{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,15]],"date-time":"2026-09-15T23:27:27Z","timestamp":1789514847155,"version":"build-2803163510"},"reference-count":80,"publisher":"Wiley","issue":"1","license":[{"start":{"date-parts":[[2025,10,17]],"date-time":"2025-10-17T00:00:00Z","timestamp":1760659200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2025,10,17]],"date-time":"2025-10-17T00:00:00Z","timestamp":1760659200000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/doi.wiley.com\/10.1002\/tdm_license_1.1"}],"funder":[{"DOI":"10.13039\/501100024872","name":"Toegepaste en Technische Wetenschappen, NWO","doi-asserted-by":"publisher","award":["18389"],"award-info":[{"award-number":["18389"]}],"id":[{"id":"10.13039\/501100024872","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["nph.onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["New Phytologist"],"published-print":{"date-parts":[[2026,1]]},"abstract":"<jats:title>Summary<\/jats:title>\n                  <jats:p>\n                    <jats:list list-type=\"bullet\">\n                      <jats:list-item>\n                        <jats:p>\n                          Plant\u2010parasitic cyst nematodes, such as\n                          <jats:italic>Heterodera schachtii<\/jats:italic>\n                          , cause substantial crop losses world\u2010wide and induce specialized feeding structures in host roots, yet the molecular mechanisms underlying feeding structure initiation and development remain poorly understood.\n                        <\/jats:p>\n                      <\/jats:list-item>\n                      <jats:list-item>\n                        <jats:p>\n                          We introduce RNA tomography for plants, a powerful untargeted spatial transcriptomics technology that allows studying gene expression at high spatial resolution. We applied RNA tomography to Arabidopsis (\n                          <jats:italic>Arabidopsis thaliana<\/jats:italic>\n                          ) roots infected with\n                          <jats:italic>H. schachtii<\/jats:italic>\n                          , capturing 96 consecutive cross sections of 20 micrometers at 1\u2010 and 2\u2010d post inoculation (dpi).\n                        <\/jats:p>\n                      <\/jats:list-item>\n                      <jats:list-item>\n                        <jats:p>\n                          We identified the location of the nematode's pharyngeal glands, the organs where most effectors are produced, using marker genes, and discovered multiple uncharacterized\n                          <jats:italic>H. schachtii<\/jats:italic>\n                          genes expressed in the same region. Additionally, we mapped the Arabidopsis spatial gene expression response upon nematode infection, revealing that some genes are expressed in a specific section.\n                        <\/jats:p>\n                      <\/jats:list-item>\n                      <jats:list-item>\n                        <jats:p>Our findings provide novel insights into early nematode parasitism. RNA tomography offers a powerful new approach to understanding plant cellular organization and interactions under various conditions, including development and responses to biotic and abiotic stresses.<\/jats:p>\n                      <\/jats:list-item>\n                    <\/jats:list>\n                  <\/jats:p>","DOI":"10.1111\/nph.70674","type":"journal-article","created":{"date-parts":[[2025,10,17]],"date-time":"2025-10-17T10:20:54Z","timestamp":1760696454000},"page":"588-602","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["<scp>RNA<\/scp>\n                    tomography reveals spatial gene expression maps of\n                    <i>Arabidopsis thaliana<\/i>\n                    roots infected with\n                    <i>Heterodera schachtii<\/i>"],"prefix":"10.1111","volume":"249","author":[{"ORCID":"https:\/\/orcid.org\/0009-0000-8607-5684","authenticated-orcid":false,"given":"Anna","family":"Pijnacker","sequence":"first","affiliation":[{"name":"Laboratory of Nematology Wageningen University &amp; Research  Wageningen 6708 PB the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0001-2129-1762","authenticated-orcid":false,"given":"Yuhao","family":"Wang","sequence":"additional","affiliation":[{"name":"Laboratory of Nematology Wageningen University &amp; Research  Wageningen 6708 PB the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1872-1300","authenticated-orcid":false,"given":"Jaap\u2010Jan","family":"Willig","sequence":"additional","affiliation":[{"name":"Laboratory of Nematology Wageningen University &amp; Research  Wageningen 6708 PB the Netherlands"},{"name":"Agrosystems Research Wageningen University &amp; Research  Wageningen 6708 PB the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5904-2235","authenticated-orcid":false,"given":"Jonas","family":"Mars","sequence":"additional","affiliation":[{"name":"Hubrecht Institute  Utrecht 3584 CT the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8764-1366","authenticated-orcid":false,"given":"Steffen","family":"Werner","sequence":"additional","affiliation":[{"name":"Experimental Zoology Wageningen University &amp; Research  Wageningen 6708 WD the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0005-6892-1345","authenticated-orcid":false,"given":"Kelvin","family":"Adema","sequence":"additional","affiliation":[{"name":"Laboratory of Cell and Developmental Biology Wageningen University &amp; Research  Wageningen 6708 PB the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6094-8686","authenticated-orcid":false,"given":"Geert","family":"Smant","sequence":"additional","affiliation":[{"name":"Laboratory of Nematology Wageningen University &amp; Research  Wageningen 6708 PB the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7931-4472","authenticated-orcid":false,"given":"Hendrik C.","family":"Korswagen","sequence":"additional","affiliation":[{"name":"Hubrecht Institute  Utrecht 3584 CT the Netherlands"},{"name":"Department of Biology, Institute of Biodynamics and Biocomplexity, Developmental Biology Utrecht University  Utrecht 3584 CH the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0021-5947","authenticated-orcid":false,"given":"Jose L.","family":"Lozano\u2010Torres","sequence":"additional","affiliation":[{"name":"Laboratory of Nematology Wageningen University &amp; Research  Wageningen 6708 PB the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2025,10,17]]},"reference":[{"key":"e_1_2_9_2_1","doi-asserted-by":"publisher","DOI":"10.1105\/tpc.108.059477"},{"key":"e_1_2_9_3_1","doi-asserted-by":"publisher","DOI":"10.1007\/s00709-018-1303-4"},{"key":"e_1_2_9_4_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-313X.2009.04098.x"},{"key":"e_1_2_9_5_1","first-page":"166","article-title":"A screen for Arabidopsis thaliana mutants with altered susceptibility to Heterodera schachtii","volume":"32","author":"Baum TJ","year":"2000","journal-title":"Journal of Nematology"},{"key":"e_1_2_9_6_1","doi-asserted-by":"publisher","DOI":"10.1111\/pbi.14144"},{"key":"e_1_2_9_7_1","doi-asserted-by":"publisher","DOI":"10.1038\/ncomms6488"},{"key":"e_1_2_9_8_1","unstructured":"BuysDB.2024.SingleCellMultiOmics: Tools which deal with multiple single cell measurements. Github repository. [WWW document] URLhttps:\/\/github.com\/BuysDB\/SingleCellMultiOmics."},{"key":"e_1_2_9_9_1","doi-asserted-by":"publisher","DOI":"10.1093\/molbev\/msab293"},{"key":"e_1_2_9_10_1","doi-asserted-by":"publisher","DOI":"10.1111\/tpj.13415"},{"key":"e_1_2_9_11_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.jgg.2023.03.011"},{"key":"e_1_2_9_12_1","article-title":"Molecular control by non\u2010coding RNAs during fruit development: from gynoecium patterning to fruit ripening","volume":"871","author":"Correa JP","year":"2018","journal-title":"Frontiers in Plant Science"},{"key":"e_1_2_9_13_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1469-8137.2011.04046.x"},{"key":"e_1_2_9_14_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.devcel.2019.02.022"},{"key":"e_1_2_9_15_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bts635"},{"key":"e_1_2_9_16_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.devcel.2018.10.016"},{"key":"e_1_2_9_17_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1399-3054.2007.01017.x"},{"key":"e_1_2_9_18_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz931"},{"key":"e_1_2_9_19_1","doi-asserted-by":"publisher","DOI":"10.1038\/nplants.2017.61"},{"key":"e_1_2_9_20_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13007-019-0498-5"},{"key":"e_1_2_9_21_1","doi-asserted-by":"publisher","DOI":"10.1007\/BF01273172"},{"key":"e_1_2_9_22_1","doi-asserted-by":"publisher","DOI":"10.1007\/978-94-007-0434-3_16"},{"key":"e_1_2_9_23_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btw313"},{"key":"e_1_2_9_24_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-024-63226-1"},{"key":"e_1_2_9_25_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1006142"},{"key":"e_1_2_9_26_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-019-1874-1"},{"key":"e_1_2_9_27_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-023-01767-y"},{"key":"e_1_2_9_28_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-016-0938-8"},{"key":"e_1_2_9_29_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.celrep.2012.08.003"},{"key":"e_1_2_9_30_1","doi-asserted-by":"publisher","DOI":"10.1105\/tpc.108.063065"},{"key":"e_1_2_9_31_1","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-4939-9009-2_9"},{"key":"e_1_2_9_32_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12870-014-0300-9"},{"key":"e_1_2_9_33_1","doi-asserted-by":"publisher","DOI":"10.1094\/MPMI-20-5-0510"},{"key":"e_1_2_9_34_1","doi-asserted-by":"publisher","DOI":"10.1111\/mpp.12057"},{"key":"e_1_2_9_35_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2014.09.038"},{"key":"e_1_2_9_36_1","first-page":"241","article-title":"Microarray analysis of gene expression in soybean roots susceptible to the soybean cyst nematode two days post invasion","volume":"36","author":"Khan R","year":"2004","journal-title":"Journal of Nematology"},{"key":"e_1_2_9_37_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.tcb.2023.05.010"},{"key":"e_1_2_9_38_1","doi-asserted-by":"publisher","DOI":"10.1104\/pp.110.167197"},{"key":"e_1_2_9_39_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp352"},{"key":"e_1_2_9_40_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt656"},{"key":"e_1_2_9_41_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pgen.1007310"},{"key":"e_1_2_9_42_1","doi-asserted-by":"publisher","DOI":"10.1111\/pbi.13884"},{"key":"e_1_2_9_43_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41477-023-01387-z"},{"key":"e_1_2_9_44_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1004569"},{"key":"e_1_2_9_45_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.pbi.2015.12.006"},{"key":"e_1_2_9_46_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2015.03.018"},{"key":"e_1_2_9_47_1","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2018.00314"},{"key":"e_1_2_9_48_1","doi-asserted-by":"publisher","DOI":"10.3389\/fcell.2021.744982"},{"key":"e_1_2_9_49_1","doi-asserted-by":"publisher","DOI":"10.1111\/nph.12323"},{"key":"e_1_2_9_50_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1012395"},{"key":"e_1_2_9_51_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.gde.2017.02.005"},{"key":"e_1_2_9_52_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-024-08383-z"},{"key":"e_1_2_9_53_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41477-023-01439-4"},{"key":"e_1_2_9_54_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.2402514121"},{"key":"e_1_2_9_55_1","doi-asserted-by":"publisher","DOI":"10.1080\/15592324.2017.1362521"},{"key":"e_1_2_9_56_1","doi-asserted-by":"publisher","DOI":"10.1046\/j.1365-313X.2003.01677.x"},{"key":"e_1_2_9_57_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.xpro.2021.100411"},{"key":"e_1_2_9_58_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.devcel.2022.01.008"},{"key":"e_1_2_9_59_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-022-33769-w"},{"key":"e_1_2_9_60_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-313X.1991.00245.x"},{"key":"e_1_2_9_61_1","doi-asserted-by":"publisher","DOI":"10.1023\/A:1008609409465"},{"key":"e_1_2_9_62_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2015.04.032"},{"key":"e_1_2_9_63_1","doi-asserted-by":"publisher","DOI":"10.1088\/1757-899X\/336\/1\/012017"},{"key":"e_1_2_9_64_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-313X.2008.03727.x"},{"key":"e_1_2_9_65_1","doi-asserted-by":"publisher","DOI":"10.1094\/MPMI-09-21-0221-CR"},{"key":"e_1_2_9_66_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.ijpara.2020.05.008"},{"key":"e_1_2_9_67_1","doi-asserted-by":"publisher","DOI":"10.1093\/mp\/ssq048"},{"key":"e_1_2_9_68_1","doi-asserted-by":"publisher","DOI":"10.1093\/pcp\/pcq109"},{"key":"e_1_2_9_69_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1364-3703.2007.00392.x"},{"key":"e_1_2_9_70_1","doi-asserted-by":"publisher","DOI":"10.3390\/molecules26133874"},{"key":"e_1_2_9_71_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-022-26551-x"},{"key":"e_1_2_9_72_1","doi-asserted-by":"publisher","DOI":"10.1111\/nph.16765"},{"key":"e_1_2_9_73_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1364-3703.2010.00660.x"},{"key":"e_1_2_9_74_1","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-319-24277-4"},{"key":"e_1_2_9_75_1","doi-asserted-by":"publisher","DOI":"10.1111\/tpj.15996"},{"key":"e_1_2_9_76_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.devcel.2015.12.010"},{"key":"e_1_2_9_77_1","first-page":"75","article-title":"Observations on the feeding behaviour of Heterodera schachtii throughout development, including events during moulting","volume":"25","author":"Wyss U","year":"1992","journal-title":"Fundamental and Applied Nematology"},{"key":"e_1_2_9_78_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.devcel.2022.04.011"},{"key":"e_1_2_9_79_1","doi-asserted-by":"publisher","DOI":"10.1111\/tpj.16437"},{"key":"e_1_2_9_80_1","doi-asserted-by":"publisher","DOI":"10.1182\/blood.2019004446"},{"key":"e_1_2_9_81_1","doi-asserted-by":"publisher","DOI":"10.1134\/S1062359011050177"}],"container-title":["New Phytologist"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/nph.onlinelibrary.wiley.com\/doi\/pdf\/10.1111\/nph.70674","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/nph.onlinelibrary.wiley.com\/doi\/full-xml\/10.1111\/nph.70674","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/nph.onlinelibrary.wiley.com\/doi\/pdf\/10.1111\/nph.70674","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,3,21]],"date-time":"2026-03-21T05:25:00Z","timestamp":1774070700000},"score":1,"resource":{"primary":{"URL":"https:\/\/nph.onlinelibrary.wiley.com\/doi\/10.1111\/nph.70674"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,10,17]]},"references-count":80,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2026,1]]}},"alternative-id":["10.1111\/nph.70674"],"URL":"https:\/\/doi.org\/10.1111\/nph.70674","archive":["Portico"],"relation":{},"ISSN":["0028-646X","1469-8137"],"issn-type":[{"value":"0028-646X","type":"print"},{"value":"1469-8137","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,10,17]]},"assertion":[{"value":"2025-07-04","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2025-09-27","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2025-10-17","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}