Phylogenetic analysis of Hepatitis E virus strains isolated from slaughter-age pigs in Colombia

Forero, J. E; Gutiérrez-Vergara, Cristian; Suescún, Jaime Parra; Correa, Guillermo; Rodríguez, Berardo de J; Gutiérrez, Luis Felipe Higuita; Díaz, Francisco J.; Herrera, Albeiro López

doi:10.1016/j.meegid.2017.01.005

Cited by 12 publications

(11 citation statements)

References 34 publications

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“…They were isolated from two human patients with acute hepatitis [ 47 ]. Genotype 3a was also reported recently in Colombia [ 48 ]. It is possible that this is the strain currently circulating in America.…”

Section: Discussionsupporting

confidence: 69%

Phylogenetic Analysis and Characterization of the Complete Hepatitis E Virus Genome (Zoonotic Genotype 3) in Swine Samples from Mexico

Sotomayor-González

Ortega

Taboada

et al. 2018

Viruses

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Hepatitis E virus (HEV) is an emerging public health problem with an estimated 20 million infections each year. In Mexico, Orthohepevirus A, genotype 2, has been reported in humans, but genotype 3 has only been reported in swine (zoonotic). No diagnostic tests are publicly available in Mexico, and only partial sequences have been reported from swine samples. Hence, research is necessary to determine circulating strains, understand the features and dynamics of infection on pig farms, determine how to implement surveillance programs, and to assess public health risks. In this study, a next-generation sequencing (NGS) approach was applied to obtain a complete genome of swine HEV. Liver, feces, and bile samples were taken at slaughterhouses and a farm in Mexico. RT-PCR was used to determine positive samples and confirmed by Sanger sequencing. Of the 64 slaughterhouse samples, one bile sample was positive (B1r) (1.56%). Of 21 sample pools from farm animals, 14 were positive (66.66%), representing all stages of production. A complete sequence strain MXCDg3_B1c|_2016 was obtained from the bile of a domestic swine in the fattening stage. In addition, two partial sequences—MXCDg3_H2cons|_2016 (1473 nt) and MXCDg3_C3Acons|_2016 (4777 nt)—were obtained from sampled farm animals. Comparison with all reported genome HEV sequences showed similarity to genotype 3 subgenotype a (G3a), which has been previously reported in acute cases of human hepatitis in the US, Colombia, China, and Japan.

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Section: Discussionsupporting

confidence: 69%

Phylogenetic Analysis and Characterization of the Complete Hepatitis E Virus Genome (Zoonotic Genotype 3) in Swine Samples from Mexico

Sotomayor-González

Ortega

Taboada

et al. 2018

Viruses

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“…As in the rest of the South American countries, HEV seems to be widely spread among swine herds from Colombia. Very recent studies have reported high infection rates of HEV subtype 3a in pigs from Antioquia . Interestingly, HEV RNA had been previously detected in 25% of pig livers from grocery stores in the same geographical region …”

Section: Detection Of Hev In Domestic and Wild Animals In South Americamentioning

confidence: 99%

Hepatitis E virus in South America: The current scenario

Pisano

Martinez‐Wassaf²,

Mirazo

et al. 2018

Liver International

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Hepatitis E virus (HEV) is one of the most frequent causes of acute viral hepatitis of enteric transmission worldwide. In South America the overall epidemiology has been little studied, and the burden of the disease remains largely unknown. A research of all scientific articles about HEV circulation in South America until November 2017 was carried out. Human seroprevalences of HEV varied according to the studied population: blood donors presented prevalence rates ranging from 1.8% to 9.8%, while reports from HIV‐infected individuals, transplant recipients and patients on hemodialysis showed higher prevalence rates. Only 2 cases of chronic hepatitis in solid‐organ transplant patients from Argentina and Brazil have been described. Detection of HEV in the swine population is widely prevalent in the region. Anti‐HEV antibodies have also been recently documented in wild boars from Uruguay. Although scarce, studies focused on environmental and food HEV detection have shown viral presence in these kind of samples, highlighting possible transmission sources of HEV in the continent. HEV genotype 3 was the most frequently detected in the region, with HEV genotype 1 detected only in Venezuela and Uruguay. HEV is widely distributed throughout South America, producing sporadic cases of acute hepatitis, but as a possible agent of chronic hepatitis. Finding the virus in humans, animals, environmental samples and food, show that it can be transmitted through many sources, alerting local governments and health systems to improve diagnosis and for the implementation of preventive measures.

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“…Globally, HEV-3a appears to be a well-travelled lineage, with sequences found in farmed pigs in Canada, China, Columbia, France, Indonesia, Japan, South Korea, and Philippines. [28][29][30][31][32][33][34][35] It was also recently identified in German wild boars 36 and was the causative agent of an autochthonous human infection in Europe. 37 It should be noted that nonporcine transmission modes are possible and cannot be ruled out completely.…”

Section: Discussionmentioning

confidence: 99%

“…All of the National University Hospital (NUH, Singapore) sequences in this study fall within subtype 3a on the phylogenetic tree. Globally, HEV‐3a appears to be a well‐travelled lineage, with sequences found in farmed pigs in Canada, China, Columbia, France, Indonesia, Japan, South Korea, and Philippines . It was also recently identified in German wild boars and was the causative agent of an autochthonous human infection in Europe .…”

Section: Discussionmentioning

confidence: 99%

Patterns of mutation within an emerging endemic lineage of HEV‐3a

Zhu

Aung

et al. 2018

Journal of Viral Hepatitis

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Summary The hepatitis E virus can cause chronic infections in immuno‐suppressed patients, and cases have been on the rise globally. Viral mutations during such infections are difficult to characterize. We deep‐sequenced viral populations from 15 immunocompromised patients with chronic HEV to identify the viral lineage and describe viral mutational hotspots within and across patients. A total of 21 viral RNA samples were collected between 2012 and 2017 from a single hospital in Singapore. Sequences covering a total of 3894 bp of the HEV genome were obtained. Phylogenetic analyses identified all sequences as belonging to the HEV‐3a sub‐clade and clearly indicate a unique local lineage. Deep sequencing reveals variable viral population complexity during infections. Comparisons of viral samples from the same patients spaced 2‐19 months apart revealed rapid nucleotide replacements in the dominant viral sequence in both ribavirin treated and treatment‐naive patients. Mutational hotspots were identified within ORF3 and the PCP/HVR domain of ORF1.

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Phylogenetic analysis of Hepatitis E virus strains isolated from slaughter-age pigs in Colombia

Cited by 12 publications

References 34 publications

Phylogenetic Analysis and Characterization of the Complete Hepatitis E Virus Genome (Zoonotic Genotype 3) in Swine Samples from Mexico

Phylogenetic Analysis and Characterization of the Complete Hepatitis E Virus Genome (Zoonotic Genotype 3) in Swine Samples from Mexico

Hepatitis E virus in South America: The current scenario

Patterns of mutation within an emerging endemic lineage of HEV‐3a

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