MOLECULAR EVOLUTION, PRODUCING THE BIOCHEMICAL DATA, PART B, 395
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Elizabeth Zimmer, National Museum of Natural History, Smithsonian Institution, Washington, D.C., U.S.A. Eric Roalson, School of Biological Sciences, Washington State University, Pullman, WA, U.S.A.
Description The critically acclaimed laboratory standard, Methods in Enzymology, is one of the most highly respected publications
in the field of biochemistry. Since 1955, each volume has been eagerly awaited, frequently consulted, and praised by researchers and
reviewers alike. The series contains much material still relevant today - truly an essential publication for researchers in all fields
of life sciences.
Molecular Evolution Producing the Biochemical Data part B is a continuation of methods published
in Part A (1993, volume 224). The work is a very methodological look at markers, templates, genomes, datasets and analyses used in studies
of biological diversity.
Contents Isolation of DNA from plants with large amounts of secondary metabolites
Nucleic Acid Isolation from Environmental Aqueous Samples
Nucleic
acid isolation from ecological samples?vertebrate gut flora
Nucleic acid isolation from ecological samples – fungal associations, lichens
Nucleic acid isolation from ecological samples?fungal associations, mycorrhizae
Nucleic acid isolation from ecological samples?animal
scat and other associated materials
Isolation and analysis of DNA from archaeological, clinical and natural history specimens
Isolation
and characterization of proteins from archaeological and ancient specimens
Animal Phylogenomics: Multiple Interspecific Genome Comparisons
ISSR techniques for evolutionary biology
Use of Amplified Fragment Length Polymorphism (AFLP) markers in surveys of vertebrate diversity
Use of AFLP markers in surveys of arthropod diversity
Use of AFLP markers in surveys of plant diversity
Isolating microsatellite DNA
loci
Use of microsatellites for parentage and kinship analyses in animals
Use of capillary array electrophoresis single strand conformational
polymorphism analysis to estimate genetic diversity of candidate genes in germplasm collections
Ribosomal RNA probes and microarrays:
Their potential use in assessing microbial biodiversity
The role of geographic analyses in locating, understanding and using plant genetic
diversity
In Situ Hybridization of Phytoplankton Using Fluorescently-Labelled rRNA Probes
Sequencing and comparing whole mitochondrial
genomes of animals
Methods for obtaining and analyzing whole chloroplast genome sequences
Construction of Bacterial Artificial Chromosome
libraries for use in phylogenetic studies
Comparative EST analyses in plant systems
Isolation of genes from plant Y chromosomes
Preparation
of samples for comparative studies of plant chromosomes using in situ hybridization methods
Preparation of samples for comparative studies
of arthropod chromosomes: visualization, in situ hybridization, and genome size estimation
Experimental methods for assaying natural
transformation and inferring horizontal gene transfer
Use of confocal microscopy in comparative studies of vertebrate morphology
PrimerSelect:
A transcriptome-wide oligonucleotide primer pair design program for kinetic RT-PCR-based transcript profiling
Detecting differential
expression of parental or progenitor alleles in genetic hybrids and allopolyploids
genome-wide analysis of gene expression changes in
polyploids
Designing experiments using spotted microarrays to detect gene regulation differences within and among species
Methods for
studying the evolution of plant reproductive structures: Comparative gene expression techniques
Developing antibodies to synthetic peptides
based on comparative DNA sequencing of multigene families
Application of ancestral protein reconstruction in understanding protein function:
GFP-like proteins
Advances in phylogeny reconstruction from gene order and content data
Analytical methods for detecting paralogy in
molecular datasets
Analytical methods for studying the evolution of paralogs using duplicate gene data sets
Supertree construction in
the genomic age
Maximum-likelihood methods for phylogeny estimation
Context Dependence and Co-Evolution among Amino Acid Resideue in
Proteins
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