Contents List of editors Preface Colour plates 1 Lotus japonicus, a general introduction J. Stougaard and A.J. Márquez 1.1 Lotus japonicus as a model system E. Pajuelo and J. Stougaard 1.2 Lotus-related species and their agronomic importance P. Díaz, O. Borsani, and J. Monza 1.3 Drought and saline stress P. Díaz, J. Monza, and A.J. Márquez Symbiotic processes M. Udvardi and M. Parniske 2.1 Methods for studying nodule development and function M. Hayashi, M.L. Tansengco, N. Suganuma, K. Szczyglowski, L. Krusell, T. Ott, and M. Udvardi 2.2 A procedure for in vitro nodulation studies A. Barbulova and M. Chiurazzi 2.3 Arbuscular mycorrhiza S. Kosuta, T. Winzer, and M. Parniske 3 Cell and molecular biology protocols H.P. Spaink and M. Parniske 3.1 Concurrent visualization of gusA and lacZ reporter gene expression C. Díaz, H.R.M. Schlaman, and H.P. Spaink 3.2 Embedding root and nodule tissue in plastic (BMM) M. GrÆ nlund, A. Agalou, M.C. Rubio, G.E.M. Lamers, A. Roussis, and H.P. Spaink 3.3 RNA isolation using phase extraction and LiCl precipitation C. Kistner and M. Matamoros 3.4 RNA isolation using CsCl gradients T. Ott, L. Krussell, and M. Udvardi 3.5 96-well DNA isolation method J. Perry and M. Parniske 4 Functional genomics M. Udvardi and G. Saalbach 4.1 Genome structural analysis S. Tabata 4.2 Transcriptome analysis using cDNA arrays T. Ott, L. Krusell, S. Freund, and M. Udvardi 4.3 Lotus japonicus expression database S. Kloska, P. Krüger, and J. Selbig 4.4 Procedures for mass spectrometric proteome analysis G. Saalbach 4.5 Isolation of peribacteroid membranes for proteome analysis S. Wienkoop 4.6 Metabolome analysis using GC-MS G. Debrosses, D. Steinhauser, J. Kopka, and M. Udvardi Mutants, gene-tagging, and genetic analysis J. Stougaard and K.J.Webb 5.1 Mutagenesis K.J. Webb, M. Robbins, T.L. Wang, M. Parniske, and A.J. Márquez 5.2 A mutant catalogue of Lotus japonicus E. Pajuelo 5.3 TILLING J. Perry, T. Welham, S. Cheminant, M. Parniske, and T. Wang 5.4 Ds gene tagging L. Tirichine, J.A. Herrera-Cervera, and J. Stougaard 5.5 Mapping and map-based cloning N. Sandal, K. Krause, M. Frantescu, S. Radutoiu, L. Krusell, L.H. Madsen, N. Kanamori, E. Madsen, L. Tirichine, and J. Stougaard 5.6 An in silico strategy using comparative sequence analysis L. Schauser, S. Subrahmanyam, L.H. Madsen, N. Sandal, and J. Stougaard 5.7 Information transfer: mapping and cloning in other legumes L.H. Madsen and J. Stougaard 6 Transformation and reverse genetic analysis M. Chiurazzi 6.1 Agrobacterium-mediated in vitro transformation P. Lombari, E. Ercolano, H. El Alaoui, and M. Chiurazzi 6.2 Induction of hairy roots for symbiotic gene expression studies C.L. Diaz, M. Gronlund, H.R.M. Schlaman, and H.P. Spaink 6.3 Transformation-regeneration procedure L. Tirichine, J.A. Herrera, and J. Stougaard 6.4 Agrobacterium rhizogenes pRi TL-DNA integration system S. Radutoiu, L.H. Madsen, E.B. Madsen, and J. Stougaard 6.5 Vectors for reverse genetics and expression analysis S.U. Andersen, C. Cvitanich, M. Gronlund, H. Busk, D.B. Jensen, and E.O. Jensen 7 Primary and secondary metabolism A.J. Marquez and K.J. Webb 7.1 Nitrate assimilation: Influence of nitrogen supply A. Orea, P. Pajuelo, J.M. Romero, and A.J. Márquez 7.2 Nitrate and ammonium assimilatory enzymes
Legumes are very important plants playing a central role in biological research. They are a key component of sustainable agricultural systems because of symbiotic nitrogen fixation and other beneficial symbiosis with mycorrhizal fungi. Studies on most of the major leguminous crops are hampered by large genome sizes and other disadvantages which have hindered the isolation and characterisation of genes with important roles in legume biology and agriculture. For this reason Lotus japonicus was chosen as a model species for legume research some ten years ago. Since then, many groups around the world have adopted Lotus as a model and have developed numerous resources and protocols to facilitate basic and applied research on this species. This handbook represents the first effort to compile basic descriptions and methods for research in Lotus, including symbiotic processes, cell and molecular biology protocols, functional genomics, mutants, gene tagging and genetic analysis, transformation and reverse genetic analysis, primary and secondary metabolism, and an exhaustive update of the scientific literature available on this plant.
Basic information and methodology for studying a leading model plant
First comprehensive and useful collection of in vivo and in vitro protocols for working with this model legume
Authors are key figures in legume research
Some of the described methods have been optimised specifically for this plant, but others may be also suitable for other plant species
Also addresses a broad audience with interest in plant molecular biology