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The Oxford Nanopore MinION as a Versatile Technology for the Diagnosis and Characterization of Emerging Plant Viruses
The emergence of novel viral epidemics that could affect major crops represents a serious threat to global food security. The early and accurate...
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Discovery and Identification of Viruses Infecting Oomycetes
This chapter describes protocols suitable for the detection and identification of RNA viruses infecting oomycetes (so-called water molds of Kingdom...
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Detection of Plant Viruses Using Nanopore Sequencing Based Metagenomic Approach
Nanopore sequencing has proven to be a useful tool for the generic detection of plant viruses, especially in laboratories working with small number...
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Validation of High-Throughput Sequencing (HTS) for Routine Detection of Citrus Viruses and Viroids
The management of plant diseases relies on the accurate identification of pathogens that requires a robust and validated tool in terms of...
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Determination of the Mycovirome of a Necrotrophic Fungus
Next-generation sequencing (NGS) of total RNA has allowed the detection of novel viruses infecting different hosts, such as fungi, increasing our...
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Rescue of Infectious Salmon Anemia Virus (ISAV) from Cloned cDNA
The piscine orthomyxovirus called infectious salmon anemia virus (ISAV) is one of the most important emerging pathogens affecting the salmon industry...
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Reverse Genetics System for Rift Valley Fever Virus
Rift Valley fever virus (RVFV) is an important mosquito-borne virus that can cause severe disease manifestations in humans including ocular damage,...
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Reverse Genetics Systems for Filoviruses
Filoviruses are causative agents of severe hemorrhagic fevers with high case fatality rates in humans. For studies of virus biology and the...
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Cell Culture and Slide Preparation for Cytogenetic Studies of Hematological Neoplasms
Hematological neoplasms are heterogeneous diseases with various subtypes, each with its unique genomic features. Cell culture and slide preparation...
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Profiling Numerical and Structural Chromosomal Instability in Different Cancer Types
Many cancers display whole chromosome instability (W-CIN) and structural chromosomal instability (S-CIN), referring to increased rates of acquiring...
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Tracking Karyotype Changes in Treatment-Induced Drug-Resistant Evolution
Karyotype coding, which encompasses the complete chromosome sets and their topological genomic relationships within a given species, encodes...
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Optical Genome Map**: A Machine-Based Platform in Cytogenomics
Optical genome map** (OGM) has generated excitement following decades of research and development. Now, commercially available technical platforms...
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FISH-Banding for Characterization of Simple and Complex Chromosomal Rearrangements in Cancer
While interphase and metaphase-directed molecular cytogenetics is a standard technique in routine tumor (cyto)genetics, fluorescence in situ...
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The New Era of Cancer Cytogenetics and Cytogenomics
The promises of the cancer genome sequencing project, combined with various -omics technologies, have raised questions about the importance of cancer...
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Reverse Genetics of Zika Virus Using a Bacterial Artificial Chromosome
Zika virus (ZIKV) is a mosquito-borne member of the Flaviviridae family that has become a global threat to human health. Although ZIKV has been known...
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Optimized Recovery of Viral DNA and RNA from Blood Plasma for Viral Metagenomics
Metagenomics is vastly improving our ability to discover new viruses, as well as their possible associations with disease. However, metagenomics has...
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Exploration and Retrieval of Virus-Related Molecular Data Using ExTaxsI: The Monkeypox Use Case
Retrieval and visualization of biological data are essential for understanding complex systems. With the increasing volume of data generated from...
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Reverse Genetics of Bat Influenza A Viruses
New World fruit bats were recently found to harbor two distinct and previously unknown influenza A viruses (IAVs) of the subtypes H17N10 and H18N11....
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SARS-CoV-2 Detection and Genome Sequencing in Urban Wastewaters
Due to the excretion of SARS-CoV-2 in faeces, the use of wastewater-based epidemiology (WBE) is a useful tool for virus surveillance in large...
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From Whole Genome Shotgun Sequencing to Viral Community Profiling: The ViromeScan Tool
ViromeScan is an innovative metagenomic analysis tool that allows characterizing the taxonomy of viral communities from raw data of metagenomics...