Functional analysis of the stem-loop structures at the 5′ end of the Aichi virus genome

Shigeo Nagashima, Jun Sasaki, Koki Taniguchi

Research output: Contribution to journalArticle

13 Citations (Scopus)

Abstract

Aichi virus is a member of the family Picornaviridae. Computer-assisted secondary structure prediction suggested the formation of three stem-loop structures (SL-A, SL-B, and SL-C from the 5′ end) within the 5′-end 120 nucleotides of the genome. We have already shown that the most 5′-end stem-loop, SL-A, is critical for viral RNA replication. Here, using an infectious cDNA clone and a replicon harboring a luciferase gene, we revealed that formation of SL-B and SL-C on the positive strand is essential for viral RNA replication. In addition, the specific nucleotide sequence of the loop segment of SL-B was also shown to be critical for viral RNA replication. Mutations of the upper and lower stems of SL-C that do not disrupt the base-pairings hardly affected RNA replication, but decreased the yields of viable viruses significantly compared with for the wild-type. This suggests that SL-C plays a role at some step besides RNA replication during virus infection.

Original languageEnglish
Pages (from-to)56-65
Number of pages10
JournalVirology
Volume313
Issue number1
DOIs
Publication statusPublished - 15-08-2003

Fingerprint

Kobuvirus
Viral RNA
Genome
RNA
Picornaviridae
Replicon
Virus Diseases
Luciferases
Base Pairing
Nucleotides
Complementary DNA
Clone Cells
Viruses
Mutation
Genes

All Science Journal Classification (ASJC) codes

  • Virology

Cite this

Nagashima, Shigeo ; Sasaki, Jun ; Taniguchi, Koki. / Functional analysis of the stem-loop structures at the 5′ end of the Aichi virus genome. In: Virology. 2003 ; Vol. 313, No. 1. pp. 56-65.
@article{a027d03573394caeb819a0a5d5458208,
title = "Functional analysis of the stem-loop structures at the 5′ end of the Aichi virus genome",
abstract = "Aichi virus is a member of the family Picornaviridae. Computer-assisted secondary structure prediction suggested the formation of three stem-loop structures (SL-A, SL-B, and SL-C from the 5′ end) within the 5′-end 120 nucleotides of the genome. We have already shown that the most 5′-end stem-loop, SL-A, is critical for viral RNA replication. Here, using an infectious cDNA clone and a replicon harboring a luciferase gene, we revealed that formation of SL-B and SL-C on the positive strand is essential for viral RNA replication. In addition, the specific nucleotide sequence of the loop segment of SL-B was also shown to be critical for viral RNA replication. Mutations of the upper and lower stems of SL-C that do not disrupt the base-pairings hardly affected RNA replication, but decreased the yields of viable viruses significantly compared with for the wild-type. This suggests that SL-C plays a role at some step besides RNA replication during virus infection.",
author = "Shigeo Nagashima and Jun Sasaki and Koki Taniguchi",
year = "2003",
month = "8",
day = "15",
doi = "10.1016/S0042-6822(03)00346-5",
language = "English",
volume = "313",
pages = "56--65",
journal = "Virology",
issn = "0042-6822",
publisher = "Academic Press Inc.",
number = "1",

}

Functional analysis of the stem-loop structures at the 5′ end of the Aichi virus genome. / Nagashima, Shigeo; Sasaki, Jun; Taniguchi, Koki.

In: Virology, Vol. 313, No. 1, 15.08.2003, p. 56-65.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Functional analysis of the stem-loop structures at the 5′ end of the Aichi virus genome

AU - Nagashima, Shigeo

AU - Sasaki, Jun

AU - Taniguchi, Koki

PY - 2003/8/15

Y1 - 2003/8/15

N2 - Aichi virus is a member of the family Picornaviridae. Computer-assisted secondary structure prediction suggested the formation of three stem-loop structures (SL-A, SL-B, and SL-C from the 5′ end) within the 5′-end 120 nucleotides of the genome. We have already shown that the most 5′-end stem-loop, SL-A, is critical for viral RNA replication. Here, using an infectious cDNA clone and a replicon harboring a luciferase gene, we revealed that formation of SL-B and SL-C on the positive strand is essential for viral RNA replication. In addition, the specific nucleotide sequence of the loop segment of SL-B was also shown to be critical for viral RNA replication. Mutations of the upper and lower stems of SL-C that do not disrupt the base-pairings hardly affected RNA replication, but decreased the yields of viable viruses significantly compared with for the wild-type. This suggests that SL-C plays a role at some step besides RNA replication during virus infection.

AB - Aichi virus is a member of the family Picornaviridae. Computer-assisted secondary structure prediction suggested the formation of three stem-loop structures (SL-A, SL-B, and SL-C from the 5′ end) within the 5′-end 120 nucleotides of the genome. We have already shown that the most 5′-end stem-loop, SL-A, is critical for viral RNA replication. Here, using an infectious cDNA clone and a replicon harboring a luciferase gene, we revealed that formation of SL-B and SL-C on the positive strand is essential for viral RNA replication. In addition, the specific nucleotide sequence of the loop segment of SL-B was also shown to be critical for viral RNA replication. Mutations of the upper and lower stems of SL-C that do not disrupt the base-pairings hardly affected RNA replication, but decreased the yields of viable viruses significantly compared with for the wild-type. This suggests that SL-C plays a role at some step besides RNA replication during virus infection.

UR - http://www.scopus.com/inward/record.url?scp=0042389497&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=0042389497&partnerID=8YFLogxK

U2 - 10.1016/S0042-6822(03)00346-5

DO - 10.1016/S0042-6822(03)00346-5

M3 - Article

C2 - 12951021

AN - SCOPUS:0042389497

VL - 313

SP - 56

EP - 65

JO - Virology

JF - Virology

SN - 0042-6822

IS - 1

ER -