Cargando…

High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis

Paris spp. are important medicinal plant and main raw material for many Chinese patent medicines, but viral diseases have became serious problems in cultivation of this group of important medicinal plants in China. In this study, eight viruses were identified in the diseased plants of Paris yunnanen...

Descripción completa

Detalles Bibliográficos
Autores principales: Lan, Ping-xiu, He, Peng, Yang, Jie, Zhou, Guo-hua, Chen, Xiao-jiao, Wei, Tai-yun, Li, Chen-rong, Gu, Rong, Li, Ruhui, Li, Fan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9795479/
https://www.ncbi.nlm.nih.gov/pubmed/36590431
http://dx.doi.org/10.3389/fmicb.2022.1045750
_version_ 1784860270907097088
author Lan, Ping-xiu
He, Peng
Yang, Jie
Zhou, Guo-hua
Chen, Xiao-jiao
Wei, Tai-yun
Li, Chen-rong
Gu, Rong
Li, Ruhui
Li, Fan
author_facet Lan, Ping-xiu
He, Peng
Yang, Jie
Zhou, Guo-hua
Chen, Xiao-jiao
Wei, Tai-yun
Li, Chen-rong
Gu, Rong
Li, Ruhui
Li, Fan
author_sort Lan, Ping-xiu
collection PubMed
description Paris spp. are important medicinal plant and main raw material for many Chinese patent medicines, but viral diseases have became serious problems in cultivation of this group of important medicinal plants in China. In this study, eight viruses were identified in the diseased plants of Paris yunnanensis by high-throughput sequencing (HTS) and RT–PCR. These viruses include three novel viruses (two potyviruses and one nepovirus), Hippeastrum chlorotic ringspot virus (HCRV), Lychnis mottle virus (LycMoV), Paris mosaic necrosis virus (PMNV), Paris virus 1 and pepper mild mottle virus. The three new viruses were tentatively named Paris potyvirus 3 (ParPV-3), Paris potyvirus 4 (ParPV-4), Paris nepovirus 1 (ParNV-1) and their complete genome sequences were determined. Sequence analyses showed ParPV-3 and ParPV-4 shared the highest amino acid (aa) sequence identities of 54.3% to each other and 53.0–57.8% to other known potyviruses. ParNV-1 had aa sequence identities of 28.8–63.7% at protease-polymerase (Pro-Pol) with other nepoviruses. Phylogenetic analyses further support that the three viruses are new members of their corresponding genera. Analyses of the partial sequences of HCRV and LycMoV infecting P. yunnanensis revealed they diverged from existing isolates by aa sequence identities of 97.1% at glycoprotein precursor of HCRV and 93.3% at polyprotein of LycMoV. These two viruses are reported for the first time in Paris spp. A total of 123 field samples collected from P. yunnanensis in four counties of Yunnan, Southwest China were tested by RT–PCR for detecting each of the eight viruses. Results showed that nearly half of the samples were positive for at least one of the eight viruses. Two potyviruses, ParPV-3 (26.8%) and PMNV (24.4%), were predominant and widely distributed in the fields, while other viruses occurred in low rates and/or had limited distribution. This study insights into the virome infecting P. yunnanensis and provides valuable information for diagnosis and control of viral diseases in P. yunnanensis.
format Online
Article
Text
id pubmed-9795479
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-97954792022-12-29 High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis Lan, Ping-xiu He, Peng Yang, Jie Zhou, Guo-hua Chen, Xiao-jiao Wei, Tai-yun Li, Chen-rong Gu, Rong Li, Ruhui Li, Fan Front Microbiol Microbiology Paris spp. are important medicinal plant and main raw material for many Chinese patent medicines, but viral diseases have became serious problems in cultivation of this group of important medicinal plants in China. In this study, eight viruses were identified in the diseased plants of Paris yunnanensis by high-throughput sequencing (HTS) and RT–PCR. These viruses include three novel viruses (two potyviruses and one nepovirus), Hippeastrum chlorotic ringspot virus (HCRV), Lychnis mottle virus (LycMoV), Paris mosaic necrosis virus (PMNV), Paris virus 1 and pepper mild mottle virus. The three new viruses were tentatively named Paris potyvirus 3 (ParPV-3), Paris potyvirus 4 (ParPV-4), Paris nepovirus 1 (ParNV-1) and their complete genome sequences were determined. Sequence analyses showed ParPV-3 and ParPV-4 shared the highest amino acid (aa) sequence identities of 54.3% to each other and 53.0–57.8% to other known potyviruses. ParNV-1 had aa sequence identities of 28.8–63.7% at protease-polymerase (Pro-Pol) with other nepoviruses. Phylogenetic analyses further support that the three viruses are new members of their corresponding genera. Analyses of the partial sequences of HCRV and LycMoV infecting P. yunnanensis revealed they diverged from existing isolates by aa sequence identities of 97.1% at glycoprotein precursor of HCRV and 93.3% at polyprotein of LycMoV. These two viruses are reported for the first time in Paris spp. A total of 123 field samples collected from P. yunnanensis in four counties of Yunnan, Southwest China were tested by RT–PCR for detecting each of the eight viruses. Results showed that nearly half of the samples were positive for at least one of the eight viruses. Two potyviruses, ParPV-3 (26.8%) and PMNV (24.4%), were predominant and widely distributed in the fields, while other viruses occurred in low rates and/or had limited distribution. This study insights into the virome infecting P. yunnanensis and provides valuable information for diagnosis and control of viral diseases in P. yunnanensis. Frontiers Media S.A. 2022-12-14 /pmc/articles/PMC9795479/ /pubmed/36590431 http://dx.doi.org/10.3389/fmicb.2022.1045750 Text en Copyright © 2022 Lan, He, Yang, Zhou, Chen, Wei, Li, Gu, Li and Li. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Lan, Ping-xiu
He, Peng
Yang, Jie
Zhou, Guo-hua
Chen, Xiao-jiao
Wei, Tai-yun
Li, Chen-rong
Gu, Rong
Li, Ruhui
Li, Fan
High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis
title High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis
title_full High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis
title_fullStr High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis
title_full_unstemmed High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis
title_short High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis
title_sort high-throughput sequencing reveals the presence of novel and known viruses in diseased paris yunnanensis
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9795479/
https://www.ncbi.nlm.nih.gov/pubmed/36590431
http://dx.doi.org/10.3389/fmicb.2022.1045750
work_keys_str_mv AT lanpingxiu highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT hepeng highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT yangjie highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT zhouguohua highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT chenxiaojiao highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT weitaiyun highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT lichenrong highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT gurong highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT liruhui highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis
AT lifan highthroughputsequencingrevealsthepresenceofnovelandknownvirusesindiseasedparisyunnanensis