Characterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus

Apple (<i>Malus domestica</i>) fruits exhibiting bright stripe symptoms were identified in Weihai City, Shandong Province, China. To investigate the virome in the apple samples, the method of high throughput sequencing (HTS) was used to identify the viruses. It was found that the sequenc...

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Autores principales:	Zhen Liu, Zhenfei Dong, Binhui Zhan, Shifang Li
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	citrus concave gum-associated virus apple virus coguvirus RT-RPA Botany QK1-989
Acceso en línea:	https://doaj.org/article/a4aa014ccd984721b74fd47b554a55be
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spelling	oai:doaj.org-article:a4aa014ccd984721b74fd47b554a55be2021-11-25T18:44:05ZCharacterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus10.3390/plants101122392223-7747https://doaj.org/article/a4aa014ccd984721b74fd47b554a55be2021-10-01T00:00:00Zhttps://www.mdpi.com/2223-7747/10/11/2239https://doaj.org/toc/2223-7747Apple (<i>Malus domestica</i>) fruits exhibiting bright stripe symptoms were identified in Weihai City, Shandong Province, China. To investigate the virome in the apple samples, the method of high throughput sequencing (HTS) was used to identify the viruses. It was found that the sequence of citrus concave gum-associated virus (CCGaV) was involved in the apple transcriptome dataset. The full-length genome of the CCGaV-Weihai isolate contained two segments, the RNA1 was 6674 nt in size containing a conserved RNA-dependent RNA polymerase (RdRp), and the RNA2 was ambisense, 2706 nt in length, encoding a movement protein (MP) and a coat protein (CP). Sequence alignment and phylogenetic analyses indicated that CCGaV-Weihai was more closely related to CCGaV-H2799 isolated from the apple host in the United States and distantly related to CCGaV-CGW2 from <i>Citrus sinensis</i> in Italy, indicating a possibly geographical and host differentiation of CCGaV isolates. This was the first identification and characterization of CCGaV infecting apples in China. Additionally, a rapid and sensitive reverse transcription recombinase polymerase amplification (RT-RPA) assay technique was established for CCGaV detection in apple plants. The RT-RPA of CCGaV was not affected by other common viruses in apple plants and is about 10-fold more sensitive than the conventional reverse transcription polymerase chain reaction method, which can be used in large-scale testing.Zhen LiuZhenfei DongBinhui ZhanShifang LiMDPI AGarticlecitrus concave gum-associated virusapple viruscoguvirusRT-RPABotanyQK1-989ENPlants, Vol 10, Iss 2239, p 2239 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	citrus concave gum-associated virus apple virus coguvirus RT-RPA Botany QK1-989
spellingShingle	citrus concave gum-associated virus apple virus coguvirus RT-RPA Botany QK1-989 Zhen Liu Zhenfei Dong Binhui Zhan Shifang Li Characterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus
description	Apple (<i>Malus domestica</i>) fruits exhibiting bright stripe symptoms were identified in Weihai City, Shandong Province, China. To investigate the virome in the apple samples, the method of high throughput sequencing (HTS) was used to identify the viruses. It was found that the sequence of citrus concave gum-associated virus (CCGaV) was involved in the apple transcriptome dataset. The full-length genome of the CCGaV-Weihai isolate contained two segments, the RNA1 was 6674 nt in size containing a conserved RNA-dependent RNA polymerase (RdRp), and the RNA2 was ambisense, 2706 nt in length, encoding a movement protein (MP) and a coat protein (CP). Sequence alignment and phylogenetic analyses indicated that CCGaV-Weihai was more closely related to CCGaV-H2799 isolated from the apple host in the United States and distantly related to CCGaV-CGW2 from <i>Citrus sinensis</i> in Italy, indicating a possibly geographical and host differentiation of CCGaV isolates. This was the first identification and characterization of CCGaV infecting apples in China. Additionally, a rapid and sensitive reverse transcription recombinase polymerase amplification (RT-RPA) assay technique was established for CCGaV detection in apple plants. The RT-RPA of CCGaV was not affected by other common viruses in apple plants and is about 10-fold more sensitive than the conventional reverse transcription polymerase chain reaction method, which can be used in large-scale testing.
format	article
author	Zhen Liu Zhenfei Dong Binhui Zhan Shifang Li
author_facet	Zhen Liu Zhenfei Dong Binhui Zhan Shifang Li
author_sort	Zhen Liu
title	Characterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus
title_short	Characterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus
title_full	Characterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus
title_fullStr	Characterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus
title_full_unstemmed	Characterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus
title_sort	characterization of an isolate of citrus concave gum-associated virus from apples in china and development of an rt-rpa assay for the rapid detection of the virus
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/a4aa014ccd984721b74fd47b554a55be
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Characterization of an Isolate of Citrus Concave Gum-Associated Virus from Apples in China and Development of an RT-RPA Assay for the Rapid Detection of the Virus

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