scholarly journals Identification and Sequence Analysis of a Novel Ilarvirus Infecting Sweet Cherry

Plants ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 514
Author(s):  
Chrysoula G. Orfanidou ◽  
Fei Xing ◽  
Jun Zhou ◽  
Shifang Li ◽  
Nikolaos I. Katis ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Nucleotide Sequence ◽  
Sanger Sequencing ◽  
Sweet Cherry ◽  
Novel Species ◽  
Peach Tree ◽  
Sweet Cherries ◽  
Blastn Analysis ◽  
Fruit Orchards ◽  
Prunus Spp

In the present study, we utilized high throughput and Sanger sequencing to determine the complete nucleotide sequence of a putative new ilarvirus species infecting sweet cherry, tentatively named prunus virus I (PrVI). The genome of PrVI is comprised of three RNA segments of 3474 nt (RNA1), 2911 nt (RNA2), and 2231 nt (RNA3) and features conserved motifs representative of the genus Ilarvirus. BlastN analysis revealed 68.1–71.9% nt identity of PrVI with strawberry necrotic shock virus (SNSV). In subsequent phylogenetic analysis, PrVI was grouped together with SNSV and blackberry chlorotic ringspot virus (BCRV), both members of subgroup 1 of ilarviruses. In addition, mini-scale surveys in stone fruit orchards revealed the presence of PrVI in a limited number of sweet cherries and in one peach tree. Overall, our data suggest that PrVI is a novel species of the genus Ilarvirus and it consists the fifth member of the genus that is currently known to infect Prunus spp.

scholarly journals Cherry virus A infecting cherries and plums in the Czech Republic – Short communication

2013 ◽  
Vol 40 (No. 1) ◽  
pp. 37-39 ◽  
Author(s):  
D. Šafářová ◽  
M. Navrátil ◽  
F. Paprštein ◽  
T. Candresse ◽  
A. Marais
Keyword(s):  
Phylogenetic Analysis ◽  
Czech Republic ◽  
Sweet Cherry ◽  
Short Communication ◽  
Rt Pcr ◽  
Pcr Assay ◽  
The Czech Republic ◽  
Germplasm Collections ◽  
Sweet Cherries

 The presence of Cherry virus A (CVA) in the germplasm collections of sweet cherries and plums was studied. CVA was detected using the specific RT-PCR assay in six of eight sweet cherry and one of four plum cultivars. Specifity of amplicons and distant position of cherry and non-cherry isolates was verified by sequencing and phylogenetic analysis. Results indicate that the cherry landraces and cultivars could be infected by CVA more than it has been assumed.

scholarly journals Betanodavirus infection in Kuhlia rupestris and Ambassis marianus and isolation of betanodavirus from infected pond water

2020 ◽  
Vol 142 ◽  
pp. 1-11
Author(s):  
K Agnihotri ◽  
R Chong ◽  
D Underwood ◽  
C Kistler ◽  
M Hutchison
Keyword(s):  
Phylogenetic Analysis ◽  
Nucleotide Sequence ◽  
Cell Line ◽  
Environmental Samples ◽  
Sanger Sequencing ◽  
High Throughput Sequencing ◽  
Pond Water ◽  
Fish Cell ◽  
Nervous Necrosis Virus ◽  
Necrosis Virus

This is the first report of betanodavirus infection in 2 species of finfish, Kuhlia rupestris (jungle perch) and Ambassis marianus (estuary perchlet). This report also describes isolation of betanodavirus from infected pond water using the SSN-1 cell line. Histopathology of K. rupestris larvae revealed vacuolation in the eye and brain, which was confirmed using betanodavirus-specific immunohistochemistry. The eye and brain from A. marianus and betanodavirus isolated from pond water were confirmed using real-time PCR and Sanger sequencing. High throughput sequencing was used to obtain betanodavirus sequences from paraffin blocks containing infected K. rupestris. The phylogenetic analysis of betanodavirus RNA1 and RNA2 sequences from all 3 sources were associated with the red-spotted grouper nervous necrosis virus (RGNNV) genotype. The RNA1 nucleotide sequence from jungle perch showed 100% identity with the betanodavirus water isolate and 99.37% identity with A. marianus. Furthermore, we have demonstrated the usefulness of combining recovery of viable virus from environmental samples through fish cell line culture with PCR testing as a means of validating the efficacy of chlorination to eradicate betanodavirus from the pond environment.

scholarly journals Screening for Polyphenol Compounds and Antioxidant Capacity of Sweet Cherry Fruits Infected with Monilinia Laxa

2017 ◽  
Vol 66 (3-4) ◽  
pp. 46-52 ◽  
Author(s):  
Boško Borković ◽  
Đorđe Malenčić ◽  
Dejan Prvulović ◽  
Biljana Kiprovski ◽  
Vera Stojšin ◽  
...  
Keyword(s):  
Antioxidant Activity ◽  
Biochemical Analysis ◽  
Sweet Cherry ◽  
Brown Rot ◽  
Monilinia Laxa ◽  
Intensity Of Infection ◽  
Polyphenol Compounds ◽  
Sweet Cherries ◽  
Rot Disease ◽  
Fruit Orchards

SummaryMonilinia laxa Aderh. and Ruhl. is the predominant causal agent of brown rot disease of stone fruit orchards, especially sweet cherries. The objective of this study was to identify reaction in response of nine genotypes cherry, with different pomological properties, against brown rot. These genotypes were harvested at commercial maturity from orchard in the Fruit Research Institute in Rimski Šančevi. The studied genotypes showed significant differences in terms of the occurrence of disease on fruits, both under artificial inoculation and infection in the field. Given the fact that sweet cherry fruits are prone to infection by a number of pathogens in the field, biochemical parameters were analysed on artificially inoculated fruits. Biochemical analysis of fruits determined significant differences in contents of total phenols, flavonoids and anthocyanins, as well as in antioxidant activity. It was genotype specificities and intensity of infection, as well as the interaction of the two that induced differences in the secondary biomolecules content and antioxidant activity. The majority of the genotypes examined showed high polyphenolics content, while under the infection, the content was significantly lower. Based on the results obtained, the secondary metabolites content can be used as one of the parameters for evaluating the resistance of sweet cherry genotypes to brown rot.

Nucleotide sequence and phylogenetic analysis of the medium (M) genomic RNA segments of three hantaviruses isolated in China

1998 ◽  
Vol 56 (1) ◽  
pp. 69-76 ◽  
Author(s):  
Xiaohong Shi ◽  
Mifang Liang ◽  
Changshou Hang ◽  
Gan Song ◽  
Conall McCaughey ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Nucleotide Sequence ◽  
Genomic Rna

scholarly journals The Application of Machine Learning for Cultivar Discrimination of Sweet Cherry Endocarp

Agriculture ◽  
2020 ◽  
Vol 11 (1) ◽  
pp. 6
Author(s):  
Ewa Ropelewska
Keyword(s):  
Sweet Cherry ◽  
Color Space ◽  
Geometric Parameters ◽  
Geometric Features ◽  
Color Spaces ◽  
Discriminative Models ◽  
Sweet Cherries ◽  
Rgb Color Space ◽  
Cultivar Discrimination ◽  
Color Channels

The aim of this study was to evaluate the usefulness of the texture and geometric parameters of endocarp (pit) for distinguishing different cultivars of sweet cherries using image analysis. The textures from images converted to color channels and the geometric parameters of the endocarp (pits) of sweet cherry ‘Kordia’, ‘Lapins’, and ‘Büttner’s Red’ were calculated. For the set combining the selected textures from all color channels, the accuracy reached 100% when comparing ‘Kordia’ vs. ‘Lapins’ and ‘Kordia’ vs. ‘Büttner’s Red’ for all classifiers. The pits of ‘Kordia’ and ‘Lapins’, as well as ‘Kordia’ and ‘Büttner’s Red’ were also 100% correctly discriminated for discriminative models built separately for RGB, Lab and XYZ color spaces, G, L and Y color channels and for models combining selected textural and geometric features. For discrimination ‘Lapins’ and ‘Büttner’s Red’ pits, slightly lower accuracies were determined—up to 93% for models built based on textures selected from all color channels, 91% for the RGB color space, 92% for the Lab and XYZ color spaces, 84% for the G and L color channels, 83% for the Y channel, 94% for geometric features, and 96% for combined textural and geometric features.

scholarly journals Detection of Alpha- and Betacoronaviruses in Miniopterus fuliginosus and Rousettus leschenaultii, two species of Sri Lankan Bats

Vaccines ◽  
2021 ◽  
Vol 9 (6) ◽  
pp. 650
Author(s):  
Therese Muzeniek ◽  
Thejanee Perera ◽  
Sahan Siriwardana ◽  
Dilara Bas ◽  
Fatimanur Kaplan ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Sanger Sequencing ◽  
Rectal Swab ◽  
Sri Lankan ◽  
Rna Dependent Rna Polymerase ◽  
Fecal Samples ◽  
Natural Hosts ◽  
Pathogenic Viruses ◽  
Miniopterus Fuliginosus ◽  
Important Basis

Bats are known to be potential reservoirs of numerous human-pathogenic viruses. They have been identified as natural hosts for coronaviruses, causing Severe Acute Respiratory Syndrome (SARS) in humans. Since the emergence of SARS-CoV-2 in 2019 interest in the prevalence of coronaviruses in bats was newly raised. In this study we investigated different bat species living in a sympatric colony in the Wavul Galge cave (Koslanda, Sri Lanka). In three field sessions (in 2018 and 2019), 395 bats were captured (Miniopterus, Rousettus, Hipposideros and Rhinolophus spp.) and either rectal swabs or fecal samples were collected. From these overall 396 rectal swab and fecal samples, the screening for coronaviruses with nested PCR resulted in 33 positive samples, 31 of which originated from Miniopterus fuliginosus and two from Rousettus leschenaultii. Sanger sequencing and phylogenetic analysis of the obtained 384-nt fragment of the RNA-dependent RNA polymerase revealed that the examined M. fuliginosus bats excrete alphacoronaviruses and the examined R. leschenaultii bats excrete betacoronaviruses. Despite the sympatric roosting habitat, the coronaviruses showed host specificity and seemed to be limited to one species. Our results represent an important basis to better understand the prevalence of coronaviruses in Sri Lankan bats and may provide a basis for pursuing studies on particular bat species of interest.

scholarly journals Variability of Old Sweet Cherries Found in Slovak Regions and Their Preservation

2017 ◽  
Vol 71 (3) ◽  
pp. 184-189
Author(s):  
Michaela Benková ◽  
Iveta Čičová ◽  
Daniela Benedikova ◽  
Lubomir Mendel ◽  
Miroslav Glasa
Keyword(s):  
Sweet Cherry ◽  
Prunus Avium ◽  
Fruit Size ◽  
Morphological Characteristics ◽  
Quality Parameters ◽  
Fruit Weight ◽  
Sweet Cherries ◽  
Prunus Mahaleb ◽  
Breeding Programmes ◽  
Prunus Avium L

Abstract The work is focused on the evaluation of variability of morphological and pomological characteristics of several old sweet cherries (Prunus avium L.) that were found in different Slovak regions. The experimental work has been performed during two years, 2014 and 2015. The following characteristics according to the descriptor list of subgenus Cerasus were evaluated - period of flowering and ripening, morphological characteristics of the flowers, fruit size, fruit weight, and quality parameters. The results showed high variability of evaluated accessions. From the 13 surveyed localities, the most valuable accessions were found in the locality Hornį Streda - places Čachtice, Krakovany, Nitra, and Brdárka. During the collecting expeditions, 170 accessions of sweet cherry, with fruit of the different quality were found. The most interesting accessions were grafted onto rootstocks with different intensity of growth (Prunus avium L., Prunus mahaleb L., and ‘Gisela5’). Some of the selected cherry accessions can be used for commercial growing after tests, while some of them can be used only for collection of genetic resources and as potential genitors in breeding programmes.

scholarly journals Spring frost effects on 30 sweet cherries varieties grown in North Italy

2010 ◽  
Vol 16 (4) ◽  
Author(s):  
A. Roversi ◽  
E. Pattori ◽  
G. L. Malvicini ◽  
S. Sbaruffati
Keyword(s):  
Sweet Cherry ◽  
Frost Damage ◽  
Flowering Stage ◽  
Full Bloom ◽  
Absolute Minimum ◽  
Spring Frost ◽  
Sweet Cherries ◽  
Fruit Harvest

After a spring frost occurred in second half of March 2008, with temperatures below 0°C for 8 days consecutively and an absolute minimum of -5.5°C, a lot of observations have been made on the sweet cherry flowers damages. In three different orchards “Italian palmetta” trained on grassing ground soil, the percentage of the flowers killed by frost, was detected and recorded considering the different genotypes and flowers height from the ground. Furthermore, in one orchard only it was possible to find relationship between flowering stage and frost damage. The results clearly confirm our previous works about the highest mortality of the flower in the upper part ( > 1.50 m) of the canopy and in the full bloom open flowers. So, in this area, the easiness of agronomic operations, like pruning and, especially, fruit harvest, due to the crown proximity to the ground, is cancelled by the frequency of spring frost.

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