{"id":{"repo_id":"uiuc","oai_identifier":"oai:www.ideals.illinois.edu:2142/42443"},"canonical_url":"https://search.dev.ndltd.org/etd/uiuc/oai:www.ideals.illinois.edu:2142/42443","repository":{"repo_id":"uiuc","name":"University of Illinois - Urbana-Champaign","base_url":"https://www.ideals.illinois.edu/oai-pmh"},"display":{"title":"Cluster analysis of soybean pathogen-responsive genes and functional characterization in Arabidopsis","abstract":"Defense against pathogens involves coordinated activation/deactivation of thousands of genes. When plants defend against some pathogens, the presence/absence of a single gene can make all the difference between resistance and susceptibility. For other diseases, like white mold caused by Sclerotinia sclerotiorum and sudden death syndrome (SDS) caused by Fusarium virguliforme, defense requires several genes, and therefore defense is controlled by quantitative trait loci (QTL). To understand plant defense and the genes involved, patterns of gene expression were used to identify genes that tend to be coordinately regulated across multiple disease reactions. Hierarchical clustering of soybean gene expression in response to pathogens including S. sclerotiorum, F. virguliforme, and Pseudomonas syringae, as well as soybean response to various non-pathogenic treatments, allowed for the identification of 11 candidate pathogen-specific responsive genes. Full-length cDNA of six candidate pathogen responsive genes of interest were cloned into Escherichia coli, and two of them, Glyma07g05480.1 (an O-methyltransferase) and Glyma18g45260.1 (a dihydroflavonol-4-reductase/cinnamoyl-CoA reductase), were cloned into an Agrobacterium tumefaciens binary vector and transformed into Arabidopsis thaliana to determine if these genes have a cross-species effect on enhancing disease resistance. This ongoing research project provides genes to be used for promoter analysis and identifies genes specific to pathogen infection. Genes will later be transformed into soybean to determine if they enhance resistance, and if so, their sequences can be developed into molecular markers to assist breeders in development of more resistant varieties and possibly used to develop transgenics with enhanced resistance.","abstract_html":"Defense against pathogens involves coordinated activation/deactivation of thousands of genes. When plants defend against some pathogens, the presence/absence of a single gene can make all the difference between resistance and susceptibility. For other diseases, like white mold caused by Sclerotinia sclerotiorum and sudden death syndrome (SDS) caused by Fusarium virguliforme, defense requires several genes, and therefore defense is controlled by quantitative trait loci (QTL). To understand plant defense and the genes involved, patterns of gene expression were used to identify genes that tend to be coordinately regulated across multiple disease reactions. Hierarchical clustering of soybean gene expression in response to pathogens including S. sclerotiorum, F. virguliforme, and Pseudomonas syringae, as well as soybean response to various non-pathogenic treatments, allowed for the identification of 11 candidate pathogen-specific responsive genes. Full-length cDNA of six candidate pathogen responsive genes of interest were cloned into Escherichia coli, and two of them, Glyma07g05480.1 (an O-methyltransferase) and Glyma18g45260.1 (a dihydroflavonol-4-reductase/cinnamoyl-CoA reductase), were cloned into an Agrobacterium tumefaciens binary vector and transformed into Arabidopsis thaliana to determine if these genes have a cross-species effect on enhancing disease resistance. This ongoing research project provides genes to be used for promoter analysis and identifies genes specific to pathogen infection. Genes will later be transformed into soybean to determine if they enhance resistance, and if so, their sequences can be developed into molecular markers to assist breeders in development of more resistant varieties and possibly used to develop transgenics with enhanced resistance.","abstract_has_math":false,"creators":["He, Yanyu"],"institution":"University of Illinois at Urbana-Champaign","degree_name":"M.S.","degree_level":"Thesis","degree_discipline":"Crop Sciences","degree_department":null,"school":null,"contributors":["Clough, Steven J."],"advisors":[],"committee_chairs":[],"committee_members":[],"year":2013,"date_issued":"2013-02-03T19:45:48Z","date_published":"2013-02-03T19:45:48Z","updated_at":"2026-07-22T22:25:33Z","subjects":["soybean","gene expression","clustering","pathogen-responsive","plant","disease","Arabidopsis","promoter"],"languages":["en"],"rights":["Copyright 2012 Yanyu He"],"rights_urls":[],"identifier_entries":[]},"links":{"outbound_url":"http://hdl.handle.net/2142/42443","outbound_label":"Handle","outbound_source":"dc:identifier"},"metadata_groups":[{"id":"people","label":"People","entries":[{"key":"dc:contributor","label":"Contributor","values":["Clough, Steven J."]},{"key":"dc:creator","label":"Author","values":["He, Yanyu"]}]},{"id":"academic_context","label":"Academic Context","entries":[{"key":"dc:date","label":"Dc Date","values":["2013-02-03T19:45:48Z","2015-02-03T11:00:45Z","2012-12"]},{"key":"dc:type","label":"Dc Type","values":["text"]},{"key":"thesis:degree_discipline","label":"Discipline","values":["Crop Sciences"]},{"key":"thesis:degree_level","label":"Degree Level","values":["Thesis"]},{"key":"thesis:degree_name","label":"Degree Name","values":["M.S."]},{"key":"thesis:institution_name","label":"Thesis Institution Name","values":["University of Illinois at Urbana-Champaign"]}]},{"id":"subjects_keywords","label":"Subjects and Keywords","entries":[{"key":"dc:subject","label":"Dc Subject","values":["soybean","gene expression","clustering","pathogen-responsive","plant","disease","Arabidopsis","promoter"]}]},{"id":"language_rights","label":"Language and Rights","entries":[{"key":"dc:language","label":"Dc Language","values":["en"]},{"key":"dc:rights","label":"Dc Rights","values":["Copyright 2012 Yanyu He"]}]},{"id":"identifiers","label":"Identifiers","entries":[{"key":"dc:identifier","label":"Identifier","values":["http://hdl.handle.net/2142/42443"]}]},{"id":"additional","label":"Additional Metadata","entries":[{"key":"dc:description","label":"Description","values":["Defense against pathogens involves coordinated activation/deactivation of thousands of genes. When plants defend against some pathogens, the presence/absence of a single gene can make all the difference between resistance and susceptibility. For other diseases, like white mold caused by Sclerotinia sclerotiorum and sudden death syndrome (SDS) caused by Fusarium virguliforme, defense requires several genes, and therefore defense is controlled by quantitative trait loci (QTL). To understand plant defense and the genes involved, patterns of gene expression were used to identify genes that tend to be coordinately regulated across multiple disease reactions. Hierarchical clustering of soybean gene expression in response to pathogens including S. sclerotiorum, F. virguliforme, and Pseudomonas syringae, as well as soybean response to various non-pathogenic treatments, allowed for the identification of 11 candidate pathogen-specific responsive genes. Full-length cDNA of six candidate pathogen responsive genes of interest were cloned into Escherichia coli, and two of them, Glyma07g05480.1 (an O-methyltransferase) and Glyma18g45260.1 (a dihydroflavonol-4-reductase/cinnamoyl-CoA reductase), were cloned into an Agrobacterium tumefaciens binary vector and transformed into Arabidopsis thaliana to determine if these genes have a cross-species effect on enhancing disease resistance. This ongoing research project provides genes to be used for promoter analysis and identifies genes specific to pathogen infection. Genes will later be transformed into soybean to determine if they enhance resistance, and if so, their sequences can be developed into molecular markers to assist breeders in development of more resistant varieties and possibly used to develop transgenics with enhanced resistance.","Item withdrawn by Mark Zulauf (zulauf@illinois.edu) on 2012-12-11T18:33:27Z Item was in collections: University of Illinois Theses & Dissertations (ID: 1) No. of bitstreams: 1 He_Yanyu.pdf: 5448720 bytes, checksum: 016d37d117b23ebc542f579a2aebe212 (MD5)","Made available in DSpace on 2013-02-03T19:45:48Z (GMT). No. of bitstreams: 2 Yanyu_He.pdf: 5448720 bytes, checksum: 016d37d117b23ebc542f579a2aebe212 (MD5) license.txt: 4058 bytes, checksum: ff40f2d5f548afa323514dfc262fc7df (MD5)","Item marked as restricted to the 'Administrator' Group (id=1) by Seth Robbins (srobbins@illinois.edu) on 2013-02-03T19:47:52Z Item is restricted until 2015-02-03T19:47:48Z","Restriction data tranferred 2014-07-01T11:35:58-05:00 Original Data Group with Access Administrator Release Date: 2015-02-03 13:47:48 UTC Reason: Author requested closed access (OA after 2yrs) in Vireo ETD system","Limited Restriction Lifted for Item 42391 on 2015-02-03T11:00:45Z."]},{"key":"dc:title","label":"Title","values":["Cluster analysis of soybean pathogen-responsive genes and functional characterization in Arabidopsis"]}]}],"canonical_facts":{"dc:contributor":["Clough, Steven J."],"dc:creator":["He, Yanyu"],"dc:date":["2013-02-03T19:45:48Z","2015-02-03T11:00:45Z","2012-12"],"dc:description":["Defense against pathogens involves coordinated activation/deactivation of thousands of genes. When plants defend against some pathogens, the presence/absence of a single gene can make all the difference between resistance and susceptibility. For other diseases, like white mold caused by Sclerotinia sclerotiorum and sudden death syndrome (SDS) caused by Fusarium virguliforme, defense requires several genes, and therefore defense is controlled by quantitative trait loci (QTL). To understand plant defense and the genes involved, patterns of gene expression were used to identify genes that tend to be coordinately regulated across multiple disease reactions. Hierarchical clustering of soybean gene expression in response to pathogens including S. sclerotiorum, F. virguliforme, and Pseudomonas syringae, as well as soybean response to various non-pathogenic treatments, allowed for the identification of 11 candidate pathogen-specific responsive genes. Full-length cDNA of six candidate pathogen responsive genes of interest were cloned into Escherichia coli, and two of them, Glyma07g05480.1 (an O-methyltransferase) and Glyma18g45260.1 (a dihydroflavonol-4-reductase/cinnamoyl-CoA reductase), were cloned into an Agrobacterium tumefaciens binary vector and transformed into Arabidopsis thaliana to determine if these genes have a cross-species effect on enhancing disease resistance. This ongoing research project provides genes to be used for promoter analysis and identifies genes specific to pathogen infection. Genes will later be transformed into soybean to determine if they enhance resistance, and if so, their sequences can be developed into molecular markers to assist breeders in development of more resistant varieties and possibly used to develop transgenics with enhanced resistance.","Item withdrawn by Mark Zulauf (zulauf@illinois.edu) on 2012-12-11T18:33:27Z Item was in collections: University of Illinois Theses & Dissertations (ID: 1) No. of bitstreams: 1 He_Yanyu.pdf: 5448720 bytes, checksum: 016d37d117b23ebc542f579a2aebe212 (MD5)","Made available in DSpace on 2013-02-03T19:45:48Z (GMT). No. of bitstreams: 2 Yanyu_He.pdf: 5448720 bytes, checksum: 016d37d117b23ebc542f579a2aebe212 (MD5) license.txt: 4058 bytes, checksum: ff40f2d5f548afa323514dfc262fc7df (MD5)","Item marked as restricted to the 'Administrator' Group (id=1) by Seth Robbins (srobbins@illinois.edu) on 2013-02-03T19:47:52Z Item is restricted until 2015-02-03T19:47:48Z","Restriction data tranferred 2014-07-01T11:35:58-05:00 Original Data Group with Access Administrator Release Date: 2015-02-03 13:47:48 UTC Reason: Author requested closed access (OA after 2yrs) in Vireo ETD system","Limited Restriction Lifted for Item 42391 on 2015-02-03T11:00:45Z."],"dc:identifier":["http://hdl.handle.net/2142/42443"],"dc:language":["en"],"dc:rights":["Copyright 2012 Yanyu He"],"dc:subject":["soybean","gene expression","clustering","pathogen-responsive","plant","disease","Arabidopsis","promoter"],"dc:title":["Cluster analysis of soybean pathogen-responsive genes and functional characterization in Arabidopsis"],"dc:type":["text"],"thesis:degree_discipline":["Crop Sciences"],"thesis:degree_level":["Thesis"],"thesis:degree_name":["M.S."],"thesis:institution_name":["University of Illinois at Urbana-Champaign"]},"updated_at":"2026-07-22T22:25:33Z"}