A distant upstream enhancer at the maize domestication gene tb1 has pleiotropic effects on plant and inflorescent architecture

Nature Genetics
Richard M ClarkJohn Doebley

Abstract

Although quantitative trait locus (QTL) mapping has been successful in describing the genetic architecture of complex traits, the molecular basis of quantitative variation is less well understood, especially in plants such as maize that have large genome sizes. Regulatory changes at the teosinte branched1 (tb1) gene have been proposed to underlie QTLs of large effect for morphological differences that distinguish maize (Zea mays ssp. mays) from its wild ancestors, the teosintes (Z. mays ssp. parviglumis and mexicana). We used a fine mapping approach to show that intergenic sequences approximately 58-69 kb 5' to the tb1 cDNA confer pleiotropic effects on Z. mays morphology. Moreover, using an allele-specific expression assay, we found that sequences >41 kb upstream of tb1 act in cis to alter tb1 transcription. Our findings show that the large stretches of noncoding DNA that comprise the majority of many plant genomes can be a source of variation affecting gene expression and quantitative phenotypes.

References

Nov 1, 1996·Science·P SanMiguelJ L Bennetzen
Apr 3, 1997·Nature·J DoebleyL Hubbard
Mar 27, 1999·Nature·R L WangJ Doebley
Jun 30, 2001·Nature Genetics·J M ThornsberryE S Buckler
Dec 15, 1990·Proceedings of the National Academy of Sciences of the United States of America·J DoebleyM Edwards
Nov 9, 2001·Annual Review of Genetics·T F Mackay
May 22, 2002·Functional & Integrative Genomics·Nils RostoksAndris Kleinhofs
Aug 22, 2002·Genetica·Jonathan F WendelH James Price
Jan 1, 2004·Proceedings of the National Academy of Sciences of the United States of America·Richard M ClarkJohn F Doebley
Jun 3, 2004·Current Opinion in Genetics & Development·Trudy F C Mackay
Jul 29, 2004·Genetics·Moira J SheehanThomas P Brutnell
Sep 21, 2004·Annual Review of Plant Biology·Maarten KoornneefDick Vreugdenhil
Dec 1, 2004·Annual Review of Genetics·John Doebley
Dec 15, 2004·Annals of Botany·Jeffrey L BennetzenKatrien M Devos
Jun 14, 2005·Trends in Plant Science·Silvio Salvi, Roberto Tuberosa
Aug 5, 2005·Nature·Huai WangJohn F Doebley
Aug 13, 2005·The International Journal of Developmental Biology·Carlos Alonso-BlancoMaarten Koornneef
Sep 15, 2005·The New Phytologist·Thomas R Meagher, Christine Vassiliadis
Sep 21, 2005·Genetics·Kristin J SimonsJustin D Faris

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Citations

Nov 6, 2009·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Alexander ThiemannStefan Scholten
Nov 4, 2011·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Dongfeng ZhangMingliang Xu
Nov 16, 2011·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Endang M SeptiningsihDavid J Mackill
Dec 21, 2010·Plant Cell Reports·Stacy D SingerZongrang Liu
Oct 8, 2008·Mammalian Genome : Official Journal of the International Mammalian Genome Society·Paulo P Amaral, John S Mattick
Jun 25, 2013·Trends in Genetics : TIG·Manuel IrimiaHunter B Fraser
Jul 26, 2013·Nature Communications·Zuofeng ZhuChuanqing Sun
Jun 17, 2009·Proceedings of the National Academy of Sciences of the United States of America·Feng TianEdward S Buckler
Apr 18, 2009·Proceedings of the National Academy of Sciences of the United States of America·Gang WeiLihuang Zhu
Nov 23, 2011·Proceedings of the National Academy of Sciences of the United States of America·Alana V BeadellEric S Haag
May 8, 2013·Molecular Biology and Evolution·Bradley J MainSergey V Nuzhdin
Jun 23, 2009·Nucleic Acids Research·Agnieszka DoroszukJan Kammenga
Jul 10, 2008·Plant Physiology·Stephen P Moose, Rita H Mumm
Jan 8, 2009·Plant Physiology·Paula McSteen
Jul 4, 2009·The Plant Cell·Carlos Alonso-BlancoMaarten Koornneef
Jul 28, 2009·Annual Review of Genomics and Human Genetics·Daniel A SkellyJoshua M Akey
Nov 6, 2008·Annual Review of Genetics·Jeff J DoyleJonathan F Wendel
Dec 25, 2009·BMC Plant Biology·Marco VukichAndrea Cavallini
Apr 25, 2009·PLoS Genetics·John S Mattick
Jul 5, 2013·PLoS Genetics·David M WillsJohn F Doebley
Jan 13, 2010·PloS One·Xinwei ChenRobbie Waugh
May 17, 2011·PloS One·Robert J ElshireSharon E Mitchell

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