Identification of 21-bp indel polymorphism in the LLGL1 gene in several Turkish native goat populations
Öz
Being one of the fundamental economically important traits, reproduction efficiency such as litter size plays a key role in determining profitability for livestock enterprises focusing on meat production. Numerous candidate genes identified to be associated with litter size have been subjected to Marker-Assisted Selection (MAS) studies to improve classical breeding approaches. Of these candidate genes, Scribble Cell Polarity Complex Component (LLGL1) was confirmed to carry 21 base pair (bp) insertion-deletion (InDel) variation which was directly related to multiple births in goats. This study aims to determine the polymorphisms caused by the 21 bp indel variation in the LLGL1 gene in Hair (HAI), Honamlı (HNM), and Kabakulak (KBK) goats reared in Türkiye. At the end of the PCR process, all populations were found to be polymorphic. I allele frequency was higher than D allele frequency across three populations while the highest frequency of ID (0.50) II genotypes (0.47) was observed in the HAI breed. The observed heterozygosity (Ho) values for HNM, HAI, and KBK populations were 0.63, 0.50, and 0.63, respectively, while the expected heterozygosity (He) values were 0.50, 0.59, and 0.51, respectively. All populations were found to be in Hardy-Weinberg equilibrium. This study confirms that the LLGL1 gene is promising to increase reproduction traits in three Anatolian goat populations due to conserving sufficient genetic variability. However, before proceeding with MAS studies, it is crucial to analyze the relationship between phenotypic data and the genotypes obtained for this gene region.
Anahtar Kelimeler
Etik Beyan
This study was approved by the Local Ethics Committee of Animal Experiments of the Eskişehir Osmangazi University (Protocol No: HAYDEK-968/2023).
Kaynakça
- Abuzahra M, Abu Eid L, Effendi MH, Mustofa I, Lamid M, Rehman S (2023) Polymorphism studies and candidate genes associated with litter size traits in Indonesian goats: a systematic review. F1000Research 12: 61.
- Ahlawat S, Sharma R, Maitra A, Tantia MS (2015) Current status of molecular genetics research of goat fecundity. Small Ruminant Research 125: 34-42.
- Aslan M, Demir E, Karslı T (2022) Microsatellite diversity and restriction enzyme-based polymorphisms of MHC loci in some native Turkish goats. Journal of Agricultural Sciences 28(4): 626-634.
- Atay S, Yurdagül KG, Bilginer Ü, Karslı T, Demir E (2023) InDel Variations of PRL and GHR Genes Associated with Litter Size in Pirlak sheep breed. Tekirdağ Ziraat Fakültesi Dergisi 20(4): 890-897.
- Çelikeloğlu K, Tekerli M, Erdoğan M, Koçak S, Hacan Ö, Bozkurt Z (2021) An investigation of the effects of BMPR1B, BMP15, and GDF9 genes on litter size in Ramlıç and Dağlıç sheep. Archives Animal Breeding 64(1): 223-230.
- de Lima LG, de Souza NOB, Rios RR, de Melo BA, dos Santos LTA, Silva KDM, Fraga AB (2020) Advances in molecular genetic techniques applied to selection for litter size in goats (Capra hircus): a review. Journal of Applied Animal Research 48(1): 38-44.
- Demir E, Karslı BA, Karsli T, Balcioğlu MS (2020) Determination of SacII and MboII polymorphisms in the Nerve Growth Factor (NGF) gene in four native Turkish goat populations. Mediterranean Agricultural Sciences 33(1): 145-148.
- Demir E (2024) Microsatellite-based bottleneck analysis and migration events among four native Turkish goat breeds. Archives Animal Breeding 67(3): 353-360.
- Elmaz Ö, Çolak M, Akbaç AA, Saatci M (2016) Growth performance and some morphological traits of Honamli goat kids until weaning age in extensive condition. Review on Agriculture and Rural Development 5(1-2): 48-51.
- Gedik Y (2021) Screening for inverdale (FecXI) mutation in BMP15 gene in prolific Turkish Awassi Sheep. Black Sea Journal of Agriculture 4(4): 130-132.
- Kang Z, Zhang S, He L, Zhu H, Wang Z, Yan H, Pan C (2019) A 14-bp functional deletion within the CMTM2 gene is significantly associated with litter size in goat. Theriogenology 139: 49-57.
- Karslı T, Balcıoğlu MS (2010) An investigation of presence of FecB allele on BMPR-IB (Booroola) gene raised in Turkey in six local sheep breeds using PCR-RFLP method. Kafkas Üniversitesi Veteriner Fakültesi Dergisi 16(6): 1033-1036.
- Karslı T, Șahin E, Karslı BA, Eren MG, Balcıoğlu MS (2011) An investigation of presence of FecB, FecXG, FecXH allele in Kangal and Güney Karaman sheep using PCR-RFLP method. Lalahan Hayvancılık Araştırma Enstitüsü Dergisi 51(2): 71-80.
- Karslı T, Şahin E, Karslı BA, Alkan S, Balcıoğlu MS (2012) An investigation of mutations (FecXG, FecXI, FecXH, FecXB) on BMP-15 gene in some local sheep breeds raised in Turkey. Akdeniz University Journal of the Faculty of Agriculture 25(1): 29-33.
- Karsli T, Demir E, Fidan HG, Aslan M, Karsli BA, Arik IZ, Balcioglu MS (2020) Determination of genetic variability, population structure and genetic differentiation of indigenous Turkish goat breeds based on SSR loci. Small Ruminant Research 190: 106147.
- Karslı BA, Demir E (2024) Kıl, Honamlı ve Kabakulak Keçilerinde CMTM2 ve CSN1S1 Genlerinde Çoklu Doğumla İlişkili InDel Varyantların Belirlenmesi. Turkish Journal of Agriculture-Food Science and Technology 12(9): 1577-1582.
- Kirikçi K (2023) Investigation of BMP15 and GDF9 gene polymorphisms and their effects on litter size in Anatolian sheep breed Akkaraman. Turkish Journal of Veterinary and Animal Sciences 47(3): 248-254.
- Liu N, Cui W, Chen M, Zhang X, Song X, Pan C (2021) A 21-bp indel within the LLGL1 gene is significantly associated with litter size in goat. Animal Biotechnology 32(2): 213-218.
- Miller S, Dykes D, Plesky HA (1988) Simple salting out procedure for extracting DNA from human cells. Nucleic Acids Research 16: 1215-1215.
- Şirin E, Şirin E, Genç S (2020) The effect of oestrus synchronization on reproductive performance and birth weight in hair goats during the breeding season. Turkish Journal of Agriculture- Food Science and Technology 8(12): 2619-2622.
- Tamura K, Stecher G, Kumar S (2021) MEGA11: molecular evolutionary genetics analysis version 11. Molecular biology and evolution 38(7): 3022-3027.
- TSI (2023) Statistical Tables, Number of Sheep and Goat, https://data.tuik.gov.tr/Kategori/GetKategori?p=tarim-111&dil=1, Accessed 09 February, 2025.
- Wang K, Yan H, Xu H, Yang Q, Zhang S, Pan C, Lan X (2018) A novel indel within goat casein alpha S1 gene is significantly associated with litter size. Gene 671: 161-169.
- Yeh FC, Yang RC, Boyle TBJ, Ye ZH, Mao JX (1997) POPGENE, The user-friendly shareware for population genetic analysis. Molecular Biology and Biotechnology Centre, University of Alberta, Canada.
Identification of 21-bp indel polymorphism in the LLGL1 gene in several Turkish native goat populations
Öz
Being one of the fundamental economically important traits, reproduction efficiency such as litter size plays a key role in determining profitability for livestock enterprises focusing on meat production. Numerous candidate genes identified to be associated with litter size have been subjected to Marker-Assisted Selection (MAS) studies to improve classical breeding approaches. Of these candidate genes, Scribble Cell Polarity Complex Component (LLGL1) was confirmed to carry 21 base pair (bp) insertion-deletion (InDel) variation which was directly related to multiple births in goats. This study aims to determine the polymorphisms caused by the 21 bp indel variation in the LLGL1 gene in Hair (HAI), Honamlı (HNM), and Kabakulak (KBK) goats reared in Türkiye. At the end of the PCR process, all populations were found to be polymorphic. I allele frequency was higher than D allele frequency across three populations while the highest frequency of ID (0.50) II genotypes (0.47) was observed in the HAI breed. The observed heterozygosity (Ho) values for HNM, HAI, and KBK populations were 0.63, 0.50, and 0.63, respectively, while the expected heterozygosity (He) values were 0.50, 0.59, and 0.51, respectively. All populations were found to be in Hardy-Weinberg equilibrium. This study confirms that the LLGL1 gene is promising to increase reproduction traits in three Anatolian goat populations due to conserving sufficient genetic variability. However, before proceeding with MAS studies, it is crucial to analyze the relationship between phenotypic data and the genotypes obtained for this gene region.
Anahtar Kelimeler
Kaynakça
- Abuzahra M, Abu Eid L, Effendi MH, Mustofa I, Lamid M, Rehman S (2023) Polymorphism studies and candidate genes associated with litter size traits in Indonesian goats: a systematic review. F1000Research 12: 61.
- Ahlawat S, Sharma R, Maitra A, Tantia MS (2015) Current status of molecular genetics research of goat fecundity. Small Ruminant Research 125: 34-42.
- Aslan M, Demir E, Karslı T (2022) Microsatellite diversity and restriction enzyme-based polymorphisms of MHC loci in some native Turkish goats. Journal of Agricultural Sciences 28(4): 626-634.
- Atay S, Yurdagül KG, Bilginer Ü, Karslı T, Demir E (2023) InDel Variations of PRL and GHR Genes Associated with Litter Size in Pirlak sheep breed. Tekirdağ Ziraat Fakültesi Dergisi 20(4): 890-897.
- Çelikeloğlu K, Tekerli M, Erdoğan M, Koçak S, Hacan Ö, Bozkurt Z (2021) An investigation of the effects of BMPR1B, BMP15, and GDF9 genes on litter size in Ramlıç and Dağlıç sheep. Archives Animal Breeding 64(1): 223-230.
- de Lima LG, de Souza NOB, Rios RR, de Melo BA, dos Santos LTA, Silva KDM, Fraga AB (2020) Advances in molecular genetic techniques applied to selection for litter size in goats (Capra hircus): a review. Journal of Applied Animal Research 48(1): 38-44.
- Demir E, Karslı BA, Karsli T, Balcioğlu MS (2020) Determination of SacII and MboII polymorphisms in the Nerve Growth Factor (NGF) gene in four native Turkish goat populations. Mediterranean Agricultural Sciences 33(1): 145-148.
- Demir E (2024) Microsatellite-based bottleneck analysis and migration events among four native Turkish goat breeds. Archives Animal Breeding 67(3): 353-360.
- Elmaz Ö, Çolak M, Akbaç AA, Saatci M (2016) Growth performance and some morphological traits of Honamli goat kids until weaning age in extensive condition. Review on Agriculture and Rural Development 5(1-2): 48-51.
- Gedik Y (2021) Screening for inverdale (FecXI) mutation in BMP15 gene in prolific Turkish Awassi Sheep. Black Sea Journal of Agriculture 4(4): 130-132.
- Kang Z, Zhang S, He L, Zhu H, Wang Z, Yan H, Pan C (2019) A 14-bp functional deletion within the CMTM2 gene is significantly associated with litter size in goat. Theriogenology 139: 49-57.
- Karslı T, Balcıoğlu MS (2010) An investigation of presence of FecB allele on BMPR-IB (Booroola) gene raised in Turkey in six local sheep breeds using PCR-RFLP method. Kafkas Üniversitesi Veteriner Fakültesi Dergisi 16(6): 1033-1036.
- Karslı T, Șahin E, Karslı BA, Eren MG, Balcıoğlu MS (2011) An investigation of presence of FecB, FecXG, FecXH allele in Kangal and Güney Karaman sheep using PCR-RFLP method. Lalahan Hayvancılık Araştırma Enstitüsü Dergisi 51(2): 71-80.
- Karslı T, Şahin E, Karslı BA, Alkan S, Balcıoğlu MS (2012) An investigation of mutations (FecXG, FecXI, FecXH, FecXB) on BMP-15 gene in some local sheep breeds raised in Turkey. Akdeniz University Journal of the Faculty of Agriculture 25(1): 29-33.
- Karsli T, Demir E, Fidan HG, Aslan M, Karsli BA, Arik IZ, Balcioglu MS (2020) Determination of genetic variability, population structure and genetic differentiation of indigenous Turkish goat breeds based on SSR loci. Small Ruminant Research 190: 106147.
- Karslı BA, Demir E (2024) Kıl, Honamlı ve Kabakulak Keçilerinde CMTM2 ve CSN1S1 Genlerinde Çoklu Doğumla İlişkili InDel Varyantların Belirlenmesi. Turkish Journal of Agriculture-Food Science and Technology 12(9): 1577-1582.
- Kirikçi K (2023) Investigation of BMP15 and GDF9 gene polymorphisms and their effects on litter size in Anatolian sheep breed Akkaraman. Turkish Journal of Veterinary and Animal Sciences 47(3): 248-254.
- Liu N, Cui W, Chen M, Zhang X, Song X, Pan C (2021) A 21-bp indel within the LLGL1 gene is significantly associated with litter size in goat. Animal Biotechnology 32(2): 213-218.
- Miller S, Dykes D, Plesky HA (1988) Simple salting out procedure for extracting DNA from human cells. Nucleic Acids Research 16: 1215-1215.
- Şirin E, Şirin E, Genç S (2020) The effect of oestrus synchronization on reproductive performance and birth weight in hair goats during the breeding season. Turkish Journal of Agriculture- Food Science and Technology 8(12): 2619-2622.
- Tamura K, Stecher G, Kumar S (2021) MEGA11: molecular evolutionary genetics analysis version 11. Molecular biology and evolution 38(7): 3022-3027.
- TSI (2023) Statistical Tables, Number of Sheep and Goat, https://data.tuik.gov.tr/Kategori/GetKategori?p=tarim-111&dil=1, Accessed 09 February, 2025.
- Wang K, Yan H, Xu H, Yang Q, Zhang S, Pan C, Lan X (2018) A novel indel within goat casein alpha S1 gene is significantly associated with litter size. Gene 671: 161-169.
- Yeh FC, Yang RC, Boyle TBJ, Ye ZH, Mao JX (1997) POPGENE, The user-friendly shareware for population genetic analysis. Molecular Biology and Biotechnology Centre, University of Alberta, Canada.
Ayrıntılar
| Birincil Dil | İngilizce |
|---|---|
| Konular | Zootekni, Genetik ve Biyoistatistik |
| Bölüm | Makaleler |
| Yazarlar | |
| Yayımlanma Tarihi | 9 Nisan 2025 |
| Gönderilme Tarihi | 2 Ekim 2024 |
| Kabul Tarihi | 9 Ocak 2025 |
| Yayımlandığı Sayı | Yıl 2025 Cilt: 38 Sayı: 1 |
Kaynak Göster
Mediterranean Agricultural Sciences is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.