A gene expression atlas of the model legume Medicago truncatula

Plant Journal - Tập 55 Số 3 - Trang 504-513 - 2008
Vagner A. Benedito1, Ivone Torres‐Jerez1, Jeremy D. Murray1, Andry Andriankaja1, Stacy N. Allen1, Klementina Kakar2, Maren Wandrey2, Jérôme Verdier3, Hélène Zuber3, Thomas Ott4,5, Sandra Moreau5, Andréas Niebel5, Tancred Frickey4, Georg Weiller4, Ji He1, Xinbin Dai1, Patrick X. Zhao1, Yuhong Tang1, Michael K. Udvardi1
1The Samuel Roberts Noble Foundation
2Max Planck Institute of Molecular Plant Physiology
3UMR 0102 - Unité de Recherche Génétique et Ecophysiologie des Légumineuses
4Research School of Biological Sciences
5Unité mixte de recherche interactions plantes-microorganismes

Tóm tắt

SummaryLegumes played central roles in the development of agriculture and civilization, and today account for approximately one‐third of the world’s primary crop production. Unfortunately, most cultivated legumes are poor model systems for genomic research. Therefore, Medicago truncatula, which has a relatively small diploid genome, has been adopted as a model species for legume genomics. To enhance its value as a model, we have generated a gene expression atlas that provides a global view of gene expression in all major organ systems of this species, with special emphasis on nodule and seed development. The atlas reveals massive differences in gene expression between organs that are accompanied by changes in the expression of key regulatory genes, such as transcription factor genes, which presumably orchestrate genetic reprogramming during development and differentiation. Interestingly, many legume‐specific genes are preferentially expressed in nitrogen‐fixing nodules, indicating that evolution endowed them with special roles in this unique and important organ. Comparative transcriptome analysis of Medicago versus Arabidopsis revealed significant divergence in developmental expression profiles of orthologous genes, which indicates that phylogenetic analysis alone is insufficient to predict the function of orthologs in different species. The data presented here represent an unparalleled resource for legume functional genomics, which will accelerate discoveries in legume biology.

Từ khóa


Tài liệu tham khảo

Abdi H., 2007, Encyclopedia of Measurement and Statistics, 103

10.1094/MPMI-20-9-1138

10.1094/MPMI.2004.17.3.292

10.1146/annurev.cb.07.110191.001203

10.1042/bj1251075

10.1007/BF02670468

Chomczunski P., 1995, Modification of the TRI TM Reagent procedure for isolation of RNA from polysaccharide‐ and proteoglycan‐rich sources, Biotechniques, 19, 942

10.1046/j.0028-646X.2001.00304.x

10.1111/j.1365-313X.2004.02150.x

10.1104/pp.105.063743

10.1038/35081178

10.1016/S1360-1385(98)01340-5

10.1093/bioinformatics/19.2.204

10.1104/pp.104.043612

10.1104/pp.006833

10.1093/nar/gkh867

10.1104/pp.107.109603

10.1093/bioinformatics/btl517

10.1104/pp.017004

10.1104/pp.104.037531

10.1093/bioinformatics/bti334

10.1146/annurev.arplant.50.1.361

10.1093/biostatistics/4.2.249

10.1094/MPMI.2001.14.6.737

10.1126/science.1110951

10.1094/MPMI.2002.15.9.922

10.1016/S1360-1385(02)02356-7

10.1093/bioinformatics/btk005

10.1073/pnas.98.1.31

10.1104/pp.125.1.69

10.1104/pp.102.018192

10.1073/pnas.0402186101

10.1038/nrm1424

10.1016/j.pbi.2004.05.011

10.1038/nature02039

10.1126/science.289.5486.1920

10.1073/pnas.91.25.11841

10.1016/S1369-5266(00)00107-2

10.1126/science.290.5499.2105

Saitou N., 1987, The neighbor‐joining method: a new method for reconstructing phylogenetic trees, Mol. Biol. Evol., 4, 406

10.1038/46058

10.1038/ng1543

10.1007/s00709-005-0090-x

10.1016/j.pbi.2006.01.002

10.1029/1999GB900015

10.1126/science.1111025

10.1002/(SICI)1097-0134(199707)28:3<405::AID-PROT10>3.0.CO;2-L

10.1073/pnas.1530509100

10.1111/j.1365-313X.2004.02016.x

Town C.D., 2006, Annotating the genome of Medicago truncatula, Curr. Opin. Plant Biol., 9, 122, 10.1016/j.pbi.2006.01.004

10.1128/JB.186.8.2439-2448.2004

10.1146/annurev.arplant.48.1.493

10.1104/pp.107.098061

Wu Z., 2004, A Model Based Background Adjustment for Oligonucleotide Expression Arrays. Technical Report

10.1186/1471-2229-6-26

Zar J.H., 1999, Biostatistical Analysis

Thông tin
Thông tin xuất bản

Plant Journal

Tập 55 Số 3

504-513

Thông tin tác giả