Metagenomics: Methods, Applications and Perspectives

Camilla Benedetti (Editor)

Series: Microbiology Research Advances
BISAC: SCI045000

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Special issue: Resilience in breaking the cycle of children’s environmental health disparities
Edited by I Leslie Rubin, Robert J Geller, Abby Mutic, Benjamin A Gitterman, Nathan Mutic, Wayne Garfinkel, Claire D Coles, Kurt Martinuzzi, and Joav Merrick

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Metagenomic analysis has extraordinary potential to improve our understanding of microbial populations in their natural environment and identify novel genes of interest. The key feature of such analyses is that they are performed using metagenomic libraries constructed from total DNA isolated from a particular niche rather than a laboratory culture.

Thus, metagenomic analyses potentially allow access to all the genetic resources present in an environment, regardless of whether or not they belong to microorganisms that can be cultured in the laboratory. Sequence-based metagenomic analyses rely on comparisons with databases of known genomic sequences whilst functional analyses rely on screening libraries on the basis of the phenotypes cloned DNA can confer to host bacteria. Therefore, functional analysis allows the identification of novel genes with functions that could not have been predicted from their DNA sequence. This book discusses metagenomics’ methods, applications and perspectives. (Imprint: Nova)

Preface

Chapter 1 - Potential and Limitations of Metagenomic Functional Analyses (pp. 1-44)
Laura Terrón-González, Olga Genilloud and Eduardo Santero (Centro Andaluz de Biología del Desarrollo, University Pablo de Olavide/CSIC/Junta de Andalucía, Sevilla, Spain, and others)

Chapter 2 - Metagenomics: Library Construction and Screening Methods (pp. 45-66)
Roberto S. Dias, Lívia C. F. Silva, Monique R. Eller, Valéria M. Oliveira, Sergio O. DE Paula and Cynthia C. Silva (Laboratório de Imunovirologia Molecular, Departamento de Biologia Geral; Universidade Federal de Viçosa, Viçosa, MG, Brazil, and others)

Chapter 3 - The Use of Ion Torrent PGM for Bacterial Diversity Analyses: The Study Case of Five Brazilian Hydroelectric Reservoirs (pp. 67-86)
Diego Assis das Graças, Rafael Azevedo Baraúna, Luciano Chaves Franco, Tiago Ferreira Leão, Pablo Henrique Caracciolo Gomes de Sá, Adonney Allan de Oliveira Veras, Adriana Ribeiro Carneiro, Jaqueline Meireles, Kenny da Costa Pinheiro, Artur Luiz da Costa da Silva and Rommel Thiago Jucá Ramos (Federal University of Pará, Institute of Biological Sciences, Laboratório de Polimorfismo de DNA – Belém, Pará, Brazil)

Chapter 4 - Metagenomic Profiling for Assessing Environmental Healthy (pp. 87-98)
Felipe H. Coutinho, João Victor R. Ferreira, Andressa S. Silva, Ida Carolina N. Direito, Denise M. M. Pessoa and Alexander M. Cardoso (Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil, and others)

Chapter 5 - Mining Novel Genes and Enzymes of Uncultured Eukaryotic Microorganisms by an RNA-Based Approach (pp. 99-114)
Nobutada Kimura (Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, Japan)

Chapter 6 - Developments in the Retrieval of Novel Biocatalysts by Metagenomic Approaches (pp. 115-136)
Digvijay Verma and T. Satyanarayana (Department of Microbiology, University of Delhi South Campus, Benito Juarez Road, New Delhi, India)

Chapter 7 - Isolation of Soil Metagenomic DNA: Challenges and Solutions (pp. 137-156)
Sonia Sharma, Kailash Narayan Bhardwaj, Sangeeta Pandey and Ramesh Chander Kuhad (Lignocellulose Biotechnology Laboratory, Department of Microbiology, University of Delhi South Campus, Benito Juarez Road, New Delhi, India, and others)

Chapter 8 - Microbial Exploration in Extreme Conditions: Metagenomic Analysis and Future Perspectives (pp. 157-182)
S. Ramganesh, A. T. Maredza and M. Tekere (University of South Africa, Department of Environmental Sciences, Florida, South Africa, and others)

Index

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