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Functional Metagenomics for Rhizospheric Soil in Agricultural Systems

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Microbial Genomics in Sustainable Agroecosystems

Abstract

The study of plant microbiota has been stimulated by recognizing the fundamental role that the genetic capacity of the associated microbial communities has to modulate the phenotypic expression of plants, which is crucial for its health, physiology, and productivity. All genes in a metagenome can be described by whole-metagenome shotgun sequencing, but it is time-consuming, and a high level of experience is required. Alternatively, the amplification and high-throughput sequencing of the16S-rRNA gene allow describing the microbial composition. Then functional activities can be inferred by listing the abundance of each gene. Also, the identification and the quantification of microbiome transcripts are now accessible to determine the profile and changes in gene expression occurring in a microbial community in response to environmental or experimental variations. Considering the beneficial role of microbial communities in soil environments, it is important increasing the understanding of plant-microbe relationships to provide biotechnological information for control and management with sustainable practices.

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Author information

Author notes

  1. Authors Estefanía Garibay-Valdez, Kadiya Calderón have been equally contributed to this chapter.

Authors and Affiliations

  1. Centro de Investigación en Alimentación y Desarrollo, A.C. Coordinación de Tecnología de Alimentos de Origen Animal, Hermosillo, Sonora, Mexico

    Estefanía Garibay-Valdez, Francisco Vargas-Albores & Marcel Martínez-Porchas

  2. Departamento de Investigaciones Científicas y Tecnológicas de la Universidad de Sonora, Universidad de Sonora, Hermosillo, Sonora, Mexico

    Kadiya Calderón & Luis Rafael Martínez-Córdova

  3. Centro de Investigación Científica y de Educción Superior de Ensenada, Ensenada, BC, Mexico

    Asunción Lago-Lestón

Authors
  1. Estefanía Garibay-Valdez
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  2. Kadiya Calderón
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  3. Francisco Vargas-Albores
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  4. Asunción Lago-Lestón
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  5. Luis Rafael Martínez-Córdova
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  6. Marcel Martínez-Porchas
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Corresponding authors

Correspondence to Kadiya Calderón or Marcel Martínez-Porchas .

Editor information

Editors and Affiliations

  1. Department of Molecular and Cellular Engineering, Jacob Institute of Biotechnology and Bioengineering, Sam Higginbottom University of Agriculture, Technology and Sciences, Prayagraj, Uttar Pradesh, India

    Vijay Tripathi

  2. Department of Forestry, North Eastern Regional Institute of Science and Technology (Deemed To Be University-MHRD), Itanagar, Arunachal Pradesh, India

    Pradeep Kumar

  3. Department of Computational Biology and Bioinformatics, Jacob Institute of Biotechnology and Bioengineering, Sam Higginbottom University of Agriculture, Technology and Sciences, Prayagraj, Uttar Pradesh, India

    Pooja Tripathi

  4. Department of Botany, Kamla Nehru P.G. College, Raebareli, Uttar Pradesh, India

    Amit Kishore

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Garibay-Valdez, E., Calderón, K., Vargas-Albores, F., Lago-Lestón, A., Martínez-Córdova, L.R., Martínez-Porchas, M. (2019). Functional Metagenomics for Rhizospheric Soil in Agricultural Systems. In: Tripathi, V., Kumar, P., Tripathi, P., Kishore, A. (eds) Microbial Genomics in Sustainable Agroecosystems. Springer, Singapore. https://doi.org/10.1007/978-981-13-8739-5_8

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