Gene-Set Enrichment Analysis for Identifying Genes and Biological Activities Associated with Growth Traits in Dromedaries

Growth is an important heritable economic trait for dromedaries and necessary for planning a successful breeding program. Until now, genome-wide association studies (GWAS) and QTL-mapping have identified significant single nucleotide polymorphisms (SNPs) associated with growth in domestic animals, b...

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Bibliographic Details
Published in:Animals (Basel) 2022-01, Vol.12 (2), p.184
Main Authors: Sani, Morteza Bitaraf, Roudbari, Zahra, Karimi, Omid, Banabazi, Mohammad Hossein, Esmaeilkhanian, Saeid, Asadzadeh, Nader, Zare Harofte, Javad, Shafei Naderi, Ali, Burger, Pamela Anna
Format: Article
Language:English
Subjects:
Actin
Adenosine triphosphate
Animal and Dairy Science
Annotations
ATP
Binding
biological theme
Birth weight
Body weight
Body weight gain
Breeding
Calcium
Calcium ions
Conflicts of interest
Cytokines
Deoxyribonucleic acid
DNA
Domestic animals
dromedaries
Gene expression
Gene mapping
gene ontology
Gene set enrichment analysis
Genes
Genomes
growth
Husdjursvetenskap
Kinases
Meat
Myosin
Nucleotides
Ontology
Protein kinase
Proteins
Quantitative trait loci
Signal transduction
Single-nucleotide polymorphism
Software
Transcription factors
Tropomyosin
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Summary:Growth is an important heritable economic trait for dromedaries and necessary for planning a successful breeding program. Until now, genome-wide association studies (GWAS) and QTL-mapping have identified significant single nucleotide polymorphisms (SNPs) associated with growth in domestic animals, but in dromedaries, the number of studies is very low. This project aimed to find biological themes affecting growth in dromedaries. In the first step, 99 candidate SNPs were chosen from a previously established set of SNPs associated with body weight, gain, and birth weight in Iranian dromedaries. Next, 0.5 kb upstream and downstream of each candidate SNP were selected from NCBI (assembly accession: GCA_000803125.3). The annotation of fragments with candidate SNPs regarding the reference genome was retrieved using the Blast2GO tool. Candidate SNPs associated with growth were mapped to 22 genes, and 25 significant biological themes were identified to be related to growth in dromedaries. The main biological functions included calcium ion binding, protein binding, DNA-binding transcription factor activity, protein kinase activity, tropomyosin binding, myosin complex, actin-binding, ATP binding, receptor signaling pathway via , and cytokine activity. , , , , , , and genes are candidates for improving growth in camel breeding programs.
ISSN:2076-2615
2076-2615
DOI:10.3390/ani12020184