scholarly journals High-Throughput Sequencing of Virus-infected Cucurbita pepo Samples Revealed The Presence of Zucchini Shoestring Virus in Zimbabwe

2020 ◽  
Author(s):  
Charles Karavina ◽  
Jacques Davy Ibaba ◽  
Augustine Gubba
Keyword(s):  
South African ◽  
High Throughput Sequencing ◽  
Gc Content ◽  
Sequence Comparisons ◽  
Entire Genome ◽  
Reading Frame ◽  
South African Isolate ◽  
Growing Seasons ◽  
African Isolate ◽  
Generation Sequencing

Abstract Objectives: Plant-infecting viruses remain a serious challenge towards achieving food security worldwide. Cucurbit virus surveys were conducted in Zimbabwe during the 2014 and 2015 growing seasons. Leaf samples displaying virus-like symptoms were collected and stored until analysis. Three baby marrow samples were subjected to next-generation sequencing and the data generated were analysed using genomics technologies. Zucchini shoestring virus (ZSSV), a cucurbit-infecting potyvirus previously described in South Africa was one of the viruses identified. The genomes of the three ZSSV isolates are described analysed in this note. Results: The three ZSSV isolates had the same genome size of 10297 bp excluding the polyA tail with a 43% GC content. The large open reading frame was found at positions 69 to 10106 on the genome and encodes a 3345 amino acids long polyprotein which had the same cleavage site sequences as those described on the South African isolate except for the P1-pro site. Genome sequence comparisons of all the ZSSV isolates showed that the isolates F7-Art and S6-Prime had identical sequence across the entire genome while sharing 99.06% and 99.34% polyprotein nucleotide and amino acid sequence identities respectively with the isolate S7-Prime.

scholarly journals High-Throughput Sequencing of Virus-infected Cucurbita pepo Samples Revealed The Presence of Zucchini Shoestring Virus in Zimbabwe

2020 ◽  
Author(s):  
Charles Karavina ◽  
Jacques Davy Ibaba ◽  
Augustine Gubba
Keyword(s):  
South African ◽  
High Throughput Sequencing ◽  
Gc Content ◽  
Sequence Comparisons ◽  
Entire Genome ◽  
Reading Frame ◽  
South African Isolate ◽  
Growing Seasons ◽  
African Isolate ◽  
Generation Sequencing

Abstract Objectives: Plant-infecting viruses remain a serious challenge towards achieving food security worldwide. Cucurbit virus surveys were conducted in Zimbabwe during the 2014 and 2015 growing seasons. Leaf samples displaying virus-like symptoms were collected and stored until analysis. Three baby marrow samples were subjected to next-generation sequencing and the data generated were analysed using genomics technologies. Zucchini shoestring virus (ZSSV), a cucurbit-infecting potyvirus previously described in South Africa was one of the viruses identified. The genomes of the three ZSSV isolates are described analysed in this note. Results: The three ZSSV isolates had the same genome size of 10297 bp excluding the polyA tail with a 43% GC content. The large open reading frame was found at positions 69 to 10106 on the genome and encodes a 3345 amino acids long polyprotein which had the same cleavage site sequences as those described on the South African isolate except for the P1-pro site. Genome sequence comparisons of all the ZSSV isolates showed that the isolates F7-Art and S6-Prime had identical sequence across the entire genome while sharing 99.06% and 99.34% polyprotein nucleotide and amino acid sequence identities respectively with the isolate S7-Prime.

scholarly journals High-Throughput Sequencing of Virus-infected Cucurbita pepo Samples Revealed The Presence of Zucchini Shoestring Virus in Zimbabwe

2019 ◽  
Author(s):  
Charles Karavina ◽  
Jacques Davy Ibaba ◽  
Augustine Gubba
Keyword(s):  
South African ◽  
Cucurbita Pepo ◽  
High Throughput Sequencing ◽  
Gc Content ◽  
Large Open Reading Frame ◽  
Polya Tail ◽  
Reading Frame ◽  
Growing Seasons ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

Abstract Objectives: Plant-infecting viruses remain a serious challenge towards achieving food security worldwide. Cucurbits, in Zimbabwe, like in the other parts of the world, are used in various ways. A small-scaled cucurbit virus survey was conducted in Zimbabwe during the 2014 and 2015 growing seasons. Cucurbit leaf samples displaying virus-like symptoms were collected and stored until analysis. The samples were then subjected to next-generation sequencing (NGS). The data generated from NGS were analysed using genomics technologies. Zucchini shoestring virus (ZSSV), a cucurbit-infecting potyvirus previously described in South Africa was one of the viruses identified. The genomes of three ZSSV isolates from Zimbabwe are described in this note. Results: The three ZSSV isolates had the same genome size of 10297 bp excluding the polyA tail with a 43% GC content. The large open reading frame (ORF) was found at positions 69 to 10106 on the genome and encodes a 3345 amino acids long polyprotein which had the same cleavage site sequences as those described on the South African isolates except for the P1-pro site. The smaller ORF, also called the pretty interesting Potyviridae ORF, was located at positions 3611 to 3793 on the genomes for all three ZSSV isolates.

South African isolate of Cryptophlebia leucotreta granulovirus

2003 ◽  
Vol 83 (3) ◽  
pp. 249-252 ◽  
Author(s):  
Shalene Singh ◽  
Sean Moore ◽  
Belinda Spillings ◽  
Don Hendry
Keyword(s):  
South African ◽  
South African Isolate ◽  
African Isolate ◽  
Cryptophlebia Leucotreta

Different Babesia canis isolates, different diseases

Parasitology ◽  
1997 ◽  
Vol 115 (5) ◽  
pp. 485-493 ◽  
Author(s):  
TH. P. M. SCHETTERS ◽  
K. MOUBRI ◽  
E. PRÉCIGOUT ◽  
J. KLEUSKENS ◽  
N. C. SCHOLTES ◽  
...  
Keyword(s):  
South African ◽  
Clinical Disease ◽  
Coagulation System ◽  
Babesia Canis ◽  
European Isolate ◽  
South African Isolate ◽  
High Parasitaemia ◽  
Specific Antigens ◽  
Chemotherapeutic Treatment ◽  
African Isolate

Using surface immunofluorescence isolate-specific antigens were detected on the membrane of erythrocytes infected with Babesia parasites. In addition, the strains reacted differently with Plasmagel in that the European isolate (B.c. canis) could be purified on Plasmagel effectively, whereas infected erythrocytes of the South-African isolate (B.c. rossi) could not. Experimental infection of dogs with Babesia canis isolates from geographically different areas revealed different pathology. The European isolate obtained from France exhibited transient parasitaemia, usually below 1%, associated with low PCV values and congestion of internal organs. Clinical disease was correlated with an effect on the coagulation system, and not with peripheral parasitaemia. Infection of dogs with South-African-derived isolate induced high parasitaemia usually much higher than 1%, which required chemotherapeutic treatment. In these animals clinical disease was correlated with peripheral parasitaemia and not with parameters of the coagulation system. The results show that the etiology of disease caused by these isolates of B.c. canis and B.c. rossi is different. This might have implications for the development of vaccines against these infections.

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