Integrative approach using liver and duodenum RNA-Seq data identifies candidate genes and pathways associated with feed efficiency in pigs
Autor/a
Ballester, Maria
Sánchez, Juan Pablo
González-Rodríguez, Olga
Revilla, Manuel
Reyer, Henry
Wimmers, Klaus
Fecha de publicación
2018-01-11ISSN
2045-2322
Resumen
This study aims identifying candidate genes and pathways associated with feed efficiency (FE) in pigs. Liver and duodenum transcriptomes of 37 gilts showing high and low residual feed intake (RFI) were analysed by RNA-Seq. Gene expression data was explored through differential expression (DE) and weighted gene co-expression network analyses. DE analysis revealed 55 and 112 differentially regulated genes in liver and duodenum tissues, respectively. Clustering genes according to their connectivity resulted in 23 (liver) and 25 (duodenum) modules of genes with a co-expression pattern. Four modules, one in liver (with 444 co-expressed genes) and three in duodenum (gathering 37, 126 and 41 co-expressed genes), were significantly associated with FE indicators. Intra-module analyses revealed tissue-specific candidate genes; 12 of these genes were also identified as DE between individuals with high and low RFI. Pathways enriched by the list of genes showing DE and/or belonging to FE co-expressed modules included response to oxidative stress, inflammation, immune response, lipid metabolism and thermoregulation. Low overlapping between genes identified in duodenum and liver tissues was observed but heat shock proteins were associated to FE in both tissues. Our results suggest tissue-specific rather than common transcriptome regulatory processes associated with FE in pigs.
Tipo de documento
Artículo
Versión del documento
Versión publicada
Lengua
English
Materias (CDU)
636 - Explotación y cría de animales. Cría del ganado y de animales domésticos
Páginas
11
Publicado por
Springer Nature
Publicado en
Scientific Reports
Citación
Ramayo-Caldas, Y., Ballester, M., Sánchez, J., González-Rodríguez, O., Revilla, M., & Reyer, H. et al. (2018). Integrative approach using liver and duodenum RNA-Seq data identifies candidate genes and pathways associated with feed efficiency in pigs. Scientific Reports, 8(1). doi:10.1038/s41598-017-19072-5
Número del acuerdo de la subvención
EC/FP7/311794/EU/A whole-systems approach to optimising feed efficiency and reducing the ecological footprint of monogastrics/ECO-FCE
Program
Genètica i Millora Animal
Nutrició Animal
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