"Frontmatter". In: Plant Genomics and Proteomics

Arabidopsis, 81
Large-insert vectors, in cloning, 27
Legume Information System, 168, 170
Legumes
mutants of, 139–141
nitrogen-fixing bacteria and, 138–139
as sequencing targets, 65
Leucine-rich repeat (LRR) genes,
133–134, 136, 137
Libraries
BAC, 28
Cot fractionation-based, 62
EST, 172–173
full-length cDNA, 73, 75
in identifying QTLs, 160
large-insert, 27
methylation restriction, 62
methyl filtration, 61–62
shotgun, 61–62
subtraction, 33–36
Light, plants and, xii
Living modified organisms (LMOs),
environmental release of, 191,
193–196
Loci. See Quantitative trait loci (QTLs)
Long terminal repeats (LTRs), 10
Lotus japonicus, 139, 140
as sequencing target, 65
Lotus tenuis, chromosome variation in,
4, 6–7
Low-copy sequences, DNA variation
via, 7–10
LR reaction, 25–27
Luzula, chromosome variation in, 4
Luzula elegans, chromosome variation
in, 4, 5
Luzula pilosa, chromosome variation in,
4, 5, 6
Lycopersicon, QTLs in, 156–160
Lycopersicon esculentum, 157, 158–159
Lycopersicon pennellii, 158–159

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Lycopersicon pimpinellifolium, 157
Lynx technology, 119
MADS gene family, 98
Maize
gene linkage in, 18–19
genome sequencing of, 53
molecular maps for, 149
retrotransposons in, 10–11
as sequencing target, 65
transposable elements in, 57–58
transposon mutagenesis in, 82, 84
MaizeDB database, 168, 170, 183
Mannopine synthase (MAS) promoter,
93, 94
Map-based cloning, 48
Map-based genome sequencing, 49, 
50
Mapping, of QTLs, 152–160. See also
Genetic maps; Maps; Physical
mapping
Maps, molecular, 148, 149
Marker-assisted selection (MAS),
148–149, 160–164
Massively parallel signature 
sequencing (MPSS
TM
), 110, 113, 114,
117–119
advantages and disadvantages of,
119–120
Mass spectrometry (MS), 39, 40
in protein identification, 125
Matrix-assisted laser
desorption/ionization (MALDI), 39
Matrix-assisted laser
desorption/ionization-time of
flight (MALDI-TOF), 121
Matrix attachment regions (MARs), 102
Medicago truncatula, 139, 140
as sequencing target, 65
Megablast program, 179
Messenger RNA (mRNA), 75, 120
in cDNA cloning, 32–33
in differential display technology,
36–37
MPSS and, 118
SAGE and, 116
stability of, 99
subtraction libraries and, 33
Metabolites
cellular processes and, 107–109
synthesized by plants, xii–xiii
Metabolomes, 107–109
Metabolomics, 109
Metaphase, in Luzula species, 5, 6
Methoxyfenozide-inducible GVCfEcR
system, 101
Methoxyfenozide-inducible GVOnEcR
system, 101
Methylation, 57
Methylation restriction libraries, 62
Methylcytosine (Methyl-C), 57
Methyl filtration
genome fractionation via, 57
libraries, 61–62
Microarray hybridization, 48
Microarray technology, 24, 37–38, 96.
See also DNA microarrays
in expression profiling, 109–110
in plant stress studies, 132, 142–143
Microsatellites, 149, 151
Miller, Webb, 182
Miniature inverted repeat transposable
elements (MITES), 11
Minimal information associated with a
functional genomics experiment
(MIAFGE), 42
Minimum tiling path (MTP)
sequencing, 59, 60, 61
Miropeats program, 174, 177, 178
Molecular maps, 148, 149
Monocots, intron-mediated
enhancement in, 95
Motif finding, 178
MultiPipMaker program, 182–183
Multiple genomes, consequences of,
16–19