Genetic diversity of the coat protein of olive latent virus 1 isolates

Varanda, Carla; Nolasco, Gustavo; Clara, María; Félix, Maria R.

doi:10.1007/s00705-013-1953-7

Cited by 16 publications

(18 citation statements)

References 30 publications

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“…Including all Genbank isolates, nucleotide identity between genomes ranged from 100% to 96.55%. Nucleotide diversity between all sequences was 0.01, which is very low for viruses generally and similar to the lowest recorded diversity values in the Tombusviridae (table 1) [24][25][26] .…”

supporting

confidence: 75%

A first global phylogeny ofMaize chlorotic mottle virus

Braidwood

Quito-Avila

Cabanas

et al. 2017

Preprint

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Maize chlorotic mottle virus has been rapidly spreading around the globe over the past decade. The interactions of Maize chlorotic mottle virus with potyviridae viruses causes an aggressive synergistic viral condition -maize lethal necrosis, which can cause total yield loss. Maize production in sub-Saharan Africa, where it is the most important cereal, is threatened by the arrival of maize lethal necrosis. We obtained Maize chlorotic mottle virus genome sequences from across East Africa and for the first time from Ecuador and Hawaii, and constructed a phylogeny which highlights the similarity of Chinese to African isolates, and Ecuadorian to Hawaiian isolates. We used a measure of clustering, the adjusted Rand index, to extract region-specific SNPs and coding variation that can be used for diagnostics. The population genetics analysis we performed shows that the majority of sequence diversity is partitioned between populations, with diversity extremely low within China and East Africa.

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supporting

confidence: 75%

A first global phylogeny ofMaize chlorotic mottle virus

Braidwood

Quito-Avila

Cabanas

et al. 2017

Preprint

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“…Different templates such as TNA, total RNA and dsRNA have been used as viral targets for RT-PCR. The use of dsRNA as a template reduces the constraint caused by the common low viral concentration and uneven distribution in trees, by using large amounts of sample and, at the same time, allowing the elimination of virus non-related nucleic acids that interfere in viral genome amplification (Bertolini et al 2003;Varanda et al 2010;Luigi et al 2011;Varanda et al 2014).…”

Section: Introductionmentioning

confidence: 99%

An integrated approach for understanding the high infection rates of olive viruses in Tunisia

Zellama¹,

Varanda

Materatski

et al. 2018

Eur J Plant Pathol

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Your article is protected by copyright and all rights are held exclusively by Koninklijke Nederlandse Planteziektenkundige Vereniging. This e-offprint is for personal use only and shall not be self-archived in electronic repositories. If you wish to self-archive your article, please use the accepted manuscript version for posting on your own website. You may further deposit the accepted manuscript version in any repository, provided it is only made publicly available 12 months after official publication or later and provided acknowledgement is given to the original source of publication and a link is inserted to the published article on Springer's website. The link must be accompanied by the following text: "The final publication is available at link.springer.com".

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“…In addition, it have been reported that the purifying selection often results in amino acid changes with functional or structural modifications such as genome protection, cell-to-cell movement, transmission between plants, interactions with the host and/or vector, etc. [22].…”

Section: Discussionmentioning

confidence: 99%

Molecular Variability and Genetic Structure of IYMV in Burkina Faso

Koala¹,

Sérémé²,

Vignols³

et al. 2018

AJPS

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Imperata yellow mottle virus (IYMV, Sobemovirus) was first described in 2008 in the south-western region of Burkina Faso (West Africa). The genetic diversity of IYMV was not documented up to day. In this study, the variability of CP of IYMV was evaluated through the molecular characterization of 38 isolates collected in the western part of Burkina Faso. Comparison of sequences of these new isolates and one IYMV sequence available in GenBank revealed that the average nucleotide diversity was low. The ratio of non-synonymous over synonymous nucleotide substitutions per site was low, indicating a CP diversification under strong purifying selection. Despite of the low nucleotide diversity, phylogenetic analyses revealed segregation of IYMV isolates into six major clades. There was no correlation of phylogenetic grouping of isolates based on geographical location. This is the first study of the genetic diversity of IYMV.

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Genetic diversity of the coat protein of olive latent virus 1 isolates

Cited by 16 publications

References 30 publications

A first global phylogeny ofMaize chlorotic mottle virus

A first global phylogeny ofMaize chlorotic mottle virus

An integrated approach for understanding the high infection rates of olive viruses in Tunisia

Molecular Variability and Genetic Structure of IYMV in Burkina Faso

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