Detection and analysis of non-retroviral rna virus-like elements in plant, Fungal, And insect genomes

Research output: Contribution to journalArticle

13 Citations (Scopus)

Abstract

Endogenous non-retroviral RNA like sequences (NRVSs) have been discovered in the genome of a wide range of eukaryotes. These are considered as fossil RNA viral elements integrated into host genomes by as-yet-known mechanisms, and in many cases, those fossils are estimated to be millions-of-years-old. It is likely that the number of NRVS records will increase rapidly due to the growing availability of wholegenome sequences for many kinds of eukaryotes. Discovery of the novel NRVSs and understanding of their phylogenetic relationship with modern viral relatives provide important information on deep evolutionary history of RNA virus–host interactions. In this chapter, therefore, the common strategies for the identification and characterization of endogenous NRVSs from plants, insects, and fungi are described.

Original languageEnglish
Pages (from-to)73-88
Number of pages16
JournalMethods in Molecular Biology
Volume1236
DOIs
Publication statusPublished - 2015
Externally publishedYes

Fingerprint

Insect Genome
Fungal Genome
Plant Genome
RNA Viruses
Eukaryota
Genome
Viral RNA
Insects
Fungi
RNA

Keywords

  • Database search
  • Genomic PCR
  • Maximum-likelihood
  • Molecular fossil record
  • Non-retrovirus-like sequence
  • Paleovirology
  • Phylogenetic analysis
  • Southern blotting
  • Wholegenome shotgun

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics
  • Medicine(all)

Cite this

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abstract = "Endogenous non-retroviral RNA like sequences (NRVSs) have been discovered in the genome of a wide range of eukaryotes. These are considered as fossil RNA viral elements integrated into host genomes by as-yet-known mechanisms, and in many cases, those fossils are estimated to be millions-of-years-old. It is likely that the number of NRVS records will increase rapidly due to the growing availability of wholegenome sequences for many kinds of eukaryotes. Discovery of the novel NRVSs and understanding of their phylogenetic relationship with modern viral relatives provide important information on deep evolutionary history of RNA virus–host interactions. In this chapter, therefore, the common strategies for the identification and characterization of endogenous NRVSs from plants, insects, and fungi are described.",
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