05440nam 2200673 450 991082433300332120230911131902.01-908230-94-0(CKB)2670000000427902(EBL)1909045(SSID)ssj0001165035(PQKBManifestationID)11684901(PQKBTitleCode)TC0001165035(PQKBWorkID)11198017(PQKB)10563724(MiAaPQ)EBC1909045(MiAaPQ)EBC5897786(Au-PeEL)EBL5897786(OCoLC)861536777(EXLCZ)99267000000042790220191011d2014 uy 0engur|n|---|||||txtccrOmics in soil science /edited by Paolo Nannipieri, Giacomo Pietramellara and Giancarlo Renella, Department of Agrifood Production and Environmental Sciences, University of Florence, ItalyNorfolk, England :Caister Academic Press,[2014]©20141 online resource (210 p.)Description based upon print version of record.1-908230-32-0 Includes bibliographical references and index.Contents; Contributors; Preface; 1: Soil as a Biological System; Introduction; Main characteristics of soil as a biological system; Soil biota and their functions in soil; Microbial diversity, soil functions and the holistic approach; The omics approaches in soil; 2: Functional Genomics Analysis of Key Bacterial Traits Involved in Rhizosphere Competence; Introduction; Bacterial species specifically selected by the rhizosphere; Bacterial functions enriched in the rhizosphere; Motility and chemotaxis: early phase traits required for rhizocompetenceMicrobial growth in the rhizosphere: the contribution and relevance of central metabolismDenitrification: a promising model linking microbial metabolic flexibility and community structure; Surviving in the rhizosphere: the relevance of stress and detoxification traits; Secretion systems: important functional traits involved in rhizosphere competence; Secondary metabolism: specialized functions involved in competitive rhizosphere fitness; Conclusions and future directions; 3: Soil Metagenomics - Potential Applications and Methodological Problems; IntroductionMetagenomics for fostering our understanding of soil habitatsA case study - the metagenomics assessment of the chitinolytic process in soil; Metagenomics for bioexploration; The search for novel chitin-degrading enzymes - a case study; Outlook; 4: Screening Phylogenetic and Functional Marker Genes in Soil Microbial Ecology; Introduction; Marker genes as biomarkers; Phylogenetic and functional marker genes; Methodologies for marker gene screening in soil samples; Primer and probe designing (non-protein-coding sequences and protein-coding sequences) strategiesExperimental design for screening of the bacterial 16S rDNA marker gene with short read producing high-throughput sequencing technologiesConcluding remarks and potentials; 5: Soil Metatranscriptomics; Introduction; The experimental and bioinformatic workflow; Recent achievements in metatranscriptomics; Conclusions and outlook; 6: Soil Proteomics; Introduction; Soil proteomics; Specificity of soil proteomics; Conclusions; 7: Soil Volatile Organic Compounds as Tracers for Microbial Activities in Soils; Introduction; Soil smells?; Volatiles produced by microorganisms; Volatiles from plant rootsMicrobial volatiles affecting plant growthDegradation of VOCs; Retention, emission and measurement; Methods of VOC measurement; Microbial mass products; Conclusions; 8: Proteogenomics: A New Integrative Approach for a Better Description of Protein Diversity; Introduction; The current proteomic tools and approaches; Genome annotation of soil microflora gains in number but not in quality; Proteogenomics, mapping proteome data onto genome sequence; N-terminomics, new tools for an avalanche of results.; Contribution of proteogenomics to a better assessment of soil microflora; Concluding remarks9: Analysis of Soil Metagenomes using the MEtaGenome ANalyser (MEGAN)Soil is a unique biological system with an abundant microflora and a very high microbial diversity capable of performing multiple key ecosystem functions. The detection of genes in soil has improved the knowledge of unculturable microorganisms and led to a greater understanding of potential soil metabolic pathways. Further advances in understanding soil functionality are being realized by harnessing omics technologies, such as metagenomics, metatranscriptomics, proteomics, and volatilomics. The next challenge of systems biology and functional genomics is to integrate the information from omicRhizosphereSoil biochemistrySoil microbiologySoilsRhizosphere.Soil biochemistry.Soil microbiology.Soils.631.4Nannipieri PaoloRenella GiancarloPietramellara GiacomoMiAaPQMiAaPQMiAaPQBOOK9910824333003321Omics in soil science4083154UNINA