Analyses and Insights into Genetic Reassortment and Natural Selection as Key Drivers of Piscine orthoreovirus Evolution.

Piscine orthoreovirus (PRV) is a pathogen that causes heart and skeletal muscle inflammation in Salmo salar and has also been linked to circulatory disorders in other farmed salmonids, such as Oncorhynchus kisutch and Oncorhynchus mykiss. The virus has a segmented, double-stranded RNA genome, which makes it possible to undergo genetic reassortment and increase its genomic diversity through point mutations. In this study, genetic reassortment in PRV was assessed using the full genome sequences available in public databases. This study used full genome sequences that were concatenated and genome-wide reassortment events, and phylogenetic analyses were performed using the recombination/reassortment detection program version 5 (RDP5 V 5.5) software. Additionally, each segment was aligned codon by codon, and overall mean distance and selection was tested using the Molecular Evolutionary Genetics Analysis X software, version 10.2 (MEGA X version 10.2). The results showed that there were 17 significant reassortment events in 12 reassortant sequences, involving genome exchange between low and highly virulent genotypes. PRV sequences from different salmonid host species did not appear to limit the reassortment. This study found that PRV frequently undergoes reassortment events to increase the diversity of its segmented genome, leading to antigenic variation and increased virulence. This study also noted that to date, no reassortment events have been described between PRV-1 and PRV-3 genotypes. However, the number of complete genomic sequences within each genotype is uneven. This is important because PRV-3 induces cross-protection against PRV-1, making it a potential vaccine candidate.

Sleeping With the Enemy? The Current Knowledge of Piscine Orthoreovirus (PRV) Immune Response Elicited to Counteract Infection.

Piscine orthoreovirus (PRV) is a virus in the genus Orthoreovirus of the Reoviridae family, first described in 2010 associated with Heart and Skeletal Muscle Inflammation (HSMI) in Atlantic salmon (Salmo salar). Three phases of PRV infection have been described, the early entry and dissemination, the acute dissemination phase, and the persistence phase. Depending on the PRV genotype and the host, infection can last for life. Mechanisms of immune response to PRV infection have been just beginning to be studied and the knowledge in this matter is here revised. PRV induces a classical antiviral immune response in experimental infection of salmonid erythrocytes, including transcriptional upregulation of ifn-α, rig-i, mx, and pkr. In addition, transcript upregulation of tcra, tcrb, cd2, il-2, cd4-1, ifn-γ, il-12, and il-18 has been observed in Atlantic salmon infected with PRV, indicating that PRV elicited a Th1 type response probably as a host defense strategy. The high expression levels of cd8a, cd8b, and granzyme-A in PRV-infected fish suggest a positive modulatory effect on the CTL-mediated immune response. This is consistent with PRV-dependent upregulation of the genes involved in antigen presentation, including MHC class I, transporters, and proteasome components. We also review the potential immune mechanisms associated with the persistence phenotype of PRV-infected fish and its consequence for the development of a secondary infection. In this scenario, the application of a vaccination strategy is an urgent and challenging task due to the emergence of this viral infection that threatens salmon farming.

Enteric Viral Infections among Domesticated South American Camelids: First Detection of Mammalian Orthoreovirus in Camelids.

Enteric infections are a major cause of neonatal death in South American camelids (SACs). The aim of this study was to determine the prevalence of enteric viral pathogens among alpacas and llamas in Canchis, Cuzco, located in the southern Peruvian highland. Fecal samples were obtained from 80 neonatal alpacas and llamas and tested for coronavirus (CoV), mammalian orthoreovirus (MRV), and rotavirus A (RVA) by RT-PCR. Of the 80 fecal samples analyzed, 76 (95%) were positive for at least one of the viruses tested. Overall, the frequencies of positive samples were 94.1% and 100% among alpacas and llamas, respectively. Of the positive samples, 33 (43.4%) were monoinfected, while 43 (56.6%) had coinfections with two (83.7%) or three (16.3%) viruses. CoV was the most commonly detected virus (87.5%) followed by MRV (50%). RVA was detected only in coinfections. To our knowledge, this is the first description of MRV circulation in SACs or camelids anywhere. These data show that multiple viruses circulate widely among young alpaca and llama crias within the studied areas. These infections can potentially reduce livestock productivity, which translates into serious economic losses for rural communities, directly impacting their livelihoods.

Extensive Phylogenetic Analysis of Piscine Orthoreovirus Genomic Sequences Shows the Robustness of Subgenotype Classification.

Piscine orthoreovirus (PRV) belongs to the family Reoviridae and has been described mainly in association with salmonid infections. The genome of PRV consists of about 23,600 bp, with 10 segments of double-stranded RNA, classified as small (S1 to S4), medium (M1, M2 and M3) and large (L1, L2 and L3); these range approximately from 1000 bp (segment S4) to 4000 bp (segment L1). How the genetic variation among PRV strains affects the virulence for salmonids is still poorly understood. The aim of this study was to describe the molecular phylogeny of PRV based on an extensive sequence analysis of the S1 and M2 segments of PRV available in the GenBank database to date (May 2020). The analysis was extended to include new PRV sequences for S1 and M2 segments. In addition, subgenotype classifications were assigned to previously published unclassified sequences. It was concluded that the phylogenetic trees are consistent with the original classification using the PRV genomic segment S1, which differentiates PRV into two major genotypes, I and II, and each of these into two subgenotypes, designated as Ia and Ib, and IIa and IIb, respectively. Moreover, some clusters of country- and host-specific PRV subgenotypes were observed in the subset of sequences used. This work strengthens the subgenotype classification of PRV based on the S1 segment and can be used to enhance research on the virulence of PRV.

First description of clinical presentation of piscine orthoreovirus (PRV) infections in salmonid aquaculture in Chile and identification of a second genotype (Genotype II) of PRV.

BACKGROUND: Heart and skeletal muscle inflammation (HSMI) is an emerging disease of marine-farmed Atlantic salmon Salmo salar, first recognized in 1999 in Norway, and recently associated with piscine orthoreovirus (PRV) infection. To date, HSMI lesions with presence of PRV have only been described in marine-farmed Atlantic salmon in Norway. A new HSMI-like disease in rainbow trout Oncorhynchus mykiss associated with a PRV-related virus has also been reported in Norway. METHODS: Sampling of Atlantic salmon and coho salmon was done during potential disease outbreaks, targeting lethargic/moribund fish. Fish were necropsied and tissues were taken for histopathologic analysis and testing for PRV by RT-qPCR assay for segment L1 and conventional RT-PCR for PRV segment S1. The PCR products were sequenced and their relationship to PRV strains in GenBank was determined using phylogenetic analysis and nucleotide and amino acid homology comparisons. RESULTS: The Atlantic salmon manifested the classical presentation of HSMI with high PRV virus loads (low Ct values) as described in Norway. The coho salmon with low Ct values had myocarditis but only in the spongy layer, the myositis of red muscle in general was mild, and the hepatic necrosis was severe. Upon phylogenetic analysis of PRV segment S1 sequences, all the Chilean PRV strains from Atlantic salmon grouped as sub-genotype Ib, whereas the Chilean PRV strains from coho salmon were more diversified, grouping in both sub-genotypes Ia and Ib and others forming a distinct new phylogenetic cluster, designated Genotype II that included the Norwegian PRV-related virus. CONCLUSIONS: To our knowledge the present work constitutes the first published report of HSMI lesions with presence of PRV in farmed Atlantic salmon outside of Europe, and the first report of HSMI-like lesions with presence of PRV in coho salmon in Chile. The Chilean PRV strains from coho salmon are more genetically diversified than those from Atlantic salmon, and some form a distinct new phylogenetic cluster, designated Genotype II.

Características clínicas e anatomo-histopatologicas da infecção experimental mista por Orthoreovirus aviario e Mycoplasma synoviae em frangos de corte / Clinical and histologic lesions of mixed infection with Avian orthoreovirus and Mycoplasma synoviae in broilers

A artrite infecciosa em frangos de corte representa um problema sanitário e econômico de grande impacto, provocando perdas de produtividade e nos processos de produção e industrialização. Os principais agentes etiológicos associados aos casos de artrites e tenossinovites infecciosas em aves são Mycoplasma synoviae (MS) e Orthoreovirus aviario (ARV). Esse trabalho propôs investigar as alterações anatomohistopatológicas causadas pela infecção experimental concomitante por Mycoplasma synoviae e Orthoreovirus aviario em frangos de corte e confirmar a presença dos agentes através das técnicas de PCR e imuno-luorescência indireta (RIFI). Para tal foram utilizados 16 frangos de corte, alojados em cama, com fornecimento de ração e água ad libitum. A infecção experimental foi realizada utilizando amostras atenuadas de MS e de ARV. Clinicamente as aves inoculadas apresentaram apatia e edemaciação da região da articulação tíbiotársica. Após 30 dias procedeu-se a eutanásia e a necropsia das aves. Na análise histopatológica constatou-se o efeito da infecção mista com MS e ARV sobre os diferentes órgãos/tecidos. Todos os animais apresentaram quadro de artrite e tenossinovite caracterizado pela presença de infiltrado inflamatório linfohistiocitário difuso, com acúmulo de heterófilos na cápsula articular/membrana sinovial e tendão flexor digital. Além disso, foi possível observar infiltrado inflamatório na traquéia, nos pulmões e sacos aéreos, no fígado, baço, pericárdio e proventrículo. A utilização da RIFI foi necessária para visualizar a presença de ambos os agentes nas articulações, identificando a presença de antígenos do ARV e do MS. A técnica de PCR constatou positividade do MS na traquéia, pulmões/sacos aéreos, cápsula articular/membrana sinovial e liquido sinovial. Já para o ARV a PCR foi positiva em amostras de fígado, baço, cápsula articular/membrana sinovial e tendão flexor digital. Com base nas lesões observadas e nos dados da literatura, sugere-se a ação concomitante por MS e ARV nos diferentes tecidos.

Infectious arthritis in broiler represents an economic and health problem resulting in severe losses due to retarded growth and down grading at slaughterhouse. The most common agents associated with cases of infectious arthritis in poultry are Mycoplasma synoviae and Avian orthoreovirus. This study proposed to investigate the histopathological changes caused by mixed infection with Mycoplasma synoviae and Avian orthoreovirus in broilers and confirm the presence of the agents through PCR and immunofluorescence assay (IFA). We used 16 broiler chickens, housed in bed, with supply of food and water ad libitum. Ten-day-old broilers were infected with Mycoplasma synoviae and Avian orthoreovirus. Clinically, they showed lethargy and swelling of the hock joint. After 30 days, we proceeded to their euthanasia and necropsy. Histological lesions were observed due to the mixed infection with Mycoplasma synoviae and Avian orthoreovirus in different tissues. The histopathology of the joints was characterized by infiltration of heterophil leucocytes in the synovial membrane and the digital flexor tendon. The inflammatory process was also found in trachea, lungs, air sac, liver, spleen, pericardium and proventriculus. The use of IFA was necessary to verify the presence of both agents in the hock joints, identifying the antigens of Mycoplasma synoviae and Avian orthoreovirus. The presence of M. synoviae was detected by PCR in trachea, lung, air sacs, synovial membrane and synovial fluid. Avian orthoreovirus was detected with PCR in liver, spleen, synovial membrane and digital flexor tendon. In conclusion, this investigation suggests that a synergistic relationship exists between Mycoplasma synoviae and Avian orthoreovirus.

Características clínicas e anatomo-histopatologicas da infecção experimental mista por Orthoreovirus aviario e Mycoplasma synoviae em frangos de corte / Clinical and histologic lesions of mixed infection with Avian orthoreovirus and Mycoplasma synoviae in broilers

A artrite infecciosa em frangos de corte representa um problema sanitário e econômico de grande impacto, provocando perdas de produtividade e nos processos de produção e industrialização. Os principais agentes etiológicos associados aos casos de artrites e tenossinovites infecciosas em aves são Mycoplasma synoviae (MS) e Orthoreovirus aviario (ARV). Esse trabalho propôs investigar as alterações anatomohistopatológicas causadas pela infecção experimental concomitante por Mycoplasma synoviae e Orthoreovirus aviario em frangos de corte e confirmar a presença dos agentes através das técnicas de PCR e imuno-luorescência indireta (RIFI). Para tal foram utilizados 16 frangos de corte, alojados em cama, com fornecimento de ração e água ad libitum. A infecção experimental foi realizada utilizando amostras atenuadas de MS e de ARV. Clinicamente as aves inoculadas apresentaram apatia e edemaciação da região da articulação tíbiotársica. Após 30 dias procedeu-se a eutanásia e a necropsia das aves. Na análise histopatológica constatou-se o efeito da infecção mista com MS e ARV sobre os diferentes órgãos/tecidos. Todos os animais apresentaram quadro de artrite e tenossinovite caracterizado pela presença de infiltrado inflamatório linfohistiocitário difuso, com acúmulo de heterófilos na cápsula articular/membrana sinovial e tendão flexor digital. Além disso, foi possível observar infiltrado inflamatório na traquéia, nos pulmões e sacos aéreos, no fígado, baço, pericárdio e proventrículo. A utilização da RIFI foi necessária para visualizar a presença de ambos os agentes nas articulações, identificando a presença de antígenos do ARV e do MS. A técnica de PCR constatou positividade do MS na traquéia, pulmões/sacos aéreos, cápsula articular/membrana sinovial e liquido sinovial. Já para o ARV a PCR foi positiva em amostras de fígado, baço, cápsula articular/membrana sinovial e tendão flexor digital. Com base nas lesões observadas e nos dados da literatura, sugere-se a ação concomitante por MS e ARV nos diferentes tecidos.(AU)

Infectious arthritis in broiler represents an economic and health problem resulting in severe losses due to retarded growth and down grading at slaughterhouse. The most common agents associated with cases of infectious arthritis in poultry are Mycoplasma synoviae and Avian orthoreovirus. This study proposed to investigate the histopathological changes caused by mixed infection with Mycoplasma synoviae and Avian orthoreovirus in broilers and confirm the presence of the agents through PCR and immunofluorescence assay (IFA). We used 16 broiler chickens, housed in bed, with supply of food and water ad libitum. Ten-day-old broilers were infected with Mycoplasma synoviae and Avian orthoreovirus. Clinically, they showed lethargy and swelling of the hock joint. After 30 days, we proceeded to their euthanasia and necropsy. Histological lesions were observed due to the mixed infection with Mycoplasma synoviae and Avian orthoreovirus in different tissues. The histopathology of the joints was characterized by infiltration of heterophil leucocytes in the synovial membrane and the digital flexor tendon. The inflammatory process was also found in trachea, lungs, air sac, liver, spleen, pericardium and proventriculus. The use of IFA was necessary to verify the presence of both agents in the hock joints, identifying the antigens of Mycoplasma synoviae and Avian orthoreovirus. The presence of M. synoviae was detected by PCR in trachea, lung, air sacs, synovial membrane and synovial fluid. Avian orthoreovirus was detected with PCR in liver, spleen, synovial membrane and digital flexor tendon. In conclusion, this investigation suggests that a synergistic relationship exists between Mycoplasma synoviae and Avian orthoreovirus.(AU)

A retrospective PCR investigation of avian Orthoreovirus, chicken infectious anemia and fowl Aviadenovirus genomes contamination in commercial poultry vaccines in Brazil / Estudo retrospectivo de vacinas avícolas vivas por PCR para os vírus da anemia das galinhas, Aviadenovirus aviário e Orthoreovirus aviário

Vacinas avícolas vivas comerciais produzidas entre 1991 e 2005 foram examinadas para a presença de genomas dos vírus da anemia infecciosa das galinhas (Gyrovirus CAV), da hepatite por corpúsculo de inclusão (Aviadenovirus FAdV) e da artrite viral/síndrome da má absorção (Orthoreovirus aviário ARV). Vinte e seis partidas de vacinas vivas liofilizadas de oito fabricantes com lacre original foram examinadas. As extrações de DNA e PCR de CAV e FAdV, e de RNA e RT-PCR para ARV, foram descritas previamente. Contaminações triplas de ARV, CAV e FAdV foram detectadas em vacinas de mesmo fabricante, produzidas em 1991 e 1992 contra a doença de Newcastle (DN), e para a encefalomielite aviária, produzida em 1994. ARV e CAV em co-infecção foram encontrados em vacinas contra a doença de Marek liofilizadas produzidas em 1996 por dois fabricantes diferentes. Genoma de ARV foi detectado em vacinas contra a bronquite infecciosa de setembro e dezembro de 1998, doença infecciosa bursal, de dezembro de 1998 e DN de janeiro de 1998. Três dos oito fabricantes apresentaram vacinas com contaminação e cinco nunca apresentaram vacinas contaminadas. Nenhuma vacina produzida a partir de 2001 apresentou contaminação. Cogita-se um papel epidemiológico para vacinas vivas, como fonte de infecção para ARV, CAV e FAdV e, potencialmente determinante da atual alta disseminação destes.

A retrospective PCR investigation of avian Orthoreovirus, chicken infectious anemia and fowl Aviadenovirus genomes contamination in commercial poultry vaccines in Brazil / Estudo retrospectivo de vacinas avícolas vivas por PCR para os vírus da anemia das galinhas, Aviadenovirus aviário e Orthoreovirus aviário

Vacinas avícolas vivas comerciais produzidas entre 1991 e 2005 foram examinadas para a presença de genomas dos vírus da anemia infecciosa das galinhas (Gyrovirus CAV), da hepatite por corpúsculo de inclusão (Aviadenovirus FAdV) e da artrite viral/síndrome da má absorção (Orthoreovirus aviário ARV). Vinte e seis partidas de vacinas vivas liofilizadas de oito fabricantes com lacre original foram examinadas. As extrações de DNA e PCR de CAV e FAdV, e de RNA e RT-PCR para ARV, foram descritas previamente. Contaminações triplas de ARV, CAV e FAdV foram detectadas em vacinas de mesmo fabricante, produzidas em 1991 e 1992 contra a doença de Newcastle (DN), e para a encefalomielite aviária, produzida em 1994. ARV e CAV em co-infecção foram encontrados em vacinas contra a doença de Marek liofilizadas produzidas em 1996 por dois fabricantes diferentes. Genoma de ARV foi detectado em vacinas contra a bronquite infecciosa de setembro e dezembro de 1998, doença infecciosa bursal, de dezembro de 1998 e DN de janeiro de 1998. Três dos oito fabricantes apresentaram vacinas com contaminação e cinco nunca apresentaram vacinas contaminadas. Nenhuma vacina produzida a partir de 2001 apresentou contaminação. Cogita-se um papel epidemiológico para vacinas vivas, como fonte de infecção para ARV, CAV e FAdV e, potencialmente determinante da atual alta disseminação destes.(AU)