↓ Skip to main content

Viral Metagenomics

Overview of attention for book
Cover of 'Viral Metagenomics'

Table of Contents

  1. Altmetric Badge
    Book Overview
  2. Altmetric Badge
    Chapter 1 Host-Associated Bacteriophage Isolation and Preparation for Viral Metagenomics
  3. Altmetric Badge
    Chapter 2 Small RNA Isolation from Tissues of Grapevine and Woody Plants
  4. Altmetric Badge
    Chapter 3 Double-Stranded RNA-Enriched Preparations to Identify Viroids by Next-Generation Sequencing
  5. Altmetric Badge
    Chapter 4 Viral Double-Stranded RNAs (dsRNAs) from Plants: Alternative Nucleic Acid Substrates for High-Throughput Sequencing
  6. Altmetric Badge
    Chapter 5 Workup of Human Blood Samples for Deep Sequencing of HIV-1 Genomes
  7. Altmetric Badge
    Chapter 6 Monolith Chromatography as Sample Preparation Step in Virome Studies of Water Samples
  8. Altmetric Badge
    Chapter 7 Viral Metagenomics Approaches for High-Resolution Screening of Multiplexed Arthropod and Plant Viral Communities
  9. Altmetric Badge
    Chapter 8 Different Approaches to Discover Mycovirus Associated to Marine Organisms
  10. Altmetric Badge
    Chapter 9 Use of siRNAs for Diagnosis of Viruses Associated to Woody Plants in Nurseries and Stock Collections
  11. Altmetric Badge
    Chapter 10 The Use of High-Throughput Sequencing for the Study and Diagnosis of Plant Viruses and Viroids in Pollen
  12. Altmetric Badge
    Chapter 11 High-Resolution Screening of Viral Communities and Identification of New Pathogens in Fish Using Next-Generation Sequencing
  13. Altmetric Badge
    Chapter 12 Metagenomic Analyses of the Viruses Detected in Mycorrhizal Fungi and Their Host Orchid
  14. Altmetric Badge
    Chapter 13 DNA Multiple Sequence Alignment Guided by Protein Domains: The MSA-PAD 2.0 Method
  15. Altmetric Badge
    Chapter 14 From Whole-Genome Shotgun Sequencing to Viral Community Profiling: The ViromeScan Tool
  16. Altmetric Badge
    Chapter 15 Shannon Entropy to Evaluate Substitution Rate Variation Among Viral Nucleotide Positions in Datasets of Viral siRNAs
  17. Altmetric Badge
    Chapter 16 Insect Virus Discovery by Metagenomic and Cell Culture-Based Approaches
Attention for Chapter 6: Monolith Chromatography as Sample Preparation Step in Virome Studies of Water Samples
Altmetric Badge

Citations

dimensions_citation
4 Dimensions

Readers on

mendeley
17 Mendeley
You are seeing a free-to-access but limited selection of the activity Altmetric has collected about this research output. Click here to find out more.
Chapter title
Monolith Chromatography as Sample Preparation Step in Virome Studies of Water Samples
Chapter number 6
Book title
Viral Metagenomics
Published in
Methods in molecular biology, January 2018
DOI 10.1007/978-1-4939-7683-6_6
Pubmed ID
Book ISBNs
978-1-4939-7682-9, 978-1-4939-7683-6
Authors

Ion Gutiérrez-Aguirre, Denis Kutnjak, Nejc Rački, Matevž Rupar, Maja Ravnikar

Abstract

Viruses exist in aquatic media and many of them use this media as transmission route. Next-generation sequencing (NGS) technologies have opened new doors in virus research, allowing also to reveal a hidden diversity of viral species in aquatic environments. Not surprisingly, many of the newly discovered viruses are found in environmental fresh and marine waters. One of the problems in virome research can be the low amount of viral nucleic acids present in the sample in contrast to the background ones (host, eukaryotic, prokaryotic, environmental). Therefore, virus enrichment prior to NGS is necessary in many cases. In water samples, an added problem resides in the low concentration of viruses typically present in aquatic media. Different concentration strategies have been used to overcome such limitations. CIM monoliths are a new generation of chromatographic supports that due to their particular structural characteristics are very efficient in concentration and purification of viruses. In this chapter, we describe the use of CIM monolithic chromatography for sample preparation step in NGS studies targeting viruses in fresh or marine water. The step-by-step protocol will include a case study where CIM concentration was used to study the virome of a wastewater sample using NGS.

Mendeley readers

The data shown below were compiled from readership statistics for 17 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 17 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 4 24%
Other 2 12%
Student > Master 2 12%
Researcher 2 12%
Lecturer 1 6%
Other 2 12%
Unknown 4 24%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 5 29%
Agricultural and Biological Sciences 5 29%
Immunology and Microbiology 1 6%
Unknown 6 35%