miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds
MicroRNAs (miRNAs) are important post-transcriptional regulators in eukaryotes that target mRNAs repressing their expression. The uncertain process of pig domestication, with different origin focuses, and the selection process that commercial breeds suffered, have generated a wide spectrum of breeds...
| Autores: | , , , , , , , |
|---|---|
| Tipo de recurso: | artículo |
| Fecha de publicación: | 2013 |
| País: | España |
| Institución: | Universitat Autònoma de Barcelona |
| Repositorio: | Dipòsit Digital de Documents de la UAB |
| Idioma: | inglés |
| OAI Identifier: | oai:ddd.uab.cat:142498 |
| Acceso en línea: | https://ddd.uab.cat/record/142498 https://dx.doi.org/urn:doi:10.1371/journal.pone.0055402 |
| Access Level: | acceso abierto |
| Palabra clave: | MicroRNAs Sequence databases Kidneys Animal sexual behavior Sequence alignment DNA sequence analysis Gene expression Genomic databases |
| id |
ES_c2b2ec98df85ca2bda06911d85de7a09 |
|---|---|
| oai_identifier_str |
oai:ddd.uab.cat:142498 |
| network_acronym_str |
ES |
| network_name_str |
España |
| repository_id_str |
|
| spelling |
miRNA Expression Profile Analysis in Kidney of Different Porcine BreedsTimoneda i Heredia, OriolBalcells Ortega, IngridNúñez, J. Ignacio|||0000-0001-9890-7695Egea, Raquel|||0000-0002-6201-4112Vera Rodríguez, Gonzalo|||0000-0001-6990-0216Castelló Farré, Anna|||0000-0001-8497-6251Tomas, AnnaSánchez Bonastre, Armando|||0000-0001-9160-1124MicroRNAsSequence databasesKidneysAnimal sexual behaviorSequence alignmentDNA sequence analysisGene expressionGenomic databasesMicroRNAs (miRNAs) are important post-transcriptional regulators in eukaryotes that target mRNAs repressing their expression. The uncertain process of pig domestication, with different origin focuses, and the selection process that commercial breeds suffered, have generated a wide spectrum of breeds with clear genetic and phenotypic variability. The aim of this work was to define the miRNAs expression profile in kidney of several porcine breeds. Small RNA libraries from kidney were elaborated and high-throughput sequenced with the 454 Genome Sequencer FLX (Roche). Pigs used were classified into three groups: the European origin group (Iberian breed and European Wild Boar ancestor), European commercial breeds (Landrace, Large White and Piétrain breeds) and breeds with Asian origin (Meishan and Vietnamese breeds). A total of 229 miRNAs were described in the pig kidney miRNA profile, including 110 miRNAs out of the 257 previously described pig miRNAs and 119 orthologous miRNAs. The most expressed miRNAs in pig kidney microRNAome were Hsa-miR-200b-3p, Ssc-miR-125b and Ssc-miR-23b. Moreover, 5 novel porcine miRNAs and 3 orthologous miRNAs could be validated through RT-qPCR. miRNA sequence variation was determined in 116 miRNAs, evidencing the presence of isomiRs. 125 miRNAs were differentially expressed between breed groups. The identification of breed-specific miRNAs, which could be potentially associated to certain phenotypes, is becoming a new tool for the study of the genetic variability underlying complex traits and furthermore, it adds a new layer of complexity to the interesting process of pig evolution. 22013-01-0120132013-01-01Articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttps://ddd.uab.cat/record/142498https://dx.doi.org/urn:doi:10.1371/journal.pone.0055402reponame:Dipòsit Digital de Documents de la UABinstname:Universitat Autònoma de BarcelonaInglésengMinisterio de Ciencia e Innovación https://doi.org/10.13039/501100004837 AGL2007/66371-C02-01Ministerio de Ciencia e Innovación https://doi.org/10.13039/501100004837 AGL2010/22358-C02-01Ministerio de Educación y Ciencia https://doi.org/10.13039/501100004837 CSD2007-00036open accesshttp://purl.org/coar/access_right/c_abf2Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.https://creativecommons.org/licenses/by/3.0/info:eu-repo/semantics/openAccessoai:ddd.uab.cat:1424982026-06-06T12:50:31Z |
| dc.title.none.fl_str_mv |
miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds |
| title |
miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds |
| spellingShingle |
miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds Timoneda i Heredia, Oriol MicroRNAs Sequence databases Kidneys Animal sexual behavior Sequence alignment DNA sequence analysis Gene expression Genomic databases |
| title_short |
miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds |
| title_full |
miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds |
| title_fullStr |
miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds |
| title_full_unstemmed |
miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds |
| title_sort |
miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds |
| dc.creator.none.fl_str_mv |
Timoneda i Heredia, Oriol Balcells Ortega, Ingrid Núñez, J. Ignacio|||0000-0001-9890-7695 Egea, Raquel|||0000-0002-6201-4112 Vera Rodríguez, Gonzalo|||0000-0001-6990-0216 Castelló Farré, Anna|||0000-0001-8497-6251 Tomas, Anna Sánchez Bonastre, Armando|||0000-0001-9160-1124 |
| author |
Timoneda i Heredia, Oriol |
| author_facet |
Timoneda i Heredia, Oriol Balcells Ortega, Ingrid Núñez, J. Ignacio|||0000-0001-9890-7695 Egea, Raquel|||0000-0002-6201-4112 Vera Rodríguez, Gonzalo|||0000-0001-6990-0216 Castelló Farré, Anna|||0000-0001-8497-6251 Tomas, Anna Sánchez Bonastre, Armando|||0000-0001-9160-1124 |
| author_role |
author |
| author2 |
Balcells Ortega, Ingrid Núñez, J. Ignacio|||0000-0001-9890-7695 Egea, Raquel|||0000-0002-6201-4112 Vera Rodríguez, Gonzalo|||0000-0001-6990-0216 Castelló Farré, Anna|||0000-0001-8497-6251 Tomas, Anna Sánchez Bonastre, Armando|||0000-0001-9160-1124 |
| author2_role |
author author author author author author author |
| dc.subject.none.fl_str_mv |
MicroRNAs Sequence databases Kidneys Animal sexual behavior Sequence alignment DNA sequence analysis Gene expression Genomic databases |
| topic |
MicroRNAs Sequence databases Kidneys Animal sexual behavior Sequence alignment DNA sequence analysis Gene expression Genomic databases |
| description |
MicroRNAs (miRNAs) are important post-transcriptional regulators in eukaryotes that target mRNAs repressing their expression. The uncertain process of pig domestication, with different origin focuses, and the selection process that commercial breeds suffered, have generated a wide spectrum of breeds with clear genetic and phenotypic variability. The aim of this work was to define the miRNAs expression profile in kidney of several porcine breeds. Small RNA libraries from kidney were elaborated and high-throughput sequenced with the 454 Genome Sequencer FLX (Roche). Pigs used were classified into three groups: the European origin group (Iberian breed and European Wild Boar ancestor), European commercial breeds (Landrace, Large White and Piétrain breeds) and breeds with Asian origin (Meishan and Vietnamese breeds). A total of 229 miRNAs were described in the pig kidney miRNA profile, including 110 miRNAs out of the 257 previously described pig miRNAs and 119 orthologous miRNAs. The most expressed miRNAs in pig kidney microRNAome were Hsa-miR-200b-3p, Ssc-miR-125b and Ssc-miR-23b. Moreover, 5 novel porcine miRNAs and 3 orthologous miRNAs could be validated through RT-qPCR. miRNA sequence variation was determined in 116 miRNAs, evidencing the presence of isomiRs. 125 miRNAs were differentially expressed between breed groups. The identification of breed-specific miRNAs, which could be potentially associated to certain phenotypes, is becoming a new tool for the study of the genetic variability underlying complex traits and furthermore, it adds a new layer of complexity to the interesting process of pig evolution. |
| publishDate |
2013 |
| dc.date.none.fl_str_mv |
2 2013-01-01 2013 2013-01-01 |
| dc.type.none.fl_str_mv |
Article http://purl.org/coar/resource_type/c_6501 VoR http://purl.org/coar/version/c_970fb48d4fbd8a85 |
| dc.type.openaire.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| dc.identifier.none.fl_str_mv |
https://ddd.uab.cat/record/142498 https://dx.doi.org/urn:doi:10.1371/journal.pone.0055402 |
| url |
https://ddd.uab.cat/record/142498 https://dx.doi.org/urn:doi:10.1371/journal.pone.0055402 |
| dc.language.none.fl_str_mv |
Inglés eng |
| language_invalid_str_mv |
Inglés |
| language |
eng |
| dc.relation.none.fl_str_mv |
Ministerio de Ciencia e Innovación https://doi.org/10.13039/501100004837 AGL2007/66371-C02-01 Ministerio de Ciencia e Innovación https://doi.org/10.13039/501100004837 AGL2010/22358-C02-01 Ministerio de Educación y Ciencia https://doi.org/10.13039/501100004837 CSD2007-00036 |
| dc.rights.none.fl_str_mv |
open access http://purl.org/coar/access_right/c_abf2 https://creativecommons.org/licenses/by/3.0/ |
| dc.rights.openaire.fl_str_mv |
info:eu-repo/semantics/openAccess |
| rights_invalid_str_mv |
open access http://purl.org/coar/access_right/c_abf2 https://creativecommons.org/licenses/by/3.0/ |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
application/pdf |
| dc.source.none.fl_str_mv |
reponame:Dipòsit Digital de Documents de la UAB instname:Universitat Autònoma de Barcelona |
| instname_str |
Universitat Autònoma de Barcelona |
| reponame_str |
Dipòsit Digital de Documents de la UAB |
| collection |
Dipòsit Digital de Documents de la UAB |
| repository.name.fl_str_mv |
|
| repository.mail.fl_str_mv |
|
| _version_ |
1869418709942009856 |
| score |
15,300724 |