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Transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs
Umbilical hernia (UH) is one of the most frequent defects affecting pig production, however, it also affects humans and other mammals. UH is characterized as an abnormal protrusion of the abdominal contents to the umbilical region, causing pain, discomfort and reduced performance in pigs. Some genom...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7205231/ https://www.ncbi.nlm.nih.gov/pubmed/32379844 http://dx.doi.org/10.1371/journal.pone.0232542 |
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author | Souza, Mayla Regina Ibelli, Adriana Mercia Guaratini Savoldi, Igor Ricardo Cantão, Mauricio Egídio Peixoto, Jane de Oliveira Mores, Marcos Antônio Zanella Lopes, Jader Silva Coutinho, Luiz Lehmann Ledur, Mônica Corrêa |
author_facet | Souza, Mayla Regina Ibelli, Adriana Mercia Guaratini Savoldi, Igor Ricardo Cantão, Mauricio Egídio Peixoto, Jane de Oliveira Mores, Marcos Antônio Zanella Lopes, Jader Silva Coutinho, Luiz Lehmann Ledur, Mônica Corrêa |
author_sort | Souza, Mayla Regina |
collection | PubMed |
description | Umbilical hernia (UH) is one of the most frequent defects affecting pig production, however, it also affects humans and other mammals. UH is characterized as an abnormal protrusion of the abdominal contents to the umbilical region, causing pain, discomfort and reduced performance in pigs. Some genomic regions associated to UH have already been identified, however, no study involving RNA sequencing was performed when umbilical tissue is considered. Therefore, here, we have sequenced the umbilical ring transcriptome of five normal and five UH-affected pigs to uncover genes and pathways involved with UH development. A total of 13,216 transcripts were expressed in the umbilical ring tissue. From those, 230 genes were differentially expressed (DE) between normal and UH-affected pigs (FDR <0.05), being 145 downregulated and 85 upregulated in the affected compared to the normal pigs. A total of 68 significant biological processes were identified and the most relevant were extracellular matrix, immune system, anatomical development, cell adhesion, membrane components, receptor activation, calcium binding and immune synapse. The results pointed out ACAN, MMPs, COLs, EPYC, VIT, CCBE1 and LGALS3 as strong candidates to trigger umbilical hernias in pigs since they act in the extracellular matrix remodeling and in the production, integrity and resistance of the collagen. We have generated the first transcriptome of the pig umbilical ring tissue, which allowed the identification of genes that had not yet been related to umbilical hernias in pigs. Nevertheless, further studies are needed to identify the causal mutations, SNPs and CNVs in these genes to improve our understanding of the mechanisms of gene regulation. |
format | Online Article Text |
id | pubmed-7205231 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-72052312020-05-12 Transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs Souza, Mayla Regina Ibelli, Adriana Mercia Guaratini Savoldi, Igor Ricardo Cantão, Mauricio Egídio Peixoto, Jane de Oliveira Mores, Marcos Antônio Zanella Lopes, Jader Silva Coutinho, Luiz Lehmann Ledur, Mônica Corrêa PLoS One Research Article Umbilical hernia (UH) is one of the most frequent defects affecting pig production, however, it also affects humans and other mammals. UH is characterized as an abnormal protrusion of the abdominal contents to the umbilical region, causing pain, discomfort and reduced performance in pigs. Some genomic regions associated to UH have already been identified, however, no study involving RNA sequencing was performed when umbilical tissue is considered. Therefore, here, we have sequenced the umbilical ring transcriptome of five normal and five UH-affected pigs to uncover genes and pathways involved with UH development. A total of 13,216 transcripts were expressed in the umbilical ring tissue. From those, 230 genes were differentially expressed (DE) between normal and UH-affected pigs (FDR <0.05), being 145 downregulated and 85 upregulated in the affected compared to the normal pigs. A total of 68 significant biological processes were identified and the most relevant were extracellular matrix, immune system, anatomical development, cell adhesion, membrane components, receptor activation, calcium binding and immune synapse. The results pointed out ACAN, MMPs, COLs, EPYC, VIT, CCBE1 and LGALS3 as strong candidates to trigger umbilical hernias in pigs since they act in the extracellular matrix remodeling and in the production, integrity and resistance of the collagen. We have generated the first transcriptome of the pig umbilical ring tissue, which allowed the identification of genes that had not yet been related to umbilical hernias in pigs. Nevertheless, further studies are needed to identify the causal mutations, SNPs and CNVs in these genes to improve our understanding of the mechanisms of gene regulation. Public Library of Science 2020-05-07 /pmc/articles/PMC7205231/ /pubmed/32379844 http://dx.doi.org/10.1371/journal.pone.0232542 Text en © 2020 Souza et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Souza, Mayla Regina Ibelli, Adriana Mercia Guaratini Savoldi, Igor Ricardo Cantão, Mauricio Egídio Peixoto, Jane de Oliveira Mores, Marcos Antônio Zanella Lopes, Jader Silva Coutinho, Luiz Lehmann Ledur, Mônica Corrêa Transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs |
title | Transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs |
title_full | Transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs |
title_fullStr | Transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs |
title_full_unstemmed | Transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs |
title_short | Transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs |
title_sort | transcriptome analysis identifies genes involved with the development of umbilical hernias in pigs |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7205231/ https://www.ncbi.nlm.nih.gov/pubmed/32379844 http://dx.doi.org/10.1371/journal.pone.0232542 |
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