Table of contents for Lotus japonicus handbook / edited by A.J. Márquez ; section editors J. Stougaard ... [et al.].


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1   LOTUS JAPONICUS, A GENERAL INTRODUCTION
J. STOUGAARD AND A.J. MARQUEZ
1.1 Lotusjaponicus as a model system                            3
E. Pajuelo and J. Stougaard
1.2 Lotus-related species and their agronomic importance        25
P. Diaz, O. Borsani, and J. Monza
1.3 Drought and saline stress                                   39
P. Diaz, J. Monza, and A.J. MArquez
2   SYMBIOTIC PROCESSES
M. UDVARDI AND M. PARNISKE
2.1 Methods for studying nodule development and function         53
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                  83
A. Barbulova and M. Chiurazzi
2.3 Arbuscular mycorrhiza                                        87
S. Kosuta, T. Winzer, and M. Pamiske
3   CELL AND MOLECULAR BIOLOGY PROTOCOLS
H.P. SPAINK AND M. PARNISKE
3.1 Concurrent visualization ofgusA and lacZ reporter gene expression  99
C.L. Diaz, H.R.M. Schlaman, and H.P. Spaink
3.2 Embedding root and nodule tissue in plastic (BMM)            111
M. Gronlund, A. Agalou, M.C. Rubio, G.E.M. Lamers, A. Roussis,
and H.P. Spaink
3.3 RNA isolation using phase extraction and LiCI precipitation  123
C. Kistner and M. Matamoros
3.4 RNA isolation using CsCI gradients                           125
L. Krusell, T. Ott, and M. Udvardi
3.5 96-well DNA isolation method                                  129
J. Perry and M. Parniske
4   FUNCTIONAL GENOMICS
M. UDVARDI AND G. SAALBACH
4.1 Genome structure analysis                                     135
S. Tabata
4.2 Transcriptome analysis using cDNA arrays                      139
T. Ott, L. Krusell, S. Freund, and M. Udvardi
4.3 Lotus japonicus expression database                           149
S. Kloska, P. Krutger, and J. Selbig
4.4 Procedures for mass spectrometric proteome analysis           155
G. Saalbach
4.5 Isolation of peribacteroid membranes for proteome analysis    161
S. Wienkoop
4.6 Metabolome analysis using GC-MS                               165
G. Desbrosses, D. Steinhauser, J. Kopka, and M. Udvardi
5   MUTANTS, GENE-TAGGING, AND GENETIC ANALYSIS
J. STOUGAARD AND K.J.WEBB
5.1 Mutagenesis                                                   177
K.J. Webb, M. Robbins, T.L. Wang, M. Parniske, and A.J. Marquez
5.2 A mutant catalogue of Lotusjaponicus                          187
E. Pajuelo
5.3 TILLING                                                       197
J. Perry, T. Welham, S. Cheminant, M. Parniske, and T. Wang
5.4 Ds gene-tagging                                               211
L. Tirichine, J.A. Herrera-Cervera, and J. Stougaard
5.5 Mapping and map-based cloning                                 217
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 towards the development of legume genome
anchor markers using comparative sequence analysis            233
L. Schauser, S. Subrahmanyam, L.H. Madsen, N. Sandal, and J. Stougaard
5.7 Information transfer: mapping and cloning in other legumes    243
L.H. Madsen and J. Stougaard
6   TRANSFORMATION AND REVERSE GENETIC ANALYSIS
M. CHIURAZZI
6.1 Agrobacterium-mediated in vitro transformation                251
P. Lombari, E. Ercolano, H. El Alaoui, and M. Chiurazzi
6.2 Induction of hairy roots for symbiotic gene expression studies  261
C.L. Diaz, M. Gronlund, H.R.M. Schlaman, and H.P. Spaink
6.3 Transformation-regeneration procedure                         279
L. Tirichine, J.A. Herrera, and J. Stougaard
6.4 Agrobacterium rhizogenes pRi TL-DNA integration system        285
S. Radutoiu, L.H. Madsen, E.B. Madsen, A.M. Nielsen,
and J. Stougaard
6.5 Vectors for reverse genetics and expression analysis          289
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            295
A. Orea, P. Pajuelo, J.M. Romero, and A.J. MArquez
7.2 Nitrate and ammonium assimilatory enzymes              ,      315
A.J. Marquez, M. Betti, M. Garcia-Calder6n, G. Estivill, A. Credali,
P. Pajuelo, A.Orea, M.T. Clemente, E. Pajuelo, F. Galvin
7.3 Transgenic plants affected in nitrate assimilation            329
A. Orea, I. Prosser, J.M. Romero, and A.J. Marquez
7.4 Secondary metabolite profiling                                341
N. Rispail, R. Nash, and K.J. Webb
7.5 Phenolic compounds: extraction and analysis                   349
N. Rispail, P. Morris, and K.J. Webb
7.6 Elicitation of isoflavan phytoalexins                         355
A. Lanot and P. Morris
8   LOTUS JAPONICUS LITERATURE
M. BETTI AND A.J. MARQUEZ
8.1 An update of work published on Lotusjaponicus                 365
M. Betti and A.J. Marquez



Library of Congress subject headings for this publication: Lotus, Lotus Research, Legumes Research, Genomics, Lotus japonica