Promoter analysis of MADS-box genes in eudicots through phylogenetic footprinting. Export

@article{citeulike:2738851, abstract = {The MIKC MADS-box gene family has been shaped by extensive gene duplications giving rise to subfamilies of genes with distinct functions and expression patterns. However, within these subfamilies the functional assignment is not that clear-cut, and considerable functional redundancy exists. One way to investigate the diversity in regulation present in these subfamilies is promoter sequence analysis. With the advent of genome sequencing projects, we are now able to exert a comparative analysis of Arabidopsis and poplar promoters of MADS-box genes belonging to the same subfamily. Based on the principle of phylogenetic footprinting, sequences conserved between the promoters of homologous genes are thought to be functional. Here, we have investigated the evolution of MADS-box genes at the promoter level and show that many genes have diverged in their regulatory sequences after duplication and/or speciation. Furthermore, using phylogenetic footprinting, a distinction can be made between redundancy, neo/nonfunctionalization, and subfunctionalization.}, address = {Department of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology, Ghent University, Ghent, Belgium.}, author = {De Bodt, S. and Theissen, G. and Van de Peer, Y.}, citeulike-article-id = {2738851}, citeulike-linkout-0 = {http://view.ncbi.nlm.nih.gov/pubmed/16581940}, citeulike-linkout-1 = {http://www.hubmed.org/display.cgi?uids=16581940}, issn = {0737-4038}, journal = {Molecular biology and evolution}, keywords = {comparison, composition, noalignment, promoter}, month = {June}, number = {6}, pages = {1293--1303}, posted-at = {2008-04-30 15:54:45}, priority = {2}, title = {Promoter analysis of MADS-box genes in eudicots through phylogenetic footprinting.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/16581940}, volume = {23}, year = {2006} }

TY - JOUR ID - citeulike:2738851 L3 - citeulike-article-id:2738851 N2 - The MIKC MADS-box gene family has been shaped by extensive gene duplications giving rise to subfamilies of genes with distinct functions and expression patterns. However, within these subfamilies the functional assignment is not that clear-cut, and considerable functional redundancy exists. One way to investigate the diversity in regulation present in these subfamilies is promoter sequence analysis. With the advent of genome sequencing projects, we are now able to exert a comparative analysis of Arabidopsis and poplar promoters of MADS-box genes belonging to the same subfamily. Based on the principle of phylogenetic footprinting, sequences conserved between the promoters of homologous genes are thought to be functional. Here, we have investigated the evolution of MADS-box genes at the promoter level and show that many genes have diverged in their regulatory sequences after duplication and/or speciation. Furthermore, using phylogenetic footprinting, a distinction can be made between redundancy, neo/nonfunctionalization, and subfunctionalization. IS - 6 JF - Molecular biology and evolution SN - 0737-4038 AD - Department of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology, Ghent University, Ghent, Belgium. EP - 1303 TI - Promoter analysis of MADS-box genes in eudicots through phylogenetic footprinting. VL - 23 SP - 1293 KW - comparison KW - composition KW - noalignment KW - promoter AU - De Bodt, S AU - Theissen, G AU - Van de Peer, Y PY - 2006/06// UR - http://view.ncbi.nlm.nih.gov/pubmed/16581940 ER -