ID 57524
FullText URL
Author
Kondo, Hideki Institute of Plant Science and Resources (IPSR), Okayama University Kakenhi
Chiba, Sotaro Institute of Plant Science and Resources (IPSR)Okayama University
Suzuki, Nobuhiro Institute of Plant Science and Resources (IPSR), Okayama University Kakenhi publons
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 whole-genome 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.
Keywords
Pareovirology
Molecular fossil record
Non-retrovirus-like sequence
Database search
Whole-genome shotgun
Genomic PCR
Southern blotting
Phylogenetic analysis
Maximum-likelihood
Note
Methods in Molecular Biology v.1236
Published Date
2014-09-16
Publication Title
Plant Virology Protocols
Publisher
Humana Press
Start Page
73
End Page
88
NCID
BB17407557
Content Type
Book
File Version
author
PubMed ID
DOI
Related Url
isVersionOf https://doi.org/10.1007/978-1-4939-1743-3_7
Citation
Kondo H., Chiba S., Suzuki N. (2015) Detection and Analysis of Non-retroviral RNA Virus-Like Elements in Plant, Fungal, and Insect Genomes. In: Uyeda I., Masuta C. (eds) Plant Virology Protocols. Methods in Molecular Biology (Methods and Protocols), vol 1236. Humana Press, New York, NY
Funder Name
Ministry of Education, Culture, Sports, Science and Technology
助成番号
40263628
25252011