Adaptation and Codon-Usage Preference of Apple and Pear-Infecting Apple Stem Grooving Viruses

Apple stem grooving virus (ASGV; genus Capillovirus) is an economically important virus. It has an approx. 6.5 kb, monopartite, linear, positive-sense, single-stranded RNA genome. The present study includes identification of 24 isolates—13 isolates from apple (Pyrus malus L.) and 11 isolates from pe...

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Autores principales: Kim, Jaedeok, Lal, Aamir, Kil, Eui-Joon, Kwak, Hae-Ryun, Yoon, Hwan-Su, Choi, Hong-Soo, Kim, Mikyeong, Ali, Muhammad, Lee, Sukchan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8223792/
https://www.ncbi.nlm.nih.gov/pubmed/34063757
http://dx.doi.org/10.3390/microorganisms9061111
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author Kim, Jaedeok
Lal, Aamir
Kil, Eui-Joon
Kwak, Hae-Ryun
Yoon, Hwan-Su
Choi, Hong-Soo
Kim, Mikyeong
Ali, Muhammad
Lee, Sukchan
author_facet Kim, Jaedeok
Lal, Aamir
Kil, Eui-Joon
Kwak, Hae-Ryun
Yoon, Hwan-Su
Choi, Hong-Soo
Kim, Mikyeong
Ali, Muhammad
Lee, Sukchan
author_sort Kim, Jaedeok
collection PubMed
description Apple stem grooving virus (ASGV; genus Capillovirus) is an economically important virus. It has an approx. 6.5 kb, monopartite, linear, positive-sense, single-stranded RNA genome. The present study includes identification of 24 isolates—13 isolates from apple (Pyrus malus L.) and 11 isolates from pear (Pyrus communis L.)—from different agricultural fields in South Korea. The coat protein (CP) gene of the corresponding 23 isolates were amplified, sequenced, and analyzed. The CP sequences showed phylogenetic separation based on their host species, and not on the geography, indicating host adaptation. Further analysis showed that the ASGV isolated in this study followed host adaptation influenced and preferred by the host codon-usage.
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spelling pubmed-82237922021-06-25 Adaptation and Codon-Usage Preference of Apple and Pear-Infecting Apple Stem Grooving Viruses Kim, Jaedeok Lal, Aamir Kil, Eui-Joon Kwak, Hae-Ryun Yoon, Hwan-Su Choi, Hong-Soo Kim, Mikyeong Ali, Muhammad Lee, Sukchan Microorganisms Article Apple stem grooving virus (ASGV; genus Capillovirus) is an economically important virus. It has an approx. 6.5 kb, monopartite, linear, positive-sense, single-stranded RNA genome. The present study includes identification of 24 isolates—13 isolates from apple (Pyrus malus L.) and 11 isolates from pear (Pyrus communis L.)—from different agricultural fields in South Korea. The coat protein (CP) gene of the corresponding 23 isolates were amplified, sequenced, and analyzed. The CP sequences showed phylogenetic separation based on their host species, and not on the geography, indicating host adaptation. Further analysis showed that the ASGV isolated in this study followed host adaptation influenced and preferred by the host codon-usage. MDPI 2021-05-21 /pmc/articles/PMC8223792/ /pubmed/34063757 http://dx.doi.org/10.3390/microorganisms9061111 Text en © 2021 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Kim, Jaedeok
Lal, Aamir
Kil, Eui-Joon
Kwak, Hae-Ryun
Yoon, Hwan-Su
Choi, Hong-Soo
Kim, Mikyeong
Ali, Muhammad
Lee, Sukchan
Adaptation and Codon-Usage Preference of Apple and Pear-Infecting Apple Stem Grooving Viruses
title Adaptation and Codon-Usage Preference of Apple and Pear-Infecting Apple Stem Grooving Viruses
title_full Adaptation and Codon-Usage Preference of Apple and Pear-Infecting Apple Stem Grooving Viruses
title_fullStr Adaptation and Codon-Usage Preference of Apple and Pear-Infecting Apple Stem Grooving Viruses
title_full_unstemmed Adaptation and Codon-Usage Preference of Apple and Pear-Infecting Apple Stem Grooving Viruses
title_short Adaptation and Codon-Usage Preference of Apple and Pear-Infecting Apple Stem Grooving Viruses
title_sort adaptation and codon-usage preference of apple and pear-infecting apple stem grooving viruses
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8223792/
https://www.ncbi.nlm.nih.gov/pubmed/34063757
http://dx.doi.org/10.3390/microorganisms9061111
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