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Carvalho Filho I, Arikawa LM, Mota LFM, Campos GS, Fonseca LFS, Fernandes Júnior GA, Schenkel FS, Lourenco D, Silva DA, Teixeira CS, Silva TL, Albuquerque LG, Carvalheiro R. Genome-wide association study considering genotype-by-environment interaction for productive and reproductive traits using whole-genome sequencing in Nellore cattle. BMC Genomics 2024; 25:623. [PMID: 38902640 PMCID: PMC11188527 DOI: 10.1186/s12864-024-10520-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2024] [Accepted: 06/13/2024] [Indexed: 06/22/2024] Open
Abstract
BACKGROUND The genotype-by-environment interaction (GxE) in beef cattle can be investigated using reaction norm models to assess environmental sensitivity and, combined with genome-wide association studies (GWAS), to map genomic regions related to animal adaptation. Including genetic markers from whole-genome sequencing in reaction norm (RN) models allows us to identify high-resolution candidate genes across environmental gradients through GWAS. Hence, we performed a GWAS via the RN approach using whole-genome sequencing data, focusing on mapping candidate genes associated with the expression of reproductive and growth traits in Nellore cattle. For this purpose, we used phenotypic data for age at first calving (AFC), scrotal circumference (SC), post-weaning weight gain (PWG), and yearling weight (YW). A total of 20,000 males and 7,159 females genotyped with 770k were imputed to the whole sequence (29 M). After quality control and linkage disequilibrium (LD) pruning, there remained ∼ 2.41 M SNPs for SC, PWG, and YW and ∼ 5.06 M SNPs for AFC. RESULTS Significant SNPs were identified on Bos taurus autosomes (BTA) 10, 11, 14, 18, 19, 20, 21, 24, 25 and 27 for AFC and on BTA 4, 5 and 8 for SC. For growth traits, significant SNP markers were identified on BTA 3, 5 and 20 for YW and PWG. A total of 56 positional candidate genes were identified for AFC, 9 for SC, 3 for PWG, and 24 for YW. The significant SNPs detected for the reaction norm coefficients in Nellore cattle were found to be associated with growth, adaptative, and reproductive traits. These candidate genes are involved in biological mechanisms related to lipid metabolism, immune response, mitogen-activated protein kinase (MAPK) signaling pathway, and energy and phosphate metabolism. CONCLUSIONS GWAS results highlighted differences in the physiological processes linked to lipid metabolism, immune response, MAPK signaling pathway, and energy and phosphate metabolism, providing insights into how different environmental conditions interact with specific genes affecting animal adaptation, productivity, and reproductive performance. The shared genomic regions between the intercept and slope are directly implicated in the regulation of growth and reproductive traits in Nellore cattle raised under different environmental conditions.
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Affiliation(s)
- Ivan Carvalho Filho
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
| | - Leonardo M Arikawa
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
| | - Lucio F M Mota
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil.
| | - Gabriel S Campos
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
| | - Larissa F S Fonseca
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
| | - Gerardo A Fernandes Júnior
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
| | - Flavio S Schenkel
- Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, Ontario, N1G2W1, Canada
| | - Daniela Lourenco
- Department of Animal and Dairy Science, University of Georgia, Athens, GA, 30602, USA
| | - Delvan A Silva
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
| | - Caio S Teixeira
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
| | - Thales L Silva
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
| | - Lucia G Albuquerque
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
- National Council for Science and Technological Development, Brasilia, DF, 71605-001, Brazil
| | - Roberto Carvalheiro
- Department of Animal Science, School of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Jaboticabal, SP, 14884-900, Brazil
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Ginther OJ. The theory of follicle selection in cattle. Domest Anim Endocrinol 2016; 57:85-99. [PMID: 27565235 DOI: 10.1016/j.domaniend.2016.06.002] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/12/2016] [Revised: 06/01/2016] [Accepted: 06/05/2016] [Indexed: 12/24/2022]
Abstract
Selection of the dominant follicle (DF) during a follicular wave is manifested by diameter deviation or continued growth rate of the largest follicle (F1) and decreased growth rate of the next largest follicle (F2) when F1 reaches about 8.5 mm in cattle. The process of deviation in the future DF begins about 12 h before diameter deviation and involves an F1 increase in granulosa LH receptors and estradiol and maintenance of intrafollicular free insulin-like growth factor 1 (IGF1). Thereby, only F1 is developmentally prepared to use the declining FSH in the wave-stimulating FSH surge and to respond to a transient increase in LH to become the DF. A follicle that emerges first may maintain an F1 ranking and become the DF by being first to reach a critical developmental stage. However, an early size advantage is not a requisite component of the deviation process as indicated by (1) F1 and F2 may switch diameter rankings during a common growth phase that precedes diameter deviation owing to intraovarian factors that affect growth of individual follicles; (2) any follicle that reaches 5 mm regardless of diameter ranking may become a DF unless it is selected against during deviation; (3) a subordinate follicle may become dominant if the DF is ablated; (4) when F1 is ablated at 8.5 mm, the next largest follicle that is greater than 7.0 mm or the first follicle to subsequently reach 7.0 mm becomes the DF; (5) after ablation of F1 at 8.5 mm, IGF1 and estradiol increase in the intrafollicular fluid of F2 beginning at 6 h, and F2 grows to 8.5 mm in 12 h to become the DF. These considerations indicate that selection of a DF or partitioning into a DF and subordinate follicles is not initiated before the end of the common growth phase. That is, the deviation process represents the entire follicle selection mechanism.
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Affiliation(s)
- O J Ginther
- Eutheria Foundation, Cross Plains, Wisconsin 53528, USA; Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA.
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Dau AMP, da Silva EP, da Rosa PRA, Bastiani FT, Gutierrez K, Ilha GF, Comim FV, Gonçalves PBD. Bovine ovarian cells have (pro)renin receptors and prorenin induces resumption of meiosis in vitro. Peptides 2016; 81:1-8. [PMID: 27060674 DOI: 10.1016/j.peptides.2016.03.010] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/13/2015] [Revised: 03/14/2016] [Accepted: 03/23/2016] [Indexed: 01/02/2023]
Abstract
The discovery of a receptor that binds prorenin and renin in human endothelial and mesangial cells highlights the possible effect of renin-independent prorenin in the resumption of meiosis in oocytes that was postulated in the 1980s.This study aimed to identify the (pro)renin receptor in the ovary and to assess the effect of prorenin on meiotic resumption. The (pro)renin receptor protein was detected in bovine cumulus-oocyte complexes, theca cells, granulosa cells, and in the corpus luteum. Abundant (pro)renin receptor messenger ribonucleic acid (mRNA) was detected in the oocytes and cumulus cells, while prorenin mRNA was identified in the cumulus cells only. Prorenin at concentrations of 10(-10), 10(-9), and 10(-8)M incubated with oocytes co-cultured with follicular hemisections for 15h caused the resumption of oocyte meiosis. Aliskiren, which inhibits free renin and receptor-bound renin/prorenin, at concentrations of 10(-7), 10(-5), and 10(-3)M blocked this effect (P<0.05). To determine the involvement of angiotensin II in prorenin-induced meiosis resumption, cumulus-oocyte complexes and follicular hemisections were treated with prorenin and with angiotensin II or saralasin (angiotensin II antagonist). Prorenin induced the resumption of meiosis independently of angiotensin II. Furthermore, cumulus-oocyte complexes cultured with forskolin (200μM) and treated with prorenin and aliskiren did not exhibit a prorenin-induced resumption of meiosis (P<0.05). Only the oocytes' cyclic adenosine monophosphate levels seemed to be regulated by prorenin and/or forskolin treatment after incubation for 6h. To the best of our knowledge, this is the first study to identify the (pro)renin receptor in ovarian cells and to demonstrate the independent role of prorenin in the resumption of oocyte meiosis in cattle.
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Affiliation(s)
- Andressa Minussi Pereira Dau
- Laboratory of Biotechnology and Animal Reproduction, BioRep, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Veterinary Hospital, Santa Maria, RS, Brazil
| | - Eduardo Pradebon da Silva
- Laboratory of Biotechnology and Animal Reproduction, BioRep, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Veterinary Hospital, Santa Maria, RS, Brazil
| | - Paulo Roberto Antunes da Rosa
- Laboratory of Biotechnology and Animal Reproduction, BioRep, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Veterinary Hospital, Santa Maria, RS, Brazil
| | - Felipe Tusi Bastiani
- Laboratory of Biotechnology and Animal Reproduction, BioRep, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Veterinary Hospital, Santa Maria, RS, Brazil
| | - Karina Gutierrez
- Laboratory of Biotechnology and Animal Reproduction, BioRep, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Veterinary Hospital, Santa Maria, RS, Brazil
| | - Gustavo Freitas Ilha
- Laboratory of Biotechnology and Animal Reproduction, BioRep, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Veterinary Hospital, Santa Maria, RS, Brazil
| | - Fabio Vasconcellos Comim
- Laboratory of Biotechnology and Animal Reproduction, BioRep, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Veterinary Hospital, Santa Maria, RS, Brazil; Department of Medical Clinic, Faculty of Medicine, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Santa Maria, RS, Brazil
| | - Paulo Bayard Dias Gonçalves
- Laboratory of Biotechnology and Animal Reproduction, BioRep, Federal University of Santa Maria, Roraima Avenue 1000, 97105-900, Veterinary Hospital, Santa Maria, RS, Brazil.
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