1
|
Abeygunawardana DI, Ranasinghe RMSBK, De Silva SNT, Deshapriya RMC, Gamika PA, Rajapakse J. Prevalence of growth hormone receptor gene polymorphisms and their association with milk production and fertility-related traits of cross-bred dairy cows in Sri Lanka. Anim Biotechnol 2024; 35:2307012. [PMID: 38305036 DOI: 10.1080/10495398.2024.2307012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2024]
Abstract
This study investigated the association of selected growth hormone receptor (GHR) gene SNPs with selected fertility and milk production-related phenotypes of cross-bred dairy cows (n = 153) reared on three National Livestock Development Board farms in Sri Lanka. Selected cows were genetically screened for SNPs in the exon 08 (n = 153) and 5' upstream (n = 118) regions of the GHR gene using the target sequencing method. The relationships between different genotypes and fertility traits (average calving interval, average number of services per conception, and age at first calving) and milk production-related traits (average total lactation yield, average lactation length, and average milk yield) were analyzed using the General Linear Model in SPSS. Among the identified Four GHR SNPs, rs1099014416 was significantly associated with average calving interval and age at first calving. Cows with GG genotype exhibited younger age at first calving (918.51 ± 113.42 days) and longer calving intervals (543.41 ± 43.29 days) compared to cows with GT (1275.18 ± 38.31, 515.09 ± 24.49 days) and TT (1212.89 ± 88.22, 364.52 ± 54.01 days) genotypes. Other SNPs did not show associations with the studied traits. SNP rs109014416 has the potential to be used as a genetic marker for fertility-related traits in the selection of cross-bred dairy cows in Sri Lanka which should be validated with a larger population.
Collapse
Affiliation(s)
- Dameesha Indeewari Abeygunawardana
- Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine and Animal Science, University of Peradeniya, Peradeniya, Sri Lanka
- Department of Livestock and Avian Sciences, Faculty of Livestock, Fisheries and Nutrition, Wayamba University of Sri Lanka, Makandura, Gonawila (NWP), Sri Lanka
| | | | | | | | - Prathapasinghe Arachchige Gamika
- Department of Livestock and Avian Sciences, Faculty of Livestock, Fisheries and Nutrition, Wayamba University of Sri Lanka, Makandura, Gonawila (NWP), Sri Lanka
| | - Jayanthe Rajapakse
- Department of Veterinary Pathobiology, Faculty of Veterinary Medicine and Animal Science, University of Peradeniya, Peradeniya, Sri Lanka
| |
Collapse
|
2
|
Lopdell TJ. Using QTL to Identify Genes and Pathways Underlying the Regulation and Production of Milk Components in Cattle. Animals (Basel) 2023; 13:ani13050911. [PMID: 36899768 PMCID: PMC10000085 DOI: 10.3390/ani13050911] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Revised: 02/23/2023] [Accepted: 02/28/2023] [Indexed: 03/06/2023] Open
Abstract
Milk is a complex liquid, and the concentrations of many of its components are under genetic control. Many genes and pathways are known to regulate milk composition, and the purpose of this review is to highlight how the discoveries of quantitative trait loci (QTL) for milk phenotypes can elucidate these pathways. The main body of this review focuses primarily on QTL discovered in cattle (Bos taurus) as a model species for the biology of lactation, and there are occasional references to sheep genetics. The following section describes a range of techniques that can be used to help identify the causative genes underlying QTL when the underlying mechanism involves the regulation of gene expression. As genotype and phenotype databases continue to grow and diversify, new QTL will continue to be discovered, and although proving the causality of underlying genes and variants remains difficult, these new data sets will further enhance our understanding of the biology of lactation.
Collapse
|
3
|
Camargo LSA, Saraiva NZ, Oliveira CS, Carmickle A, Lemos DR, Siqueira LGB, Denicol AC. Perspectives of gene editing for cattle farming in tropical and subtropical regions. Anim Reprod 2023; 19:e20220108. [PMID: 36819485 PMCID: PMC9924776 DOI: 10.1590/1984-3143-ar2022-0108] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Accepted: 01/23/2023] [Indexed: 02/19/2023] Open
Abstract
Cattle productivity in tropical and subtropical regions can be severely affected by the environment. Reproductive performance, milk and meat production are compromised by the heat stress imposed by the elevated temperature and humidity. The resulting low productivity contributes to reduce the farmer's income and to increase the methane emissions per unit of animal protein produced and the pressure on land usage. The introduction of highly productive European cattle breeds as well as crossbreeding with local breeds have been adopted as strategies to increase productivity but the positive effects have been limited by the low adaptation of European animals to hot climates and by the reduction of the heterosis effect in the following generations. Gene editing tools allow precise modifications in the animal genome and can be an ally to the cattle industry in tropical and subtropical regions. Alleles associated with production or heat tolerance can be shifted between breeds without the need of crossbreeding. Alongside assisted reproductive biotechnologies and genome selection, gene editing can accelerate the genetic gain of indigenous breeds such as zebu cattle. This review focuses on some of the potential applications of gene editing for cattle farming in tropical and subtropical regions, bringing aspects related to heat stress, milk yield, bull reproduction and methane emissions.
Collapse
Affiliation(s)
| | | | | | - Allie Carmickle
- Department of Animal Science, University of California Davis, Davis, CA, USA
| | | | | | | |
Collapse
|
4
|
Mahrous KF, El-Kader HAMA, Abdelhafez MA, Aboelenin MM, Balabel EA, Mabrouk DM, El Malky OM, Hassanane MS. Genetic structure of some candidate genes of repeat breeder syndrome in Egyptian buffaloes. J Genet Eng Biotechnol 2022; 20:110. [PMID: 35867170 PMCID: PMC9307700 DOI: 10.1186/s43141-022-00397-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2022] [Accepted: 07/10/2022] [Indexed: 11/15/2022]
Abstract
Background This study aimed to explore the association between polymorphisms in three genes: leptin (LEP), leptin receptor (LEPR), and BMP4, and incidence of repeat breeding in Egyptian buffaloes. Methods DNA was extracted from 160 female buffaloes, involving 108 fertile and 52 repeat breeders. Genotyping was performed by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP). Sequence analysis and alignment were performed by employing NCBI/BLAST/blastn suite, to identify SNPs among different patterns and alleles. We utilized PredictSNP software to predict the non-synonymous SNPs influences on protein function. Moreover, the conservation score of the amino acids within the target proteins was computed by ConSurf server. Results The genotyping results showed that LEP and BMP4 genes were monomorphic (CC, GG) in all tested fertile and repeat breeder buffaloes. Leptin gene sequencing showed a non-synonymous C73T SNP, replacing R to C at position 25 within the leptin polypeptide (position 4 in the mature form; R4C) which is a neutral mutation, not affecting function or structure of LEP protein. For LEPR, one synonymous SNP (T102C) and two non-synonymous SNPs (A106G and C146A), triggering V967A and G954C replacements, respectively in LEPR protein. Moreover, they are neutral mutations. Sequencing results of BMP4 showed HinfI restriction site indicate fixed GG genotype (CC genotype in the anti-sense strand) in all sequenced samples. No SNPs were observed within the amplified region. Conclusion Genotyping and sequencing results of the surveyed three genes revealed that there is no association between these genes mutations and the incidence of repeat breeding in Egyptian buffaloes. Supplementary Information The online version contains supplementary material available at 10.1186/s43141-022-00397-2.
Collapse
Affiliation(s)
| | | | | | | | - Esraa A Balabel
- Cell Biology Department, National Research Centre, Giza, Egypt
| | - Dalia M Mabrouk
- Cell Biology Department, National Research Centre, Giza, Egypt
| | - Osama M El Malky
- Animal Production Research Institute, Agricultural Research Center, and Ministry of Agriculture, Dokki, Egypt
| | | |
Collapse
|
5
|
Salgado Pardo JI, Delgado Bermejo JV, González Ariza A, León Jurado JM, Marín Navas C, Iglesias Pastrana C, Martínez Martínez MDA, Navas González FJ. Candidate Genes and Their Expressions Involved in the Regulation of Milk and Meat Production and Quality in Goats ( Capra hircus). Animals (Basel) 2022; 12:ani12080988. [PMID: 35454235 PMCID: PMC9026325 DOI: 10.3390/ani12080988] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2022] [Revised: 03/21/2022] [Accepted: 04/07/2022] [Indexed: 12/13/2022] Open
Abstract
Simple Summary During the present decade, highly selected caprine farming has increased in popularity due to the hardiness and adaptability inherent to goats. Recent advances in genetics have enabled the improvement in goat selection efficiency. The present review explores how genetic technologies have been applied to the goat-farming sector in the last century. The main candidate genes related to economically relevant traits are reported. The major source of income in goat farming derives from the sale of milk and meat. Consequently, yield and quality must be specially considered. Meat-related traits were evaluated considering three functional groups (weight gain, carcass quality and fat profile). Milk traits were assessed in three additional functional groups (milk production, protein and fat content). Abstract Despite their pivotal position as relevant sources for high-quality proteins in particularly hard environmental contexts, the domestic goat has not benefited from the advances made in genomics compared to other livestock species. Genetic analysis based on the study of candidate genes is considered an appropriate approach to elucidate the physiological mechanisms involved in the regulation of the expression of functional traits. This is especially relevant when such functional traits are linked to economic interest. The knowledge of candidate genes, their location on the goat genetic map and the specific phenotypic outcomes that may arise due to the regulation of their expression act as a catalyzer for the efficiency and accuracy of goat-breeding policies, which in turn translates into a greater competitiveness and sustainable profit for goats worldwide. To this aim, this review presents a chronological comprehensive analysis of caprine genetics and genomics through the evaluation of the available literature regarding the main candidate genes involved in meat and milk production and quality in the domestic goat. Additionally, this review aims to serve as a guide for future research, given that the assessment, determination and characterization of the genes associated with desirable phenotypes may provide information that may, in turn, enhance the implementation of goat-breeding programs in future and ensure their sustainability.
Collapse
Affiliation(s)
- Jose Ignacio Salgado Pardo
- Department of Genetics, Faculty of Veterinary Sciences, University of Córdoba, 14014 Córdoba, Spain; (J.I.S.P.); (J.V.D.B.); (A.G.A.); (C.M.N.); (C.I.P.); (M.d.A.M.M.)
| | - Juan Vicente Delgado Bermejo
- Department of Genetics, Faculty of Veterinary Sciences, University of Córdoba, 14014 Córdoba, Spain; (J.I.S.P.); (J.V.D.B.); (A.G.A.); (C.M.N.); (C.I.P.); (M.d.A.M.M.)
| | - Antonio González Ariza
- Department of Genetics, Faculty of Veterinary Sciences, University of Córdoba, 14014 Córdoba, Spain; (J.I.S.P.); (J.V.D.B.); (A.G.A.); (C.M.N.); (C.I.P.); (M.d.A.M.M.)
| | - José Manuel León Jurado
- Agropecuary Provincial Center of Córdoba, Provincial Council of Córdoba, 14014 Córdoba, Spain;
| | - Carmen Marín Navas
- Department of Genetics, Faculty of Veterinary Sciences, University of Córdoba, 14014 Córdoba, Spain; (J.I.S.P.); (J.V.D.B.); (A.G.A.); (C.M.N.); (C.I.P.); (M.d.A.M.M.)
| | - Carlos Iglesias Pastrana
- Department of Genetics, Faculty of Veterinary Sciences, University of Córdoba, 14014 Córdoba, Spain; (J.I.S.P.); (J.V.D.B.); (A.G.A.); (C.M.N.); (C.I.P.); (M.d.A.M.M.)
| | - María del Amparo Martínez Martínez
- Department of Genetics, Faculty of Veterinary Sciences, University of Córdoba, 14014 Córdoba, Spain; (J.I.S.P.); (J.V.D.B.); (A.G.A.); (C.M.N.); (C.I.P.); (M.d.A.M.M.)
| | - Francisco Javier Navas González
- Department of Genetics, Faculty of Veterinary Sciences, University of Córdoba, 14014 Córdoba, Spain; (J.I.S.P.); (J.V.D.B.); (A.G.A.); (C.M.N.); (C.I.P.); (M.d.A.M.M.)
- Institute of Agricultural Research and Training (IFAPA), Alameda del Obispo, 14004 Córdoba, Spain
- Correspondence: ; Tel.: +34-63-853-5046 (ext. 621262)
| |
Collapse
|
6
|
Kuswati K, Furqon A, Septian WA, Susilawati T. Polymorphism of leptin gene (single nucleotide polymorphisms c.73T>C) and its association with body weight and body measurements in Madura cattle. Vet World 2022; 15:775-781. [PMID: 35497958 PMCID: PMC9047123 DOI: 10.14202/vetworld.2022.775-781] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2021] [Accepted: 02/22/2022] [Indexed: 11/16/2022] Open
Abstract
Background and Aim: Madura cattle is local cattle in Indonesia. This cattle hasphenotypic variations in growth traits. This study aimed to identify leptin (LEP) gene polymorphism exon 2 associated with body measurements in Madura cattle. Materials and Methods: We recorded body weight (BW) and body measurements of 51 Madura cattle aged 1-4 years in Waru District, Madura. The LEP gene genotyping was conducted using the polymerase chain reaction-restricted fragment length polymorphism method with AciI restriction enzyme. Results: A 267 bp DNA fragment of the LEP gene was successfully amplified using a pair of primers. This study revealed three genotypes (TT, TC, and CC) and two alleles (T and C). The frequencies of TT, TC, and CC genotypes were 0.275, 0.45, and 0.275, respectively, whereas the frequencies of T and C alleles were 0.500 and 0.500, respectively. The c.73T>C mutation was significantly associated with BW, body length (BL), and chest girth (CG) (p<0.05). Among all genotypes, the TC had the highest BW, BL, and CG. Conclusion: Conclusively, LEP gene polymorphism (c.73T>C) exon 2 was polymorphic and associated with body measurements, especially BW, BL, and CG.
Collapse
Affiliation(s)
- Kuswati Kuswati
- Department of Animal Production, Faculty of Animal Science, Universitas Brawijaya Jl. Veteran, Malang 65145, Indonesia
| | - Ahmad Furqon
- Department of Animal Production, Faculty of Animal Science, Universitas Brawijaya Jl. Veteran, Malang 65145, Indonesia
| | - Wike Andre Septian
- Department of Animal Production, Faculty of Animal Science, Universitas Brawijaya Jl. Veteran, Malang 65145, Indonesia
| | - Trinil Susilawati
- Department of Animal Production, Faculty of Animal Science, Universitas Brawijaya Jl. Veteran, Malang 65145, Indonesia
| |
Collapse
|
7
|
Effects of DGAT1 on milk performance in Sudanese Butana × Holstein crossbred cattle. Trop Anim Health Prod 2022; 54:142. [PMID: 35332362 PMCID: PMC8948139 DOI: 10.1007/s11250-022-03141-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2021] [Accepted: 03/14/2022] [Indexed: 10/31/2022]
Abstract
The improvement of milk production of indigenous Sudanese cattle such as Bos indicus Butana and its cross with Holstein is a major goal of the Sudanese government to ensure sufficient healthy nutrition in the country. In this study, we investigated the K232A polymorphism of diacylglycerol acyltransferase (DGAT1), a well-known modulator of milk production in other breeds. We determined allele frequencies and the allele effects on milk production. Therefore, 93 purebred Butana and 203 Butana × Holstein crossbred cattle were genotyped using competitive allele-specific PCR assays. Association analysis was performed using a linear mixed model in R. In purebred Butana cattle, the lysine DGAT1 protein variant K232, which is found to be associated with higher fat and protein contents, as well as higher fat yield was highly frequent at 0.929, while its frequency in Butana × Holstein crossbred cattle was 0.394. Significant effects were found on milk yield (P = 7.6 × 10-20), fat yield (P = 2.2 × 10-17), protein yield (P = 2.0 × 10-19) and lactose yield (P = 4.0 × 10-18) in crossbred cattle. As expected, the protein variant K232 was disadvantageous since it was decreasing milk, protein, and lactose yields by 1.741 kg, 0.063 kg and 0.084 kg, respectively. No significant effects were found for milk fat, protein, and lactose contents. The high frequency of the lysine DGAT1 protein variant K232 in Butana cattle could contribute to their high milk fat content in combination with low milk yield. In Butana × Holstein crossbred cattle, the DGAT1 marker can be used for effective selection and thus genetic improvement of milk production.
Collapse
|
8
|
Challenging Sustainable and Innovative Technologies in Cheese Production: A Review. Processes (Basel) 2022. [DOI: 10.3390/pr10030529] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
It is well known that cheese yield and quality are affected by animal genetics, milk quality (chemical, physical, and microbiological), production technology, and the type of rennet and dairy cultures used in production. Major differences in the same type of cheese (i.e., hard cheese) are caused by the rennet and dairy cultures, which affect the ripening process. This review aims to explore current technological advancements in animal genetics, methods for the isolation and production of rennet and dairy cultures, along with possible applications of microencapsulation in rennet and dairy culture production, as well as the challenge posed to current dairy technologies by the preservation of biodiversity. Based on the reviewed scientific literature, it can be concluded that innovative approaches and the described techniques can significantly improve cheese production.
Collapse
|
9
|
Işık R, Özkan Ünal E, Soysal M. Polymorphism detection of <i>DGAT1</i> and <i>Lep</i> genes in Anatolian water buffalo (<i>Bubalus bubalis</i>) populations in Turkey. Arch Anim Breed 2022; 65:1-9. [PMID: 35024434 PMCID: PMC8738919 DOI: 10.5194/aab-65-1-2022] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2021] [Accepted: 11/29/2021] [Indexed: 11/11/2022] Open
Abstract
Acyl-CoA: diacylglycerol–acyltransferase 1 (DGAT1)
enzyme plays a key role in controlling the synthesis rate triglyceride from
diacylglycerol. Leptin (LP, OB, obese) is an important hormone that
synthesizes mostly from adipose tissue and regulates glucose metabolism and
homeostasis. DGAT1 and Lep genes are closely related to reproduction, growth, milk
yield and composition in water buffalo breeds. This study aimed to identify
genetic variation in the DGAT1 and Lep gene regions in 150 water buffalo individuals
from five different provinces of Turkey using DNA sequencing. A total of 38
nucleotide variations and indels have identified 761 bp long partial intron
2 and exon 3 and 5′ UTR regions of the Lep gene in Anatolian water buffalo
populations; 422 bp long partial exon 7–9 and exon 8 regions of DGAT1 gene were
amplified and two mutations were defined in the point of 155 and 275
nucleotide that is three genotypes for S allele and Y allele of DGAT1 gene in
intron 7 in Anatolian buffalo populations, respectively. These SNPs may have
an effect on reproduction, growth, milk yield and composition in water
buffalo populations and may prove to be useful for water buffalo breeding.
Collapse
Affiliation(s)
- Raziye Işık
- Faculty of Agriculture, Department of Agricultural Biotechnology,
Tekirdağ Namık Kemal University, Tekirdağ 59030, Turkey
| | - Emel Özkan Ünal
- Faculty of Agriculture, Department of Animal Science, Tekirdağ
Namık Kemal University, Tekirdağ 59030, Turkey
| | - M. İhsan Soysal
- Faculty of Agriculture, Department of Animal Science, Tekirdağ
Namık Kemal University, Tekirdağ 59030, Turkey
| |
Collapse
|
10
|
Cobanoglu O, Kul E, Gurcan EK, Abaci SH, Cankaya S. Determination of the association of GHR/ AluI gene polymorphisms with milk yield traits in Holstein and Jersey cattle raised in Turkey. Arch Anim Breed 2021; 64:417-424. [PMID: 34611546 PMCID: PMC8485837 DOI: 10.5194/aab-64-417-2021] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Accepted: 09/06/2021] [Indexed: 11/11/2022] Open
Abstract
This research was carried out to determine the effect of a specific single nucleotide polymorphism (SNP) region in exon 10 of the growth hormone receptor (GHR) gene on milk production traits in Jersey and Holstein cows raised in Turkey. Milk samples were recorded as a test day milk yield (TDMY) and an adjusted based 305 d milk yield (305-DMY). Also, milk component traits were detected. Based on the scope of this study, a total of 748 dairy cows, including 305 Holsteins raised in the Marmara Region and 163 Holstein and 280 Jersey raised in the Black Sea Region, were genotyped for the GHR gene using the RFLP-PCR technique. Jersey cows carrying the GG genotype (5.24 %) were associated with higher fat content ( P < 0.05 ). Jersey cows with GG and AG also had a higher protein content (3.44 % and 3.38 %, respectively) ( P < 0.05 ). Similarly, the protein content was the highest in Holstein cows with the GG genotype (3.46 %) ( P < 0.01 ), whereas Holstein cows having AA genotypes displayed higher TDMY (24.64 kg/d) ( P < 0.05 ) and 305-DMY (8472.4 kg) ( P < 0.01 ). The estimated increase in milk protein and fat contents due to the G allele was 0.07 % and 0.22 % in the Jersey breed, respectively. On the other hand, allele A was highly related to an increase in protein yield and 305-DMY of 0.04 and about 675 kg in the Holstein breed, respectively. The GHR gene should be considered as a potential candidate gene in marker-assisted selection programs to improve the performance of milk and related traits in Turkey dairy cattle populations.
Collapse
Affiliation(s)
- Ozden Cobanoglu
- Department of Genetics, Faculty of Veterinary Medicine, Bursa Uludag University, 16059, Bursa, Turkey
| | - Ertugrul Kul
- Department of Animal Science, Faculty of Agriculture, Kirsehir Ahi Evran University, 40200, Kirsehir, Turkey
| | - Eser K Gurcan
- Department of Animal Science, Faculty of Agriculture, University of Namik Kemal, 59030, Tekirdag, Turkey
| | - Samet H Abaci
- Department of Animal Science, Faculty of Agriculture, University of Ondokuz Mayis, 55139, Samsun, Turkey
| | - Soner Cankaya
- Department of Sport Management, Faculty of Yaşar Doğu Sport Sciences, University of Ondokuz Mayis, 55139, Samsun, Turkey
| |
Collapse
|
11
|
Khan MZ, Ma Y, Ma J, Xiao J, Liu Y, Liu S, Khan A, Khan IM, Cao Z. Association of DGAT1 With Cattle, Buffalo, Goat, and Sheep Milk and Meat Production Traits. Front Vet Sci 2021; 8:712470. [PMID: 34485439 PMCID: PMC8415568 DOI: 10.3389/fvets.2021.712470] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Accepted: 07/19/2021] [Indexed: 12/26/2022] Open
Abstract
Milk fatty acids are essential for many dairy product productions, while intramuscular fat (IMF) is associated with the quality of meat. The triacylglycerols (TAGs) are the major components of IMF and milk fat. Therefore, understanding the polymorphisms and genes linked to fat synthesis is important for animal production. Identifying quantitative trait loci (QTLs) and genes associated with milk and meat production traits has been the objective of various mapping studies in the last decade. Consistently, the QTLs on chromosomes 14, 15, and 9 have been found to be associated with milk and meat production traits in cattle, goat, and buffalo and sheep, respectively. Diacylglycerol O-acyltransferase 1 (DGAT1) gene has been reported on chromosomes 14, 15, and 9 in cattle, goat, and buffalo and sheep, respectively. Being a key role in fat metabolism and TAG synthesis, the DGAT1 has obtained considerable attention especially in animal milk production. In addition to milk production, DGAT1 has also been a subject of interest in animal meat production. Several polymorphisms have been documented in DGAT1 in various animal species including cattle, buffalo, goat, and sheep for their association with milk production traits. In addition, the DGAT1 has also been studied for their role in meat production traits in cattle, sheep, and goat. However, very limited studies have been conducted in cattle for association of DGAT1 with meat production traits in cattle. Moreover, not a single study reported the association of DGAT1 with meat production traits in buffalo; thus, further studies are warranted to fulfill this huge gap. Keeping in view the important role of DGAT1 in animal production, the current review article was designed to highlight the major development and new insights on DGAT1 effect on milk and meat production traits in cattle, buffalo, sheep, and goat. Moreover, we have also highlighted the possible future contributions of DGAT1 for the studied species.
Collapse
Affiliation(s)
- Muhammad Zahoor Khan
- State Key Laboratory of Animal Nutrition, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, Beijing, China
- Faculty of Veterinary and Animal Sciences, Gomal University, Dera Ismail Khan, Pakistan
| | - Yulin Ma
- State Key Laboratory of Animal Nutrition, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Jiaying Ma
- State Key Laboratory of Animal Nutrition, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Jianxin Xiao
- State Key Laboratory of Animal Nutrition, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Yue Liu
- State Key Laboratory of Animal Nutrition, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Shuai Liu
- State Key Laboratory of Animal Nutrition, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Adnan Khan
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China
| | - Ibrar Muhammad Khan
- Anhui Provincial Laboratory of Local Livestock and Poultry Genetical Resource Conservation and Breeding, College of Animal Science and Technology, Anhui Agricultural University, Hefei, China
| | - Zhijun Cao
- State Key Laboratory of Animal Nutrition, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, Beijing, China
| |
Collapse
|
12
|
Exploring the relationship between polymorphisms of leptin and IGF-1 genes with milk yield in indicine and taurine crossbred cows. Trop Anim Health Prod 2021; 53:413. [PMID: 34308489 DOI: 10.1007/s11250-021-02866-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2020] [Accepted: 07/16/2021] [Indexed: 10/20/2022]
Abstract
Leptin an adipokine plays a significant role in several physiological processes and has been indicated as a candidate gene for marker-assisted selection for high-yielding cows. Insulin-like growth factor-1 (IGF-1) hormone plays an important physiological role in growth, development, metabolism, and lactation in bovines. It is believed to be one of the main mediators of energy balance effects on the reproductive performance of dairy cows after calving. The present investigation was carried out to identify the novel polymorphisms in exon 3 region of leptin and exon 3 partial intron 3 of IGF-1 genes and their association with the milk production performance in indicine and taurine crossbred (Karan Fries) cows. Blood samples were collected from 160 apparently healthy Karan Fries (KF) cows. Four SNPs (single-nucleotide polymorphisms) at positions rs29004508 (C > T), rs29004509 (C > T), rs29004510 (T > C), and rs29004511 (T > C) in leptin gene and two SNPs at positions rs133251968 (C > A) and rs137289661 (C > T) in IGF-1 gene were found in KF cows; however, rs29004509 (C > T) had a positive correlation (r = 0.376; P < 0.05) with milk yield. The genetic variants observed in exon 3 region of leptin gene and their association with milk yield traits revealed the importance of CT genotype, which had been useful for genetic improvement of KF cow for milk production traits and can also be utilized as a potential genetic marker to select appropriate animals.
Collapse
|
13
|
Identification of Genomic Regions Associated with Concentrations of Milk Fat, Protein, Urea and Efficiency of Crude Protein Utilization in Grazing Dairy Cows. Genes (Basel) 2021; 12:genes12030456. [PMID: 33806889 PMCID: PMC8004844 DOI: 10.3390/genes12030456] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Revised: 03/16/2021] [Accepted: 03/19/2021] [Indexed: 01/01/2023] Open
Abstract
The objective of this study was to identify genomic regions associated with milk fat percentage (FP), crude protein percentage (CPP), urea concentration (MU) and efficiency of crude protein utilization (ECPU: ratio between crude protein yield in milk and dietary crude protein intake) using grazing, mixed-breed, dairy cows in New Zealand. Phenotypes from 634 Holstein Friesian, Jersey or crossbred cows were obtained from two herds at Massey University. A subset of 490 of these cows was genotyped using Bovine Illumina 50K SNP-chips. Two genome-wise association approaches were used, a single-locus model fitted to data from 490 cows and a single-step Bayes C model fitted to data from all 634 cows. The single-locus analysis was performed with the Efficient Mixed-Model Association eXpedited model as implemented in the SVS package. Single nucleotide polymorphisms (SNPs) with genome-wide association p-values ≤ 1.11 × 10−6 were considered as putative quantitative trait loci (QTL). The Bayes C analysis was performed with the JWAS package and 1-Mb genomic windows containing SNPs that explained > 0.37% of the genetic variance were considered as putative QTL. Candidate genes within 100 kb from the identified SNPs in single-locus GWAS or the 1-Mb windows were identified using gene ontology, as implemented in the Ensembl Genome Browser. The genes detected in association with FP (MGST1, DGAT1, CEBPD, SLC52A2, GPAT4, and ACOX3) and CPP (DGAT1, CSN1S1, GOSR2, HERC6, and IGF1R) were identified as candidates. Gene ontology revealed six novel candidate genes (GMDS, E2F7, SIAH1, SLC24A4, LGMN, and ASS1) significantly associated with MU whose functions were in protein catabolism, urea cycle, ion transportation and N excretion. One novel candidate gene was identified in association with ECPU (MAP3K1) that is involved in post-transcriptional modification of proteins. The findings should be validated using a larger population of New Zealand grazing dairy cows.
Collapse
|
14
|
Mandefro A, Sisay T, Kim KS, Edea Z, Konwarh R, Dadi H. Single nucleotide polymorphisms of leptin gene in five Ethiopian indigenous cattle breeds and the Korean Hanwoo breed. Trop Anim Health Prod 2021; 53:202. [PMID: 33694014 DOI: 10.1007/s11250-021-02642-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2020] [Accepted: 03/01/2021] [Indexed: 10/21/2022]
Abstract
Considering the escalating number of scientific reports on the association between the leptin gene and diverse physiological traits and performance of cattle populations, this study was directed towards identifying SNPs in the leptin gene among five indigenous cattle breeds of Ethiopia. DNA samples were extracted from the nasal swabs of the Ethiopian indigenous cattle breeds: Arsi (n = 18), Horro (n = 20), Begait (n = 21), Boran (n = 19), and Fogera (n = 17) and the Korean Hanwoo (a representative taurine breed) (n = 20), followed by PCR amplification of exon 2 and exon 3 regions of the leptin gene and sequence analysis of the PCR products. Five SNPs, two (generating missense mutations) on exon 2 and three (generating silent mutations) on exon 3 regions, were explicated in this study. Allele frequency and genotype frequency distribution pertaining to the SNPs were recorded for the studied cattle breeds besides the minor allele frequency and deviation from the Hardy-Weinberg equilibrium. Positive FIS index values were recorded for all the markers except SNP2, illustrative of heterozygote deficiency. MEGA X software-based evolutionary divergence analysis of the phylogenetic tree based on the SNP data revealed that the large-sized breeds, Hanwoo, Begait, Boran, and Fogera, were more closely clustered compared to the small-sized Arsi breed. Among the seven haplotypes documented from the various breeds, sequence analysis was suggestive of haplotypes 1 and 2 to be ancestral haplotypes for the leptin gene. This study is envisaged to accelerate molecular breeding programs for the genetic improvement of the Ethiopian cattle breeds.
Collapse
Affiliation(s)
- Ayele Mandefro
- Department of Biotechnology, Addis Ababa Science and Technology University, P.O. Box 16417, Addis Ababa, Ethiopia.,Institute of Biotechnology, Addis Ababa University, P.O. Box 1176, Addis Ababa, Ethiopia
| | - Tesfaye Sisay
- Institute of Biotechnology, Addis Ababa University, P.O. Box 1176, Addis Ababa, Ethiopia
| | - Kwan-Suk Kim
- Department of Animal Sciences, Chungbuk National University, Cheongju, Chungbuk, 361-763, South Korea
| | - Zewdu Edea
- Department of Animal Sciences, Chungbuk National University, Cheongju, Chungbuk, 361-763, South Korea
| | - Rocktotpal Konwarh
- Department of Biotechnology, Addis Ababa Science and Technology University, P.O. Box 16417, Addis Ababa, Ethiopia.,Division of Nanobiomaterials and Nanomedicine, Uniglobe Scientific Pvt. Ltd., 7/9, Kishan Garh, Vasant Kunj, New Delhi, 110070, India
| | - Hailu Dadi
- Ethiopian Biotechnology Institute, P.O. Box 2490, Addis Ababa, Ethiopia.
| |
Collapse
|
15
|
Yadav T, Magotra A, Kumar R, Bangar YC, Garg AR, Kumar S, Jeet V, Malik BS. Evaluation of candidate genotype of leptin gene associated with fertility and production traits in Hardhenu (Bos taurus × Bos indicus) cattle. Reprod Domest Anim 2020; 55:1698-1705. [PMID: 32965761 DOI: 10.1111/rda.13826] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Accepted: 09/12/2020] [Indexed: 12/16/2022]
Abstract
The present study was conducted on Hardhenu cattle to screen genomic region of leptin gene with an objective to find the association of genotypes with fertility and production traits. The association analysis with traits under study was analysed by least squares analysis of variance by taking SNPs genotype as fixed effects in the statistical model. The genotypic frequencies with respect to targeted loci g.92450765 G > A indicated that AG (0.54) genotype was highest in Hardhenu cattle. Chi-squared tests showed that g.92450765G > A SNP meet with the Hardy-Weinberg equilibrium (p > .05).The association analysis revealed significant association of genotypes with total milk yield (TMY) and 305 days milk yield (MY) (p < .05). Service period (SP) and calving interval (CI) were also found significantly associated with genotypes (p < .05). Whereas, lactation length (LL), dry days (DD) and age at first calving (AFC) did not divulge any significant association with genotype. The AG and GG genotypes were associated with higher milk yields as compared to AA genotype, indicating that allele G was associated with superior milk performance. However, AA genotyped cattle found to be favourable with SP, CI and artificial insemination (AI) per conception compared to AG and GG genotyped cows. Chi-square analysis revealed that genetic variants of g.92450765 G > A SNP of leptin gene differ significantly with regard to reproductive disorders incidence (p < .05). The frequency of GG genotype (88.89%) in the affected animal group was very high followed by AG. The animals with GG genotype were found to be more susceptible to reproductive disorders as suggested by the higher odd ratio value (16.00) in logistic model. These observations and their differential association with the fertility and production traits can be utilized as an aid to selection for genetic improvement of antagonistic traits in dairy cows.
Collapse
Affiliation(s)
- Tejwanti Yadav
- Department of Animal Genetics and Breeding, Lala Lajpat Rai University of Veterinary and Animal Sciences (LUVAS), Hisar, India
| | - Ankit Magotra
- Department of Animal Genetics and Breeding, Lala Lajpat Rai University of Veterinary and Animal Sciences (LUVAS), Hisar, India
| | - Ramesh Kumar
- Department of Animal Genetics and Breeding, Lala Lajpat Rai University of Veterinary and Animal Sciences (LUVAS), Hisar, India
| | - Yogesh C Bangar
- Department of Animal Genetics and Breeding, Lala Lajpat Rai University of Veterinary and Animal Sciences (LUVAS), Hisar, India
| | - Asha Rani Garg
- Department of Animal Genetics and Breeding, Lala Lajpat Rai University of Veterinary and Animal Sciences (LUVAS), Hisar, India
| | - Sunil Kumar
- Department of Livestock Farm Complex, LUVAS, Hisar, India
| | - Vikram Jeet
- Department of Animal Genetics and Breeding, Lala Lajpat Rai University of Veterinary and Animal Sciences (LUVAS), Hisar, India
| | - Baljit S Malik
- Department of Animal Genetics and Breeding, Lala Lajpat Rai University of Veterinary and Animal Sciences (LUVAS), Hisar, India
| |
Collapse
|
16
|
Otto PI, Guimarães SEF, Calus MPL, Vandenplas J, Machado MA, Panetto JCC, da Silva MVGB. Single-step genome-wide association studies (GWAS) and post-GWAS analyses to identify genomic regions and candidate genes for milk yield in Brazilian Girolando cattle. J Dairy Sci 2020; 103:10347-10360. [PMID: 32896396 DOI: 10.3168/jds.2019-17890] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2019] [Accepted: 06/19/2020] [Indexed: 12/15/2022]
Abstract
Milk production is economically important to the Brazilian agribusiness, and the majority of the country's milk production derives from Girolando (Gir × Holstein) cows. This study aimed to identify quantitative trait loci (QTL) and candidate genes associated with 305-d milk yield (305MY) in Girolando cattle. In addition, we investigated the SNP-specific variances for Holstein and Gir breeds of origin within the sequence of candidate genes. A single-step genomic BLUP procedure was used to identify QTL associated with 305MY, and the most likely candidate genes were identified through follow-up analyses. Genomic breeding values specific for Holstein and Gir were estimated in the Girolando animals using a model that uses breed-specific partial relationship matrices, which were converted to breed of origin SNP effects. Differences between breed of origin were evaluated by comparing estimated SNP variances between breeds. From 10 genome regions explaining most additive genetic variance for 305MY in Girolando cattle, 7 candidate genes were identified on chromosomes 1, 4, 6, and 26. Within the sequence of these 7 candidate genes, Gir breed of origin SNP alleles showed the highest genetic variance. These results indicated QTL regions that could be further explored in genomic selection panels and which may also help in understanding the gene mechanisms involved in milk production in the Girolando breed.
Collapse
Affiliation(s)
- Pamela I Otto
- Department of Animal Science, Universidade Federal de Viçosa, Viçosa, MG, 36570-900, Brazil
| | - Simone E F Guimarães
- Department of Animal Science, Universidade Federal de Viçosa, Viçosa, MG, 36570-900, Brazil
| | - Mario P L Calus
- Animal Breeding and Genomics, Wageningen University & Research, 6700 AH Wageningen, the Netherlands
| | - Jeremie Vandenplas
- Animal Breeding and Genomics, Wageningen University & Research, 6700 AH Wageningen, the Netherlands
| | - Marco A Machado
- Animal Breeding and Genomics, Wageningen University & Research, 6700 AH Wageningen, the Netherlands
| | - João Cláudio C Panetto
- Animal Breeding and Genomics, Wageningen University & Research, 6700 AH Wageningen, the Netherlands
| | | |
Collapse
|
17
|
Lu H, Bovenhuis H. Phenotypic and genetic effects of pregnancy on milk production traits in Holstein-Friesian cattle. J Dairy Sci 2020; 103:11597-11604. [PMID: 32981723 DOI: 10.3168/jds.2020-18561] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2020] [Accepted: 07/20/2020] [Indexed: 11/19/2022]
Abstract
Pregnancy is a prerequisite for the initiation of lactation and for maintaining the milk production cycle. Pregnancy affects milk production and therefore should be accounted for in the genetic evaluation. Furthermore, there might be genetic differences in pregnancy effects on milk composition. The objective of this study was to estimate phenotypic and genetic effects of pregnancy on milk production traits. For this purpose, test-day records and conception dates of 1,359 first-parity Holstein-Friesian cows were analyzed. Significant effects of pregnancy on all milk production traits were detected except somatic cell score (e.g., the cumulative effects of pregnancy on milk yield were -247 kg). The pregnancy effects on milk yield, lactose yield, protein yield, fat yield, and fat content were small during early gestation (<150 d) and substantially increased in late gestation. The effects of pregnancy on milk protein yield were relatively stronger than those on fat yield. The effects of pregnancy on milk production traits differed for DGAT1 genotypes. Milk yield, lactose yield, protein yield, and fat yield of DGAT1 AA cows were more affected by pregnancy than that of DGAT1 KK cows (e.g., the cumulative effects of pregnancy on milk yield were negligible for DGAT1 KK cows and were -443 kg for DGAT1 AA cows). These results suggest that DGAT1 KK cows may be more suitable for shortening or omitting the dry period than DGAT1 AA cows.
Collapse
Affiliation(s)
- Haibo Lu
- Animal Breeding and Genomics, Wageningen University and Research, PO Box 338, 6700 AH, Wageningen, the Netherlands
| | - Henk Bovenhuis
- Animal Breeding and Genomics, Wageningen University and Research, PO Box 338, 6700 AH, Wageningen, the Netherlands.
| |
Collapse
|
18
|
El-Tarabany MS, Saleh AA, El-Araby IE, El-Magd MA. Association of LEPR polymorphisms with egg production and growth performance in female Japanese quails. Anim Biotechnol 2020; 33:599-611. [PMID: 32865111 DOI: 10.1080/10495398.2020.1812617] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
This study aimed to screen intron 8 of the leptin receptor (LEPR) gene for polymorphisms in female Japanese quails. Two adjacent novel SNPs (A277G and A304G) were detected using PCR-SSCP and sequencing. These SNPs produced three haplotypes (AA/AA, AG/AG, and GG/GG) that were significantly (p ≤ 0.05) associated with growth and egg production traits. GG/GG haplotype-quails had significantly (p ≤ 0.05) lower egg production, feed intake, growth performance, lipid profile, serum levels of sex hormones (estradiol, progesterone, FSH, LH), and ovarian expressions of survivin, FSHR, and IGF1 than other quails. However, GG/GG quails had significantly (p ≤ 0.05) higher serum levels of LEP and mRNA levels of LEPR, LEP, and caspase 3 in the hypothalamus and ovaries. These higher levels of LEP/LEPR could not only reduce feed intake and body weight gain but also could induce apoptosis of ovarian cells (as indicated by lower survivin and IGF1 and higher caspase3 expression) which could inhibit the development of the follicles and the release of sex hormones with a subsequent decrease in egg production in GG/GG quails. Therefore, with these results, we suggest selecting Japanese quails with AA/AA and AG/AG haplotypes to improve the reproduction and growth performance of this flock.
Collapse
Affiliation(s)
- Mahmoud S El-Tarabany
- Department of Animal Wealth Development, Animal Breeding and Production, Faculty of Veterinary Medicine, Zagazig University, Zagazig, Egypt
| | - Ayman A Saleh
- Department of Animal Wealth Development, Veterinary Genetics & Genetic Engineering, Faculty of Veterinary Medicine, Zagazig University, Zagazig, Egypt
| | - Iman E El-Araby
- Department of Animal Wealth Development, Veterinary Genetics & Genetic Engineering, Faculty of Veterinary Medicine, Zagazig University, Zagazig, Egypt
| | - Mohammed A El-Magd
- Department of Anatomy & Embryology, Faculty of Veterinary Medicine, Kafrelsheikh University, Zagazig, Egypt
| |
Collapse
|
19
|
Goat Genomic Resources: The Search for Genes Associated with Its Economic Traits. Int J Genomics 2020; 2020:5940205. [PMID: 32904540 PMCID: PMC7456479 DOI: 10.1155/2020/5940205] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2020] [Revised: 06/30/2020] [Accepted: 07/24/2020] [Indexed: 11/25/2022] Open
Abstract
Goat plays a crucial role in human livelihoods, being a major source of meat, milk, fiber, and hides, particularly under adverse climatic conditions. The goat genomics related to the candidate gene approach is now being used to recognize molecular mechanisms that have different expressions of growth, reproductive, milk, wool, and disease resistance. The appropriate literature on this topic has been reviewed in this article. Several genetic characterization attempts of different goats have reported the existence of genotypic and morphological variations between different goat populations. As a result, different whole-genome sequences along with annotated gene sequences, gene function, and other genomic information of different goats are available in different databases. The main objective of this review is to search the genes associated with economic traits in goats. More than 271 candidate genes have been discovered in goats. Candidate genes influence the physiological pathway, metabolism, and expression of phenotypes. These genes have different functions on economically important traits. Some genes have pleiotropic effect for expression of phenotypic traits. Hence, recognizing candidate genes and their mutations that cause variations in gene expression and phenotype of an economic trait can help breeders look for genetic markers for specific economic traits. The availability of reference whole-genome assembly of goats, annotated genes, and transcriptomics makes comparative genomics a useful tool for systemic genetic upgradation. Identification and characterization of trait-associated sequence variations and gene will provide powerful means to give positive influences for future goat breeding program.
Collapse
|
20
|
Wang L, Raza SHA, Gui L, Li S, Liu X, Yang X, Wang S, Zan L, Zhao C. Associations between UASMS2 polymorphism in leptin gene and growth, carcass and meat quality traits of cattle: a meta-analysis. Anim Biotechnol 2020; 33:279-288. [PMID: 32804584 DOI: 10.1080/10495398.2020.1805327] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
Although numerous studies investigated the effect of UASMS2 polymorphism in leptin gene on cattle production, a consensus has not yet been reached. Therefore, we reviewed and meta-analyzed the effects of UASMS2 on cattle. We searched potentially relevant studies from seven databases (to December 25, 2019). Standard mean difference along with 95% confidence intervals was calculated to assess the strength of association through the random-effects model. Six published articles containing 1378 cattle samples were included in our meta-analysis. We found UASMS2 was not related to carcass weight, dressing percentage and loin muscle area in the recessive genetic model, but there was a significant association between UASMS2 and average daily weight gain, dry matter intake, body weight, marbling score, and backfat thickness. This meta-analysis indicated that UASMS2 was associated with growth and meat quality traits of cattle, implying that this SNP can be used reliably in beef cattle breeding. This study may provide valuable information on improving beef yield and quality in cattle production.
Collapse
Affiliation(s)
- Liyun Wang
- College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | | | - Linsheng Gui
- State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Xining, China
| | - Shijun Li
- College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Xuchun Liu
- College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Xinran Yang
- College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Sihu Wang
- College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Linsen Zan
- College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Chunping Zhao
- College of Animal Science and Technology, Northwest A&F University, Yangling, China
| |
Collapse
|
21
|
El-Komy SM, Saleh AA, Abdel-Hamid TM, El-Magd MA. Association of GHR Polymorphisms with Milk Production in Buffaloes. Animals (Basel) 2020; 10:ani10071203. [PMID: 32679878 PMCID: PMC7401641 DOI: 10.3390/ani10071203] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2020] [Revised: 07/03/2020] [Accepted: 07/08/2020] [Indexed: 01/09/2023] Open
Abstract
Simple Summary The present study reported two missense mutations in the buffalo GHR gene: A novel (c.380G>A) and (c.836T>A) which was described in previous studies. These two single nucleotide polymorphisms (SNPs) were found to be associated with milk yield, fat %, protein %, and 305 day-milk, fat and protein yield, with higher performance for AA haplotype animals. Therefore, selection of buffaloes with AA haplotype would more likely improve milk production traits. Consequently, this would allow breeders to take more precise selection decisions, leading to significantly higher productivity and profitability within the Egyptian buffalo herds. Abstract For its role in the mediation of growth hormone (GH) galactopoietic effect, growth hormone receptor (GHR) was considered a functional candidate gene for milk performance in cattle. However, its genetic variation and potential effect have not been investigated in Egyptian buffaloes. This study aimed to screen GHR for polymorphisms and study their associations with milk traits in Egyptian buffaloes. Polymerase chain reaction, single-strand conformation polymorphism, and sequencing were used to identify mutations in 4 exons (E4–E6 and E8) of the GHR gene in 400 Egyptian buffaloes. No polymorphisms were found in E4, while 2 SNPs (c.380G>A/p.Arg127Lys and c.387C>T/p.Gly129) in E5, one silent mutation (c.435A>G/p.Pro145) in E6, and another missense mutation (c.836T>A/p.Phe279Tyr) in E8 were detected. The c.380G>A SNP in the extracellular domain was associated with milk yield, fat %, protein %, and 305-day milk, fat and protein yield, with higher levels in animals carrying the mutant A allele. The c.836T>A SNP in the transmembrane domain was associated with milk yield, fat %, protein %, and 305-day milk, fat and protein yield, with higher milk yield and lower fat %, protein %, fat and protein yield in the mutant A allele-animals. Interestingly, animals with the two mutant AA alleles produced higher milk yield, fat %, protein %, fat and protein yield, accompanied with upregulated expressions of GHR, GH, insulin-like growth factor 1 (IGF1), prolactin (PRL), prolactin receptor (PRLR), β-casein (encoded by CSN2 gene), and diacylglycerol acyltransferase-1 (DGAT1) genes and proteins in milk somatic cells. Therefore, selection of Egyptian buffaloes with mutant AA haplotypes for the novel c.380G>A SNP and the well-known c.836T>A SNP could improve milk yield and quality in buffaloes.
Collapse
Affiliation(s)
- Shymaa M. El-Komy
- Department of Animal Production, Faculty of Agriculture, Tanta University, Tanta 31527, Egypt;
| | - Ayman A. Saleh
- Department of Animal Wealth Development, Veterinary Genetics & Genetic Engineering, Faculty of Veterinary Medicine, Zagazig University, Zagazig 44519, Egypt;
| | - Tamer M. Abdel-Hamid
- Department of Animal Wealth Development, Animal Breeding and Production, Faculty of Veterinary Medicine, Zagazig University, Zagazig 44519, Egypt;
| | - Mohammed A. El-Magd
- Department of Anatomy & Embryology, Faculty of Veterinary Medicine, Kafrelsheikh University, Kafrelsheikh 33516, Egypt
- Correspondence:
| |
Collapse
|
22
|
Singh U, Alex R, Kumar S, Deb R, Venkatesan Raja T, Singhal S, Sengar GS, Singh Rathod B, Srirama Murthy K, Vasant Rao Patil N. Association of bovine KISS1 single nucleotide polymorphisms with reproductive traits in Indian Cattle. Reprod Domest Anim 2020; 55:922-930. [PMID: 32428317 DOI: 10.1111/rda.13704] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2020] [Accepted: 05/12/2020] [Indexed: 11/29/2022]
Abstract
Kisspeptins, a family of neuropeptide encoded by the Kiss1 gene, have emerged as crucial regulator of fertility and reproduction by regulating the hypothalamic-pituitary-gonadal axis. The present study was aimed to identify and associate SNPs in the KISS1 gene with reproductive traits in cattle of Indian origin. DNA samples collected from 300 individual cows of three Indian dairy breeds (Gir, Kankrej and Frieswal) of cattle were used in the study. The SNPs of KISS1 gene were identified with PCR-RFLP and sequence analysis using two sets of primer pairs. A total of 5 SNPs were identified in the targeted region of which, two were selected for screening the population and association studies. The analysis revealed that genotypes of rs442633552G>A and rs42022871C>T had a significant association with dry period. The SNP rs42022871C>T also established significant role in milk production traits, and selection of TT-genotyped animals will improve the reproduction and production potential of the animals.
Collapse
Affiliation(s)
- Umesh Singh
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Rani Alex
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Sushil Kumar
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Rajib Deb
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | | | - Shaily Singhal
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | | | - Bharat Singh Rathod
- Livestock Research Station, Sardarkrushinagar Dantiwada Agricultural University, Banaskatha, India
| | | | | |
Collapse
|
23
|
|
24
|
Naserkheil M, Miraie-Ashtiani SR, Sadeghi M, Nejati-Javaremi A, Park CW, Min KS, Lee D. Exploring novel single nucleotide polymorphisms and haplotypes of the diacylglycerol O-acyltransferase 1 (DGAT1) gene and their effects on protein structure in Iranian buffalo. Genes Genomics 2019; 41:1265-1271. [PMID: 31388977 DOI: 10.1007/s13258-019-00854-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2019] [Accepted: 07/18/2019] [Indexed: 12/01/2022]
Abstract
BACKGROUND Diacylglycerol O-acyltransferase 1 (DGAT1) plays a key role in the synthesis of triglycerides. Recent studies have shown that a transition mutation resulting in substitutions of guanine by adenine in the DGAT1 gene in cattle has considerable effects on milk yield and composition. Currently, there is no systematic research reporting on the utilization of this gene segment in Iranian buffalo (Bubalus bubalis). OBJECTIVE In this study, the genetic differentiation of three indigenous Iranian buffalo populations was investigated in the region spanning exon 3 to exon 17 of the DGAT1 gene. METHODS A total of 200 buffaloes were genotyped, all the samples were sequenced directly in both directions with forward and reverse sequencing primers. RESULTS Sequence analysis showed novel SNPs compared to the reference GenBank sequence (DQ886485) at nucleotide positions g.6097A>G, g.7036C>T, g.7338G>A, g.7710C>T, g.8087C>T, g.8259G>A, g.8275G>A, g.8367C>T, and g.8426C>T. No polymorphisms were found within exon 8. Therefore, the K232A position was thought to be a conserved and fixed region for high milk fat content (K allele) in Bos indicus and all buffalo breeds. Comparison with Indian buffalo revealed three exonic SNPs, one of which was nonsynonymous. A unique 22 bp insertion was observed in intron 10 of DGAT1. Linkage disequilibrium analysis allowed the identification of nine haplotypes among the sampled animals. To our knowledge, this is the first report of sequencing analysis of the DGAT1 gene in Iranian buffalo. CONCLUSION Our results suggest that genetic diversity exists and could be useful in examining the association between the DGAT1 gene and milk production traits in buffalo.
Collapse
Affiliation(s)
- Masoumeh Naserkheil
- Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, P.O. Box 4111, Karaj, 31587-11167, Iran
| | - Seyed Reza Miraie-Ashtiani
- Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, P.O. Box 4111, Karaj, 31587-11167, Iran.
| | - Mostafa Sadeghi
- Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, P.O. Box 4111, Karaj, 31587-11167, Iran
| | - Ardeshir Nejati-Javaremi
- Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, P.O. Box 4111, Karaj, 31587-11167, Iran
| | - Chae-Won Park
- Department of Animal Biotechnology, Graduate School of Future Convergence Technology, Hankyong National University, Joongang-Ro 327, Ansung, Kyeonggi-Do, 456-749, Korea
| | - Kwan-Sik Min
- Department of Animal Biotechnology, Graduate School of Future Convergence Technology, Hankyong National University, Joongang-Ro 327, Ansung, Kyeonggi-Do, 456-749, Korea
| | - Deukhwan Lee
- Department of Animal Biotechnology, Graduate School of Future Convergence Technology, Hankyong National University, Joongang-Ro 327, Ansung, Kyeonggi-Do, 456-749, Korea.
| |
Collapse
|
25
|
Association between the GHR, GHRHR and IGF1 gene polymorphisms and milk coagulation properties in Sarda sheep. J DAIRY RES 2019; 86:331-336. [PMID: 31288873 DOI: 10.1017/s0022029919000475] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
We investigated whether variation of the sheep Growth Hormone Receptor (GHR), Growth Hormone Releasing Hormone Receptor (GHRHR) and Insulin-Like Growth Factor 1 (IGF1) genes were associated with milk coagulation properties (MCP) in sheep. The GHR, GHRHR and IGF1 genes are part of the GH system, which is known to modulate metabolism, growth and reproduction as well as mammogenesis and galactopoiesis in dairy species. A total of 380 dairy Sarda sheep were genotyped for 36 SNPs mapping to these three genes. Traditional MCP were measured as rennet coagulation time (RCT), curd-firming time (k20) and curd firmness at 30 m (a30). Modeling of curd firming over time (CFt) was based on a 60 m lactodynamographic test, generating a total of 240 records of curd firmness (mm) for each milk sample. The model parameters obtained included: the rennet coagulation time as a result of modeling all data available (RCTeq, min); the asymptotic potential value of curd firmness (CFP, mm) at an infinite time; the CF instant rate constant (kCF, %/min); the syneresis instant rate constant (kSR, %/min); the maximum value of CF (CFmax, mm) and the time at achievement of CFmax (tmax, min). Statistical analysis revealed that variation of the GHR gene was significantly associated with RCT, kSR and CFP (P < 0.05). No other significant associations were detected. These findings may be useful for the dairy industry, as well as for selection programs.
Collapse
|
26
|
Avondo M, Di Trana A, Valenti B, Criscione A, Bordonaro S, De Angelis A, Giorgio D, Di Gregorio P. Leptin Gene Polymorphism in Goats Fed with Diet at Different Energy Level: Effects on Feed Intake, Milk Traits, Milk Fatty Acids Composition, and Metabolic State. Animals (Basel) 2019; 9:ani9070424. [PMID: 31284565 PMCID: PMC6680466 DOI: 10.3390/ani9070424] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Revised: 06/21/2019] [Accepted: 07/02/2019] [Indexed: 11/16/2022] Open
Abstract
Simple Summary In this study it has been highlighted the role of a leptin polymorphism on goat milk yield and quality and of its interaction with the energy content of the diet. Energy did not interfere with genotype effect. The studied leptin polymorphism increased healthy fatty acids in milk, thus representing a potential tool to improve functional characteristics of goat milk. Abstract The study investigated the effects of a polymorphism at the LEP gene intron 1 microsatellite region and its interaction with diet energy level on feed intake, milk traits, milk fatty acid composition, and metabolic state in goats. Sixteen Girgentana lactating goats at mid-lactation, selected on the basis of their genotype (8 goats homozygous 266 bp/266 bp, L genotype; 8 goats heterozygous 266 bp/264 bp, H genotype), were fed ad libitum according to a change-over design, with two diets at different energy levels reached with different hay inclusion: low energy diet (LE)—100% of hay; and high energy diet (HE)—65% of hay. No differences in milk yield and composition or in dry matter intake were found between leptin genotypes or between diets. Leptin genotype had no effect on plasma metabolite concentrations. The differences between diets were recorded for plasma β-hydroxybutyric acid (BHBA) concentrations with higher (p = 0.01) values for the HE compared to the LE diet (0.44 vs. 0.24 mmol/L, respectively). Nonesterified fatty acid (NEFA) values seem to indicate a positive energy balance in goats. No interaction genotype per diet was evident for most of the studied parameters. Fatty acid composition was strongly influenced by LEP genotype: L goats, compared to H goats, showed higher levels of monounsaturated fatty acids (MUFA), polyunsaturated fatty acids (PUFA), and 14:1/14:0 desaturation index; lower levels of saturated fatty acids (SFA); and a more favorable atherogenic index. These results seem to suggest an improvement of health characteristics of milk with the L genotype.
Collapse
Affiliation(s)
- Marcella Avondo
- Dipartimento di Agricoltura, Alimentazione e Ambiente (Di3A), University of Catania, Via Valdisavoia 5, 95123 Catania, Italy.
| | - Adriana Di Trana
- Scuola di Scienze Agrarie, Forestali, Ambientali e Alimentari (SAFE), University of Basilicata, Viale dell'Ateneo Lucano 10, 85100 Potenza, Italy
| | - Bernardo Valenti
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, University of Perugia, Borgo XX Giugno 74, 06121 Perugia, Italy
| | - Andrea Criscione
- Dipartimento di Agricoltura, Alimentazione e Ambiente (Di3A), University of Catania, Via Valdisavoia 5, 95123 Catania, Italy
| | - Salvatore Bordonaro
- Dipartimento di Agricoltura, Alimentazione e Ambiente (Di3A), University of Catania, Via Valdisavoia 5, 95123 Catania, Italy
| | - Anna De Angelis
- Dipartimento di Agricoltura, Alimentazione e Ambiente (Di3A), University of Catania, Via Valdisavoia 5, 95123 Catania, Italy
| | - Daniela Giorgio
- Scuola di Scienze Agrarie, Forestali, Ambientali e Alimentari (SAFE), University of Basilicata, Viale dell'Ateneo Lucano 10, 85100 Potenza, Italy
| | - Paola Di Gregorio
- Scuola di Scienze Agrarie, Forestali, Ambientali e Alimentari (SAFE), University of Basilicata, Viale dell'Ateneo Lucano 10, 85100 Potenza, Italy
| |
Collapse
|
27
|
Ardicli S, Samli H, Vatansever B, Soyudal B, Dincel D, Balci F. Comprehensive assessment of candidate genes associated with fattening performance in Holstein-Friesian bulls. Arch Anim Breed 2019; 62:9-32. [PMID: 31807610 PMCID: PMC6852860 DOI: 10.5194/aab-62-9-2019] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Accepted: 01/10/2019] [Indexed: 01/13/2023] Open
Abstract
The objective of this study was to determine the association of single nucleotide polymorphisms (SNPs) in selected candidate genes with fattening performance traits in a commercial cattle herd. Fifteen SNPs in 12 candidate genes (LEP, FABP4, DGAT1, TG, IGF1, IGF1R, MYF5, LGB, CAPN1, CAST, GHR, and OLR1) were evaluated in 296 purebred Holstein-Friesian bulls using PCR-RFLP (polymerase chain reaction - restriction fragment length polymorphism). Associations between each segregating SNP and genetic merit for fattening performance were quantified using linear mixed models. Traits included in the study were fattening period, final weight, dry matter intake, feed conversion rate, and average daily weight gain. Apart from the general determination of the above-mentioned traits, each trait was evaluated based on the fattening periods between five selected target body weights (W1 = 100 kg, W2 = 200 kg, W3 = 300 kg, W4 = 400 kg, W5 = 450 kg). All markers with the exception of CAPN1 530, IGF1R, TG, and DGAT1 were associated with at least one of the traits. Furthermore, novel associations were observed for LEP × GHR, IGF1 × LEP, FABP4 3691 × FABP4 2834, and FAP4 3533 × LEP interactions. The results of this study confirm some previously reported associations. Moreover, novel associations have been identified, which may be incorporated into breeding programs to improve fattening performance.
Collapse
Affiliation(s)
- Sena Ardicli
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Hale Samli
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Buse Vatansever
- Department of Biology, Institute of Science, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Bahadir Soyudal
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Deniz Dincel
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Faruk Balci
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| |
Collapse
|
28
|
Bobbo T, Tiezzi F, Penasa M, De Marchi M, Cassandro M. Short communication: Association analysis of diacylglycerol acyltransferase (DGAT1) mutation on chromosome 14 for milk yield and composition traits, somatic cell score, and coagulation properties in Holstein bulls. J Dairy Sci 2018; 101:8087-8091. [DOI: 10.3168/jds.2018-14533] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2018] [Accepted: 05/23/2018] [Indexed: 11/19/2022]
|
29
|
Dettori ML, Pazzola M, Paschino P, Amills M, Vacca GM. Association between the GHR, GHRHR, and IGF1 gene polymorphisms and milk yield and quality traits in Sarda sheep. J Dairy Sci 2018; 101:9978-9986. [PMID: 30146276 DOI: 10.3168/jds.2018-14914] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2018] [Accepted: 07/01/2018] [Indexed: 11/19/2022]
Abstract
The growth hormone receptor (GHR), the growth hormone releasing hormone receptor (GHRHR), and the insulin-like growth factor 1 (IGF1) genes are known to modulate growth, reproduction, and lactation traits in livestock. The aim of the current work was to investigate if the variation of the sheep GHR, GHRHR, and IGF1 genes is associated with milk yield and quality traits. Three hundred eighty dairy Sarda sheep were genotyped for 36 single nucleotide polymorphisms (SNP) mapping to these 3 loci, and records for milk yield and daily fat and protein yield, as well as for fat, protein, casein, lactose, and milk urea contents, pH, somatic cell score, logarithmic bacterial count, and milk energy were obtained. The linkage disequilibrium analysis was performed only for GHR, as both GHRHR and IGF1 had only 1 polymorphic SNP. Haplotype analysis revealed the existence of 7 haplotype blocks in GHR. Two haplotype blocks, including part of the intron 1 and the upstream region, were clearly separated from the remaining 5 blocks by SNP rs412986330, which may be a recombination hotspot. The latter 5 blocks were contiguous, spanning from intron 2 to exon 10. Statistical analysis revealed that the GHR polymorphism is significantly associated with milk traits for daily fat and protein yield and fat, milk urea, and lactose content. Moreover, variation in IGF1 was associated with milk protein and casein content. Data generated in this research provide new insights into the allelic effects of the ovine GHRHR, GHR, and IGF1 genes on milk production and quality traits, information that may be useful in gene-assisted selection programs.
Collapse
Affiliation(s)
- Maria L Dettori
- Department of Veterinary Medicine, University of Sassari, Via Vienna 2, 07100 Sassari, Italy
| | - Michele Pazzola
- Department of Veterinary Medicine, University of Sassari, Via Vienna 2, 07100 Sassari, Italy.
| | - Pietro Paschino
- Department of Veterinary Medicine, University of Sassari, Via Vienna 2, 07100 Sassari, Italy
| | - Marcel Amills
- Department of Animal Genetics, Centre for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB), Campus Universitat Autònoma de Barcelona, Bellaterra 08193, Spain
| | - Giuseppe M Vacca
- Department of Veterinary Medicine, University of Sassari, Via Vienna 2, 07100 Sassari, Italy
| |
Collapse
|
30
|
Scotti E, Fontanesi L, Schiavini F, La Mattina V, Bagnato A, Russo V. DGAT1 p.K232A polymorphism in dairy and dual purpose Italian cattle breeds. ITALIAN JOURNAL OF ANIMAL SCIENCE 2017. [DOI: 10.4081/ijas.2010.e16] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Affiliation(s)
- Emilio Scotti
- Dipartimento di Protezione e Valorizzazione Agroalimentare. Università di Bologna, Reggio Emilia, Italy
| | - Luca Fontanesi
- Dipartimento di Protezione e Valorizzazione Agroalimentare. Università di Bologna, Reggio Emilia, Italy
| | - Fausta Schiavini
- Dipartimento di Scienze e Tecnologie Veterinarie per la Sicurezza Alimentare. Università di Milano, Italy
| | - Valeria La Mattina
- Dipartimento di Scienze e Tecnologie Veterinarie per la Sicurezza Alimentare. Università di Milano, Italy
| | - Alessandro Bagnato
- Dipartimento di Scienze e Tecnologie Veterinarie per la Sicurezza Alimentare. Università di Milano, Italy
| | - Vincenzo Russo
- Dipartimento di Protezione e Valorizzazione Agroalimentare. Università di Bologna, Reggio Emilia, Italy
| |
Collapse
|
31
|
van Gastelen S, Visker M, Edwards J, Antunes-Fernandes E, Hettinga K, Alferink S, Hendriks W, Bovenhuis H, Smidt H, Dijkstra J. Linseed oil and DGAT1 K232A polymorphism: Effects on methane emission, energy and nitrogen metabolism, lactation performance, ruminal fermentation, and rumen microbial composition of Holstein-Friesian cows. J Dairy Sci 2017; 100:8939-8957. [DOI: 10.3168/jds.2016-12367] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2016] [Accepted: 08/02/2017] [Indexed: 02/01/2023]
|
32
|
Hardie L, VandeHaar M, Tempelman R, Weigel K, Armentano L, Wiggans G, Veerkamp R, de Haas Y, Coffey M, Connor E, Hanigan M, Staples C, Wang Z, Dekkers J, Spurlock D. The genetic and biological basis of feed efficiency in mid-lactation Holstein dairy cows. J Dairy Sci 2017; 100:9061-9075. [DOI: 10.3168/jds.2017-12604] [Citation(s) in RCA: 47] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2017] [Accepted: 07/12/2017] [Indexed: 12/16/2022]
|
33
|
Coizet B, Frattini S, Nicoloso L, Iannuzzi L, Coletta A, Talenti A, Minozzi G, Pagnacco G, Crepaldi P. Polymorphism of the STAT5A, MTNR1A and TNFα genes and their effect on dairy production in Bubalus bubalis. ITALIAN JOURNAL OF ANIMAL SCIENCE 2017. [DOI: 10.1080/1828051x.2017.1335181] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Beatrice Coizet
- Dipartimento di Medicina Veterinaria, University of Milano, Milano, Italy
| | - Stefano Frattini
- Dipartimento di Medicina Veterinaria, University of Milano, Milano, Italy
| | - Letizia Nicoloso
- Dipartimento di Medicina Veterinaria, University of Milano, Milano, Italy
| | - Leopoldo Iannuzzi
- Istituto per il Sistema Produzione Animale in Ambiente Mediterraneo, National Research Council, Napoli, Italy
| | | | - Andrea Talenti
- Dipartimento di Medicina Veterinaria, University of Milano, Milano, Italy
| | - Giulietta Minozzi
- Dipartimento di Medicina Veterinaria, University of Milano, Milano, Italy
| | - Giulio Pagnacco
- Dipartimento di Medicina Veterinaria, University of Milano, Milano, Italy
| | - Paola Crepaldi
- Dipartimento di Medicina Veterinaria, University of Milano, Milano, Italy
| |
Collapse
|
34
|
Ardicli S, Dincel D, Samli H, Balci F. Effects of polymorphisms at <i>LEP</i>, <i>CAST</i>, <i>CAPN1</i>, <i>GHR</i>, <i>FABP4</i> and <i>DGAT1</i> genes on fattening performance and carcass traits in Simmental bulls. Arch Anim Breed 2017. [DOI: 10.5194/aab-60-61-2017] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
Abstract
Abstract. The aim of this study was to investigate the effects of single nucleotide polymorphisms (SNPs) at six candidate genes (LEP, CAST, CAPN1, GHR, FABP4 and DGAT1) on fattening performance and carcass traits of Simmental bulls in Turkey. The analysis covered a total of 81 Simmental bulls grown on a private farm that were randomly selected for their fattening period for use in this study. Genotyping was performed using the PCR-RFLP method. The S20T polymorphism at the CAST gene and the G316A polymorphism at the CAPN1 gene were associated with variation in final weight, fattening period, weight gain and average daily gain (P < 0.05). In addition, LEP A80V had a significant effect on hot and chilled carcass weight and dressing percentage (P < 0.05). There was no association between GHR S555G, FABP4 V110M and DGAT1 K232A markers with the traits analysed. These results suggested that focusing on the novel effects of LEP, CAST and CAPN1 gene polymorphisms on meat production traits might be useful for marker-assisted selection in Simmental cattle.
Collapse
|
35
|
Ghoneim M, Ogaly H, Gouda E, El-Behairy A. Prediction of desirable genotype patterns in Baladi beef cattle and water buffalo by identification of new leptin gene SNPs. Livest Sci 2016. [DOI: 10.1016/j.livsci.2015.09.006] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
|
36
|
Boussaha M, Michot P, Letaief R, Hozé C, Fritz S, Grohs C, Esquerré D, Duchesne A, Philippe R, Blanquet V, Phocas F, Floriot S, Rocha D, Klopp C, Capitan A, Boichard D. Construction of a large collection of small genome variations in French dairy and beef breeds using whole-genome sequences. Genet Sel Evol 2016; 48:87. [PMID: 27846802 PMCID: PMC5111192 DOI: 10.1186/s12711-016-0268-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2016] [Accepted: 11/04/2016] [Indexed: 12/22/2022] Open
Abstract
Background In recent years, several bovine genome sequencing projects were carried out with the aim of developing genomic tools to improve dairy and beef production efficiency and sustainability. Results In this study, we describe the first French cattle genome variation dataset obtained by sequencing 274 whole genomes representing several major dairy and beef breeds. This dataset contains over 28 million single nucleotide polymorphisms (SNPs) and small insertions and deletions. Comparisons between sequencing results and SNP array genotypes revealed a very high genotype concordance rate, which indicates the good quality of our data. Conclusions To our knowledge, this is the first large-scale catalog of small genomic variations in French dairy and beef cattle. This resource will contribute to the study of gene functions and population structure and also help to improve traits through genotype-guided selection. Electronic supplementary material The online version of this article (doi:10.1186/s12711-016-0268-z) contains supplementary material, which is available to authorized users.
Collapse
Affiliation(s)
- Mekki Boussaha
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France.
| | - Pauline Michot
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France.,Allice, Maison Nationale des Eleveurs, 75012, Paris, France
| | - Rabia Letaief
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | - Chris Hozé
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France.,Allice, Maison Nationale des Eleveurs, 75012, Paris, France
| | - Sébastien Fritz
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France.,Allice, Maison Nationale des Eleveurs, 75012, Paris, France
| | - Cécile Grohs
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | - Diane Esquerré
- GenPhySE, INRA, INPT, ENVT, Université de Toulouse, Castanet Tolosan, France
| | - Amandine Duchesne
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | - Romain Philippe
- GMA, INRA, Université de Limoges, 87060, Limoges Cedex, France
| | | | - Florence Phocas
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | - Sandrine Floriot
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | - Dominique Rocha
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | | | - Aurélien Capitan
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France.,Allice, Maison Nationale des Eleveurs, 75012, Paris, France
| | - Didier Boichard
- GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| |
Collapse
|
37
|
Cardona SJC, Cadavid HC, Corrales JD, Munilla S, Cantet RJC, Rogberg-Muñoz A. Longitudinal data analysis of polymorphisms in the κ-casein and β-lactoglobulin genes shows differential effects along the trajectory of the lactation curve in tropical dairy goats. J Dairy Sci 2016; 99:7299-7307. [PMID: 27423955 DOI: 10.3168/jds.2016-10954] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2016] [Accepted: 06/07/2016] [Indexed: 01/19/2023]
Abstract
The κ-casein (CSN-3) and β-lactoglobulin (BLG) genes are extensively polymorphic in ruminants. Several association studies have estimated the effects of polymorphisms in these genes on milk yield, milk composition, and cheese-manufacturing properties. Usually, these results are based on production integrated over the lactation curve or on cross-sectional studies at specific days in milk (DIM). However, as differential expression of milk protein genes occurs over lactation, the effect of the polymorphisms may change over time. In this study, we fitted a mixed-effects regression model to test-day records of milk yield and milk quality traits (fat, protein, and total solids yields) from Colombian tropical dairy goats. We used the well-characterized A/B polymorphisms in the CSN-3 and BLG genes. We argued that this approach provided more efficient estimators than cross-sectional designs, given the same number and pattern of observations, and allowed exclusion of between-subject variation from model error. The BLG genotype AA showed a greater performance than the BB genotype for all traits along the whole lactation curve, whereas the heterozygote showed an intermediate performance. We observed no such constant pattern for the CSN-3 gene between the AA homozygote and the heterozygote (the BB genotype was absent from the sample). The differences among the genotypic effects of the BLG and the CSN-3 polymorphisms were statistically significant during peak and mid lactation (around 40-160 DIM) for the BLG gene and only for mid lactation (80-145 DIM) for the CSN-3 gene. We also estimated the additive and dominant effects of the BLG locus. The locus showed a statistically significant additive behavior along the whole lactation trajectory for all quality traits, whereas for milk yield the effect was not significant at later stages. In turn, we detected a statistically significant dominance effect only for fat yield in the early and peak stages of lactation (at about 1-45 DIM). The longitudinal analysis of test-day records allowed us to estimate the differential effects of polymorphisms along the lactation curve, pointing toward stages that could be affected by the gene.
Collapse
Affiliation(s)
- Samir Julián Calvo Cardona
- Grupo de Investigación en Genética, Mejoramiento y Modelación Animal (GaMMA), Facultad Ciencias Agrarias, Universidad de Antioquia, Calle 67, no 53-108, AA 1226, Medellín, Colombia 005043
| | - Henry Cardona Cadavid
- Grupo de Investigación en Genética, Mejoramiento y Modelación Animal (GaMMA), Facultad Ciencias Agrarias, Universidad de Antioquia, Calle 67, no 53-108, AA 1226, Medellín, Colombia 005043
| | - Juan David Corrales
- Facultad Ciencias Agropecuarias, Universidad de La Salle, Bogotá, Colombia 110231; Departamento de Producción, Facultad de Agronomía, Universidad de Buenos Aires, San Martín 4453 (1417), Ciudad Autónoma de Buenos Aires, Argentina
| | - Sebastián Munilla
- Departamento de Producción, Facultad de Agronomía, Universidad de Buenos Aires, San Martín 4453 (1417), Ciudad Autónoma de Buenos Aires, Argentina
| | - Rodolfo J C Cantet
- Departamento de Producción, Facultad de Agronomía, Universidad de Buenos Aires, San Martín 4453 (1417), Ciudad Autónoma de Buenos Aires, Argentina; Unidad Ejecutora de Investigaciones en Producción Animal (INPA), Universidad de Buenos Aires - Consejo Nacional de Investigaciones Científicas y Técnicas, Cdad. Atma. Buenos Aires (1417), Argentina
| | - Andrés Rogberg-Muñoz
- Departamento de Producción, Facultad de Agronomía, Universidad de Buenos Aires, San Martín 4453 (1417), Ciudad Autónoma de Buenos Aires, Argentina; IGEVET-Instituto de Genética Veterinaria "Ing. Fernando Noel Dulout" (UNLP - CONICET La Plata), Facultad de Ciencias Veterinarias, Universidad Nacional de La Plata, Calle 60 y 118 S/N, La Plata, Argentina 1900.
| |
Collapse
|
38
|
Vanbergue E, Peyraud J, Guinard-Flament J, Charton C, Barbey S, Lefebvre R, Gallard Y, Hurtaud C. Effects of DGAT1 K232A polymorphism and milking frequency on milk composition and spontaneous lipolysis in dairy cows. J Dairy Sci 2016; 99:5739-5749. [DOI: 10.3168/jds.2015-10731] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2015] [Accepted: 03/23/2016] [Indexed: 12/12/2022]
|
39
|
Nasr MAF, Awad A, El Araby IE. Associations of Leptin
and Pituitary-Specific Transcription Factor
Genes’ Polymorphisms with Reproduction and Production Traits in Dairy Buffalo. Reprod Domest Anim 2016; 51:597-603. [DOI: 10.1111/rda.12726] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2016] [Accepted: 05/31/2016] [Indexed: 11/29/2022]
Affiliation(s)
- MAF Nasr
- Animal Wealth Development Department; Faculty of Veterinary Medicine; Zagazig University; Zagazig Egypt
| | - A Awad
- Animal Wealth Development Department; Faculty of Veterinary Medicine; Zagazig University; Zagazig Egypt
| | - IE El Araby
- Animal Wealth Development Department; Faculty of Veterinary Medicine; Zagazig University; Zagazig Egypt
| |
Collapse
|
40
|
Randhawa IAS, Khatkar MS, Thomson PC, Raadsma HW. A Meta-Assembly of Selection Signatures in Cattle. PLoS One 2016; 11:e0153013. [PMID: 27045296 PMCID: PMC4821596 DOI: 10.1371/journal.pone.0153013] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2015] [Accepted: 03/22/2016] [Indexed: 12/31/2022] Open
Abstract
Since domestication, significant genetic improvement has been achieved for many traits of commercial importance in cattle, including adaptation, appearance and production. In response to such intense selection pressures, the bovine genome has undergone changes at the underlying regions of functional genetic variants, which are termed “selection signatures”. This article reviews 64 recent (2009–2015) investigations testing genomic diversity for departure from neutrality in worldwide cattle populations. In particular, we constructed a meta-assembly of 16,158 selection signatures for individual breeds and their archetype groups (European, African, Zebu and composite) from 56 genome-wide scans representing 70,743 animals of 90 pure and crossbred cattle breeds. Meta-selection-scores (MSS) were computed by combining published results at every given locus, within a sliding window span. MSS were adjusted for common samples across studies and were weighted for significance thresholds across and within studies. Published selection signatures show extensive coverage across the bovine genome, however, the meta-assembly provides a consensus profile of 263 genomic regions of which 141 were unique (113 were breed-specific) and 122 were shared across cattle archetypes. The most prominent peaks of MSS represent regions under selection across multiple populations and harboured genes of known major effects (coat color, polledness and muscle hypertrophy) and genes known to influence polygenic traits (stature, adaptation, feed efficiency, immunity, behaviour, reproduction, beef and dairy production). As the first meta-assembly of selection signatures, it offers novel insights about the hotspots of selective sweeps in the bovine genome, and this method could equally be applied to other species.
Collapse
Affiliation(s)
- Imtiaz A. S. Randhawa
- Reprogen - Animal Bioscience Group, Faculty of Veterinary Science, The University of Sydney, 425 Werombi Road, Camden, 2570, NSW, Australia
- * E-mail:
| | - Mehar S. Khatkar
- Reprogen - Animal Bioscience Group, Faculty of Veterinary Science, The University of Sydney, 425 Werombi Road, Camden, 2570, NSW, Australia
| | - Peter C. Thomson
- Reprogen - Animal Bioscience Group, Faculty of Veterinary Science, The University of Sydney, 425 Werombi Road, Camden, 2570, NSW, Australia
| | - Herman W. Raadsma
- Reprogen - Animal Bioscience Group, Faculty of Veterinary Science, The University of Sydney, 425 Werombi Road, Camden, 2570, NSW, Australia
| |
Collapse
|
41
|
Deng TX, Pang CY, Lu XR, Zhu P, Duan AQ, Liang XW. Associations between polymorphisms of the STAT1 gene and milk production traits in water buffaloes1. J Anim Sci 2016; 94:927-35. [DOI: 10.2527/jas.2015-0139] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Affiliation(s)
- T. X. Deng
- Key Laboratory of Buffalo Genetics, Breeding and Reproduction technology, Ministry of Agriculture, Buffalo Research Institute, Chinese Academy of Agricultural Sciences, Nanning, China
| | - C. Y. Pang
- Key Laboratory of Buffalo Genetics, Breeding and Reproduction technology, Ministry of Agriculture, Buffalo Research Institute, Chinese Academy of Agricultural Sciences, Nanning, China
| | - X. R. Lu
- Key Laboratory of Buffalo Genetics, Breeding and Reproduction technology, Ministry of Agriculture, Buffalo Research Institute, Chinese Academy of Agricultural Sciences, Nanning, China
| | - P. Zhu
- Key Laboratory of Buffalo Genetics, Breeding and Reproduction technology, Ministry of Agriculture, Buffalo Research Institute, Chinese Academy of Agricultural Sciences, Nanning, China
| | - A. Q. Duan
- Key Laboratory of Buffalo Genetics, Breeding and Reproduction technology, Ministry of Agriculture, Buffalo Research Institute, Chinese Academy of Agricultural Sciences, Nanning, China
| | - X. W. Liang
- Key Laboratory of Buffalo Genetics, Breeding and Reproduction technology, Ministry of Agriculture, Buffalo Research Institute, Chinese Academy of Agricultural Sciences, Nanning, China
| |
Collapse
|
42
|
Maskur R, Arman C. Association of a Novel Single Nucleotide Polymorphism in Growth Hormone Receptor Gene with Production Traits in Bali Cattle. ITALIAN JOURNAL OF ANIMAL SCIENCE 2016. [DOI: 10.4081/ijas.2014.3461] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
43
|
Gurgul A, Szmatoła T, Ropka-Molik K, Jasielczuk I, Pawlina K, Semik E, Bugno-Poniewierska M. Identification of genome-wide selection signatures in the Limousin beef cattle breed. J Anim Breed Genet 2015; 133:264-76. [PMID: 26611546 DOI: 10.1111/jbg.12196] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2015] [Accepted: 09/24/2015] [Indexed: 02/03/2023]
Abstract
The study is aimed at identifying selection footprints within the genome of Limousin cattle. With the use of Extended Haplotype Homozygosity test, supplemented with correction for variation in recombination rates across the genome, we created map of selection footprints and detected 173 significant (p < 0.01) core haplotypes being potentially under positive selection. Within these regions, a number of candidate genes associated inter alia with skeletal muscle growth (GDF15, BMP7, BMP4 and TGFB3) or postmortem proteolysis and meat maturation (CAPN1 and CAPN5) were annotated. Noticeable clusters of selection footprints were detected on chromosomes 1, 4, 8 and 14, which are known to carry several quantitative trait loci for growth traits and meat quality. The study provides information about the genes and metabolic pathways potentially modified under the influence of directional selection, aimed at improving beef production characteristics in Limousin cattle.
Collapse
Affiliation(s)
- A Gurgul
- Laboratory of Genomics, Department of Animal Genomics and Molecular Biology, National Research Institute of Animal Production, Balice, Poland
| | - T Szmatoła
- Laboratory of Genomics, Department of Animal Genomics and Molecular Biology, National Research Institute of Animal Production, Balice, Poland
| | - K Ropka-Molik
- Laboratory of Genomics, Department of Animal Genomics and Molecular Biology, National Research Institute of Animal Production, Balice, Poland
| | - I Jasielczuk
- Laboratory of Genomics, Department of Animal Genomics and Molecular Biology, National Research Institute of Animal Production, Balice, Poland
| | - K Pawlina
- Laboratory of Genomics, Department of Animal Genomics and Molecular Biology, National Research Institute of Animal Production, Balice, Poland
| | - E Semik
- Laboratory of Genomics, Department of Animal Genomics and Molecular Biology, National Research Institute of Animal Production, Balice, Poland
| | - M Bugno-Poniewierska
- Laboratory of Genomics, Department of Animal Genomics and Molecular Biology, National Research Institute of Animal Production, Balice, Poland
| |
Collapse
|
44
|
Bovenhuis H, Visker M, van Valenberg H, Buitenhuis A, van Arendonk J. Effects of the DGAT1 polymorphism on test-day milk production traits throughout lactation. J Dairy Sci 2015; 98:6572-82. [DOI: 10.3168/jds.2015-9564] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2015] [Accepted: 05/20/2015] [Indexed: 11/19/2022]
|
45
|
Wang C, Zhang H, Niu L, Guo J, Jia X, Wang L, Li L, Zhang H, Zhong T. The novel SNPs of leptin gene and their associations with growth traits in Chinese Nanjiang Yellow goat. Gene 2015; 572:35-41. [PMID: 26142105 DOI: 10.1016/j.gene.2015.06.073] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2014] [Revised: 06/08/2015] [Accepted: 06/27/2015] [Indexed: 01/09/2023]
Abstract
The leptin (LEP) gene encodes a protein that greatly affects the regulation of body weight, energy balance, and food intake in mammals. The objective of the present work was to identify genetic variants of the caprine LEP gene in 411 individuals from five Chinese goat breeds. Six novel single nucleotide polymorphisms (SNPs) (g.117T > C, g.1642G > A, g.2883G > A, g.3053T > C, g.3190G > A, and g.3314T > C) were detected using DNA sequencing. A chi-squared (χ(2)) test showed that all of the LEP SNPs were in Hardy-Weinberg equilibrium in the studied population (P > 0.05). Six common haplotypes were identified in the five goat populations, with frequencies ranging from 0.083 to 0.244. The r(2) linkage disequilibrium plot of the LEP SNPs indicated linkage disequilibrium only in the cultured breeds (NJ and JY). Statistical analysis revealed that all of the six SNPs of the LEP gene were associated with growth traits. The individuals with the GG genotype at g.1642G>A and g.3190G > A loci showed higher birth weight (2.38 ± 0.03, 2.43 ± 0.05) and weight at 2 months of age (10.59 ± 0.16, 10.71 ± 0.26) than the A-bearing genotypes (AA or GA, P < 0.05). Our findings indicate that polymorphisms of the caprine LEP gene might be important genetic factors influencing growth traits, and these genetic markers may be useful for future marker-assisted selection programs in goat breeding and production.
Collapse
Affiliation(s)
- Cen Wang
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Hao Zhang
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Lili Niu
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Jiazhong Guo
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Xianbo Jia
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Linjie Wang
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Li Li
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Hongping Zhang
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Tao Zhong
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China.
| |
Collapse
|
46
|
Strucken EM, Laurenson YCSM, Brockmann GA. Go with the flow-biology and genetics of the lactation cycle. Front Genet 2015; 6:118. [PMID: 25859260 PMCID: PMC4374477 DOI: 10.3389/fgene.2015.00118] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2014] [Accepted: 03/10/2015] [Indexed: 01/06/2023] Open
Abstract
Lactation is a dynamic process, which evolved to meet dietary demands of growing offspring. At the same time, the mother's metabolism changes to meet the high requirements of nutrient supply to the offspring. Through strong artificial selection, the strain of milk production on dairy cows is often associated with impaired health and fertility. This led to the incorporation of functional traits into breeding aims to counteract this negative association. Potentially, distributing the total quantity of milk per lactation cycle more equally over time could reduce the peak of physiological strain and improve health and fertility. During lactation many factors affect the production of milk: food intake; digestion, absorption, and transportation of nutrients; blood glucose levels; activity of cells in the mammary gland, liver, and adipose tissue; synthesis of proteins and fat in the secretory cells; and the metabolic and regulatory pathways that provide fatty acids, amino acids, and carbohydrates. Whilst the endocrine regulation and physiology of the dynamic process of milk production seems to be understood, the genetics that underlie these dynamics are still to be uncovered. Modeling of longitudinal traits and estimating the change in additive genetic variation over time has shown that the genetic contribution to the expression of a trait depends on the considered time-point. Such time-dependent studies could contribute to the discovery of missing heritability. Only very few studies have estimated exact gene and marker effects at different time-points during lactation. The most prominent gene affecting milk yield and milk fat, DGAT1, exhibits its main effects after peak production, whilst the casein genes have larger effects in early lactation. Understanding the physiological dynamics and elucidating the time-dependent genetic effects behind dynamically expressed traits will contribute to selection decisions to further improve productive and healthy breeding populations.
Collapse
Affiliation(s)
- Eva M Strucken
- Animal Science, School of Environmental and Rural Science, University of New England Armidale, NSW, Australia
| | - Yan C S M Laurenson
- Animal Science, School of Environmental and Rural Science, University of New England Armidale, NSW, Australia
| | - Gudrun A Brockmann
- Breeding Biology and Molecular Genetics, Faculty of Life Sciences, Humboldt-Universität zu Berlin Berlin, Germany
| |
Collapse
|
47
|
Nani JP, Raschia MA, Carignano H, Poli MA, Calvinho LF, Amadio AF. Single nucleotide polymorphisms in candidate genes and their relation with somatic cell scores in Argentinean dairy cattle. J Appl Genet 2015; 56:505-513. [PMID: 25783851 DOI: 10.1007/s13353-015-0278-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2014] [Revised: 01/19/2015] [Accepted: 02/10/2015] [Indexed: 01/31/2023]
Abstract
The prevention and control of bovine mastitis by enhancing natural defenses in animals is important to improve the quality of dairy products. Mastitis resistance is a complex trait which depends on genetic components, as well as environmental and physiological factors. The limitations of classical control measures have led to the search for alternative approaches to minimize the use of antibiotics by selecting naturally resistant animals. Polymorphisms in genes associated with the innate immune system are strong candidates to be evaluated as genetic markers. In this work, we evaluated a set of single nucleotide polymorphisms (SNPs) in candidate genes for health and production traits, and determined their association with the somatic cell score (SCS) as an indicator of mastitis in Argentinean dairy cattle. We evaluated 941 cows: Holstein (n = 677) and Holstein × Jersey (n = 264) crossbred, daughters from 22 bulls from 14 dairy farms located in the central dairy area of Argentina. Two of the 21 successfully genotyped markers were found to be significantly associated (p < 0.05) with the SCS: GHR_140 and OPN_8514C-T. The heterozygote genotype for GHR_140 showed a favorable effect in reducing the SCS. On the other hand, heterozygote genotypes for OPN8514C-T caused an increase in the SCS; moreover, combined genotypes for OPN SNPs showed an even larger effect. These findings can contribute to the design of effective marker-assisted selection programs.
Collapse
Affiliation(s)
- Juan P Nani
- E.E.A. Rafaela, Instituto Nacional de Tecnología Agropecuaria, Rafaela, Santa Fe, Argentina
| | - Maria A Raschia
- Instituto de Genética "Ewald A. Favret", CICVyA, Instituto Nacional de Tecnología Agropecuaria, Castelar, Buenos Aires, Argentina
| | - Hugo Carignano
- Instituto de Genética "Ewald A. Favret", CICVyA, Instituto Nacional de Tecnología Agropecuaria, Castelar, Buenos Aires, Argentina
| | - Mario A Poli
- Instituto de Genética "Ewald A. Favret", CICVyA, Instituto Nacional de Tecnología Agropecuaria, Castelar, Buenos Aires, Argentina
| | - Luis F Calvinho
- E.E.A. Rafaela, Instituto Nacional de Tecnología Agropecuaria, Rafaela, Santa Fe, Argentina
| | - Ariel F Amadio
- E.E.A. Rafaela, Instituto Nacional de Tecnología Agropecuaria, Rafaela, Santa Fe, Argentina. .,Consejo Nacional de Investigaciones Científicas y Técnicas, Buenos Aires, Argentina.
| |
Collapse
|
48
|
Chessa S, Nicolazzi EL, Nicoloso L, Negrini R, Marino R, Vicario D, Ajmone Marsan P, Valentini A, Stefanon B. Analysis of candidate SNPs affecting milk and functional traits in the dual-purpose Italian Simmental cattle. Livest Sci 2015. [DOI: 10.1016/j.livsci.2014.12.015] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
|
49
|
Cosenza G, Pauciullo A, Macciotta NPP, Apicella E, Steri R, La Battaglia A, Jemma L, Coletta A, Di Berardino D, Ramunno L. Mediterranean river buffalo CSN1S1 gene: search for polymorphisms and association studies. ANIMAL PRODUCTION SCIENCE 2015. [DOI: 10.1071/an13438] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The aim of the present study was to investigate the variability at CSN1S1 locus of the Italian Mediterranean river buffalo and to study possible allele effects on milk yield and its composition. Effects of parity, calving season and month of production were also evaluated. Three single-nucleotide polymorphisms were detected. The first mutation, located at position 89 of the 17th exon (c.628C>T), is responsible for the amino acid change p.Ser178 (B allele)/Leu178 (A allele). The other two polymorphisms, detected at the positions 144 (c.882G>A) and 239 (c.977A>G) of 19th exon, respectively, are silent (3ʹ UTR, untranslated region). Associations between the CSN1S1 genotypes and milk production traits were investigated using 4122 test day records of 503 lactations from 175 buffalo cows. Milk yield, fat and protein percentages were analysed using a mixed linear model. A significant association between the c.628C>T SNP and the protein percentage was found. In particular, the CC genotype showed an average value ~0.04% higher than the CT and TT genotypes. The allele substitution effect of cytosine into thymine was –0.014, with a quite low (0.3%) protein percentage contribution to total phenotypic variance. A large dominance effect was detected. Characterisation of the CSN1S1 transcripts and a method based on MboI amplification created restriction site PCR for a rapid genotyping of c.628C>T are provided.
Collapse
|
50
|
Genetic variances of SNP loci for milk yield in dairy cattle. J Appl Genet 2014; 56:339-47. [PMID: 25398197 DOI: 10.1007/s13353-014-0257-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2013] [Revised: 05/03/2014] [Accepted: 10/31/2014] [Indexed: 10/24/2022]
Abstract
Regression coefficients and genetic variances for 40,890 single nucleotide polymorphisms (SNPs) for milk yield were calculated using mixed model equations, with deregressed proof (DRP) as the dependent variable. Bulls were genotyped using the Illumina BovineSNP50 v2 BeadChip and SNPs were edited according the minor allele frequency (MAF) and high incidence of missing genotype. Evaluation was conducted in two rounds. In the preliminary round, the direct genetic values (DGVs) of all genotyped bulls (2,904) were computed and the absolute difference between the DGV and the input DRP of each bull was investigated. Bulls with an absolute difference greater than the mean absolute difference plus two standard deviations were eliminated from the data set prior to the final analysis (2,766 bulls remaining). SNP regression coefficients from the final analysis had a mean absolute value of 0.506 kg and a standard deviation of 0.409 kg. The SNP with the highest regression coefficient and genetic variance was ARSBFGLNGS4939 on chromosome 14. This SNP is located within the gene DGAT1 (diacylglycerol O-acyltransferase 1). Other SNPs with high regression coefficients and genetic variance are localised in proximity to DGAT1. The mean genetic variance of an individual SNP was 0.170, with a standard deviation of 0.384 and a mean heterozygosity of 0.372. The sum of genetic variances of all SNPs was only 6,968.8, probably because of the existence of genetic covariances between loci. The largest sum of genetic variances was on chromosome 14 (498.4, 7.15 % of the total). After the final analysis, the correlation between the DGV and the input DRP was 0.951 for all bulls. The variance of the predicted DGV was 98.11 % of the variance of the input estimated breeding value (EBV) and 63.65 % of the variance of the DRP.
Collapse
|