{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,7]],"date-time":"2026-08-07T14:50:52Z","timestamp":1786114252083,"version":"build-2736575974"},"reference-count":50,"publisher":"Elsevier BV","issue":"8","license":[{"start":{"date-parts":[[2026,8,1]],"date-time":"2026-08-01T00:00:00Z","timestamp":1785542400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2026,8,1]],"date-time":"2026-08-01T00:00:00Z","timestamp":1785542400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2026,4,16]],"date-time":"2026-04-16T00:00:00Z","timestamp":1776297600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100022077","name":"INRAE","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100022077","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100019121","name":"OECD","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100019121","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["cell.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Trends in Plant Science"],"published-print":{"date-parts":[[2026,8]]},"DOI":"10.1016\/j.tplants.2026.04.010","type":"journal-article","created":{"date-parts":[[2026,4,25]],"date-time":"2026-04-25T04:37:48Z","timestamp":1777091868000},"page":"1005-1013","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":0,"title":["Distinguishing varying and carrying populations in holobiont breeding"],"prefix":"10.1016","volume":"31","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3928-9070","authenticated-orcid":false,"given":"Manuel","family":"Blouin","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Victor","family":"Angot","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Samuel","family":"Jacquiod","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Judith","family":"Burstin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yanis","family":"Bouchenak-Khelladi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Angela","family":"Kent","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.tplants.2026.04.010_bb0005","doi-asserted-by":"crossref","DOI":"10.1111\/pce.70019","article-title":"Unveiling potato cultivars with microbiome interactive traits for sustainable agricultural production","author":"Zhao","year":"2025","journal-title":"Plant Cell Environ."},{"key":"10.1016\/j.tplants.2026.04.010_bb0010","doi-asserted-by":"crossref","first-page":"471","DOI":"10.1016\/j.tplants.2025.02.003","article-title":"Navigating nitrogen sustainability with microbiome-associated phenotypes","volume":"30","author":"Raglin","year":"2025","journal-title":"Trends Plant Sci."},{"key":"10.1016\/j.tplants.2026.04.010_bb0015","doi-asserted-by":"crossref","first-page":"997","DOI":"10.1016\/j.tim.2022.04.003","article-title":"Microbiome breeding: conceptual and practical issues","volume":"30","author":"Mueller","year":"2022","journal-title":"Trends Microbiol."},{"key":"10.1016\/j.tplants.2026.04.010_bb0020","doi-asserted-by":"crossref","first-page":"311","DOI":"10.1146\/annurev.es.11.110180.001523","article-title":"Individuality and selection","volume":"11","author":"Hull","year":"1980","journal-title":"Annu. Rev. Ecol. Syst."},{"key":"10.1016\/j.tplants.2026.04.010_bb0025","doi-asserted-by":"crossref","DOI":"10.1073\/pnas.2202538119","article-title":"Community-level evolutionary processes: linking community genetics with replicator-interactor theory","volume":"119","author":"Lean","year":"2022","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.tplants.2026.04.010_bb0030","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2020.574053","article-title":"Extracting the GEMs: genotype, environment, and microbiome interactions shaping host phenotypes","volume":"11","author":"Oyserman","year":"2021","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.tplants.2026.04.010_bb0035","doi-asserted-by":"crossref","DOI":"10.1111\/nph.71108","article-title":"Quantifying microbiota impact on plant traits for the guidance of breeding programs","author":"Blouin","year":"2026","journal-title":"New Phytol."},{"key":"10.1016\/j.tplants.2026.04.010_bb0040","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1146\/annurev.es.01.110170.000245","article-title":"The units of selection","volume":"1","author":"Lewontin","year":"1970","journal-title":"Annu. Rev. Ecol. Syst."},{"key":"10.1016\/j.tplants.2026.04.010_bb0045","series-title":"Current Problems in Sociobiology","first-page":"45","article-title":"Replicators and Vehicles","author":"Dawkins","year":"1982"},{"key":"10.1016\/j.tplants.2026.04.010_bb0050","doi-asserted-by":"crossref","first-page":"384","DOI":"10.3390\/su12010384","article-title":"Genetic diversity and stability of performance of wheat population varieties developed by participatory breeding","volume":"12","author":"van Frank","year":"2020","journal-title":"Sustainability"},{"key":"10.1016\/j.tplants.2026.04.010_bb0055","doi-asserted-by":"crossref","DOI":"10.1128\/mbio.01023-25","article-title":"Experimental evolution of plant rhizobacteria reveals emerging adaptive mutations","volume":"16","author":"Li","year":"2025","journal-title":"mBio"},{"key":"10.1016\/j.tplants.2026.04.010_bb0060","doi-asserted-by":"crossref","first-page":"1649","DOI":"10.1038\/s41467-024-46060-x","article-title":"Enhancing phosphate-solubilising microbial communities through artificial selection","volume":"15","author":"Faller","year":"2024","journal-title":"Nat. Commun."},{"key":"10.1016\/j.tplants.2026.04.010_bb0065","doi-asserted-by":"crossref","first-page":"187","DOI":"10.1023\/B:EUPH.0000014914.85465.4f","article-title":"Global impact of mutation-derived varieties","volume":"135","author":"Ahloowalia","year":"2004","journal-title":"Euphytica"},{"key":"10.1016\/j.tplants.2026.04.010_bb0070","doi-asserted-by":"crossref","first-page":"41","DOI":"10.1016\/j.biotechadv.2014.12.006","article-title":"The CRISPR\/Cas9 system for plant genome editing and beyond","volume":"33","author":"Bortesi","year":"2015","journal-title":"Biotechnol. Adv."},{"key":"10.1016\/j.tplants.2026.04.010_bb0075","doi-asserted-by":"crossref","first-page":"475","DOI":"10.1038\/nrg3028","article-title":"Beyond DNA: integrating inclusive inheritance into an extended theory of evolution","volume":"12","author":"Danchin","year":"2011","journal-title":"Nat. Rev. Genet."},{"key":"10.1016\/j.tplants.2026.04.010_bb0080","series-title":"The Extended Phenotype: The Long Reach of the Gene","author":"Dawkins","year":"1999"},{"key":"10.1016\/j.tplants.2026.04.010_bb0085","doi-asserted-by":"crossref","DOI":"10.1002\/fee.2826","article-title":"Harnessing trait\u2013environment interactions to predict ecosystem functions","volume":"23","author":"Blouin","year":"2025","journal-title":"Front. Ecol. Environ."},{"key":"10.1016\/j.tplants.2026.04.010_bb0090","doi-asserted-by":"crossref","first-page":"220","DOI":"10.1016\/j.earscirev.2016.07.007","article-title":"The evolution of Earth\u2019s biogeochemical nitrogen cycle","volume":"160","author":"St\u00fceken","year":"2016","journal-title":"Earth Sci. Rev."},{"key":"10.1016\/j.tplants.2026.04.010_bb0095","series-title":"Ecosystems and Human Well-being: Synthesis","author":"Millennium Ecosystem Assessment","year":"2005"},{"key":"10.1016\/j.tplants.2026.04.010_bb0100","doi-asserted-by":"crossref","first-page":"296","DOI":"10.1093\/jhered\/os-4.1.296","article-title":"The composition of a field of maize","volume":"4","author":"Shull","year":"1908","journal-title":"J. Hered."},{"key":"10.1016\/j.tplants.2026.04.010_bb0105","doi-asserted-by":"crossref","first-page":"109","DOI":"10.1038\/s41586-019-1679-0","article-title":"Genetic strategies for improving crop yields","volume":"575","author":"Bailey-Serres","year":"2019","journal-title":"Nature"},{"key":"10.1016\/j.tplants.2026.04.010_bb0110","doi-asserted-by":"crossref","first-page":"8","DOI":"10.1038\/s44259-024-00025-8","article-title":"Going to extremes: progress in exploring new environments for novel antibiotics","volume":"2","author":"Quinn","year":"2024","journal-title":"NPJ Antimicrob. Resist."},{"key":"10.1016\/j.tplants.2026.04.010_bb0115","doi-asserted-by":"crossref","DOI":"10.1016\/j.jhazmat.2024.134454","article-title":"Engineering multi-degrading bacterial communities to bioremediate soils contaminated with pesticides residues","volume":"471","author":"Thieffry","year":"2024","journal-title":"J. Hazard. Mater."},{"key":"10.1016\/j.tplants.2026.04.010_bb0120","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1016\/j.apenergy.2013.02.051","article-title":"Screening microalgae strains for their productivity in methane following anaerobic digestion","volume":"108","author":"Frigon","year":"2013","journal-title":"Appl. Energy"},{"key":"10.1016\/j.tplants.2026.04.010_bb0125","doi-asserted-by":"crossref","first-page":"1352","DOI":"10.1111\/j.1558-5646.1997.tb01458.x","article-title":"Interacting phenotypes and the evolutionary process: i. direct and indirect genetic effects of social interactions","volume":"51","author":"Moore","year":"1997","journal-title":"Evolution"},{"key":"10.1016\/j.tplants.2026.04.010_bb0130","doi-asserted-by":"crossref","first-page":"64","DOI":"10.1016\/S0169-5347(97)01233-0","article-title":"Evolutionary consequences of indirect genetic effects","volume":"13","author":"Wolf","year":"1998","journal-title":"Trends Ecol. Evol."},{"key":"10.1016\/j.tplants.2026.04.010_bb0135","article-title":"Recent advancements in multifaceted roles of flavonoids in plant\u2013rhizomicrobiome interactions","volume":"14","author":"Kumar","year":"2023","journal-title":"Front. Plant Sci."},{"key":"10.1016\/j.tplants.2026.04.010_bb0140","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1186\/s40168-023-01646-3","article-title":"Host genetic variation drives the differentiation in the ecological role of the native Miscanthus root-associated microbiome","volume":"11","author":"Ji","year":"2023","journal-title":"Microbiome"},{"key":"10.1016\/j.tplants.2026.04.010_bb0145","doi-asserted-by":"crossref","first-page":"671","DOI":"10.1007\/s11104-024-06720-9","article-title":"Genetic variation in Zea mays influences microbial nitrification and denitrification in conventional agroecosystems","volume":"506","author":"Favela","year":"2025","journal-title":"Plant Soil"},{"key":"10.1016\/j.tplants.2026.04.010_bb0150","doi-asserted-by":"crossref","first-page":"533","DOI":"10.1093\/aob\/mcad174","article-title":"Biological inhibition of denitrification (BDI): an early plant strategy for Fallopia \u00d7 bohemica seedling development","volume":"133","author":"Cantarel","year":"2024","journal-title":"Ann. Bot."},{"key":"10.1016\/j.tplants.2026.04.010_bb0155","doi-asserted-by":"crossref","DOI":"10.3389\/fpls.2022.1034219","article-title":"Biological nitrification inhibitor-trait enhances nitrogen uptake by suppressing nitrifier activity and improves ammonium assimilation in two elite wheat varieties","volume":"13","author":"Bozal-Leorri","year":"2022","journal-title":"Front. Plant Sci."},{"key":"10.1016\/j.tplants.2026.04.010_bb0160","doi-asserted-by":"crossref","DOI":"10.1126\/sciadv.aed3360","article-title":"Lost and found: rediscovering microbiome-associated phenotypes that reshape agricultural sustainability","volume":"12","author":"Favela","year":"2026","journal-title":"Sci. Adv."},{"key":"10.1016\/j.tplants.2026.04.010_bb0165","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0225933","article-title":"Host-mediated microbiome engineering (HMME) of drought tolerance in the wheat rhizosphere","volume":"14","author":"Jochum","year":"2019","journal-title":"PLoS One"},{"key":"10.1016\/j.tplants.2026.04.010_bb0170","doi-asserted-by":"crossref","first-page":"9110","DOI":"10.1073\/pnas.150237597","article-title":"Artificial ecosystem selection","volume":"97","author":"Swenson","year":"2000","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.tplants.2026.04.010_bb0175","doi-asserted-by":"crossref","first-page":"189","DOI":"10.1111\/ele.13916","article-title":"Artificial selection of stable rhizosphere microbiota leads to heritable plant phenotype changes","volume":"25","author":"Jacquiod","year":"2022","journal-title":"Ecol. Lett."},{"key":"10.1016\/j.tplants.2026.04.010_bb0180","doi-asserted-by":"crossref","first-page":"980","DOI":"10.1038\/ismej.2014.196","article-title":"Selection on soil microbiomes reveals reproducible impacts on plant function","volume":"9","author":"Panke-Buisse","year":"2015","journal-title":"ISME J."},{"key":"10.1016\/j.tplants.2026.04.010_bb0185","doi-asserted-by":"crossref","first-page":"14058","DOI":"10.1073\/pnas.1202319109","article-title":"Rapid responses of soil microorganisms improve plant fitness in novel environments","volume":"109","author":"Lau","year":"2012","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.tplants.2026.04.010_bb0190","doi-asserted-by":"crossref","first-page":"2914","DOI":"10.1111\/nph.70362","article-title":"Alleviation of water-deficit inhibition of plant growth by rhizosphere microbiota conditioning","volume":"247","author":"Angot","year":"2025","journal-title":"New Phytol."},{"key":"10.1016\/j.tplants.2026.04.010_bb0195","doi-asserted-by":"crossref","DOI":"10.1128\/mSystems.01125-21","article-title":"Artificial selection on microbiomes to breed microbiomes that confer salt tolerance to plants","volume":"6","author":"Mueller","year":"2021","journal-title":"mSystems"},{"key":"10.1016\/j.tplants.2026.04.010_bb0200","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1186\/s40168-018-0537-x","article-title":"Root exudates drive the soil-borne legacy of aboveground pathogen infection","volume":"6","author":"Yuan","year":"2018","journal-title":"Microbiome"},{"key":"10.1016\/j.tplants.2026.04.010_bb0205","doi-asserted-by":"crossref","first-page":"181","DOI":"10.1007\/s11104-022-05597-w","article-title":"Controlled natural selection of soil microbiome through plant-soil feedback confers resistance to a foliar pathogen","volume":"485","author":"Kalachova","year":"2023","journal-title":"Plant Soil"},{"key":"10.1016\/j.tplants.2026.04.010_bb0210","doi-asserted-by":"crossref","DOI":"10.1038\/s41598-024-78243-3","article-title":"Genetic remodeling of soil diazotrophs enables partial replacement of synthetic nitrogen fertilizer with biological nitrogen fixation in maize","volume":"14","author":"Martinez-Feria","year":"2024","journal-title":"Sci. Rep."},{"key":"10.1016\/j.tplants.2026.04.010_bb0215","doi-asserted-by":"crossref","first-page":"296","DOI":"10.1186\/s12866-022-02715-7","article-title":"Screening of phosphate-solubilizing bacteria and their abilities of phosphorus solubilization and wheat growth promotion","volume":"22","author":"Wang","year":"2022","journal-title":"BMC Microbiol."},{"key":"10.1016\/j.tplants.2026.04.010_bb0220","doi-asserted-by":"crossref","DOI":"10.1016\/j.heliyon.2023.e16306","article-title":"IAA and ACC deaminase producing-bacteria isolated from the rhizosphere of pineapple plants grown under different abiotic and biotic stresses","volume":"9","author":"Ratnaningsih","year":"2023","journal-title":"Heliyon"},{"key":"10.1016\/j.tplants.2026.04.010_bb0225","doi-asserted-by":"crossref","DOI":"10.1128\/mSystems.00028-16","article-title":"Getting the hologenome concept right: an eco-evolutionary framework for hosts and their microbiomes","volume":"1","author":"Theis","year":"2016","journal-title":"mSystems"},{"key":"10.1016\/j.tplants.2026.04.010_bb0230","doi-asserted-by":"crossref","first-page":"224","DOI":"10.1111\/j.1469-8137.2008.02430.x","article-title":"Plant phenology and genetic variability in root and nodule development strongly influence genetic structuring of Rhizobium leguminosarum biovar viciae populations nodulating pea","volume":"179","author":"Depret","year":"2008","journal-title":"New Phytol."},{"key":"10.1016\/j.tplants.2026.04.010_bb0235","doi-asserted-by":"crossref","DOI":"10.3389\/fpls.2021.798992","article-title":"Biogels in soils: plant mucilage as a biofilm matrix that shapes the rhizosphere microbial habitat","volume":"12","author":"Nazari","year":"2022","journal-title":"Front. Plant Sci."},{"key":"10.1016\/j.tplants.2026.04.010_bb0240","doi-asserted-by":"crossref","first-page":"429","DOI":"10.1111\/evo.14427","article-title":"Interacting phenotypes and the coevolutionary process: interspecific indirect genetic effects alter coevolutionary dynamics","volume":"76","author":"De Lisle","year":"2022","journal-title":"Evolution"},{"key":"10.1016\/j.tplants.2026.04.010_bb0245","doi-asserted-by":"crossref","first-page":"3119","DOI":"10.1098\/rspb.2007.1187","article-title":"Human selection and the relaxation of legume defences against ineffective rhizobia","volume":"274","author":"Kiers","year":"2007","journal-title":"Proc. R. Soc. B"},{"key":"10.1016\/j.tplants.2026.04.010_bb0250","doi-asserted-by":"crossref","first-page":"2249","DOI":"10.3389\/fpls.2017.02249","article-title":"Co-inoculation of a pea core-collection with diverse rhizobial strains shows competitiveness for nodulation and efficiency of nitrogen fixation are distinct traits in the interaction","volume":"8","author":"Bourion","year":"2018","journal-title":"Front. Plant Sci."}],"container-title":["Trends in Plant Science"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1360138526000944?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1360138526000944?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,8,5]],"date-time":"2026-08-05T20:37:02Z","timestamp":1785962222000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1360138526000944"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,8]]},"references-count":50,"journal-issue":{"issue":"8","published-print":{"date-parts":[[2026,8]]}},"alternative-id":["S1360138526000944"],"URL":"https:\/\/doi.org\/10.1016\/j.tplants.2026.04.010","relation":{},"ISSN":["1360-1385"],"issn-type":[{"value":"1360-1385","type":"print"}],"subject":[],"published":{"date-parts":[[2026,8]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Distinguishing varying and carrying populations in holobiont breeding","name":"articletitle","label":"Article Title"},{"value":"Trends in Plant Science","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.tplants.2026.04.010","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2026 The Authors. Published by Elsevier Ltd.","name":"copyright","label":"Copyright"}]}}