"Frontmatter". In: Plant Genomics and Proteomics

Sedum suaveolens, chromosome number
of, 3
Segregating populations, in QTL
identification, 152–154, 160
Sequence assembly, software for,
171–172
Sequence data, gene identification via,
70–73
Sequence matching, BLAST
®
and, 174,
175, 176, 177, 178
Sequence quality, 42–43
Sequence similarity, 174
Sequence-tagged connectors (STC)
approach, BAC end sequencing
and, 60
Sequence-tagged sites (STSs), 151
Sequencing, 70
Sequencing strategies, 47–66, 58–61
automated, 38
data processing for, 63
most efficient, 63–64
targets for, 64–66
Serial analysis of gene expression
(SAGE), 110, 113, 114–116, 119
advantages and disadvantages of,
119–120
Shotgun libraries, 61–62
Shotgun sequence analysis, 48–49, 50
data processing for, 63
of poplar genome, 65
Signal transduction networks, in plant
disease resistance, 135–138
Silencing, 80, 86–87
of genes, 16
Simple sequence repeats (SSRs), 149,
151
Single-nucleotide polymorphisms
(SNPs), 43, 149, 152
Small auxin-up RNA (SAUR), 99
Software. See also Bioinformatics;
Informatics tools
database-independent, 41
sequence quality from, 42–43
Soybean, molecular maps for, 149
Spatial regulation, 89

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I
N D E X
2 1 3
Spliceosome formation, 95
Splicing, alternative, 112
Spontaneous doubling, of
chromosomes, 13–15
Spontaneous nodulation mutants, 139
Staining protocols, in protein
separation, 124–125
Static data, 169
Stress, among plants, 131–132, 141–144
Subtraction libraries, 33–36
Suppressive subtracted hybridization
(SSH), 33, 34–35
Symbiosis, 132, 138–141
Syngenta, 48, 49
Synteny, 16–18, 50, 70, 78
informatics tools for, 183
testing of, 30–32
Tandemly repeated sequences, DNA
variation via, 11–13
Tandem MS, in protein identification,
125
Targeting induced local lesions in
genomes (TILLING) methodology,
80, 82–86
T-DNA insertion, 80–82, 84
Tebufenozide-inducible GVHvEcR
system, 101
Technology, improvements in, 23. See
also Biotechnology; Microarray
technology
Temporal regulation, 89
Tentative contigs (TCs), 71, 73
in informatics, 172–173, 179
Tentative unique genes (TUGs), 71, 73,
179, 180
teosinte branched1 gene, 160
Tetracycline-inactivatable tTA system,
100
Tetracycline-inducible TetR system, 
100
The Arabidopsis Information Resource
(TAIR), 168, 170
3¢ sequences, in gene expression, 93–94
TIGR Gene index, 179, 180
TIGR Web site, informatics at, 179, 180
TIR-NBS-LRR gene family, 133, 134, 136
Tissue-specific promoters, 148
Toll and Interleukin-1 receptor (TIR)
genes, 133
Tomato, fw2-2 locus in, 156–160
Torrey Mesa Research Institute, 48, 49
Trade, in genetically modified
organisms, 191, 192
trans-acting factors, 96–98
Transcription factors, gene expression
and, 96–98
Transcriptomes, 107–109
Transgenic crops, bioethics of, 190–191
Transgenics, 77
in proteomics, 126, 128
Translational control, in gene
expression, 103
Transposon mutagenesis, 77, 82, 84
Transposons, 10–11, 20, 70
in insertional mutagenesis, 80, 82, 
84
Transposon tags, genome fractionation
via, 57–58
Tropinone reductase genes, 8, 9
Two-dimensional gel electrophoresis (2-
DE), 39, 40
in protein separation, 124–125
Type III secretion system (TTSS), 135
UNEP International Guidelines,
193–194
Unequal recombination, 14
Unigene sets, in informatics, 172–173.