Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheep
Abstract Economic gain for sheep farmers is continually affected by incidences of copper intoxication and deficiency. This study assessed the ovine genome for differentially expressed genes (DEGs) influencing within-breed variation in hepatic copper content in Polish Merino sheep. To this end, we co...
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Nature Portfolio
2025-06-01
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| Online Access: | https://doi.org/10.1038/s41598-025-04330-8 |
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| author | Olusegun Olaniyi Adeniyi Ewa Grochowska Zexi Cai Gesine Lühken |
| author_facet | Olusegun Olaniyi Adeniyi Ewa Grochowska Zexi Cai Gesine Lühken |
| author_sort | Olusegun Olaniyi Adeniyi |
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| description | Abstract Economic gain for sheep farmers is continually affected by incidences of copper intoxication and deficiency. This study assessed the ovine genome for differentially expressed genes (DEGs) influencing within-breed variation in hepatic copper content in Polish Merino sheep. To this end, we compared whole genome RNA sequence expression data from 12 female Polish Merino sheep liver samples (dataset 1) selected and grouped equally into high liver copper (HLC) and low liver copper (LLC) groups. Likewise, dataset 2 (a subset of dataset 1) containing 6 samples (HLC = 3; LLC = 3) was analyzed. The DEG analysis of HLC vs LLC groups for both data sets revealed a lower number of significant DEGs for dataset 1 (n = 64) when compared to dataset 2 (n = 252), respectively. Of the significant DEGs, 53 were jointly identified with both datasets. Identified DEGs downregulated in the HLC group including MVD, DHCR7, LOC101113583 and ERG28 are implicated in cholesterol synthesis, whereas AKR1B10 and CYP26A1 are associated with retinoic acid synthesis. The cholesterol biosynthetic process (GO:0006695) and the retinol metabolism (oas00830) were also observed by analysis of enriched gene ontologies, and Kyoto encyclopedia of genes and genomes pathways, respectively. Our findings provide new information on candidate genes associated with within-breed differences in hepatic copper concentration. |
| format | Article |
| id | doaj-art-a6348caef64b4f95bd2a4dd1fea3d525 |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-06-01 |
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| spelling | doaj-art-a6348caef64b4f95bd2a4dd1fea3d5252025-08-20T03:25:19ZengNature PortfolioScientific Reports2045-23222025-06-0115111210.1038/s41598-025-04330-8Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheepOlusegun Olaniyi Adeniyi0Ewa Grochowska1Zexi Cai2Gesine Lühken3Institute of Animal Breeding and Genetics, Justus Liebig UniversityDepartment of Oncology, Faculty of Health Sciences, Collegium Medicum, Nicolaus Copernicus UniversityCenter for Quantitative Genetics and Genomics, Aarhus UniversityInstitute of Animal Breeding and Genetics, Justus Liebig UniversityAbstract Economic gain for sheep farmers is continually affected by incidences of copper intoxication and deficiency. This study assessed the ovine genome for differentially expressed genes (DEGs) influencing within-breed variation in hepatic copper content in Polish Merino sheep. To this end, we compared whole genome RNA sequence expression data from 12 female Polish Merino sheep liver samples (dataset 1) selected and grouped equally into high liver copper (HLC) and low liver copper (LLC) groups. Likewise, dataset 2 (a subset of dataset 1) containing 6 samples (HLC = 3; LLC = 3) was analyzed. The DEG analysis of HLC vs LLC groups for both data sets revealed a lower number of significant DEGs for dataset 1 (n = 64) when compared to dataset 2 (n = 252), respectively. Of the significant DEGs, 53 were jointly identified with both datasets. Identified DEGs downregulated in the HLC group including MVD, DHCR7, LOC101113583 and ERG28 are implicated in cholesterol synthesis, whereas AKR1B10 and CYP26A1 are associated with retinoic acid synthesis. The cholesterol biosynthetic process (GO:0006695) and the retinol metabolism (oas00830) were also observed by analysis of enriched gene ontologies, and Kyoto encyclopedia of genes and genomes pathways, respectively. Our findings provide new information on candidate genes associated with within-breed differences in hepatic copper concentration.https://doi.org/10.1038/s41598-025-04330-8Transcriptome analysisGenesLiverCopper concentrationSheep |
| spellingShingle | Olusegun Olaniyi Adeniyi Ewa Grochowska Zexi Cai Gesine Lühken Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheep Scientific Reports Transcriptome analysis Genes Liver Copper concentration Sheep |
| title | Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheep |
| title_full | Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheep |
| title_fullStr | Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheep |
| title_full_unstemmed | Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheep |
| title_short | Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheep |
| title_sort | comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in polish merino sheep |
| topic | Transcriptome analysis Genes Liver Copper concentration Sheep |
| url | https://doi.org/10.1038/s41598-025-04330-8 |
| work_keys_str_mv | AT olusegunolaniyiadeniyi comparativetranscriptomeanalysisrevealsgenesassociatedwithvariationinlivercopperconcentrationinpolishmerinosheep AT ewagrochowska comparativetranscriptomeanalysisrevealsgenesassociatedwithvariationinlivercopperconcentrationinpolishmerinosheep AT zexicai comparativetranscriptomeanalysisrevealsgenesassociatedwithvariationinlivercopperconcentrationinpolishmerinosheep AT gesineluhken comparativetranscriptomeanalysisrevealsgenesassociatedwithvariationinlivercopperconcentrationinpolishmerinosheep |