Identification of novel fatty acid-binding protein 4 polymorphisms and association of g.5002C>T with longissimus dorsi thickness in Indonesian Bali cattle (Bos javanicus).
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| Title: | Identification of novel fatty acid-binding protein 4 polymorphisms and association of g.5002C>T with longissimus dorsi thickness in Indonesian Bali cattle (Bos javanicus). |
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| Authors: | Dairoh, Dairoh1 dairoh58@gmail.com, Ulum, Mokhamad Fakhrul2 ulum@apps.ipb.ac.id, Sutikno, Sutikno1 sutikno.1@brin.go.id, Furqon, Ahmad1 ahmadfurqon91@gmail.com, Khaerunnisa, Isyana1 isya002@brin.go.id, Sumantri, Cece3 ceces@apps.ipb.ac.id, Jakaria, Jakaria3 jakaria@apps.ipb.ac.id |
| Source: | Veterinary World. Feb2026, Vol. 19 Issue 2, p760-770. 11p. |
| Document Type: | Article |
| Subjects: | Genetic polymorphisms, Single nucleotide polymorphisms, Fatty acid-binding proteins, Cattle genetics, Meat quality, Genetic correlations |
| Author-Supplied Keywords: | Bali cattle Bos javanicus FABP4 gene fatty acid composition meat quality traits single-nucleotide polymorphism ultrasound imaging |
| Abstract: | Background and Aim: The fatty acid-binding protein 4 (FABP4) gene is a key regulator of lipid metabolism and has been linked to carcass and meat quality traits in several cattle breeds. However, genetic variation in FABP4 and its phenotypic relevance in Bali cattle (Bos javanicus), an important indigenous Indonesian breed, remains poorly characterized. This study aimed to identify novel single-nucleotide polymorphisms (SNPs) in the FABP4 gene of Bali cattle and to evaluate their associations with in vivo ultrasound-measured carcass traits and fatty acid composition. Materials and Methods: Blood samples were collected from 95 Bali cattle bulls sourced from a single population. Genomic DNA was extracted, and a 721-bp fragment of FABP4 spanning intron 2 to exon 4 was amplified and sequenced using the Sanger method. SNP detection and sequence alignment were performed using standard bioinformatics tools. Carcass and meat quality traits, including longissimus dorsi thickness (LDT), backfat thickness (BFT), marbling score (MS), and intramuscular fat (IMF), were measured in live animals using ultrasound imaging. Fatty acid composition was determined from post-mortem muscle samples using gas chromatography--flame ionization detection. Associations between FABP4 genotypes and phenotypic traits were analyzed using a general linear model, with statistical significance set at p < 0.05. Results: Four novel FABP4 SNPs were identified: g.4631T>C, g.4724T>C, and g.4769G>A located in intron 3, and g.5002C>T located in exon 4. The g.5002C>T variant was a nonsynonymous substitution resulting in a valine-to-alanine amino acid change. Among the identified polymorphisms, only g.5002C>T showed a significant association with LDT (p = 0.0296). Animals carrying the CT genotype exhibited greater LDT compared with CC and TT genotypes. No significant associations were observed between any FABP4 SNPs and BFT, MS, IMF, or fatty acid composition. Conclusion: This study provides the first evidence of FABP4 genetic variation in Bali cattle and demonstrates that the g.5002C>T polymorphism is significantly associated with LDT. The CT genotype at this locus may serve as a potential genetic marker for improving muscle development in Bali cattle, subject to validation in larger and independent populations. [ABSTRACT FROM AUTHOR] |
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| Author Affiliations: | 1Research Center for Applied Zoology, National Research and Innovation Agency (BRIN), Bogor, 16911, West Java, Indonesia 2Division of Reproduction and Obstetrics, School of Veterinary Medicine and Biomedical Sciences, IPB University, Bogor, 16680, West Java, Indonesia 3Department of Animal Production and Technology, Faculty of Animal Science, IPB University, Bogor, 16680, Indonesia |
| ISSN: | 0972-8988 |
| DOI: | 10.14202/vetworld.2026.760-770 |
| Accession Number: | 191997413 |
| Database: | Veterinary Source |
| Abstract: | Background and Aim: The fatty acid-binding protein 4 (FABP4) gene is a key regulator of lipid metabolism and has been linked to carcass and meat quality traits in several cattle breeds. However, genetic variation in FABP4 and its phenotypic relevance in Bali cattle (Bos javanicus), an important indigenous Indonesian breed, remains poorly characterized. This study aimed to identify novel single-nucleotide polymorphisms (SNPs) in the FABP4 gene of Bali cattle and to evaluate their associations with in vivo ultrasound-measured carcass traits and fatty acid composition. Materials and Methods: Blood samples were collected from 95 Bali cattle bulls sourced from a single population. Genomic DNA was extracted, and a 721-bp fragment of FABP4 spanning intron 2 to exon 4 was amplified and sequenced using the Sanger method. SNP detection and sequence alignment were performed using standard bioinformatics tools. Carcass and meat quality traits, including longissimus dorsi thickness (LDT), backfat thickness (BFT), marbling score (MS), and intramuscular fat (IMF), were measured in live animals using ultrasound imaging. Fatty acid composition was determined from post-mortem muscle samples using gas chromatography--flame ionization detection. Associations between FABP4 genotypes and phenotypic traits were analyzed using a general linear model, with statistical significance set at p < 0.05. Results: Four novel FABP4 SNPs were identified: g.4631T>C, g.4724T>C, and g.4769G>A located in intron 3, and g.5002C>T located in exon 4. The g.5002C>T variant was a nonsynonymous substitution resulting in a valine-to-alanine amino acid change. Among the identified polymorphisms, only g.5002C>T showed a significant association with LDT (p = 0.0296). Animals carrying the CT genotype exhibited greater LDT compared with CC and TT genotypes. No significant associations were observed between any FABP4 SNPs and BFT, MS, IMF, or fatty acid composition. Conclusion: This study provides the first evidence of FABP4 genetic variation in Bali cattle and demonstrates that the g.5002C>T polymorphism is significantly associated with LDT. The CT genotype at this locus may serve as a potential genetic marker for improving muscle development in Bali cattle, subject to validation in larger and independent populations. [ABSTRACT FROM AUTHOR] |
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| ISSN: | 09728988 |
| DOI: | 10.14202/vetworld.2026.760-770 |