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Article ; Online: Production of Double-Stranded RNA in Planta by a Potato Mop-Top Virus (PMTV)-Based Vector for Inducing Gene Silencing.

Liu, Ye / Gao, Yanlin / Cheng, Xiaofei / Bai, Yanju

Methods in molecular biology (Clifton, N.J.)

2024 Volume 2771, Page(s) 119–126

Abstract: RNA silencing (also known as gene silencing) is an evolutionary conserved mechanism that is involved in regulating gene expression, suppressing mobile elements, and defensing virus infection. RNA silencing is triggered by double-stranded RNA via Dicer or ...

Abstract	RNA silencing (also known as gene silencing) is an evolutionary conserved mechanism that is involved in regulating gene expression, suppressing mobile elements, and defensing virus infection. RNA silencing is triggered by double-stranded RNA via Dicer or Dicer-like riboendonucleases. DsRNAs are also the replication intermediates of all RNA viruses; as a result, plant RNA viruses are ideal candidates to induce RNA silencing. A large body of plant viruses have been modified into vectors for RNA silencing in varied plant species. Here, we described a simple, time-saving, and operable system for gene function and genetic breeding study of potato and Nicotiana benthamiana using a potato mop-top (MPTV)-based vector.
MeSH term(s)	RNA, Double-Stranded/genetics ; Plant Viruses/genetics ; Plant Diseases/genetics ; Plant Breeding ; Gene Silencing
Chemical Substances	RNA, Double-Stranded
Language	English
Publishing date	2024-01-29
Publishing country	United States
Document type	Journal Article
ISSN	1940-6029
ISSN (online)	1940-6029
DOI	10.1007/978-1-0716-3702-9_16
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Transcriptome analysis of the synergistic mechanisms between two strains of potato virus Y in Solanum tuberosum L.

Xu, Liping / Zhang, Wei / Liu, Shangwu / Gao, Yanling / Huang, Yuanju / Nie, Xianzhou / Bai, Yanju

Virology

2024 Volume 594, Page(s) 110032

Abstract: Many viruses employ a process known as superinfection exclusion (SIE) to block subsequent entry or replication of the same or closely related viruses in the cells they occupy. SIE is also referred to as Cross-protection refers to the situation where a ... ...

Abstract	Many viruses employ a process known as superinfection exclusion (SIE) to block subsequent entry or replication of the same or closely related viruses in the cells they occupy. SIE is also referred to as Cross-protection refers to the situation where a host plant infected by a mild strain of a virus or viroid gains immunity against a more severe strain closely related to the initial infectant. The mechanisms underlying cross-protection are not fully understood. In this study, we performed a comparative transcriptomic analysis of potato (Solanum tuberosum L.) leaves. The strains PVY
MeSH term(s)	Solanum tuberosum ; Potyvirus/genetics ; Gene Expression Profiling ; Transcriptome ; Virus Diseases ; Plant Diseases
Language	English
Publishing date	2024-03-06
Publishing country	United States
Document type	Journal Article
ZDB-ID	200425-2
ISSN	1096-0341 ; 0042-6822
ISSN (online)	1096-0341
ISSN	0042-6822
DOI	10.1016/j.virol.2024.110032
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Article: Potato Virus Y Strain N-Wi Offers Cross-Protection in Potato Against Strain NTN-NW by Superior Competition

Xu, Liping / Zhang, Wei / Gao, Yanling / Meng, Fanjuan / Nie, Xianzhou / Bai, Yanju

Plant disease. 2022 June 01, v. 106, no. 6

2022

Abstract: Potato virus Y (PVY) is one of the most economically important pathogens of potato. PVY exhibits different phenotypes in dissimilar potato cultivars. Previously, we observed that two recombinant isolates, PVYᴺ⁻ᵂⁱ-HLJ-BDH-2 (BDH) and PVYᴺᵀᴺ⁻ᴺᵂ(SYR-II)-INM- ...

Abstract	Potato virus Y (PVY) is one of the most economically important pathogens of potato. PVY exhibits different phenotypes in dissimilar potato cultivars. Previously, we observed that two recombinant isolates, PVYᴺ⁻ᵂⁱ-HLJ-BDH-2 (BDH) and PVYᴺᵀᴺ⁻ᴺᵂ(SYR-II)-INM-W-369-12 (369), exhibited different virulence levels in potato cultivar Kexin 13 despite high genome sequence identity. Indeed, 369 induced severe necrosis and plant death in severe cases in Kexin 13 and severe mosaic in cultivar Yanshu 8, whereas BDH caused mainly mosaic symptoms on the plants of both cultivars. We hypothesized that preinfection of plants with BDH could cross-protect them from 369 infection, and not vice versa. Challenge inoculation, either by mechanical wounding or through grafting, with 369 on plants that were preinfected with BDH did not augment the symptom expression in both cultivars. Reverse transcription quantitative PCR analysis showed that, after challenge inoculation with 369, the titer of the isolate on BDH-preinfected plants remained at a low level (about 3 × 10⁴ copy/µl) during the tested time course (0 h to 30 days). In contrast, in plants that were preinoculated with buffer (mock) and challenge inoculated with 369, the titer of 369 increased continuously until reaching its highest level of about 2 × 10⁷ (Yanshu 8) and about 4 × 10⁸ (Kexin 13) during the time course. Surprisingly, in plants that were preinfected with 369 and challenge inoculated with BDH, the accumulation of BDH reached nearly the same level as that in plants that were preinoculated with buffer and challenge inoculated with BDH. Taken together, these results suggest that PVYᴺ⁻ᵂⁱ mediated cross-protection against PVYᴺᵀᴺ⁻ᴺᵂ(SYR-II) by superior competition and better fitness.
Keywords	Potato virus Y ; cross immunity ; cultivars ; death ; necrosis ; nucleotide sequences ; potatoes ; reverse transcriptase polymerase chain reaction ; sequence analysis ; virulence
Language	English
Dates of publication	2022-0601
Size	p. 1566-1572.
Publishing place	The American Phytopathological Society
Document type	Article
ZDB-ID	754182-x
ISSN	0191-2917
ISSN	0191-2917
DOI	10.1094/PDIS-11-21-2539-SC
Database	NAL-Catalogue (AGRICOLA)

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Article: Potato Virus Y Strain N-Wi Offers Cross-Protection in Potato Against Strain NTN-NW by Superior Competition.

Xu, Liping / Zhang, Wei / Gao, Yanling / Meng, Fanjuan / Nie, Xianzhou / Bai, Yanju

Plant disease

2022 Volume 106, Issue 6, Page(s) 1566–1572

Abstract	Potato virus Y (PVY) is one of the most economically important pathogens of potato. PVY exhibits different phenotypes in dissimilar potato cultivars. Previously, we observed that two recombinant isolates, PVY
MeSH term(s)	Phenotype ; Plant Diseases ; Potyvirus/genetics ; Solanum tuberosum
Language	English
Publishing date	2022-05-05
Publishing country	United States
Document type	Journal Article
ZDB-ID	754182-x
ISSN	0191-2917
ISSN	0191-2917
DOI	10.1094/PDIS-11-21-2539-SC
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Article: Geography-Driven Evolution of Potato Virus A Revealed by Genetic Diversity Analysis of the Complete Genome.

Zhang, Wei / Sun, Xuhong / Wei, Xuyan / Gao, Yanling / Song, Jiling / Bai, Yanju

Frontiers in microbiology

2021 Volume 12, Page(s) 738646

Abstract: Potato virus A (PVA), a member of the ... ...

Abstract	Potato virus A (PVA), a member of the genus
Language	English
Publishing date	2021-10-01
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587354-4
ISSN	1664-302X
ISSN	1664-302X
DOI	10.3389/fmicb.2021.738646
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Article: Potato Tuber Necrosis Induced by Alfalfa Mosaic Virus Depends on Potato Cultivar Rather Than on Virus Strain

Nie, Xianzhou / Bai, Yanju / De Koeyer, David / Dickison, Virginia / Hawkins, Gary / Singh, Mathuresh / Xu, Huimin

Plant disease. 2020 Feb., v. 104, no. 2

2020

Abstract: Alfalfa mosaic virus (AMV) was identified as the causal agent of internal tuber necrosis in the potato cultivar Innovator in New Brunswick, Canada. Further pathological characterization of the isolate (designated as isolate CaM) was performed on six ... ...

Abstract	Alfalfa mosaic virus (AMV) was identified as the causal agent of internal tuber necrosis in the potato cultivar Innovator in New Brunswick, Canada. Further pathological characterization of the isolate (designated as isolate CaM) was performed on six potato cultivars and one breeding clone. Upon mechanical inoculation, four cultivars (Innovator, Yukon Gold, Rochdale Gold-Dorée, and Shepody) showed needle-sized necrotic spots and increasing calico symptoms on new leaves, whereas the remaining cultivars only developed calico symptoms on new leaves. All tubers of CaM-infected Innovator and Shepody plants developed sporadic internal necrotic spots, as did ca. 23 and 8% tubers of CaM-infected Yukon Gold and Rochdale Gold-Dorée, respectively. Sequence analysis of the CP gene of CaM with AMV isolates from potato, all presumed belonging to the “non-necrotic” strain and retrieved from GenBank, indicated that CaM shared >97.1% sequence identity with all but four Egyptian isolates. At the complete genome level, phylogenetic analysis of all available sequences demonstrated that RNA 1 and RNA 3 can be grouped into three major clades each, whereas RNA 2 can be clustered into two clades. CaM and Ca175-1, an AMV isolate that was deemed non-necrotic in a previous study, had different phylogenetic clade patterns, indicating different RNA 1-RNA 2-RNA 3 haplotypes: IA-I-IB (CaM) versus Ca175-1 (IB-II-IA). Despite the difference in haplotype composition, CaM and Ca175-1 induced similar levels of internal necrosis in tubers of Innovator and its parent Shepody. The results suggest that the internal necrosis in AMV-infected tubers depends on potato cultivar rather than on AMV strain/haplotype, and CaM is just a “regular” isolate of AMV.
Keywords	Alfalfa mosaic virus ; cultivars ; genes ; haplotypes ; leaves ; necrosis ; phylogeny ; plant breeding ; plant diseases and disorders ; plant viruses ; potatoes ; RNA ; sequence analysis ; Solanum tuberosum ; tubers ; viruses ; New Brunswick
Language	English
Dates of publication	2020-02
Size	p. 340-347.
Publishing place	Plant Disease
Document type	Article
ZDB-ID	754182-x
ISSN	0191-2917
ISSN	0191-2917
DOI	10.1094/PDIS-04-19-0827-RE
Database	NAL-Catalogue (AGRICOLA)

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Article: Genetic Diversity of Potato virus Y in Potato Production Areas in Northeast China

Bai, Yanju / Shuxin Han / Yanling Gao / Wei Zhang / Guoquan Fan / Cailing Qiu / Xianzhou Nie / Jingzhi Wen

Plant disease. 2019 Feb., v. 103, no. 2

2019

Abstract: In 2011–2014, ELISA or nucleic acid spot hybridization (NASH) testing for common potato viruses or Potato spindle tuber viroid (PSTVd) was performed on 500 leaf samples collected in potato fields in the northeast provinces Heilongjiang and Inner Mongolia, ...

Abstract	In 2011–2014, ELISA or nucleic acid spot hybridization (NASH) testing for common potato viruses or Potato spindle tuber viroid (PSTVd) was performed on 500 leaf samples collected in potato fields in the northeast provinces Heilongjiang and Inner Mongolia, China. The results revealed that 38.4% (Heilongjiang) and 27.7% (Inner Mongolia) were positive for Potato virus Y (PVY). To unveil the strain composition and population structure of PVY in the region, the multiplex RT-PCR described by Chikh-Ali et al. was performed on all of the ELISA-PVY-positive samples. Of the 158 samples whose PVY strain scenarios could be determined, PVYᴺᵀᴺ⁻ᴺᵂ-SYR-II and PVYᴺ⁻ᵂⁱ were the most abundant strains, occurring in 58.9 and 47.5% samples, followed by PVYᴺᵀᴺ⁻ᴺᵂ-SYR-I (31.0%), PVYᴺ:ᴼ (19.6%), Eu-PVYᴺᵀᴺ (7.6%), NA-PVYᴺ (1.3%), and PVYᴼ (0.6%). In the 84 single-strain-infected samples, PVYᴺ⁻ᵂⁱ accounted for 41.7%, PVYᴺᵀᴺ⁻ᴺᵂ-SYR-II for 40.5%, PVYᴺᵀᴺ⁻ᴺᵂ-SYR-I for 14.3%, and PVYᴺ:ᴼ and Eu-PVYᴺᵀᴺ for 3.6% each. Seven isolates representing PVYᴺᵀᴺ⁻ᴺᵂ-SYR-I (HLJ-6-1 and HLJ-9-4), PVYᴺᵀᴺ⁻ᴺᵂ-SYR-II (INM-W-369-12 and SC-1-1-2), PVYᴺ:ᴼ (HLJ-30-2), and PVYᴺ⁻ᵂⁱ (HLJ-BDH-2 and HLJ-C-429) were sequenced and analyzed molecularly. Whereas the sequence identities for isolates belonging to the same strain group were >98.5%, they fell for isolates belonging to different strain groups to 92.7–98.1% at the genome level and 96.1–98.4% at the polyprotein level. Interestingly, the exact location of the recombination events varied among isolates within a strain group. Phylogenetic analysis of all 42 full length PVY sequences from China indicated that most clustered to various recombinant groups, despite the fact that the PVY isolates were isolated from at least five host species. Pathological analysis of four isolates representing PVYᴺ:ᴼ, PVYᴺ⁻ᵂⁱ, PVYᴺᵀᴺ⁻ᴺᵂ-SYR-I, and PVYᴺᵀᴺ⁻ᴺᵂ-SYR-II revealed that the PVYᴺᵀᴺ⁻ᴺᵂ-SYR-II isolate incited the most severe symptoms on potato cultivar Kexin 13, followed by PVYᴺᵀᴺ⁻ᴺᵂ-SYR-I, PVYᴺ:ᴼ and PVYᴺ⁻ᵂⁱ. The PVYᴺᵀᴺ⁻ᴺᵂ-SYR-I and PVYᴺᵀᴺ⁻ᴺᵂ-SYR-II isolates also caused necrotic ringspots on the tubers of Kexin 13, indicating their ability to induce the potato tuber necrotic ringspot disease in potato.
Keywords	Potato spindle tuber viroid ; Potato virus Y ; cultivars ; enzyme-linked immunosorbent assay ; genetic variation ; genome ; hosts ; leaves ; nucleic acid hybridization ; phylogeny ; polyproteins ; population structure ; potatoes ; reverse transcriptase polymerase chain reaction ; tubers ; viruses ; China
Language	English
Dates of publication	2019-02
Size	p. 289-297.
Publishing place	Plant Disease
Document type	Article
ZDB-ID	754182-x
ISSN	0191-2917
ISSN	0191-2917
DOI	10.1094/PDIS-04-18-0687-RE
Database	NAL-Catalogue (AGRICOLA)

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Article: Molecular Evolutionary Analysis of Potato Virus Y Infecting Potato Based on the VPg Gene.

Mao, Yanzhi / Sun, Xuhong / Shen, Jianguo / Gao, Fangluan / Qiu, Guangwei / Wang, Teng / Nie, Xianzhou / Zhang, Wei / Gao, Yanling / Bai, Yanju

Frontiers in microbiology

2019 Volume 10, Page(s) 1708

Abstract: Potato virus Y (PVY) is an important plant pathogen infecting solanaceous crops, causing significant losses to global potato and tobacco production. Some aspects of the plant pathology and molecular biology of PVY have been studied intensively, but the ... ...

Abstract	Potato virus Y (PVY) is an important plant pathogen infecting solanaceous crops, causing significant losses to global potato and tobacco production. Some aspects of the plant pathology and molecular biology of PVY have been studied intensively, but the evolutionary dynamics of this virus are poorly understood. Here, we performed a comprehensive set of rigorous evolutionary analyses using 177 nucleotide sequences of the viral genome linked protein (VPg) gene, which interacts with the plant eukaryotic translation initiation factor 4E (eIF4E). Our Bayesian analysis reveals that the VPg gene of PVY has been evolving at a rate of 5.60 × 10
Language	English
Publishing date	2019-07-26
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587354-4
ISSN	1664-302X
ISSN	1664-302X
DOI	10.3389/fmicb.2019.01708
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Article: Potato Tuber Necrosis Induced by Alfalfa Mosaic Virus Depends on Potato Cultivar Rather Than on Virus Strain.

Nie, Xianzhou / Dickison, Virginia / Singh, Mathuresh / De Koeyer, David / Xu, Huimin / Bai, Yanju / Hawkins, Gary

Plant disease

2019 Volume 104, Issue 2, Page(s) 340–347

Abstract	Alfalfa mosaic virus (AMV) was identified as the causal agent of internal tuber necrosis in the potato cultivar Innovator in New Brunswick, Canada. Further pathological characterization of the isolate (designated as isolate CaM) was performed on six potato cultivars and one breeding clone. Upon mechanical inoculation, four cultivars (Innovator, Yukon Gold, Rochdale Gold-Dorée, and Shepody) showed needle-sized necrotic spots and increasing calico symptoms on new leaves, whereas the remaining cultivars only developed calico symptoms on new leaves. All tubers of CaM-infected Innovator and Shepody plants developed sporadic internal necrotic spots, as did ca. 23 and 8% tubers of CaM-infected Yukon Gold and Rochdale Gold-Dorée, respectively. Sequence analysis of the CP gene of CaM with AMV isolates from potato, all presumed belonging to the "non-necrotic" strain and retrieved from GenBank, indicated that CaM shared >97.1% sequence identity with all but four Egyptian isolates. At the complete genome level, phylogenetic analysis of all available sequences demonstrated that RNA 1 and RNA 3 can be grouped into three major clades each, whereas RNA 2 can be clustered into two clades. CaM and Ca175-1, an AMV isolate that was deemed non-necrotic in a previous study, had different phylogenetic clade patterns, indicating different RNA 1-RNA 2-RNA 3 haplotypes: IA-I-IB (CaM) versus Ca175-1 (IB-II-IA). Despite the difference in haplotype composition, CaM and Ca175-1 induced similar levels of internal necrosis in tubers of Innovator and its parent Shepody. The results suggest that the internal necrosis in AMV-infected tubers depends on potato cultivar rather than on AMV strain/haplotype, and CaM is just a "regular" isolate of AMV.
MeSH term(s)	Alfalfa mosaic virus ; Canada ; Egypt ; Phylogeny ; Solanum tuberosum
Language	English
Publishing date	2019-12-06
Publishing country	United States
Document type	Journal Article
ZDB-ID	754182-x
ISSN	0191-2917
ISSN	0191-2917
DOI	10.1094/PDIS-04-19-0827-RE
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Genetic Diversity of Potato virus Y in Potato Production Areas in Northeast China.

Bai, Yanju / Han, Shuxin / Gao, Yanling / Zhang, Wei / Fan, Guoquan / Qiu, Cailing / Nie, Xianzhou / Wen, Jingzhi

Plant disease

2018 Volume 103, Issue 2, Page(s) 289–297

Abstract: In 2011-2014, ELISA or nucleic acid spot hybridization (NASH) testing for common potato viruses or Potato spindle tuber viroid (PSTVd) was performed on 500 leaf samples collected in potato fields in the northeast provinces Heilongjiang and Inner Mongolia, ...

Abstract	In 2011-2014, ELISA or nucleic acid spot hybridization (NASH) testing for common potato viruses or Potato spindle tuber viroid (PSTVd) was performed on 500 leaf samples collected in potato fields in the northeast provinces Heilongjiang and Inner Mongolia, China. The results revealed that 38.4% (Heilongjiang) and 27.7% (Inner Mongolia) were positive for Potato virus Y (PVY). To unveil the strain composition and population structure of PVY in the region, the multiplex RT-PCR described by Chikh-Ali et al. was performed on all of the ELISA-PVY-positive samples. Of the 158 samples whose PVY strain scenarios could be determined, PVY
MeSH term(s)	China ; Genetic Variation ; Phylogeny ; Plant Diseases/virology ; Potyvirus/classification ; Potyvirus/genetics ; Solanum tuberosum/virology
Language	English
Publishing date	2018-12-03
Publishing country	United States
Document type	Journal Article
ZDB-ID	754182-x
ISSN	0191-2917
ISSN	0191-2917
DOI	10.1094/PDIS-04-18-0687-RE
Database	MEDical Literature Analysis and Retrieval System OnLINE

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