Table of Contents

Sampling in Landscape Genomics.- oligoTag: A Program for Designing Sets of Tags for Next-Generation Sequencing of Multiplexed Samples.- SNP Discovery in Non-Model Organisms Using 454 Next Generation Sequencing.- ISIF (In Silico Fingerprinting): A User-Friendly in silico AFLP Program.- Diversity Arrays Technology (DArT) – A Generic Genome Profiling Technology on Open Platforms.- Two Methods to Easily Obtain Nucleotide Sequences from AFLP Loci of Interest.- Roche Genome Sequencer FLX Based High-Throughput Sequencing of Ancient DNA.- Preparation of Normalized cDNA Libraries for 454 Titanium Transcriptome Sequencing.- RAD Paired-End Sequencing for Local de novo Assembly and SNP Discovery in Non-Model Organisms.- Automated Scoring of AFLPs Using RawGeno v 2.0, A Free R CRAN Library.- Haplotype Inference.- Allele Identification in Assembled Genomic Sequence Datasets.- Multiple-Testing in Large-Scale Genetic Studies.- Population Genomic Analysis of Model and Non-Model Species Using Sequenced RAD Tags.- Analysis and Management of Gene and Allelic Diversity in Subdivided Populations Using the Software Program METAPOP.- DETSEL: An R-Package to Detect Marker Loci Responding to Selection.- Use of Qualitative Environmental and Phenotypic Variables in the Context of Allele Distribution Models: Detecting Signatures of Selection in the Genome of Lake Victoria Cichilds.- Genomic Scan as a Tool for Assessing the Genetic Component of Phenotypic Variance in Wild Populations.