Expression Dominance and Homeolog Expression Bias Upon Chilling Stress in A Hybrid Weed Between the Invasive Sphagneticola Trilobata and the Native S. Calendulacea in South China and its Implications for Invasiveness

Expression Dominance and Homeolog Expression Bias Upon Chilling Stress in A Hybrid Weed Between the Invasive Sphagneticola Trilobata and the Native S. Calendulacea in South China and its Implications for Invasiveness | Research Square window.SnipcartSettings = { analytics: { enabled: false } }; (function() { var accessVector = localStorage.getItem('access_vector') || ''; window.dataLayer = window.dataLayer || []; if (accessVector) { window.dataLayer.push({ user: { profile: { profileInfo: { snid: accessVector } } } }); } })(); (function(w,d,s,l,i){w[l]=w[l]||[];w[l].push({'gtm.start':new Date().getTime(),event:'gtm.js'});var f=d.getElementsByTagName(s)[0],j=d.createElement(s),dl=l!='dataLayer'?'&l='+l:'';j.async=true;j.src='https://www.googletagmanager.com/gtm.js?id='+i+dl;f.parentNode.insertBefore(j,f);})(window,document,'script','dataLayer','GTM-K279D39R'); Browse Preprints In Review Journals COVID-19 Preprints AJE Video Bytes Research Tools Research Promotion AJE Professional Editing AJE Rubriq About Preprint Platform In Review Editorial Policies Our Team Advisory Board Help Center Sign In Submit a Preprint Cite Share Download PDF Research article Expression Dominance and Homeolog Expression Bias Upon Chilling Stress in A Hybrid Weed Between the Invasive Sphagneticola Trilobata and the Native S. Calendulacea in South China and its Implications for Invasiveness Wei Wu, Guangyan Ni, Longyuan Wang, Hui Zhang, yongquan Li, Ping Chen, and 1 more This is a preprint; it has not been peer reviewed by a journal. https://doi.org/ 10.21203/rs.3.rs-67627/v1 This work is licensed under a CC BY 4.0 License Status: Posted Version 1 posted You are reading this latest preprint version Abstract Background The role of hybridization or admixture in the biological invasion has been recognized in many invasive species. S ubgenome dominance was reported to occur instantly following the hybridization of divergent genomes, however, investigations on their consequences on physiological response were still scarce . For invasive species, thermotolerance was critical to their range expansions. In this study, a F1 weed between a chilling sensitive invasive S. trilobata and the tolerant native S. calendulacea were treated with consecutive chilling stress, Using physiological assay and RNA-sequencing, differential physiological response and transcriptome profile s were compared with a n emphasis on the patterns of the expression dominance and homeolog expression bias in the F1 hybrids. Results P hysiological assay including content of Malondialdehyde content, superoxide dismutase activity and et al. demonstrated these F1s resembled the chilling tolerant maternal parent S. calendulacea . For both parents and the F1, the numbers and categories of the enriched pathways or gene ontology terms showed extensive divergence, and an overall resemblance between F1s and S. calendulacea w as observed. For the homeologs with altered expression, expression level dominance was the most prominent pattern. With increased chilling stress, the increased magnitude of up-regulations and decreased magnitude of down-regulations of the Spc- homeologs in the F1s were jointly contributed to the ir resemblance to chilling tolerant parent S. calendulacea . Irrespective of the total homeolog expressive level, increased magnitude of homeolog expression bias toward the chilling tolerant parent S. calendulacea in the F1s also provided another line of evidence for their physiological resemblance. Conclusion The two Sphagneticola species showed significant differential response upon chilling stress. expression dominance and persistent S. calendulacea homeolog bias in the F1s were attributed to the overall resemblance to the tolerant native species S. calendulacea. Given their vigorous growth, it cations us that the F1 hybrid have great potential to expand northwards and become an awesome weed in the future. Plant Physiology and Morphology Plant Molecular Biology and Genetics hybridization homeolog expression bias expression level dominance biological invasion transcriptome shock Figures Figure 1 Figure 2 Figure 3 Figure 4 Figure 5 Full Text Supplementary Files AdditionalFile2.xlsx AdditionalFile1.pdf Cite Share Download PDF Status: Posted Version 1 posted You are reading this latest preprint version Research Square lets you share your work early, gain feedback from the community, and start making changes to your manuscript prior to peer review in a journal. As a division of Research Square Company, we’re committed to making research communication faster, fairer, and more useful. We do this by developing innovative software and high quality services for the global research community. Our growing team is made up of researchers and industry professionals working together to solve the most critical problems facing scientific publishing. Also discoverable on Platform About Our Team In Review Editorial Policies Advisory Board Help Center Resources Author Services Accessibility API Access RSS feed Manage Cookie Preferences © Research Square 2026 | ISSN 2693-5015 (online) Privacy Policy Terms of Service Do Not Sell My Personal Information {"props":{"pageProps":{"initialData":{"identity":"rs-67627","acceptedTermsAndConditions":true,"allowDirectSubmit":false,"archivedVersions":[],"articleType":"Research article","associatedPublications":[],"authors":[{"id":2220354,"identity":"2b9c4b5c-5f86-4db9-8a08-e9bb41c53128","order_by":0,"name":"Wei Wu","email":"","orcid":"https://orcid.org/0000-0003-0542-5043","institution":"Zhongkai University of Agriculture and Engineering","correspondingAuthor":false,"submittingAuthor":false,"prefix":"","firstName":"Wei","middleName":"","lastName":"Wu","suffix":""},{"id":2220355,"identity":"81ced75e-79ea-411b-83ac-8bc2a7f95403","order_by":1,"name":"Guangyan Ni","email":"","orcid":"","institution":"South China Botanical Garden","correspondingAuthor":false,"submittingAuthor":false,"prefix":"","firstName":"Guangyan","middleName":"","lastName":"Ni","suffix":""},{"id":2220356,"identity":"e0a02dff-3daa-42a2-9c8d-fe1b760d94f7","order_by":2,"name":"Longyuan Wang","email":"","orcid":"","institution":"Zhongkai University of Agriculture and Engineering","correspondingAuthor":false,"submittingAuthor":false,"prefix":"","firstName":"Longyuan","middleName":"","lastName":"Wang","suffix":""},{"id":2220357,"identity":"d86dda1b-9e17-4262-92a5-31c58f139ed2","order_by":3,"name":"Hui Zhang","email":"","orcid":"","institution":"Zhongkai University of Agriculture and Engineering","correspondingAuthor":false,"submittingAuthor":false,"prefix":"","firstName":"Hui","middleName":"","lastName":"Zhang","suffix":""},{"id":2220358,"identity":"fcbfcf3c-35ee-4695-afa8-9b449a4cbf22","order_by":4,"name":"yongquan Li","email":"","orcid":"","institution":"Zhongkai University of Agriculture and Engineering","correspondingAuthor":false,"submittingAuthor":false,"prefix":"","firstName":"yongquan","middleName":"","lastName":"Li","suffix":""},{"id":2220359,"identity":"9c6b2fc6-28ce-42dd-b5da-769cf803fd16","order_by":5,"name":"Ping Chen","email":"","orcid":"","institution":"Zhongkai University of Agriculture and Engineering","correspondingAuthor":false,"submittingAuthor":false,"prefix":"","firstName":"Ping","middleName":"","lastName":"Chen","suffix":""},{"id":2220360,"identity":"329f86a9-9344-45d5-8e30-d0ac0029577f","order_by":6,"name":"Wei Guo","email":"data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAAZAAAAAyAQMAAABI0h/eAAAABlBMVEX///8AAABVwtN+AAAACXBIWXMAAA7EAAAOxAGVKw4bAAAAvElEQVRIiWNgGAWjYJCCw38M/suxsbcfIF7LAZ4CZmM+njMJJFjD84E5cZ6EgwFxquUjkg8ekDBgS2+TYEhg+FGxjbAWwxtpCQcMDHhy26QbDzD2nLlNhJbZOQYHEgwkcttkDiQwM7YRpSX/wwGgNelsEgkGxGmRl85hONhgkJBAvBYD+WcGhxkMDhi2AQP5IFF+ke85/Pgzw58D8vLt7Qcf/KggxpYDSJwDOBSh2dJAlLJRMApGwSgY0QAADPI9pi58rnUAAAAASUVORK5CYII=","orcid":"","institution":" Zhongkai University of Agriculture and Engineering","correspondingAuthor":true,"submittingAuthor":false,"prefix":"","firstName":"Wei","middleName":"","lastName":"Guo","suffix":""}],"badges":[],"createdAt":"2020-08-28 10:51:06","currentVersionCode":1,"declarations":"","doi":"10.21203/rs.3.rs-67627/v1","doiUrl":"https://doi.org/10.21203/rs.3.rs-67627/v1","draftVersion":[],"editorialEvents":[],"editorialNote":"","failedWorkflow":false,"files":[{"id":2405485,"identity":"538af5c2-261e-43e7-8a51-4488a6033239","added_by":"auto","created_at":"2020-09-15 02:50:38","extension":"jpg","order_by":1,"title":"Figure 1","display":"","copyAsset":false,"role":"figure","size":54847,"visible":true,"origin":"","legend":"Physiological responses to consecutive chilling stress among the invasive Sphagneticola \ntrilobata, the native S. calendulacea and their F1s. (a). Malondialdehyde (MDA) concentration; (b) \nSuperoxide dismutase (SOD) activity; (c) Chlorophyll fluorescence, the Maximum quantum yield \n(Fv/Fm); (d) the concentration of total soluble proteins. ","description":"","filename":"1.JPG","url":"https://assets-eu.researchsquare.com/files/rs-67627/v1/1.JPG"},{"id":2405486,"identity":"8630982f-c86f-44dd-94b2-bf9650e1b400","added_by":"auto","created_at":"2020-09-15 02:50:38","extension":"jpg","order_by":2,"title":"Figure 2","display":"","copyAsset":false,"role":"figure","size":62508,"visible":true,"origin":"","legend":"Venn diagram shown for the shared number of differential expression transcripts between the \nedgeR (red) and DESeq2 (black) for Sphagneticola trilobata, F1, and S. calendulacea under three \ngradient temperature chilling from 30°C to 4°C; up-regulated and down-regulated transcripts were \nmarked using upwards arrows and downwards arrows, respectively. Sphagnetila trilobata designated as Spt, S. calendulacea designated as Spc. ","description":"","filename":"2.JPG","url":"https://assets-eu.researchsquare.com/files/rs-67627/v1/2.JPG"},{"id":2405487,"identity":"462bb2de-29f8-40be-a248-88cef8611004","added_by":"auto","created_at":"2020-09-15 02:50:38","extension":"jpg","order_by":3,"title":"Figure 3","display":"","copyAsset":false,"role":"figure","size":75640,"visible":true,"origin":"","legend":"The thirteen possible expression patterns of F1 hybrids relative to the paternal parent S. \ntrilobata (♂) and maternal parental S. calendulacea (♀) upon consecutive chilling stress (30°C (a), \n16°C (b). 4°C (c)). Each pattern is labelled with the same Roman numeral categoried as Rapp et al. \n(2009). Statistically equivalent expressions were indicated with values on the same horizontal line, \nwhereas statistically significant up- and down-regulation were represented by values on higher or \nlower horizontal lines, respectively. The 13 patterns are binned in five categories representing ‘no \nchange’, ‘Spt-expression level dominance’, ‘Spc-expression level dominance’, ‘transgressive \nexpression’ and ‘additivity’, respectively. ","description":"","filename":"3.JPG","url":"https://assets-eu.researchsquare.com/files/rs-67627/v1/3.JPG"},{"id":2405488,"identity":"ff07d5fe-4c44-4286-bf84-dced3554b0f0","added_by":"auto","created_at":"2020-09-15 02:50:39","extension":"jpg","order_by":4,"title":"Figure 4","display":"","copyAsset":false,"role":"figure","size":21936,"visible":true,"origin":"","legend":"Likelihood ratio test for homeologs expression bias (HEB) in the F1 hybrids between \nSphagneticola trilobata (abbreviated as Spt) and S. calendulacea (abbreviated as Spc) upon \nconsecutive chilling stress (30°C (a), 16°C (b). 4°C (c)). The distribution of expression bias (B) for \nall testable homeologs in the F1 indicated by gray histograms, and homeolog pairs with significant \nexpression bias toward Spt-like homeolog were shown in blue histograms, and those with \nsignificant expression bias toward Spc-like homeolog were represented by yellow histograms, and \nthe average homeolog bias were marked with corresponding colored triangle values. ","description":"","filename":"4.JPG","url":"https://assets-eu.researchsquare.com/files/rs-67627/v1/4.JPG"},{"id":2405489,"identity":"e58d985b-6bfe-4546-80de-50f1696d550c","added_by":"auto","created_at":"2020-09-15 02:50:39","extension":"jpg","order_by":5,"title":"Figure 5","display":"","copyAsset":false,"role":"figure","size":46783,"visible":true,"origin":"","legend":"Likelihood ratio test for changes of homeologs expression bias (∆HEB) between consecutive \nchilling stress ((a) 16°C vs 30°C; (b) 4°C vs 16°C) in the F1 hybrids between Sphagneticola \ntrilobata and S. calendulacea. Histogram plot show the distribution of ∆HEB, and the counts of \nhomeolog pairs biased toward S. trilobata and S. calendulacea marked using blue and yellow \nhistogram respectively; scatter plot of ∆HEB were corresponding to the left histograms. Gene pairs \nwith statistically significant changes in homeolog expression bias marked using the same colors as \nin the right histograms. Data points in the top-left and bottom-right quadrants represent homeologs \nwhere the difference in the bias favors different homeologs at two chilling stress temperatures. On \nthe other hand, the top-right and bottom-left quadrants correspond to homeologs where the \ndifference in bias favors the same homeolog.","description":"","filename":"5.JPG","url":"https://assets-eu.researchsquare.com/files/rs-67627/v1/5.JPG"},{"id":15668979,"identity":"c82ab87e-7313-4343-8d32-56c47f23b8e7","added_by":"auto","created_at":"2021-11-18 13:51:05","extension":"pdf","order_by":0,"title":"","display":"","copyAsset":false,"role":"manuscript-pdf","size":365002,"visible":true,"origin":"","legend":"","description":"","filename":"manuscript.pdf","url":"https://assets-eu.researchsquare.com/files/rs-67627/v1/991ff0ff-3e82-4e21-8d9b-4a362504faa7.pdf"},{"id":2405491,"identity":"8d4065ca-ccd0-4602-8fe9-222d99e5b8e5","added_by":"auto","created_at":"2020-09-15 02:50:39","extension":"xlsx","order_by":1,"title":"","display":"","copyAsset":false,"role":"supplement","size":496526,"visible":true,"origin":"","legend":"","description":"","filename":"AdditionalFile2.xlsx","url":"https://assets-eu.researchsquare.com/files/rs-67627/v1/AdditionalFile2.xlsx"},{"id":2405492,"identity":"d2a32188-50ca-4ec7-b911-b863b1e67317","added_by":"auto","created_at":"2020-09-15 02:50:39","extension":"pdf","order_by":2,"title":"","display":"","copyAsset":false,"role":"supplement","size":652619,"visible":true,"origin":"","legend":"","description":"","filename":"AdditionalFile1.pdf","url":"https://assets-eu.researchsquare.com/files/rs-67627/v1/AdditionalFile1.pdf"}],"financialInterests":"","formattedTitle":"\u003cp\u003eExpression Dominance and Homeolog Expression Bias Upon Chilling Stress in A Hybrid Weed Between the Invasive Sphagneticola Trilobata and the Native \u003cem\u003eS. Calendulacea\u003c/em\u003e in South China and its Implications for Invasiveness\u003c/p\u003e","fulltext":[{"header":"Full Text","content":"\u003cp\u003eThis preprint is available for \u003ca href='/article/rs-67627/latest.pdf' target='_blank'\u003edownload as a PDF\u003c/a\u003e.\u003c/p\u003e"}],"fulltextSource":"","fullText":"","funders":[],"hasAdminPriorityOnWorkflow":false,"hasManuscriptDocX":false,"hasOptedInToPreprint":true,"hasPassedJournalQc":"","hasAnyPriority":false,"hideJournal":true,"highlight":"","institution":"","isAcceptedByJournal":false,"isAuthorSuppliedPdf":false,"isDeskRejected":"","isHiddenFromSearch":false,"isInQc":false,"isInWorkflow":false,"isPdf":false,"isPdfUpToDate":true,"isWithdrawnOrRetracted":false,"journal":{"display":true,"email":"[email protected]","identity":"researchsquare","isNatureJournal":false,"hasQc":true,"allowDirectSubmit":true,"externalIdentity":"","sideBox":"","snPcode":"","submissionUrl":"/submission","title":"Research Square","twitterHandle":"researchsquare","acdcEnabled":true,"dfaEnabled":false,"editorialSystem":"","reportingPortfolio":"","inReviewEnabled":false,"inReviewRevisionsEnabled":true},"keywords":"hybridization, homeolog expression bias, expression level dominance, biological invasion, transcriptome shock ","lastPublishedDoi":"10.21203/rs.3.rs-67627/v1","lastPublishedDoiUrl":"https://doi.org/10.21203/rs.3.rs-67627/v1","license":{"name":"CC BY 4.0","url":"https://creativecommons.org/licenses/by/4.0/"},"manuscriptAbstract":"\u003cp\u003e\u003cstrong\u003eBackground\u003c/strong\u003e The role of hybridization or admixture in the biological invasion has been recognized in many invasive species. S ubgenome dominance was reported to occur instantly following the hybridization of divergent genomes, however, investigations on their consequences on physiological response were still scarce . For invasive species, thermotolerance was critical to their range expansions. In this study, a F1 weed between a chilling sensitive invasive S. trilobata and the tolerant native S. calendulacea were treated with consecutive chilling stress, Using physiological assay and RNA-sequencing, differential physiological response and transcriptome profile s were compared with a n emphasis on the patterns of the expression dominance and homeolog expression bias in the F1 hybrids. \u003c/p\u003e\u003cp\u003e\u003cstrong\u003eResults\u003c/strong\u003e P hysiological assay including content of Malondialdehyde content, superoxide dismutase activity and et al. demonstrated these F1s resembled the chilling tolerant maternal parent S. calendulacea . For both parents and the F1, the numbers and categories of the enriched pathways or gene ontology terms showed extensive divergence, and an overall resemblance between F1s and S. calendulacea w as observed. For the homeologs with altered expression, expression level dominance was the most prominent pattern. With increased chilling stress, the increased magnitude of up-regulations and decreased magnitude of down-regulations of the Spc- homeologs in the F1s were jointly contributed to the ir resemblance to chilling tolerant parent S. calendulacea . Irrespective of the total homeolog expressive level, increased magnitude of homeolog expression bias toward the chilling tolerant parent S. calendulacea in the F1s also provided another line of evidence for their physiological resemblance. \u003c/p\u003e\u003cp\u003e\u003cstrong\u003eConclusion\u003c/strong\u003e The two Sphagneticola species showed significant differential response upon chilling stress. expression dominance and persistent S. calendulacea homeolog bias in the F1s were attributed to the overall resemblance to the tolerant native species S. calendulacea. Given their vigorous growth, it cations us that the F1 hybrid have great potential to expand northwards and become an awesome weed in the future.\u003c/p\u003e","manuscriptTitle":"Expression Dominance and Homeolog Expression Bias Upon Chilling Stress in A Hybrid Weed Between the Invasive Sphagneticola Trilobata and the Native S. Calendulacea in South China and its Implications for Invasiveness","msid":"","msnumber":"","nonDraftVersions":[{"code":1,"date":"2020-09-15 02:50:34","doi":"10.21203/rs.3.rs-67627/v1","editorialEvents":[{"type":"communityComments","content":0}],"status":"published","journal":{"display":true,"email":"[email protected]","identity":"researchsquare","isNatureJournal":false,"hasQc":true,"allowDirectSubmit":true,"externalIdentity":"","sideBox":"","snPcode":"","submissionUrl":"/submission","title":"Research Square","twitterHandle":"researchsquare","acdcEnabled":true,"dfaEnabled":false,"editorialSystem":"","reportingPortfolio":"","inReviewEnabled":false,"inReviewRevisionsEnabled":true}}],"origin":"","ownerIdentity":"3d112371-b47f-4b7a-bf80-ebd2009b5aeb","owner":[],"postedDate":"September 15th, 2020","published":true,"recentEditorialEvents":[],"rejectedJournal":[],"revision":"","amendment":"","status":"posted","subjectAreas":[{"id":495810,"name":"Plant Physiology and Morphology"},{"id":495811,"name":"Plant Molecular Biology and Genetics"}],"tags":[],"updatedAt":"2020-09-15T02:50:34+00:00","versionOfRecord":[],"versionCreatedAt":"2020-09-15 02:50:34","video":"","vorDoi":"","vorDoiUrl":"","workflowStages":[]},"version":"v1","identity":"rs-67627","journalConfig":"researchsquare"},"__N_SSP":true},"page":"/article/[identity]/[[...version]]","query":{"redirect":"/article/rs-67627","identity":"rs-67627","version":["v1"]},"buildId":"7rjqhiLT3MXkJMwkYKINL","isFallback":false,"isExperimentalCompile":false,"dynamicIds":[84888],"gssp":true,"scriptLoader":[]}