Functional microbiomes Volume 67 /

Bibliographic Details
Call Number:Libro Electrónico
Format: Electronic eBook
Language:Inglés
Published: [Place of publication not identified] : Academic Press, 2022.
Series:Advances in ecological research ; v. 67.
Subjects:
Microorganisms > Behavior.
Micro-organismes > M�urs et comportement.
Microorganisms > Behavior
Online Access:Texto completo
Table of Contents:
  • Intro
  • Functional Microbiomes
  • Copyright
  • Contents
  • Contributors
  • Preface: Functional Microbiomes
  • Chapter One: Linking microbial body size to community co-occurrences and stability at multiple geographical scales in agr ...
  • 1. Introduction
  • 2. Methods
  • 2.1. Sample sites and data collection
  • 2.2. Molecular methods, metabarcoding and bioinformatics
  • 2.3. Determination of microbial body sizes
  • 2.4. Statistical analysis
  • 3. Results
  • 3.1. Inferring microbial community structure and body size
  • 3.2. Microbial niche breadth, niche overlap, and migration rate
  • 3.3. Co-occurrence patterns of different microbial groups
  • 3.4. Cohesion of differently sized microorganisms
  • 3.5. Community stability of differently sized microorganisms
  • 4. Discussion
  • 5. Data accessibility statement
  • Acknowledgements
  • References
  • Chapter Two: The functional microbiome of grapevine throughout plant evolutionary history and lifetime
  • 1. Introduction
  • 2. The grapevine functional microbiome throughout evolutionary history
  • 2.1. Microbiome evolution during grapevine domestication and breeding
  • 2.2. Microbial interactions in the centre of origin of major grapevine pathogens
  • 2.3. Microbial dispersal across geographic regions and Vitis species
  • 3. The grapevine functional microbiome throughout plant lifetime
  • 3.1. Initial microbiome and virome at the graft stage
  • 3.2. Recruitment of the root microbiome from the soil reservoir
  • 3.3. Seasonal assembly of the leaf microbiome in interaction with leaf pathogens
  • 3.4. Dynamics of the berry microbiome to ripening and winemaking
  • 3.5. Wood microbiome dysbiosis during grapevine aging and decline
  • 4. Let�s make the grapevine microbiome more functional
  • 4.1. Field sampling designs and statistical approaches to identify beneficial microbial taxa.
  • Question #1: How to identify microbial taxa enhancing plant tolerance to drought or providing a barrier effect against micr ...
  • 4.2. Molecular tools to uncover the functional potential of the microbiome
  • Question #2: How to characterise the functional potential of the grapevine microbiome with shotgun metagenomics?
  • Question #3: How to decipher the functional coupling between grapevine and its microbiome with quantitative approaches?
  • 4.3. Computational approaches to understand the grapevine holobiont as a functional and dynamic network
  • Question #4: How to identify and characterise ecological interactions between grapevine-associated microorganisms using met ...
  • Question #5: How to decipher metabolic interactions within the grapevine microbiome using shotgun metagenomics?
  • Question #6: How to infer microbial interactions shaping microbiome dynamics from time-series?
  • 4.4. Culture-dependent approaches to validate microbial interactions and functions
  • Question #7: How to isolate and culture microorganisms from the grapevine microbiome to study their functions and their int ...
  • 5. Conclusion and perspectives
  • Acknowledgements
  • References
  • Chapter Three: Compendium of analytical methods for sampling, characterization and quantification of bioaerosols
  • 1. Introduction
  • 2. Air sampling methods
  • 2.1. Active vs passive sampling
  • 2.1.1. Overview of active sampling systems
  • 2.1.2. Overview of passive sampling systems
  • 2.2. Which air sampling method is best for cultivation or molecular analyses?
  • 2.3. Which air sampling method is best for which biological particle?
  • 2.3.1. Fungi
  • 2.3.2. Bacteria
  • 2.3.3. Archaea
  • 2.3.4. Viruses
  • 2.3.5. The air resistome
  • 2.3.6. Pollen, endotoxins, and other allergens
  • 2.4. Additional sampling considerations.
  • 4.3.2. Waste-processing environments
  • 4.3.2.1. Wastewater treatment plant (WWTP)
  • 4.3.2.2. Composting facilities
  • 4.3.3. Agriculture/farming/food production
  • 4.3.3.1. Poultry farms
  • 4.3.3.2. Dairy farms
  • 4.3.3.3. Slaughterhouse
  • 4.3.4. Clinical settings
  • 4.3.4.1. Hospitals and healthcare settings
  • 4.3.4.2. Dentists
  • 4.3.4.3. Podiatry
  • 4.4. Summary of sampling and analysis methods to assess exposure and risk
  • 4.5. Recommendations and guidelines for assessment of exposure and human health risk
  • 5. Conclusions and future perspectives
  • Acknowledgements
  • List of contributors
  • References
  • Chapter Four: A microbial solution to oil sand pollution: Understanding the microbiomes, metabolic pathways and mechanism ...
  • 1. Introduction
  • 1.1. The challenges with naphthenic acids (NAs)
  • 2. Natural vs anthropogenic naphthenic acid (NA) exposed microbiomes
  • 2.1. Natural exposed microbiomes: Freshwater sediments
  • 2.1.1. Lotic systems (river sediments)
  • 2.1.2. Lentic systems (wetland sediments)
  • 2.2. Groundwaters
  • 2.3. Marine ecosystems
  • 2.4. Bitumen saturated outcrop deposits
  • 2.5. Deep oil sand deposits
  • 3. Anthropogenic naphthenic acid (NA) contaminated microbiomes
  • 3.1. Oil sand tailings ponds (OSTPs)
  • 3.2. Oil sands process affected water (OSPW)
  • 3.3. Mature fine tailings (MFT)
  • 3.4. End pit lakes (EPLs) and reclaimed ponds
  • 3.5. Biofilms, bioreactors and biofilters
  • 4. Biodegradation of naphthenic acids (NAs)
  • 4.1. Factors affecting naphthenic acid (NA) biodegradation rates
  • 4.2. Aerobic vs anaerobic biodegradation of naphthenic acids (NAs)
  • 4.3. Naphthenic acid (NA)-degrading microorganisms
  • 4.4. Metabolic pathways of naphthenic acid (NA) biodegradation
  • 4.5. Mechanisms involved in naphthenic acid (NA) biodegradation and detoxification
  • 5. Conclusions
  • 6. Future perspectives.

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