Genome analysis and characterization of a tobacco mosaic virus isolate infecting balsam (Impatiens balsamina)

Choi, Seung‐Kook; Yoon, Ju-Yeon; Chung, Bong Nam

doi:10.1007/s00705-009-0377-x

Cited by 13 publications

(9 citation statements)

References 18 publications

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“…Furthermore, no recombination among ORSV isolates is supported by analyses that were performed by Ajjikuttira et al [5], either. Recently, for members of the genus Tobamovirus, it has been shown that variation of CP sequences is limited [16][17][18][19][20][21]. For instance, in a comparison of TMV isolates from different hosts and countries, no distinct genetic variable regions of the CP could be found [17,18,20,21].…”

Section: Discussionmentioning

confidence: 99%

“…Recently, for members of the genus Tobamovirus, it has been shown that variation of CP sequences is limited [16][17][18][19][20][21]. For instance, in a comparison of TMV isolates from different hosts and countries, no distinct genetic variable regions of the CP could be found [17,18,20,21]. In the case of Tobacco mild green mosaic virus (TMGMV) isolates from a population of N. glauca collected in Australia during 90 years, sequence analyses showed no increase in the genetic diversity among the TMGMV isolates over this period [17,18].…”

Section: Discussionmentioning

confidence: 99%

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High sequence conservation among Odotoglossum ringspot virus isolates from orchids

Yoon

Chung²,

Choi

2010

Virus Genes

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The variability in the nucleotide (nt) and amino acid (aa) sequences of the coat protein (CP) of Odontoglossum ringspot virus (ORSV), which naturally infects orchids worldwide, was investigated. The CP genes of 48 ORSV isolates originating from different locations in Korea were amplified using RT-PCR and sequenced. The encoded CP consists of 158 aa. The CP sequences of the Korean isolates were compared at the nt and aa levels with those of the previously published ORSV isolates originating from different countries. The Korean isolates share 94.8-100% and 92.4-100% CP identity to ORSV isolates from other countries at the nt and aa levels, respectively. No particular region of variability could be found in either sequence of the viruses. In the deduced aa sequence, the N-terminal region was more conserved than the C-terminal region in ORSV. The phylogenetic tree analysis and recombination analysis revealed that there was no distinct grouping between geographic locations and sequence identity, and nor distinct intra-specific recombination events among ORSV isolates.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

High sequence conservation among Odotoglossum ringspot virus isolates from orchids

Yoon

Chung²,

Choi

2010

Virus Genes

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“…TMV can be transmitted by mechanical inoculation, grafting, contact between plants and by seed, but not by any known vector (Broadbent, 1965; Hollings and Huttinga, 1976). Tobamoviruses collectively have a very wide host range and cause serious economic impact and significantly yield losses in many crops such as brassicas, cucurbits, solanaceous crops and different ornamental plants such as chrysanthemums ( Chrysanthemum indicum L.), impatiens ( Impatiens balsamina ) and petunia ( Petunia × hybrida ) (Alexandre et al, 2000; Choi et al, 2009; Kumar et al, 2011; Nassar et al, 2012). Infected plants often show different types of symptoms such as malformations, mosaic and stunting on leaves, flowers, and fruit.…”

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confidence: 99%

Prevalence of Tobacco mosaic virus in Iran and Evolutionary Analyses of the Coat Protein Gene

Alishiri

Rakhshandehroo

Zamanizadeh

et al. 2013

The Plant Pathology Journal

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The incidence and distribution of Tobacco mosaic virus (TMV) and related tobamoviruses was determined using an enzyme-linked immunosorbent assay on 1,926 symptomatic horticultural crops and 107 asymptomatic weed samples collected from 78 highly infected fields in the major horticultural crop-producing areas in 17 provinces throughout Iran. The results were confirmed by host range studies and reverse transcription-polymerase chain reaction. The overall incidence of infection by these viruses in symptomatic plants was 11.3%. The coat protein (CP) gene sequences of a number of isolates were determined and disclosed to be a high identity (up to 100%) among the Iranian isolates. Phylogenetic analysis of all known TMV CP genes showed three clades on the basis of nucleotide sequences with all Iranian isolates distinctly clustered in clade II. Analysis using the complete CP amino acid sequence showed one clade with two subgroups, IA and IB, with Iranian isolates in both subgroups. The nucleotide diversity within each sub-group was very low, but higher between the two clades. No correlation was found between genetic distance and geographical origin or host species of isolation. Statistical analyses suggested a negative selection and demonstrated the occurrence of gene flow from the isolates in other clades to the Iranian population.

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“…Our detailed agroinfiltration procedures are as previously described (Choi et al, 2008). A TMV-based vector expressing GFP (TMV-GFP; Rabindran et al, 2001) was prepared and inoculated onto partitioned plants as previously described (Choi et al, 2009).…”

Section: Conditions For Agroinfiltration and Virus Inoculationmentioning

confidence: 99%

Cell-autonomous-like silencing of GFP-partitioned transgenic Nicotiana benthamiana

Sohn

Frost

Kim

et al. 2014

Journal of Experimental Botany

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We previously reported the novel partitioning of regional GFP-silencing on leaves of 35S-GFP transgenic plants, coining the term "partitioned silencing". We set out to delineate the mechanism of partitioned silencing. Here, we report that the partitioned plants were hemizygous for the transgene, possessing two direct-repeat copies of 35S-GFP. The detection of both siRNA expression (21 and 24 nt) and DNA methylation enrichment specifically at silenced regions indicated that both post-transcriptional gene silencing (PTGS) and transcriptional gene silencing (TGS) were involved in the silencing mechanism. Using in vivo agroinfiltration of 35S-GFP/GUS and inoculation of TMV-GFP RNA, we demonstrate that PTGS, not TGS, plays a dominant role in the partitioned silencing, concluding that the underlying mechanism of partitioned silencing is analogous to RNA-directed DNA methylation (RdDM). The initial pattern of partitioned silencing was tightly maintained in a cell-autonomous manner, although partitioned-silenced regions possess a potential for systemic spread. Surprisingly, transcriptome profiling through next-generation sequencing demonstrated that expression levels of most genes involved in the silencing pathway were similar in both GFP-expressing and silenced regions although a diverse set of region-specific transcripts were detected.This suggests that partitioned silencing can be triggered and regulated by genes other than the genes involved in the silencing pathway.

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Genome analysis and characterization of a tobacco mosaic virus isolate infecting balsam (Impatiens balsamina)

Cited by 13 publications

References 18 publications

High sequence conservation among Odotoglossum ringspot virus isolates from orchids

High sequence conservation among Odotoglossum ringspot virus isolates from orchids

Prevalence of Tobacco mosaic virus in Iran and Evolutionary Analyses of the Coat Protein Gene

Cell-autonomous-like silencing of GFP-partitioned transgenic Nicotiana benthamiana

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