Environmental genomics / edited by C. Cristofre Martin.

Format:

Book

Contributor:

Martin, C. Cristofre.

Series:

Methods in molecular biology (Clifton, N.J.) ; 410.

Methods in molecular biology ; v. 410

Language:

English

Subjects (All):

Genomics.

Genomes.

Microbial ecology.

Endotoxins.

Environmental Exposure.

Gene Expression Regulation--methods.

Medical Subjects:

Endotoxins.

Environmental Exposure.

Gene Expression Regulation--methods.

Physical Description:

xi, 364 pages : illustrations ; 24 cm.

Place of Publication:

Totowa, N.J. : Humana, 2007.

Summary:

Environmental genomics seeks to predict how an organism or organisms will respond, at the genetic level, to changes in their external environment. These genome responses are diverse and, as a result, environmental genomics must integrate molecular biology, physiology, toxicology, ecology, systems biology, epidemiology and population genetics into an interdisciplinary research program. Environmental Genomics serves as a manual for an environmental scientist who wishes to embrace genomics in an effort to answer environmental questions. The volume is divided into the sections: gene expression profiling, whole genome and chromosome mutation detection, and methods to assay genome diversity and polymorphisms within a particular environment. The studies presented will reduce the uncertainties associated with environmental risk assessment and provide a systematic framework for determining environmental impact and ensuring human health and the sustainability of natural populations. Environmental Genomics should aid researchers looking to reduce the uncertainties associated with environmental risk assessment and provide a systematic framework for determining environmental impact and ensuring human health and the sustainability of natural populations.

Contents:

Part I Gene Expression Profiling

1 High-Throughput Whole Mount In Situ Hybridization of Zebrafish Embryos for Analysis of Tissue-Specific Gene Expression Changes After Environmental Perturbation / Louise E. Coverdale, Lindsay E. Burton, C. Cristofre Martin 3

2 Fluorescent RNA Arbitrarily Primed Polymerase Chain Reaction / Doug Crump, Suzanne Chiu, Vance L. Trudeau, Sean W. Kennedy 15

3 Isolation of O[subscript 3]-Response Genes from Arabidopsis thaliana Using cDNA Macroarray / Masanori Tamaoki 29

4 Use of cDNA Macroarrays and Gene Profiling for Detection of Effects of Environmental Toxicants / Jason L. Blum, Melinda S. Prucha, Vishal J. Patel, Nancy D. Denslow 43

5 Constructing and Screening a cDNA Library / Kevin Larade, Kenneth B. Storey 55

6 Comparative Molecular Physiological Genomics / Sean F. Eddy, Kenneth B. Storey 81

7 Proteomic Analysis of Neuroendocrine Peptidergic System Disruption Using the AtT20 Pituitary Cell Line as a Model / Fumin Dong, Liming Ma, Michel Chretien, Majambu Mbikay 111

8 Proteomics-Based Method for Risk Assessment of Peroxisome Proliferating Pollutants in the Marine Environment / Susana Cristobal 123

9 Environmental Metabolomics Using [superscript 1]H-NMR Spectroscopy / Mark R. Viant 137

Part II Detection of Whole Genome Mutation

10 Restriction Landmark Genome Scanning for the Detection of Mutations / Jun-ichi Asakawa 153

11 Use of the Comet Assay in Environmental Toxicology / Loren D. Knopper, James P. McNamee 171

12 The Micronucleus Assay Determination of Chromosomal Level DNA Damage / Michael Fenech 185

13 Fluorescence In Situ Hybridization for the Detection of Chromosome Aberrations and Aneuploidy Induced by Environmental Toxicants / Francesca Pacchierotti, Antonella Sgura 217

14 Laboratory Methods for the Detection of Chromosomal Structural Aberrations in Human and Mouse Sperm by Fluorescence In Situ Hybridization / Francesco Marchetti, Debby Cabreros, Andrew J. Wyrobek 241

Part III Determination of Species Diversity

15 Assembling DNA Barcodes / Jeremy R. deWaard, Natalia V. Ivanova, Mehrdad Hajibabaei, Paul D. N. Hebert 275

16 Application of Suppressive Subtractive Hybridization to Uncover the Metagenomic Diversity of Environmental Samples / Elizabeth A. Galbraith, Dionysios A. Antonopoulos, Bryan A. White 295

17 16S rRNA Targeted DGGE Fingerprinting of Microbial Communities / Vesela A. Tzeneva, Hans G. H. J. Heilig, Wilma Akkermans van Vliet, Antoon D. L. Akkermans, Willem M. de Vos, Hauke Smidt 335

18 An Emulsion Polymerase Chain Reaction-Based Method for Molecular Haplotyping / James G. Wetmur, Jia Chen 351.

Notes:

Includes bibliographical references and index.

ISBN:

9781588297778

1588297772

OCLC:

123798715