Meta-analysis of genetic diversity of the VP1 gene among the circulating O, A, and SAT2 serotypes and vaccine strains of FMD virus in Egypt

El‐Nahas, Abeer F.; Salem, S. A.

doi:10.2478/jvetres-2020-0069

Cited by 8 publications

(9 citation statements)

References 45 publications

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“…This is in agreement with El-Nahas and Salem which identified the genetic diversity of SAT-2 viruses between different outbreak years in Egypt where FMD is endemic. 18 In addition, previous genetic diversity of serotypes in successive years has been reported for other serotypes (O, A, SAT-1) in different parts of Africa. 19 , 33 …”

Section: Discussionmentioning

confidence: 91%

Viral Protein 1 (VP1) Sequence-Based Genetic Diversity of SAT 2 FMDV Circulating in Ethiopia from 1990 to 2015

Woldemariyam¹,

Paeshuyse²

2023

VMRR

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Introduction Pathogen molecular epidemiology determines the origin of specific outbreaks locality of foot-and-mouth disease virus serotype South African Territories-2 sequence-based analysis of highly variable Viral Protein 1 (VP1), which helps to identify the evolution of this virus through time and space. The objective of this study was to compare the differences between SAT-2 VP1 sequences of FMDV circulated in Ethiopia from 1990 to 2015 at the genetic level. Methods The nucleotide and amino acid sequences were analyzed using Basic Local Alignment Search Tools (BLAST), Multiple sequence alignment and sequence editing and Phylogenetic tree reconstruction. The nucleotide and amino acid sequences alignment, distance matrix, and phylogenetic tree constructions were done using the MEGA 6.0 software package. Result and Discussion In this analysis, we found 76% nucleotide identities and amino acid similarities among the sequences. The overall group mean distance at nucleotide level was 19% with a mean intra-population diversity of 2%. The lowest sequence variation was observed among sequences obtained from the years 2007/09/10, 2014/15, and 1990/91 which was less than 5% among them. This analysis revealed that in the last 25 years, four different topotypes of the FMDV SAT-2 were circulating in Ethiopia. The Arg-Gly-Asp (RGD) amino acid (AA) motif at AA position 144–146 within the G-H loop of the VP1 protein of FMDV is conserved, but up- and downstream hyper-variable AA sequences are identified. In this study, it was observed that four topotypes (IV, XIV, XIII, and VII) were circulating in Ethiopia for 25 years. Further, compared with sequences from neighboring countries (Sudan, Kenya) confirmed the presence of these topotypes. Conclusion Pertinent to this genetic diversity control strategies in Ethiopia should be based on having regular antigenic and genetic vaccine matching tests with the circulating strain within a defined period, space, transboundary nature of the disease and applying biosecurity measures.

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Section: Discussionmentioning

confidence: 91%

Viral Protein 1 (VP1) Sequence-Based Genetic Diversity of SAT 2 FMDV Circulating in Ethiopia from 1990 to 2015

Woldemariyam¹,

Paeshuyse²

2023

VMRR

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“…about 32 subtypes discriminated [8,9]. Moreover, the Asian topotype is most prevalent in the Middle East and South-Asian sectors with the identified lineages including A15, A22, A-IRN99, A-Iran05, A-IRQ24,46, and A-TUR2006 [10,11].…”

Section: Introductionmentioning

confidence: 94%

“…Based on nucleotide sequences and genetic analysis, there are >15% genetic differences in viral protein 1 (VP1), serotype A virus assorted with 26 genotypic lineages in addition to ~24% difference between different intercontinental topotypes. While the Euro-Asian, the genetic diversity was about 32 subtypes discriminated [ 8 , 9 ]. Moreover, the Asian topotype is most prevalent in the Middle East and South-Asian sectors with the identified lineages including A15, A22, A-IRN99, A-Iran05, A-IRQ24,46, and A-TUR2006 [ 10 , 11 ].…”

Section: Introductionmentioning

confidence: 99%

Circulating foot-and-mouth disease virus serotype A African-genotype IV in Egypt during 2022

Shahein,

Hussein,

Ali

et al. 2023

Vet World

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Background and Aim: Foot-and-mouth disease (FMD) virus causes continuous outbreaks, leading to serious economic consequences that affect animal productivity and restrict trade movement. The potential influence of the disease was due to the emergence of new strains or re-emergence of local strains with major antigenic variations due to genetic mutations. This study aims to evaluate circulating virus in samples collected from infected animals during an outbreak using antigenic characterization and identify whether there is an emergence of a new strain or mutation. Materials and Methods: Reverse-transcription polymerase chain reaction (RT-PCR) was used to screen 86 samples. Viral protein 1 (VP1) codon sequencing was performed. The virus was isolated from the samples inoculated on the baby-hamster kidney cell line and Enzyme-linked immunosorbent assay was performed for serotyping and antigen detection. Results: Based on the RT-PCR screening results, 10 positive samples were selected for sequencing. The sequences belonged to the FMD serotype A African topotype originating from the ancestor prototype Sudan/77, with which it shared 98.48% ± 1.2% similarity. The divergence with local isolates from 2020 was 9.3%. In addition, the sequences were 96.84% ± 1.01% and 95.84% ± 0.79% related to Egyptian-Damietta type 2016 and Sudanese-2018, respectively. Divergence with vaccinal strains ranged from 10% to 17%. Amino acid sequence analysis revealed that the isolates had variation in the most prominent antigenic regions (residues 35–75) and the immunogenic determinants of the G-H loop of VP1 (residues 100–146 and 161–175). Conclusion: The current isolates should be included in the locally produced vaccine to provide broader immunogenic coverage against serotype A African topotypes. Keywords: Epicenters, foot and mouth disease virus, foot-and-mouth disease virus Africa type G-IV, mutations, outbreaks, viral protein 1.

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“…The VP1 gene sequence analysis is essential for molecular epidemiological studies and is frequently used to identify genetic connections between FMDV isolates, estimate genetic variation, and create topotypes that are connected both geographically and genetically [11]. The VP1 gene is highly variable and is widely used for genotyping due to its serotype specificity and its importance in host cell binding [12]. Therefore, The VP1 gene sequencing protocol is the standard for genetic characterization of FMDV [13].…”

Section: Introductionmentioning

confidence: 99%

Clinical and Molecular Detection of Foot and Mouth Disease in Buffalo, Iraq

Enad,

Mansour

2025

Egyptian Journal of Veterinary Sciences

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OOT-AND-MOUTH disease is a transboundary, highly contagious viral disease. The A, Asia 1, and O are the main serotypes reported in Iraq over the last 60 years, however, a recent outbreak revealed a different phenomenon. So, this study aims to detect the serotype(s) of FMDV that caused the most recent disease outbreak in buffaloes in Wassit and Dhi-Qar, Iraq. This will be done by using both clinical and molecular methods, and the confirmed serotype will come from phylogenetic analysis. In total, 70 buffaloes of different genders and ages were selected for the current study, performed during August and September 2023. All animals in this study were examined clinically to determine the suspected infected animals and then subjected to the collection of epithelial tissue samples. Clinically, the infected buffaloes showed different signs, such as fever, reduced appetite, ulcers in the mouth and foot, and impaired mobility. This study used (Semi-Nested RT-PCR) to detect the SAT2 serotype in buffaloes. The findings indicated that 61 out of 70 local isolates (87.14 percent) tested positive for SAT2. These isolates were subsequently submitted to GenBank and assigned accession numbers ranging from (OR576814.1 -OR576820.1). As the first recorded Iraqi SAT2 isolate. The Iraqi isolates were clustered in the same branch as the Egyptian isolate (MZ097480.1). This study is the first to implement the Semi-nested RT-PCR technique for identifying the SAT2 serotype in buffaloes in Iraq. The findings of this study have the potential to provide valuable insights into the formulation and implementation of FMD protection programmers in Iraq.

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Meta-analysis of genetic diversity of the VP1 gene among the circulating O, A, and SAT2 serotypes and vaccine strains of FMD virus in Egypt

Cited by 8 publications

References 45 publications

Viral Protein 1 (VP1) Sequence-Based Genetic Diversity of SAT 2 FMDV Circulating in Ethiopia from 1990 to 2015

Viral Protein 1 (VP1) Sequence-Based Genetic Diversity of SAT 2 FMDV Circulating in Ethiopia from 1990 to 2015

Circulating foot-and-mouth disease virus serotype A African-genotype IV in Egypt during 2022

Clinical and Molecular Detection of Foot and Mouth Disease in Buffalo, Iraq

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