Natural variation in light sensitivity of Arabidopsis
Because plants depend on light for growth, their development and physiology must suit the particular light environment. Plants native to different environments show heritable, apparently adaptive, changes in their response to light. As a first step in unraveling the genetic and molecular basis of th...
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| Veröffentlicht in: | Nature genetics 2001-12, Vol.29 (4), p.441-446 |
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| creator | Weigel, Detlef Maloof, Julin N Borevitz, Justin O Dabi, Tsegaye Lutes, Jason Nehring, Ramlah B Redfern, Joanna L Trainer, Gabriel T Wilson, Jeanne M Asami, Tadao Berry, Charles C Chory, Joanne |
| description | Because plants depend on light for growth, their development and physiology must suit the particular light environment. Plants native to different environments show heritable, apparently adaptive, changes in their response to light. As a first step in unraveling the genetic and molecular basis of these naturally occurring differences, we have characterized intraspecific variation in a light-dependent developmental process-seedling emergence. We examined 141 Arabidopsis thaliana accessions for their response to four light conditions, two hormone conditions and darkness. There was significant variation in all conditions, confirming that Arabidopsis is a rich source of natural genetic diversity. Hierarchical clustering revealed that some accessions had response patterns similar to known photoreceptor mutants, suggesting changes in specific signaling pathways. We found that the unusual far-red response of the Lm-2 accession is due to a single amino-acid change in the phytochrome A (PHYA) protein. This change stabilizes the light-labile PHYA protein in light and causes a 100-fold shift in the threshold for far-red light sensitivity. Purified recombinant Lm-2 PHYA also shows subtle photochemical differences and has a reduced capacity for autophosphorylation. These biochemical changes contrast with previously characterized natural alleles in loci controlling plant development, which result in altered gene expression or loss of gene function. |
| doi_str_mv | 10.1038/ng777 |
| format | Article |
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Plants native to different environments show heritable, apparently adaptive, changes in their response to light. As a first step in unraveling the genetic and molecular basis of these naturally occurring differences, we have characterized intraspecific variation in a light-dependent developmental process-seedling emergence. We examined 141 Arabidopsis thaliana accessions for their response to four light conditions, two hormone conditions and darkness. There was significant variation in all conditions, confirming that Arabidopsis is a rich source of natural genetic diversity. Hierarchical clustering revealed that some accessions had response patterns similar to known photoreceptor mutants, suggesting changes in specific signaling pathways. We found that the unusual far-red response of the Lm-2 accession is due to a single amino-acid change in the phytochrome A (PHYA) protein. This change stabilizes the light-labile PHYA protein in light and causes a 100-fold shift in the threshold for far-red light sensitivity. Purified recombinant Lm-2 PHYA also shows subtle photochemical differences and has a reduced capacity for autophosphorylation. These biochemical changes contrast with previously characterized natural alleles in loci controlling plant development, which result in altered gene expression or loss of gene function.</description><identifier>ISSN: 1061-4036</identifier><identifier>EISSN: 1546-1718</identifier><identifier>DOI: 10.1038/ng777</identifier><identifier>PMID: 11726931</identifier><identifier>CODEN: NGENEC</identifier><language>eng</language><publisher>London: Nature Publishing Group</publisher><subject>Arabidopsis ; Arabidopsis - physiology ; Arabidopsis - radiation effects ; Arabidopsis thaliana ; Biological and medical sciences ; Biological diversity ; Biology ; Classical genetics, quantitative genetics, hybrids ; Confidence intervals ; Development ; Flowers & plants ; Fundamental and applied biological sciences. Psychology ; Genetic aspects ; Genetic diversity ; Genetics ; Genetics of eukaryotes. Biological and molecular evolution ; Light ; Lm-2 gene ; Molecular and cellular biology ; Photochemicals ; Photoreceptors ; Physiological aspects ; Physiology ; phytochrome A ; Plants ; Plants, Genetically Modified ; Pteridophyta, spermatophyta ; Publishing ; Seedlings ; Vegetals</subject><ispartof>Nature genetics, 2001-12, Vol.29 (4), p.441-446</ispartof><rights>2002 INIST-CNRS</rights><rights>COPYRIGHT 2001 Nature Publishing Group</rights><rights>Copyright Nature Publishing Group Dec 2001</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c616t-7504937439771e372d51e7298bd527cd530965b86334f3ca37b86f07dbf544e83</citedby><cites>FETCH-LOGICAL-c616t-7504937439771e372d51e7298bd527cd530965b86334f3ca37b86f07dbf544e83</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>315,781,785,2728,27929,27930</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=14159124$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/11726931$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Weigel, Detlef</creatorcontrib><creatorcontrib>Maloof, Julin N</creatorcontrib><creatorcontrib>Borevitz, Justin O</creatorcontrib><creatorcontrib>Dabi, Tsegaye</creatorcontrib><creatorcontrib>Lutes, Jason</creatorcontrib><creatorcontrib>Nehring, Ramlah B</creatorcontrib><creatorcontrib>Redfern, Joanna L</creatorcontrib><creatorcontrib>Trainer, Gabriel T</creatorcontrib><creatorcontrib>Wilson, Jeanne M</creatorcontrib><creatorcontrib>Asami, Tadao</creatorcontrib><creatorcontrib>Berry, Charles C</creatorcontrib><creatorcontrib>Chory, Joanne</creatorcontrib><title>Natural variation in light sensitivity of Arabidopsis</title><title>Nature genetics</title><addtitle>Nat Genet</addtitle><description>Because plants depend on light for growth, their development and physiology must suit the particular light environment. Plants native to different environments show heritable, apparently adaptive, changes in their response to light. As a first step in unraveling the genetic and molecular basis of these naturally occurring differences, we have characterized intraspecific variation in a light-dependent developmental process-seedling emergence. We examined 141 Arabidopsis thaliana accessions for their response to four light conditions, two hormone conditions and darkness. There was significant variation in all conditions, confirming that Arabidopsis is a rich source of natural genetic diversity. Hierarchical clustering revealed that some accessions had response patterns similar to known photoreceptor mutants, suggesting changes in specific signaling pathways. We found that the unusual far-red response of the Lm-2 accession is due to a single amino-acid change in the phytochrome A (PHYA) protein. This change stabilizes the light-labile PHYA protein in light and causes a 100-fold shift in the threshold for far-red light sensitivity. Purified recombinant Lm-2 PHYA also shows subtle photochemical differences and has a reduced capacity for autophosphorylation. These biochemical changes contrast with previously characterized natural alleles in loci controlling plant development, which result in altered gene expression or loss of gene function.</description><subject>Arabidopsis</subject><subject>Arabidopsis - physiology</subject><subject>Arabidopsis - radiation effects</subject><subject>Arabidopsis thaliana</subject><subject>Biological and medical sciences</subject><subject>Biological diversity</subject><subject>Biology</subject><subject>Classical genetics, quantitative genetics, hybrids</subject><subject>Confidence intervals</subject><subject>Development</subject><subject>Flowers & plants</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genetic aspects</subject><subject>Genetic diversity</subject><subject>Genetics</subject><subject>Genetics of eukaryotes. Biological and molecular evolution</subject><subject>Light</subject><subject>Lm-2 gene</subject><subject>Molecular and cellular biology</subject><subject>Photochemicals</subject><subject>Photoreceptors</subject><subject>Physiological aspects</subject><subject>Physiology</subject><subject>phytochrome A</subject><subject>Plants</subject><subject>Plants, Genetically Modified</subject><subject>Pteridophyta, spermatophyta</subject><subject>Publishing</subject><subject>Seedlings</subject><subject>Vegetals</subject><issn>1061-4036</issn><issn>1546-1718</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2001</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>8G5</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><sourceid>GUQSH</sourceid><sourceid>M2O</sourceid><recordid>eNqN0l1rFDEUBuBBFFtrf4Egg2LFi6k5-Z7LpWgtFAt-3YZMJllTZjNrkin235vtLC4rRSUXCeE5J5zwVtUxoFNARL4NSyHEg-oQGOUNCJAPyxlxaCgi_KB6ktI1QkApko-rAwCBeUvgsGIfdZ6iHuobHb3Ofgy1D_Xgl99znWxIPvsbn2_r0dWLqDvfj-vk09PqkdNDssfb_aj6-v7dl7MPzeXV-cXZ4rIxHHhuBEO0JYKSVgiwROCegRW4lV3PsDA9I6jlrJOcEOqI0USUs0Oi7xyj1EpyVL2e-67j-GOyKauVT8YOgw52nJKSjAtGAbMiT_4qBSZAofzUvyBILAFRXOCLP-D1OMVQxlUYY07LXG1BL2e01INVPrgxR202HdUCJKGEt5wXdXqPKqu3K2_GYJ0v93sFb_YKisn2Z17qKSV18fnT_9urb_v21WxNHFOK1ql19CsdbxUgtYmRuotRcc-3s0_dyvY7tc3NrtFaJ6MHF3UwPu0cBdYCpsU9m13YxMz-BvMzvwC38dFx</recordid><startdate>20011201</startdate><enddate>20011201</enddate><creator>Weigel, Detlef</creator><creator>Maloof, Julin N</creator><creator>Borevitz, Justin O</creator><creator>Dabi, Tsegaye</creator><creator>Lutes, Jason</creator><creator>Nehring, Ramlah B</creator><creator>Redfern, Joanna L</creator><creator>Trainer, Gabriel T</creator><creator>Wilson, Jeanne M</creator><creator>Asami, Tadao</creator><creator>Berry, Charles C</creator><creator>Chory, Joanne</creator><general>Nature Publishing Group</general><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QL</scope><scope>7QP</scope><scope>7QR</scope><scope>7SS</scope><scope>7T7</scope><scope>7TK</scope><scope>7TM</scope><scope>7U9</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8G5</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>GUQSH</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2O</scope><scope>M7N</scope><scope>M7P</scope><scope>MBDVC</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>Q9U</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20011201</creationdate><title>Natural variation in light sensitivity of Arabidopsis</title><author>Weigel, Detlef ; Maloof, Julin N ; Borevitz, Justin O ; Dabi, Tsegaye ; Lutes, Jason ; Nehring, Ramlah B ; Redfern, Joanna L ; Trainer, Gabriel T ; Wilson, Jeanne M ; Asami, Tadao ; Berry, Charles C ; Chory, Joanne</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c616t-7504937439771e372d51e7298bd527cd530965b86334f3ca37b86f07dbf544e83</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2001</creationdate><topic>Arabidopsis</topic><topic>Arabidopsis - physiology</topic><topic>Arabidopsis - radiation effects</topic><topic>Arabidopsis thaliana</topic><topic>Biological and medical sciences</topic><topic>Biological diversity</topic><topic>Biology</topic><topic>Classical genetics, quantitative genetics, hybrids</topic><topic>Confidence intervals</topic><topic>Development</topic><topic>Flowers & plants</topic><topic>Fundamental and applied biological sciences. 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Academic</collection><jtitle>Nature genetics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Weigel, Detlef</au><au>Maloof, Julin N</au><au>Borevitz, Justin O</au><au>Dabi, Tsegaye</au><au>Lutes, Jason</au><au>Nehring, Ramlah B</au><au>Redfern, Joanna L</au><au>Trainer, Gabriel T</au><au>Wilson, Jeanne M</au><au>Asami, Tadao</au><au>Berry, Charles C</au><au>Chory, Joanne</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Natural variation in light sensitivity of Arabidopsis</atitle><jtitle>Nature genetics</jtitle><addtitle>Nat Genet</addtitle><date>2001-12-01</date><risdate>2001</risdate><volume>29</volume><issue>4</issue><spage>441</spage><epage>446</epage><pages>441-446</pages><issn>1061-4036</issn><eissn>1546-1718</eissn><coden>NGENEC</coden><abstract>Because plants depend on light for growth, their development and physiology must suit the particular light environment. Plants native to different environments show heritable, apparently adaptive, changes in their response to light. As a first step in unraveling the genetic and molecular basis of these naturally occurring differences, we have characterized intraspecific variation in a light-dependent developmental process-seedling emergence. We examined 141 Arabidopsis thaliana accessions for their response to four light conditions, two hormone conditions and darkness. There was significant variation in all conditions, confirming that Arabidopsis is a rich source of natural genetic diversity. Hierarchical clustering revealed that some accessions had response patterns similar to known photoreceptor mutants, suggesting changes in specific signaling pathways. We found that the unusual far-red response of the Lm-2 accession is due to a single amino-acid change in the phytochrome A (PHYA) protein. This change stabilizes the light-labile PHYA protein in light and causes a 100-fold shift in the threshold for far-red light sensitivity. Purified recombinant Lm-2 PHYA also shows subtle photochemical differences and has a reduced capacity for autophosphorylation. These biochemical changes contrast with previously characterized natural alleles in loci controlling plant development, which result in altered gene expression or loss of gene function.</abstract><cop>London</cop><pub>Nature Publishing Group</pub><pmid>11726931</pmid><doi>10.1038/ng777</doi><tpages>6</tpages></addata></record> |
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| subjects | Arabidopsis Arabidopsis - physiology Arabidopsis - radiation effects Arabidopsis thaliana Biological and medical sciences Biological diversity Biology Classical genetics, quantitative genetics, hybrids Confidence intervals Development Flowers & plants Fundamental and applied biological sciences. Psychology Genetic aspects Genetic diversity Genetics Genetics of eukaryotes. Biological and molecular evolution Light Lm-2 gene Molecular and cellular biology Photochemicals Photoreceptors Physiological aspects Physiology phytochrome A Plants Plants, Genetically Modified Pteridophyta, spermatophyta Publishing Seedlings Vegetals |
| title | Natural variation in light sensitivity of Arabidopsis |
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