Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul
Ano de defesa: | 2023 |
---|---|
Autor(a) principal: | |
Orientador(a): | |
Banca de defesa: | , , , |
Tipo de documento: | Tese |
Tipo de acesso: | Acesso aberto |
Idioma: | por |
Instituição de defesa: |
Universidade Federal de Santa Maria
Centro de Ciências Rurais |
Programa de Pós-Graduação: |
Programa de Pós-Graduação em Medicina Veterinária
|
Departamento: |
Medicina Veterinária
|
País: |
Brasil
|
Palavras-chave em Português: | |
Palavras-chave em Inglês: | |
Área do conhecimento CNPq: | |
Link de acesso: | http://repositorio.ufsm.br/handle/1/28743 |
Resumo: | Papillomaviruses (PVs) produce proliferative lesions in cutaneous and mucosal epithelium, which may be benign or eventually evolve to malignancy. A number of PV types have been described, which may infect a variety of hosts. Although PVs are generally speciesspecific, some bovine papillomaviruses (BPVs) have been described in other species, such as horses, sheep, goats, buffalo, yaks and domestic cats. It has also been reported that PVs may be found in single or mixed infections. PV types are usually identified by phylogenetic analysis of the L1 gene. Herein, the first study of this Thesis describes a phylogenetic analysis of BPVs circulating in Rio Grande do Sul (RS) state between 2016 and 2020. In this study, DNAs from 43 samples of bovine papillomas were amplified using two degenerate primer sets, FAP59/64 and MY09/11, which are targeted at amplification of part of L1. These amplicons were phylogenetically analyzed and evaluated for amino acid sequences. An in silico analysis was also performed with 114 complete L1 sequences (GenBank) to evaluate the agreement between the phylogenetic classification of L1 versus that based on the amplified region with primers FAP59/64 and MY09/11. We identified 31 BPV-1 (72.1%), 27 BPV-2 (62.8%) and 4 BPV-6 (9.3%). Mixed BPV-1 and 2 infections were observed in 61.3% of the samples (19/31). All BPV-6 was found in simple infections. An in silico approach demonstrated that the analysis of the FAP59/64 and MY09/11 amplicons may reproduce the complete L1 classification. Furthermore, unique or rare amino acids were found in at least one L1 sequence of each type of BPV identified in the study, some of which are in potential epitopes of PVs, suggesting an immune-mediated evolution of the viruses analyzed here. The second study reports a phylogenetic analysis of PVs circulating in dogs from RS between 2017 and 2022. For this, DNA from 26 canine papilloma samples were amplified with primers FAP59/64 and/or MY09/11. An in silico analysis was also performed with 46 complete L1 sequences (GenBank) to evaluate the concordance between the classifications based on the amplifiable region by FAP59/64 and MY09/11 vs that given by the analysis of the complete CPV L1. All PVs amplified by FAP59/64 (n = 22) were classified as CPV-1. Interestingly, the PVs amplified by MY09/11 (n = 4) were classified as BPV-1, with three detected in mixed infection with CPV- 1. In conclusion, the studies in this Thesis contribute to the knowledge about PVs by: i) describing and identifying single and mixed infections by BPV and CPV in RS; ii) demonstrating the adequacy of classification of BPV and CPV based on sequences amplified by primers FAP59/64 and MY09/11; iii) raising the hypothesis that BPVs circulating in RS may be under selective pressure by the host immune response; and iv) highlighting the possibility of infection of dogs by BPV-1. |
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2023-04-19T10:28:30Z2023-04-19T10:28:30Z2023-03-08http://repositorio.ufsm.br/handle/1/28743Papillomaviruses (PVs) produce proliferative lesions in cutaneous and mucosal epithelium, which may be benign or eventually evolve to malignancy. A number of PV types have been described, which may infect a variety of hosts. Although PVs are generally speciesspecific, some bovine papillomaviruses (BPVs) have been described in other species, such as horses, sheep, goats, buffalo, yaks and domestic cats. It has also been reported that PVs may be found in single or mixed infections. PV types are usually identified by phylogenetic analysis of the L1 gene. Herein, the first study of this Thesis describes a phylogenetic analysis of BPVs circulating in Rio Grande do Sul (RS) state between 2016 and 2020. In this study, DNAs from 43 samples of bovine papillomas were amplified using two degenerate primer sets, FAP59/64 and MY09/11, which are targeted at amplification of part of L1. These amplicons were phylogenetically analyzed and evaluated for amino acid sequences. An in silico analysis was also performed with 114 complete L1 sequences (GenBank) to evaluate the agreement between the phylogenetic classification of L1 versus that based on the amplified region with primers FAP59/64 and MY09/11. We identified 31 BPV-1 (72.1%), 27 BPV-2 (62.8%) and 4 BPV-6 (9.3%). Mixed BPV-1 and 2 infections were observed in 61.3% of the samples (19/31). All BPV-6 was found in simple infections. An in silico approach demonstrated that the analysis of the FAP59/64 and MY09/11 amplicons may reproduce the complete L1 classification. Furthermore, unique or rare amino acids were found in at least one L1 sequence of each type of BPV identified in the study, some of which are in potential epitopes of PVs, suggesting an immune-mediated evolution of the viruses analyzed here. The second study reports a phylogenetic analysis of PVs circulating in dogs from RS between 2017 and 2022. For this, DNA from 26 canine papilloma samples were amplified with primers FAP59/64 and/or MY09/11. An in silico analysis was also performed with 46 complete L1 sequences (GenBank) to evaluate the concordance between the classifications based on the amplifiable region by FAP59/64 and MY09/11 vs that given by the analysis of the complete CPV L1. All PVs amplified by FAP59/64 (n = 22) were classified as CPV-1. Interestingly, the PVs amplified by MY09/11 (n = 4) were classified as BPV-1, with three detected in mixed infection with CPV- 1. In conclusion, the studies in this Thesis contribute to the knowledge about PVs by: i) describing and identifying single and mixed infections by BPV and CPV in RS; ii) demonstrating the adequacy of classification of BPV and CPV based on sequences amplified by primers FAP59/64 and MY09/11; iii) raising the hypothesis that BPVs circulating in RS may be under selective pressure by the host immune response; and iv) highlighting the possibility of infection of dogs by BPV-1.Os papilomavírus (PVs) produzem lesões proliferativas no epitélio cutâneo e mucoso, podendo ser benignas ou, eventualmente, evoluir para a malignidade. Um grande número de PVs têm sido descritos, que podem infectar uma variedade de hospedeiros. Embora os PVs sejam geralmente espécie-específicos, alguns papilomavírus bovinos (BPVs) já foram descritos em outras espécies, como equinos, ovelhas, cabras, búfalos, iaques e felinos domésticos. Também tem sido relatado que os PVs podem ser encontrados em infecções simples ou em coinfecções. A identificação dos tipos de PVs envolvidos nas lesões é realizada principalmente pela análise filogenética do gene L1. Assim, o primeiro estudo desta Tese descreve uma análise filogenética dos BPVs circulantes no estado do Rio Grande do Sul (RS) entre os anos de 2016 e 2020. Neste estudo, o DNA de PVs foi amplificado a partir de 43 amostras de papiloma bovino, utilizando os pares de primers FAP59/64 e MY09/11, direcionados para a amplificação de parte da L1. Os amplicons foram sequenciados e analisados filogeneticamente, e também submetidos à análise da sequência de aminoácidos. Também foi realizada uma análise in silico com 114 sequências completas de L1 (GenBank) para avaliar a concordância entre a classificação filogenética baseada na L1 versus aquela baseada na região amplificada com os primers FAP59/64 e MY09/11. Nesse estudo foram identificados 31 BPV-1 (72,1%), 27 BPV-2 (62,8%) e 4 BPV-6 (9,3%). Infecções mistas por BPV-1 e 2 foram observadas em 61,3% das amostras (19/31). Todos os BPV-6 foram identificados em infecções simples. A avaliação in silico comprovou que a análise dos amplicons de FAP59/64 e MY09/11 podem reproduzir a classificação da L1 completa. Além disso, foram observados aminoácidos únicos ou raros em pelo menos uma sequência de L1 de cada tipo de BPV identificado no estudo, alguns dos quais estão em potenciais epítopos de PVs, sugerindo uma evolução imunomediada dos vírus analisados. O segundo estudo reporta uma análise filogenética de PVs circulantes em cães no RS entre 2017 e 2022. Para isso, DNA de PVs foram amplificados a partir de 26 amostras de papiloma canino, com os primers FAP59/64 e/ou MY09/11. Também foi realizado uma análise in silico com 46 sequências de L1 completa (GenBank) para avaliar a concordância entre as classificações baseadas na região amplificável por FAP59/64 e MY09/11 vs aquela dada pela análise da L1 completa. Nesse estudo, todos os PVs amplificados por FAP59/64 (n = 22) foram classificados como CPV-1. Interessantemente, os PVs amplificados pelos primers MY09/11 (n = 4) foram classificados como BPV-1, sendo três detectados em infecção mista com CPV-1. Em conclusão, os estudos dessa Tese contribuem para o conhecimento sobre PVs ao: i) identificar infecções simples e mistas por BPV e CPV no RS; ii) demonstrar a adequação das classificações de BPV e CPV com base nas sequências amplificáveis por FAP59/64 e MY09/11; iii) levantar a hipótese de que BPVs do RS podem estar sob pressão seletiva pela resposta imune do hospedeiro; e iv) identificar potencial infecção de cães por BPV-1.Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - CAPESConselho Nacional de Pesquisa e Desenvolvimento Científico e Tecnológico - CNPqporUniversidade Federal de Santa MariaCentro de Ciências RuraisPrograma de Pós-Graduação em Medicina VeterináriaUFSMBrasilMedicina VeterináriaAttribution-NonCommercial-NoDerivatives 4.0 Internationalhttp://creativecommons.org/licenses/by-nc-nd/4.0/info:eu-repo/semantics/openAccessBPVCPVInfecções mistasFAP59/64MY09/11Mixed infectionsCNPQ::CIENCIAS AGRARIAS::MEDICINA VETERINARIAAnálise filogenética de papilomavírus de bovinos e caninos no Rio Grande do SulPhylogenetic analysis of papillomaviruses in cattle and dogs in Rio Grande do Sulinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/doctoralThesisWeiblen, Rudihttp://lattes.cnpq.br/7946350215388090Silva Junior, José Valter Joaquim daFlores, Eduardo FurtadoBrum, Mario Celso SperottoLunardi, MicheleCibulski, Samuel Paulohttp://lattes.cnpq.br/7650992213425450Merchioratto, Ingryd50050000000760002776f4b-7154-4d1a-9f55-d68a031b94bc64710e85-e7bb-400e-ac42-d80526518800aa9264f8-23de-4b39-8829-2058bf1132e3fc942c69-bbbf-43f4-a567-55f21b90fd149de98f6c-835b-423b-b8f9-31e194fa4d9dbd38fcfb-33ce-46b2-a272-ecfc05d07bd62bc47a3c-3cb1-4da7-836e-2c2a71e18217reponame:Manancial - Repositório Digital da UFSMinstname:Universidade Federal de Santa Maria (UFSM)instacron:UFSMCC-LICENSElicense_rdflicense_rdfapplication/rdf+xml; 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dc.title.por.fl_str_mv |
Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul |
dc.title.alternative.eng.fl_str_mv |
Phylogenetic analysis of papillomaviruses in cattle and dogs in Rio Grande do Sul |
title |
Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul |
spellingShingle |
Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul Merchioratto, Ingryd BPV CPV Infecções mistas FAP59/64 MY09/11 Mixed infections CNPQ::CIENCIAS AGRARIAS::MEDICINA VETERINARIA |
title_short |
Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul |
title_full |
Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul |
title_fullStr |
Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul |
title_full_unstemmed |
Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul |
title_sort |
Análise filogenética de papilomavírus de bovinos e caninos no Rio Grande do Sul |
author |
Merchioratto, Ingryd |
author_facet |
Merchioratto, Ingryd |
author_role |
author |
dc.contributor.advisor1.fl_str_mv |
Weiblen, Rudi |
dc.contributor.advisor1Lattes.fl_str_mv |
http://lattes.cnpq.br/7946350215388090 |
dc.contributor.advisor-co1.fl_str_mv |
Silva Junior, José Valter Joaquim da |
dc.contributor.referee1.fl_str_mv |
Flores, Eduardo Furtado |
dc.contributor.referee2.fl_str_mv |
Brum, Mario Celso Sperotto |
dc.contributor.referee3.fl_str_mv |
Lunardi, Michele |
dc.contributor.referee4.fl_str_mv |
Cibulski, Samuel Paulo |
dc.contributor.authorLattes.fl_str_mv |
http://lattes.cnpq.br/7650992213425450 |
dc.contributor.author.fl_str_mv |
Merchioratto, Ingryd |
contributor_str_mv |
Weiblen, Rudi Silva Junior, José Valter Joaquim da Flores, Eduardo Furtado Brum, Mario Celso Sperotto Lunardi, Michele Cibulski, Samuel Paulo |
dc.subject.por.fl_str_mv |
BPV CPV Infecções mistas FAP59/64 MY09/11 |
topic |
BPV CPV Infecções mistas FAP59/64 MY09/11 Mixed infections CNPQ::CIENCIAS AGRARIAS::MEDICINA VETERINARIA |
dc.subject.eng.fl_str_mv |
Mixed infections |
dc.subject.cnpq.fl_str_mv |
CNPQ::CIENCIAS AGRARIAS::MEDICINA VETERINARIA |
description |
Papillomaviruses (PVs) produce proliferative lesions in cutaneous and mucosal epithelium, which may be benign or eventually evolve to malignancy. A number of PV types have been described, which may infect a variety of hosts. Although PVs are generally speciesspecific, some bovine papillomaviruses (BPVs) have been described in other species, such as horses, sheep, goats, buffalo, yaks and domestic cats. It has also been reported that PVs may be found in single or mixed infections. PV types are usually identified by phylogenetic analysis of the L1 gene. Herein, the first study of this Thesis describes a phylogenetic analysis of BPVs circulating in Rio Grande do Sul (RS) state between 2016 and 2020. In this study, DNAs from 43 samples of bovine papillomas were amplified using two degenerate primer sets, FAP59/64 and MY09/11, which are targeted at amplification of part of L1. These amplicons were phylogenetically analyzed and evaluated for amino acid sequences. An in silico analysis was also performed with 114 complete L1 sequences (GenBank) to evaluate the agreement between the phylogenetic classification of L1 versus that based on the amplified region with primers FAP59/64 and MY09/11. We identified 31 BPV-1 (72.1%), 27 BPV-2 (62.8%) and 4 BPV-6 (9.3%). Mixed BPV-1 and 2 infections were observed in 61.3% of the samples (19/31). All BPV-6 was found in simple infections. An in silico approach demonstrated that the analysis of the FAP59/64 and MY09/11 amplicons may reproduce the complete L1 classification. Furthermore, unique or rare amino acids were found in at least one L1 sequence of each type of BPV identified in the study, some of which are in potential epitopes of PVs, suggesting an immune-mediated evolution of the viruses analyzed here. The second study reports a phylogenetic analysis of PVs circulating in dogs from RS between 2017 and 2022. For this, DNA from 26 canine papilloma samples were amplified with primers FAP59/64 and/or MY09/11. An in silico analysis was also performed with 46 complete L1 sequences (GenBank) to evaluate the concordance between the classifications based on the amplifiable region by FAP59/64 and MY09/11 vs that given by the analysis of the complete CPV L1. All PVs amplified by FAP59/64 (n = 22) were classified as CPV-1. Interestingly, the PVs amplified by MY09/11 (n = 4) were classified as BPV-1, with three detected in mixed infection with CPV- 1. In conclusion, the studies in this Thesis contribute to the knowledge about PVs by: i) describing and identifying single and mixed infections by BPV and CPV in RS; ii) demonstrating the adequacy of classification of BPV and CPV based on sequences amplified by primers FAP59/64 and MY09/11; iii) raising the hypothesis that BPVs circulating in RS may be under selective pressure by the host immune response; and iv) highlighting the possibility of infection of dogs by BPV-1. |
publishDate |
2023 |
dc.date.accessioned.fl_str_mv |
2023-04-19T10:28:30Z |
dc.date.available.fl_str_mv |
2023-04-19T10:28:30Z |
dc.date.issued.fl_str_mv |
2023-03-08 |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/doctoralThesis |
format |
doctoralThesis |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://repositorio.ufsm.br/handle/1/28743 |
url |
http://repositorio.ufsm.br/handle/1/28743 |
dc.language.iso.fl_str_mv |
por |
language |
por |
dc.relation.cnpq.fl_str_mv |
500500000007 |
dc.relation.confidence.fl_str_mv |
600 |
dc.relation.authority.fl_str_mv |
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dc.rights.driver.fl_str_mv |
Attribution-NonCommercial-NoDerivatives 4.0 International http://creativecommons.org/licenses/by-nc-nd/4.0/ info:eu-repo/semantics/openAccess |
rights_invalid_str_mv |
Attribution-NonCommercial-NoDerivatives 4.0 International http://creativecommons.org/licenses/by-nc-nd/4.0/ |
eu_rights_str_mv |
openAccess |
dc.publisher.none.fl_str_mv |
Universidade Federal de Santa Maria Centro de Ciências Rurais |
dc.publisher.program.fl_str_mv |
Programa de Pós-Graduação em Medicina Veterinária |
dc.publisher.initials.fl_str_mv |
UFSM |
dc.publisher.country.fl_str_mv |
Brasil |
dc.publisher.department.fl_str_mv |
Medicina Veterinária |
publisher.none.fl_str_mv |
Universidade Federal de Santa Maria Centro de Ciências Rurais |
dc.source.none.fl_str_mv |
reponame:Manancial - Repositório Digital da UFSM instname:Universidade Federal de Santa Maria (UFSM) instacron:UFSM |
instname_str |
Universidade Federal de Santa Maria (UFSM) |
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UFSM |
institution |
UFSM |
reponame_str |
Manancial - Repositório Digital da UFSM |
collection |
Manancial - Repositório Digital da UFSM |
bitstream.url.fl_str_mv |
http://repositorio.ufsm.br/bitstream/1/28743/2/license_rdf http://repositorio.ufsm.br/bitstream/1/28743/3/license.txt http://repositorio.ufsm.br/bitstream/1/28743/1/TES_PPGMV_2023_MERCHIORATTO_INGRYD.pdf |
bitstream.checksum.fl_str_mv |
4460e5956bc1d1639be9ae6146a50347 2f0571ecee68693bd5cd3f17c1e075df 97d4b2dd65b3a4d5149e97e9b530aa83 |
bitstream.checksumAlgorithm.fl_str_mv |
MD5 MD5 MD5 |
repository.name.fl_str_mv |
Manancial - Repositório Digital da UFSM - Universidade Federal de Santa Maria (UFSM) |
repository.mail.fl_str_mv |
|
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1801223969292943360 |