Identification of Diversity and Genetic Distance of Indonesian Local Chicken Strains Based on Myostatin Gene

Muhammad Muhsinin; Maskur Maskur; Rahma Jan; Tapaul Rozi; Lalu Muhammad Kasip; Muhammad Salman Al Farizi

doi:10.29303/jbt.v25i1.8297

Identification of Diversity and Genetic Distance of Indonesian Local Chicken Strains Based on Myostatin Gene

Authors

Muhammad Muhsinin , Maskur Maskur , Rahma Jan , Tapaul Rozi , Lalu Muhammad Kasip , Muhammad Salman Al Farizi

DOI:

10.29303/jbt.v25i1.8297

Published:

2025-01-07

Issue:

Vol. 25 No. 1 (2025): Januari - Maret

Keywords:

Genetic diversity; Genetic distance; Indonesian local chickens; MSTN gene.

Articles

Downloads

pdf

How to Cite

Muhsinin, M., Maskur, M., Jan, R., Rozi, T., Kasip, L. M., & Al Farizi, M. S. (2025). Identification of Diversity and Genetic Distance of Indonesian Local Chicken Strains Based on Myostatin Gene. Jurnal Biologi Tropis, 25(1), 18–25. https://doi.org/10.29303/jbt.v25i1.8297

Download Citation

Downloads

Download data is not yet available.

Metrics

Metrics Loading ...

Abstract

Indonesian local chickens are essential genetic resources with significant potential for advancing the national poultry industry due to their high genetic diversity, reflecting adaptation to tropical environments and traditional farming systems. This study analyzed the genetic diversity of Kampung, Sentul, KUB, SenSi, and Broiler chickens based on the MSTN g.4842T>G locus. Blood samples from 150 chickens underwent PCR-RFLP analysis using the BsrI restriction enzyme targeting exon 2 of the MSTN gene. Parameters such as observed heterozygosity (Ho), expected heterozygosity (He), polymorphism information content (PIC), and Hardy-Weinberg equilibrium were assessed. Genetic distances were calculated using PHYLIP, and a dendrogram was constructed with UPGMA. The study identified two alleles (G and T) and three genotypes (GG, GT, TT), with the T allele being dominant, particularly in Broiler chickens (78.3%). Ho was lower than He in all populations, indicating a heterozygosity deficit. PIC values ranged from 0.282 (Broiler) to 0.367 (SenSi), classifying the MSTN locus as moderately polymorphic. Kampung and KUB chickens showed the closest genetic relationship, while Broiler chickens were the most distinct. These findings underscore the potential of local chickens in breeding programs for adaptability and productivity. Further research with additional markers is recommended to enhance sustainable poultry farming.

References

Ariza, A. G., Arbulu, A. A., González, F. J. N., Baena, S. N., Bermejo, J. V. D., & Vallejo, M. E. C. (2021). The Study of Growth and Performance in Local Chicken Breeds and Varieties: A Review of Methods and Scientific Transference. Animals, 11(9), 2492. https://doi.org/ 10.3390/ani11092492

Bhoyar, L., Mehar, P., & Chavali, K. (2024). An overview of DNA degradation and its implications in forensic caseworks. Egyptian Journal of Forensic Sciences, 14(1). https://doi.org/10.1186/s41935-024-00389-y

Bortoluzzi, C., Bosse, M., Derks, M. F. L., Crooijmans, R. P. M. A., Groenen, M. a. M., & Megens, H. (2019). The type of bottleneck matters: Insights into the deleterious variation landscape of small managed populations. Evolutionary Applications, 13(2), 330–341. https://doi.org/10.1111/eva.12872

Chebo, C., Betsha, S., & Melesse, A. (2022). Chicken genetic diversity, improvement strategies and impacts on egg productivity in Ethiopia: a review. World S Poultry Science Journal, 78(3), 803–821. https://doi.org/10.1080/00439339. 2022.2067020

Chu, J., Ma, Y., Song, H., Zhao, Q., Wei, X., Yan, Y., Fan, S., Zhou, B., Li, S., & Mou, C. (2023). The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits. iScience, 26(4), 106426. https://doi.org/ 10.1016/j.isci.2023.106426

De La Parra, M. D., Inostroza, K., Alcalde, J. A., Larama, G., & Bravo, S. (2023). Characterization of the genetic diversity, structure, and admixture of 7 Chilean chicken breeds. Poultry Science, 103(2), 103238. https://doi.org/10.1016/j.psj. 2023.103238

Gao, C., Du, W., Tian, K., Wang, K., Wang, C., Sun, G., Kang, X., & Li, W. (2023). Analysis of Conservation Priorities and Runs of Homozygosity Patterns for Chinese Indigenous Chicken Breeds. Animals, 13(4), 599. https://doi.org/10.3390/ani13040599

Grzegorczyk, J., Gurgul, A., Oczkowicz, M., Szmatoła, T., Fornal, A., & Bugno-Poniewierska, M. (2021). Single Nucleotide Polymorphism Discovery and Genetic Differentiation Analysis of Geese Bred in Poland, Using Genotyping-by-Sequencing (GBS). Genes, 12(7), 1074. https://doi.org/10.3390/genes12071074

Gu, Z., Zhang, Y., Shi, P., Zhang, Y., Zhu, D., & Li, H. (2004). Comparison of avian myostatin genes. Animal Genetics, 35(6), 470–472. https://doi.org/10.1111/ j.1365-2052.2004.01194.x

Habimana, R., Okeno, T. O., Ngeno, K., Mboumba, S., Assami, P., Gbotto, A. A., Keambou, C. T., Nishimwe, K., Mahoro, J., & Yao, N. (2020). Genetic diversity and population structure of indigenous chicken in Rwanda using microsatellite markers. PLoS ONE, 15(4), e0225084. https://doi.org/10.1371/journal.pone.0225084

Kim, D., Choi, Y. M., Suh, Y., Shin, S., Lee, J., Hwang, S., & Lee, K. (2020). Research Note: Association of temporal expression of myostatin with hypertrophic muscle growth in different Japanese quail lines. Poultry Science, 99(6), 2926–2930. https://doi.org/ 10.1016/j.psj.2019.12.069

Kpomasse, C. C., Kouame, Y. a. E., N’nanle, O., Houndonougbo, F. M., Tona, K., & Oke, O. E. (2023). The productivity and resilience of the indigenous chickens in the tropical environments: improvement and future perspectives. Journal of Applied Animal Research, 51(1), 456–469. https://doi.org/10.1080/09712119. 2023.2228374

Lee, J., Kim, D., & Lee, K. (2024). Myostatin gene role in regulating traits of poultry species for potential industrial applications. Journal of Animal Science and Biotechnology/Journal of Animal Science and Biotechnology, 15(1). https://doi.org/10.1186/s40104-024-01040-5

Lu, T., Gibril, B. a. A., Xu, J., & Xiong, X. (2024). Unraveling the Genetic Foundations of Broiler Meat Quality: Advancements in Research and Their Impact. Genes, 15(6), 746. https://doi.org/10.3390/genes15060746

Mariandayani, H. N., Darwati, S., Khaerunnisa, I., & Prasasty, V. D. (2023). Growth performance of Indonesian three-breed cross chicken associated with growth hormone and insulin-like growth factor 2 genes. Veterinary World, 2471–2478. https://doi.org/10.14202/vetworld.2023.2471-2478

Mogano, R. R., Mpofu, T. J., Mtileni, B., & Hadebe, K. (2024). South African indigenous chickens’ genetic diversity, and the adoption of ecological niche modelling and landscape genomics as strategic conservation techniques. Poultry Science, 104(1), 104508. https://doi.org/10.1016/j.psj.2024.104508

Nawaz, A. H., Setthaya, P., & Feng, C. (2024). Exploring Evolutionary Adaptations and Genomic Advancements to Improve Heat Tolerance in Chickens. Animals, 14(15), 2215. https://doi.org/10.3390/ ani14152215

Nei, M. (1972). Genetic Distance between Populations. The American Naturalist, 106(949), 283–292. https://doi.org/ 10.1086/282771

Restoux, G., Rognon, X., Vieaud, A., Guemene, D., Petitjean, F., Rouger, R., Brard-Fudulea, S., Lubac-Paye, S., Chiron, G., & Tixier-Boichard, M. (2022). Managing genetic diversity in breeding programs of small populations: the case of French local chicken breeds. Genetics Selection Evolution, 54(1). https://doi.org/10.1186/s12711-022-00746-2

Rexroad, C., Vallet, J., Matukumalli, L. K., Reecy, J., Bickhart, D., Blackburn, H., Boggess, M., Cheng, H., Clutter, A., Cockett, N., Ernst, C., Fulton, J. E., Liu, J., Lunney, J., Neibergs, H., Purcell, C., Smith, T. P. L., Sonstegard, T., Taylor, J., . . . Wells, K. (2019). Genome to Phenome: Improving Animal Health, Production, and Well-Being – A New USDA Blueprint for Animal Genome Research 2018–2027. Frontiers in Genetics, 10. https://doi.org/10.3389/ fgene.2019.00327

Rodgers, B. D., & Ward, C. W. (2021). Myostatin/Activin Receptor Ligands in Muscle and the Development Status of Attenuating Drugs. Endocrine Reviews, 43(2), 329–365. https://doi.org/10.1210/ endrev/bnab030

Shoyombo, A. J., Abdulmojeed, Y., Alabi, O. O., Popoola, M. A., Okon, E. M., & Arije, D. O. (2022). Applications of Myostatin in Poultry and Aquaculture - A Review. The Open Agriculture Journal, 16(1). https://doi.org/10.2174/18743315-v16-e2208010

Sumantri, C., Khaerunnisa, I., & Gunawan, A. (2020). The genetic quality improvement of native and local chickens to increase production and meat quality in order to build the Indonesian chicken industry. IOP Conference Series Earth and Environmental Science, 492(1), 012099. https://doi.org/10.1088/1755-1315/ 492/ 1/012099

Talebi, R., Szmatoła, T., Mészáros, G., & Qanbari, S. (2020). Runs of Homozygosity in Modern Chicken Revealed by Sequence Data. G3 Genes Genomes Genetics, 10(12), 4615–4623. https://doi.org/10.1534/g3.120.401860

Tamura, K., Stecher, G., & Kumar, S. (2021). MEGA11: Molecular Evolutionary Genetics Analysis Version 11. Molecular Biology and Evolution, 38(7), 3022–3027. https://doi.org/10.1093/ molbev/msab120

Wang, M., Zhang, J., Guo, X., Li, M., Meyer, R., Ashari, H., Zheng, Z., Wang, S., Peng, M., Jiang, Y., Thakur, M., Suwannapoom, C., Esmailizadeh, A., Hirimuthugoda, N. Y., Zein, M. S. A., Kusza, S., Kharrati-Koopaee, H., Zeng, L., Wang, Y., . . . Zhang, Y. (2021). Large-scale genomic analysis reveals the genetic cost of chicken domestication. BMC Biology, 19(1). https://doi.org/ 10.1186/s12915-021-01052-x

Wu, S., Chen, Z., Zhou, X., Lu, J., Tian, Y., Jiang, Y., Liu, Q., Wang, Z., Li, H., Qu, L., & Zhang, F. (2024). Analysis of genetic diversity and genetic structure of indigenous chicken populations in Guizhou Province based on genome-wide single nucleotide polymorphism markers. Poultry Science, 103(12), 104383. https://doi.org/10.1016/j.psj. 2024.104383

Xie, X., Shi, L., Zhong, Z., Wang, Z., Pan, D., Hou, G., & Xiao, Q. (2024). Danzhou chicken: a unique genetic resource revealed by genome-wide resequencing data. Poultry Science, 103(8), 103960. https://doi.org/10.1016/j.psj.2024.103960

Xie, X., Wang, Z., Zhong, Z., Pan, D., Hou, G., & Xiao, Q. (2024). Genome-wide scans for selection signatures in indigenous chickens reveal candidate genes associated with local adaptation. Animal, 18(5), 101151. https://doi.org/10.1016/ j.animal.2024.101151

Xu, K., Han, C. X., Zhou, H., Ding, J. M., Xu, Z., Yang, L. Y., He, C., Akinyemi, F., Zheng, Y. M., Qin, C., Luo, H. X., & Meng, H. (2020). Effective MSTN Gene Knockout by AdV-Delivered CRISPR/Cas9 in Postnatal Chick Leg Muscle. International Journal of Molecular Sciences, 21(7), 2584. https://doi.org/10.3390/ijms21072584

Yuan, J., Li, S., Sheng, Z., Zhang, M., Liu, X., Yuan, Z., Yang, N., & Chen, J. (2022). Genome-wide run of homozygosity analysis reveals candidate genomic regions associated with environmental adaptations of Tibetan native chickens. BMC Genomics, 23(1). https://doi.org/ 10.1186/s12864-021-08280-z

License

This work is licensed under a Creative Commons Attribution 4.0 International License.

Jurnal Biologi Tropis is licensed under a Creative Commons Attribution 4.0 International License.

The copyright of the received article shall be assigned to the author as the owner of the paper. The intended copyright includes the right to publish the article in various forms (including reprints). The journal maintains the publishing rights to the published articles.

Authors are permitted to disseminate published articles by sharing the link/DOI of the article at the journal. Authors are allowed to use their articles for any legal purposes deemed necessary without written permission from the journal with an acknowledgment of initial publication to this journal.

Identification of Diversity and Genetic Distance of Indonesian Local Chicken Strains Based on Myostatin Gene

Authors

DOI:

Published:

Issue:

Keywords:

Articles

Downloads

How to Cite

Downloads

Metrics

Abstract

References

License

Most read articles by the same author(s)

Similar Articles

Menu

Manuscript Template

visitor

Keywords

Mitra Kerja sama

Open Access Journals

Contact Us

Information

Share & Follow