","first-page":"85","volume-title":"Molecular plant pathology: a practical approach.","author":"Jackson","year":"1992"},{"issue":"4","key":"2025071606423245900_koaf162-B24","doi-asserted-by":"publisher","first-page":"1183","DOI":"10.1104\/pp.107.110411","article-title":"Building blocks for plant gene assembly","volume":"145","author":"Karimi","year":"2007","journal-title":"Plant Physiol."},{"issue":"3","key":"2025071606423245900_koaf162-B25","doi-asserted-by":"publisher","first-page":"103","DOI":"10.1016\/j.tplants.2005.01.008","article-title":"Modular cloning in plant cells","volume":"10","author":"Karimi","year":"2005","journal-title":"Trends Plant Sci."},{"issue":"4","key":"2025071606423245900_koaf162-B26","doi-asserted-by":"publisher","first-page":"1144","DOI":"10.1104\/pp.107.106989","article-title":"Recombinational cloning with plant gateway vectors","volume":"145","author":"Karimi","year":"2007","journal-title":"Plant Physiol."},{"key":"2025071606423245900_koaf162-B27","volume-title":"The structure and reproduction of corn","author":"Kiesselbach","year":"1949"},{"issue":"8","key":"2025071606423245900_koaf162-B28","doi-asserted-by":"publisher","first-page":"907","DOI":"10.1038\/s41587-019-0201-4","article-title":"Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype","volume":"37","author":"Kim","year":"2019","journal-title":"Nat Biotechnol."},{"issue":"2","key":"2025071606423245900_koaf162-B29","doi-asserted-by":"publisher","first-page":"e2115871119","DOI":"10.1073\/pnas.2115871119","article-title":"Recruitment of an ancient branching program to suppress carpel development in maize flowers","volume":"119","author":"Klein","year":"2022","journal-title":"Proc Natl Acad Sci U S A."},{"issue":"12","key":"2025071606423245900_koaf162-B30","doi-asserted-by":"publisher","first-page":"e83043","DOI":"10.1371\/journal.pone.0083043","article-title":"GreenGate\u2014a novel, versatile, and efficient cloning system for plant transgenesis","volume":"8","author":"Lampropoulos","year":"2013","journal-title":"PLoS One"},{"issue":"2","key":"2025071606423245900_koaf162-B31","doi-asserted-by":"publisher","first-page":"1268","DOI":"10.1093\/plphys\/kiad038","article-title":"Causes and consequences of endogenous hypoxia on growth and metabolism of developing maize kernels","volume":"192","author":"Langer","year":"2023","journal-title":"Plant Physiol."},{"issue":"20","key":"2025071606423245900_koaf162-B32","doi-asserted-by":"publisher","first-page":"5887","DOI":"10.1093\/jxb\/erw329","article-title":"Plant programmed cell death from a chromatin point of view","volume":"67","author":"Latrasse","year":"2016","journal-title":"J Exp Bot."},{"issue":"7","key":"2025071606423245900_koaf162-B33","doi-asserted-by":"publisher","first-page":"923","DOI":"10.1093\/bioinformatics\/btt656","article-title":"featureCounts\u202f: an efficient general purpose program for assigning sequence reads to genomic features","volume":"30","author":"Liao","year":"2014","journal-title":"Bioinformatics (Oxford, England)"},{"issue":"1","key":"2025071606423245900_koaf162-B34","doi-asserted-by":"publisher","first-page":"175","DOI":"10.1186\/s13059-021-02396-x","article-title":"Chromosome-level genome assembly of a regenerable maize inbred line A188","volume":"22","author":"Lin","year":"2021","journal-title":"Genome Biol."},{"issue":"1","key":"2025071606423245900_koaf162-B35","doi-asserted-by":"publisher","first-page":"255","DOI":"10.1146\/annurev-arplant-070221-024405","article-title":"Cereal endosperms: development and storage product accumulation","volume":"73","author":"Liu","year":"2022","journal-title":"Annu Rev Plant Biol."},{"issue":"12","key":"2025071606423245900_koaf162-B36","doi-asserted-by":"publisher","first-page":"550","DOI":"10.1186\/s13059-014-0550-8","article-title":"Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2","volume":"15","author":"Love","year":"2014","journal-title":"Genome Biol."},{"issue":"1","key":"2025071606423245900_koaf162-B37","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1186\/s13059-016-0947-7","article-title":"Pooling across cells to normalize single-cell RNA sequencing data with many zero counts","volume":"17","author":"Lun","year":"2016","journal-title":"Genome Biol."},{"key":"2025071606423245900_koaf162-B38","doi-asserted-by":"publisher","first-page":"87","DOI":"10.1007\/978-1-61779-154-3_5","article-title":"CRES-T, an effective gene silencing system utilizing chimeric repressors","volume":"754","author":"Mitsuda","year":"2011","journal-title":"Methods Mol Biol (Clifton, N.J.)"},{"issue":"4","key":"2025071606423245900_koaf162-B39","doi-asserted-by":"publisher","first-page":"592","DOI":"10.1111\/tpj.12223","article-title":"GIANT EMBRYO encodes CYP78A13, required for proper size balance between embryo and endosperm in rice","volume":"75","author":"Nagasawa","year":"2013","journal-title":"Plant J."},{"issue":"suppl_1","key":"2025071606423245900_koaf162-B40","doi-asserted-by":"publisher","first-page":"S214","DOI":"10.1105\/tpc.017111","article-title":"Nuclear endosperm development in cereals and Arabidopsis thaliana","volume":"16","author":"Olsen","year":"2004","journal-title":"Plant Cell."},{"issue":"4","key":"2025071606423245900_koaf162-B41","doi-asserted-by":"publisher","first-page":"2684","DOI":"10.1104\/pp.15.00769","article-title":"A conserved core of programmed cell death indicator genes discriminates developmentally and environmentally induced programmed cell death in plants","volume":"169","author":"Olvera-Carrillo","year":"2015","journal-title":"Plant Physiol."},{"issue":"5","key":"2025071606423245900_koaf162-B42","doi-asserted-by":"publisher","first-page":"454","DOI":"10.3390\/antiox9050454","article-title":"Role of cytochrome P450 enzymes in plant stress response","volume":"9","author":"Pandian","year":"2020","journal-title":"Antioxidants (Basel, Switzerland)"},{"issue":"10","key":"2025071606423245900_koaf162-B43","doi-asserted-by":"publisher","first-page":"1256","DOI":"10.1038\/ng2123","article-title":"Diet and the evolution of human amylase gene copy number variation","volume":"39","author":"Perry","year":"2007","journal-title":"Nat Genet."},{"key":"2025071606423245900_koaf162-B44","doi-asserted-by":"publisher","first-page":"760","DOI":"10.3389\/fpls.2016.00760","article-title":"WRKY transcription factors\u202f: molecular regulation and stress responses in plants","volume":"7","author":"Phukan","year":"2016","journal-title":"Front Plant Sci."},{"issue":"1","key":"2025071606423245900_koaf162-B45","doi-asserted-by":"publisher","first-page":"71","DOI":"10.1515\/bmc-2013-0034","article-title":"Seed evolution\u202f: parental conflicts in a multi-generational household","volume":"5","author":"Pires","year":"2014","journal-title":"Biomol Concepts."},{"issue":"2","key":"2025071606423245900_koaf162-B46","doi-asserted-by":"publisher","first-page":"e2013338118","DOI":"10.1073\/pnas.2013338118","article-title":"Efficient CRISPR-mediated base editing in Agrobacterium spp","volume":"118","author":"Rodrigues","year":"2021","journal-title":"Proc Natl Acad Sci U S A."},{"issue":"7","key":"2025071606423245900_koaf162-B47","doi-asserted-by":"publisher","first-page":"671","DOI":"10.1038\/nmeth.2089","article-title":"NIH image to ImageJ\u202f: 25 years of image analysis","volume":"9","author":"Schneider","year":"2012","journal-title":"Nat Methods."},{"issue":"12","key":"2025071606423245900_koaf162-B48","doi-asserted-by":"publisher","first-page":"1639","DOI":"10.1093\/bioinformatics\/btaa1016","article-title":"Liftoff\u202f: accurate mapping of gene annotations","volume":"37","author":"Shumate","year":"2021","journal-title":"Bioinformatics (Oxford, England)"},{"issue":"8","key":"2025071606423245900_koaf162-B49","doi-asserted-by":"publisher","first-page":"2852","DOI":"10.1093\/plcell\/koac151","article-title":"KIL1 terminates fertility in maize by controlling silk senescence","volume":"34","author":"\u0160im\u00e1\u0161kov\u00e1","year":"2022","journal-title":"Plant Cell."},{"issue":"1","key":"2025071606423245900_koaf162-B50","doi-asserted-by":"publisher","DOI":"10.3835\/plantgenome2015.04.0025","article-title":"An expanded maize gene expression atlas based on RNA sequencing and its use to explore root development","volume":"9","author":"Stelpflug","year":"2016","journal-title":"Plant Genome."},{"key":"2025071606423245900_koaf162-B51","doi-asserted-by":"publisher","first-page":"227","DOI":"10.1007\/978-1-62703-414-2_18","article-title":"Transient expression assays in tobacco protoplasts","volume":"1011","author":"Vanden Bossche","year":"2013","journal-title":"Methods Mol Biol (Clifton, N.J.)"},{"issue":"4","key":"2025071606423245900_koaf162-B52","doi-asserted-by":"publisher","first-page":"941","DOI":"10.1093\/plcell\/koad308","article-title":"A developmentally controlled cellular decompartmentalization process executes programmed cell death in the Arabidopsis root cap","volume":"36","author":"Wang","year":"2024","journal-title":"Plant Cell."},{"issue":"2","key":"2025071606423245900_koaf162-B53","doi-asserted-by":"publisher","first-page":"1198","DOI":"10.3390\/ijms24021198","article-title":"Vacuolar processing enzymes in plant programmed cell death and autophagy","volume":"24","author":"Wleklik","year":"2023","journal-title":"Int J Mol Sci."},{"issue":"21","key":"2025071606423245900_koaf162-B54","doi-asserted-by":"publisher","first-page":"3501","DOI":"10.1242\/dev.026708","article-title":"The endosperm-specific ZHOUPI gene of Arabidopsis thaliana regulates endosperm breakdown and embryonic epidermal development","volume":"135","author":"Yang","year":"2008","journal-title":"Development (Cambridge, England)"},{"issue":"6","key":"2025071606423245900_koaf162-B55","doi-asserted-by":"publisher","first-page":"1169","DOI":"10.1007\/s00122-012-1903-x","article-title":"Characterization of QTL for oil content in maize kernel","volume":"125","author":"Yang","year":"2012","journal-title":"Theor Appl Genet."},{"issue":"2","key":"2025071606423245900_koaf162-B56","doi-asserted-by":"publisher","first-page":"397","DOI":"10.1023\/A:1006333103342","article-title":"Regulation of programmed cell death in maize endosperm by abscisic acid","volume":"42","author":"Young","year":"2000","journal-title":"Plant Mol Biol."},{"issue":"2","key":"2025071606423245900_koaf162-B57","doi-asserted-by":"publisher","first-page":"737","DOI":"10.1104\/pp.115.2.737","article-title":"Ethylene-mediated programmed cell death during maize endosperm development of wild-type and shrunken2 genotypes","volume":"115","author":"Young","year":"1997","journal-title":"Plant Physiol."},{"issue":"4","key":"2025071606423245900_koaf162-B58","doi-asserted-by":"publisher","first-page":"1441","DOI":"10.1104\/pp.19.00767","article-title":"A novel ternary vector system united with morphogenic genes enhances CRISPR\/Cas delivery in maize","volume":"181","author":"Zhang","year":"2019","journal-title":"Plant Physiol."},{"key":"2025071606423245900_koaf162-B59","doi-asserted-by":"publisher","first-page":"139","DOI":"10.3389\/fpls.2017.00139","article-title":"Identification of ZOUPI orthologs in soybean potentially involved in endosperm breakdown and embryogenic development","volume":"8","author":"Zhang","year":"2017","journal-title":"Front Plant Sci."},{"issue":"23","key":"2025071606423245900_koaf162-B60","doi-asserted-by":"publisher","first-page":"11223","DOI":"10.1073\/pnas.1904995116","article-title":"NAC-type transcription factors regulate accumulation of starch and protein in maize seeds","volume":"116","author":"Zhang","year":"2019","journal-title":"Proc Natl Acad Sci U S A."},{"issue":"1","key":"2025071606423245900_koaf162-B61","doi-asserted-by":"publisher","first-page":"33","DOI":"10.1007\/s00709-014-0687-z","article-title":"The cereal starch endosperm development and its relationship with other endosperm tissues and embryo","volume":"252","author":"Zheng","year":"2015","journal-title":"Protoplasma"}],"container-title":["The Plant Cell"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/plcell\/advance-article-pdf\/doi\/10.1093\/plcell\/koaf162\/63537556\/koaf162.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/plcell\/article-pdf\/37\/7\/koaf162\/63537556\/koaf162.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/plcell\/article-pdf\/37\/7\/koaf162\/63537556\/koaf162.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,7,16]],"date-time":"2025-07-16T10:42:46Z","timestamp":1752662566000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/plcell\/article\/doi\/10.1093\/plcell\/koaf162\/8170042"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,6,20]]},"references-count":61,"journal-issue":{"issue":"7","published-print":{"date-parts":[[2025,7,1]]}},"URL":"https:\/\/doi.org\/10.1093\/plcell\/koaf162","relation":{},"ISSN":["1040-4651","1532-298X"],"issn-type":[{"value":"1040-4651","type":"print"},{"value":"1532-298X","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2025,7]]},"published":{"date-parts":[[2025,6,20]]},"article-number":"koaf162"}}