1
|
Zhang S, Gao X, Jiang Y, Shen Y, Xie H, Pan P, Huang Y, Wei Y, Jiang Q. Population validation of reproductive gene mutation loci and association with the litter size in Nubian goat. Arch Anim Breed 2021; 64:375-386. [PMID: 34584939 PMCID: PMC8461558 DOI: 10.5194/aab-64-375-2021] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2020] [Accepted: 07/20/2021] [Indexed: 01/05/2023] Open
Abstract
Litter size is an important component trait of doe
reproduction. By improving it, production efficiency and economic benefits
can be significantly provided. Genetic marker-assisted selection (MAS) based
on proven molecular indicators could enhance the efficacy of goat selection,
as well as litter size trait. Many molecular markers have been identified
that they can be used to improve litter size in different goat breeds.
However, the presence and value of these markers vary among goat breeds. In
the present study, we used the reported loci on other breeds of goat as
candidate loci to detect whether these loci appear in this Nubian goat
population; then we proceed to genotype and detect surrounding loci (50 bp)
by multiplex PCR and sequencing technology. As a result, 69
mutations (59 SNPs and 10 indels) were screened out from 23 candidate genes
in Nubian goat population, 12 loci were significantly associated with
the litter size of first-parity individuals; 5 loci were significantly
associated with the litter size of second-parity individuals; 3 loci
were significantly associated with the litter size of third-parity
individuals. In addition, five loci were significantly associated with the
average litter size. The additive effect value of KITLG: g.18047318 G>A in first parity, KITLG: g.18152042G>A in third parity, KISS-1: g.1341674
C>G in first parity, and GHR: g.32134187G>A in
second parity exceed more than 0.40, and the preponderant alleles are G, C,
A and G, respectively. Further, linkage disequilibrium analysis of 21 mutation
loci shows that 3 haplotype blocks are formed, and the litter size of
combination type AACC in KISS-1 gene and AAGG in KITLG gene are significantly lower
than that of other combinations genotype in first parity (P<0.05). These findings
can provide effective candidate DNA markers for selecting superior
individuals in Nubian goat breeding.
Collapse
Affiliation(s)
- Sanbao Zhang
- College of Animal Science and Technology, Guangxi University, Nanning 530004, Guangxi, China
| | - Xiaotong Gao
- College of Animal Science and Technology, Guangxi University, Nanning 530004, Guangxi, China
| | - Yuhang Jiang
- College of Animal Science and Technology, Guangxi University, Nanning 530004, Guangxi, China
| | - Yujian Shen
- College of Animal Science and Technology, Guangxi University, Nanning 530004, Guangxi, China
| | - Hongyue Xie
- College of Animal Science and Technology, Guangxi University, Nanning 530004, Guangxi, China
| | - Peng Pan
- College of Animal Science and Technology, Guangxi University, Nanning 530004, Guangxi, China
| | - Yanna Huang
- College of Animal Science and Technology, Guangxi University, Nanning 530004, Guangxi, China
| | - Yingming Wei
- Institute for New Rural Development, Guangxi University, Nanning 530004, Guangxi, China
| | - Qinyang Jiang
- College of Animal Science and Technology, Guangxi University, Nanning 530004, Guangxi, China
| |
Collapse
|
2
|
Tao L, He X, Wang X, Di R, Chu M. Litter Size of Sheep ( Ovis aries): Inbreeding Depression and Homozygous Regions. Genes (Basel) 2021; 12:109. [PMID: 33477586 PMCID: PMC7831309 DOI: 10.3390/genes12010109] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2020] [Revised: 01/14/2021] [Accepted: 01/15/2021] [Indexed: 02/07/2023] Open
Abstract
Ovine litter size (LS) is an important trait showing variability within breeds. It remains largely unknown whether inbreeding depression on LS exists based on genomic homozygous regions, and whether the homozygous regions resulted from inbreeding are significantly associated with LS in sheep. We here reanalyze a set of single nucleotide polymorphism (SNP) chip of six breeds to characterize the patterns of runs of homozygosity (ROH), to evaluate inbreeding levels and inbreeding depressions on LS, and to identify candidate homozygous regions responsible for LS. Consequently, unique ROH patterns were observed among six sheep populations. Inbreeding depression on LS was only found in Hu sheep, where a significant reduction of 0.016, 0.02, and 0.02 per 1% elevated inbreeding FROH4-8, FROH>8 and the total inbreeding measure was observed, respectively. Nine significantly homozygous regions were found for LS in Hu sheep, where some promising genes for LS possibly via regulation of the development of oocytes (NGF, AKT1, and SYCP1), fertilization (SPAG17, MORC1, TDRD9, ZFYVE21, ADGRB3, and CKB), embryo implantation (PPP1R13B, INF2, and VANGL1) and development (DPPA2, DPPA4, CDCA4, CSDE1, and ADSSL1), and reproductive health (NRG3, BAG5, CKB, and XRCC3) were identified. These results from the present study would provide insights into the genetic management and complementary understandings of LS in sheep.
Collapse
Affiliation(s)
| | | | | | | | - Mingxing Chu
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Ministry of Agriculture and Rural Affairs, Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (L.T.); (X.H.); (X.W.); (R.D.)
| |
Collapse
|
3
|
Chang HM, Wu HC, Sun ZG, Lian F, Leung PCK. Neurotrophins and glial cell line-derived neurotrophic factor in the ovary: physiological and pathophysiological implications. Hum Reprod Update 2020; 25:224-242. [PMID: 30608586 PMCID: PMC6390169 DOI: 10.1093/humupd/dmy047] [Citation(s) in RCA: 74] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2018] [Revised: 11/22/2018] [Accepted: 12/27/2018] [Indexed: 01/03/2023] Open
Abstract
BACKGROUND Neurotrophins [nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), neurotrophin-3 (NT-3), and neurotrophin-4 (NT-4)] and glial cell line-derived neurotrophic factor (GDNF) are soluble polypeptide growth factors that are widely recognized for their roles in promoting cell growth, survival and differentiation in several classes of neurons. Outside the nervous system, neurotrophin (NT) and GDNF signaling events have substantial roles in various non-neural tissues, including the ovary. OBJECTIVE AND RATIONALE The molecular mechanisms that promote and regulate follicular development and oocyte maturation have been extensively investigated. However, most information has been obtained from animal models. Even though the fundamental process is highly similar across species, the paracrine regulation of ovarian function in humans remains poorly characterized. Therefore, this review aims to summarize the expression and functional roles of NTs and GDNF in human ovarian biology and disorders, and to describe and propose the development of novel strategies for diagnosing, treating and preventing related abnormalities. SEARCH METHODS Relevant literature in the English language from 1990 to 2018 describing the role of NTs and GDNF in mammalian ovarian biology and phenotypes was comprehensively selected using PubMed, MEDLINE and Google Scholar. OUTCOMES Studies have shown that the neurotrophins NGF, BDNF, NT-3 and NT-4 as well as GDNF and their functional receptors are expressed in the human ovary. Recently, gathered experimental data suggest putative roles for NT and GDNF signaling in the direct control of ovarian function, including follicle assembly, activation of the primordial follicles, follicular growth and development, oocyte maturation, steroidogenesis, ovulation and corpus luteum formation. Additionally, crosstalk occurs between these ovarian regulators and the endocrine signaling system. Dysregulation of the NT system may negatively affect ovarian function, leading to reproductive pathology (decreased ovarian reserve, polycystic ovary syndrome and endometriosis), female infertility and even epithelial ovarian cancers. WIDER IMPLICATIONS A comprehensive understanding of the expression, actions and underlying molecular mechanisms of the NT/GDNF system in the human ovary is essential for novel approaches to therapeutic and diagnostic interventions in ovarian diseases and to develop more safe, effective methods of inducing ovulation in ART in the treatment of female infertility.
Collapse
Affiliation(s)
- Hsun-Ming Chang
- Integrative Medicine Research Centre of Reproduction and Heredity, the Affiliated Hospital of Shandong University of Traditional Chinese Medicine, Jinan, China.,Department of Obstetrics and Gynaecology, BC Children's Hospital Research Institute, University of British Columbia, Vancouver, British Columbia, Canada
| | - Hai-Cui Wu
- Integrative Medicine Research Centre of Reproduction and Heredity, the Affiliated Hospital of Shandong University of Traditional Chinese Medicine, Jinan, China.,Department of Obstetrics and Gynaecology, BC Children's Hospital Research Institute, University of British Columbia, Vancouver, British Columbia, Canada
| | - Zhen-Gao Sun
- Integrative Medicine Research Centre of Reproduction and Heredity, the Affiliated Hospital of Shandong University of Traditional Chinese Medicine, Jinan, China.,Department of Obstetrics and Gynaecology, BC Children's Hospital Research Institute, University of British Columbia, Vancouver, British Columbia, Canada
| | - Fang Lian
- Integrative Medicine Research Centre of Reproduction and Heredity, the Affiliated Hospital of Shandong University of Traditional Chinese Medicine, Jinan, China
| | - Peter C K Leung
- Integrative Medicine Research Centre of Reproduction and Heredity, the Affiliated Hospital of Shandong University of Traditional Chinese Medicine, Jinan, China.,Department of Obstetrics and Gynaecology, BC Children's Hospital Research Institute, University of British Columbia, Vancouver, British Columbia, Canada
| |
Collapse
|
4
|
Naicy T, Venkatachalapathy T, Aravindakshan T, Bosewell A, Silpa M. Association of a SacII polymorphism in the Nerve Growth Factor (NGF) gene exon 3 with growth traits in Indian goats. Small Rumin Res 2018. [DOI: 10.1016/j.smallrumres.2017.11.009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|
5
|
Naicy T, Venkatachalapathy R, Siju J, Aravindakshan T, Kurian E, Jose J, Bosewell A, Silpa M. Molecular characterization and differential expression patterns of the goat Nerve Growth Factor (NGF) gene during different growth stages. Meta Gene 2017. [DOI: 10.1016/j.mgene.2017.09.004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022] Open
|
6
|
Naicy T, Venkatachalapathy RT, Aravindakshan TV, Raghavan KC, Mini M, Shyama K. Relative abundance of tissue mRNA and association of the single nucleotide polymorphism of the goat NGF gene with prolificacy. Anim Reprod Sci 2016; 173:42-8. [PMID: 27576174 DOI: 10.1016/j.anireprosci.2016.08.009] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2016] [Revised: 08/19/2016] [Accepted: 08/25/2016] [Indexed: 10/21/2022]
Abstract
Nerve Growth Factor (NGF) promotes the development of pre-antral ovarian follicles through ovarian innervations and regulation of ovarian response to gonadotropins. The present study was conducted to study the tissue gene expression profile, to characterize the genetic variants, find associations of the NGF gene with prolificacy in the prolific Malabari and less prolific Attappady Black goats because NGF has an important role in reproduction by augmenting ovarian folliculogenesis. Relative abundance of NGF mRNA was greatest in reproductive tissues signifying its role in reproduction. The PCR-SSCP analysis of a 251bp fragment of Exon 3 of the NGF gene from the 277 goats revealed four diplotypes (EE, EF, FF and EG) with respective frequencies of 0.76, 0.22, 0.01 and 0.01. Sequencing of the representative samples revealed one synonymous and one novel non synonymous mutations (g.705G>A and g.715C>T). Statistical analysis indicated that the SNP g.705G>A was associated with litter size in Attappady Black goats (P<0.05) and a PCR-RFLP was designed using the restriction enzyme, BpiI, for rapid screening of the SNP. The results of the present study suggest that the NGF gene is a primary candidate gene affecting prolificacy in goats and may be used for Marker Assisted Selection (MAS) in goats, especially in lowly prolific Attappady Black goats.
Collapse
Affiliation(s)
- Thomas Naicy
- Department of Animal Breeding, Genetics and Biostatistics, College of Veterinary and Animal Sciences, Mannuthy, Thrissur-680651, Kerala, India.
| | - R Thirupathy Venkatachalapathy
- Centre for Advanced Studies in Animal Genetics and Breeding, College of Veterinary and Animal Sciences, Mannuthy, Thrissur-680651, Kerala, India
| | - T V Aravindakshan
- Centre for Advanced Studies in Animal Genetics and Breeding, College of Veterinary and Animal Sciences, Mannuthy, Thrissur-680651, Kerala, India
| | - K C Raghavan
- Centre for Advanced Studies in Animal Genetics and Breeding, College of Veterinary and Animal Sciences, Mannuthy, Thrissur-680651, Kerala, India
| | - M Mini
- Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Mannuthy, Thrissur-680651, Kerala, India
| | - K Shyama
- Department of Animal Nutrition, College of Veterinary and Animal Sciences, Mannuthy, Thrissur-680651, Kerala, India
| |
Collapse
|
7
|
Naicy T, Venkatachalapathy RT, Aravindakshan TV, Radhika G, Raghavan KC, Mini M, Shyama K. Nerve Growth Factor gene ovarian expression, polymorphism identification, and association with litter size in goats. Theriogenology 2016; 86:2172-2178.e3. [PMID: 27544869 DOI: 10.1016/j.theriogenology.2016.07.011] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2016] [Revised: 07/12/2016] [Accepted: 07/12/2016] [Indexed: 12/11/2022]
Abstract
The Nerve Growth Factor (NGF) plays an important role in reproduction by augmenting folliculogenesis. In this study, the coding regions of caprine NGF gene were analyzed to detect single-nucleotide polymorphisms (SNPs), their association with litter size, and the relative ovarian expression of NGF gene in the two indigenous goat breeds of South India viz., the prolific Malabari and less-prolific Attappady Black. The sequence analysis of the third exon containing the entire open reading frame of NGF gene was observed to be of 808 bp with one nonsynonymous mutation at 217th position. Later, polymerase chain reaction (PCR) was performed to amplify a region of 188 bp covering the region carrying the detected mutation. The genomic DNAs from the goats under study (n = 277) were subjected to PCR and single strand conformation polymorphism (SSCP). On analysis, four diplotypes viz., AA, AB, AC, and AD were observed with respective frequencies of 0.50, 0.22, 0.27, and 0.01. Sequencing of the representative samples revealed an additional synonymous mutation, i.e., g.291C>A. Statistical analysis indicated that NGF diplotypes and the SNP g.217G>A were associated with litter size in goats (P < 0.05). Relative expression of NGF gene was significantly higher in the ovaries of goats with history of multiple than single births (P < 0.05). The results of the present study suggest the significant effect of the NGF gene on litter size in goats and identified SNPs would benefit the selection of prolific animals in future marker-assisted breeding programs. The two novel PCR-restriction fragment length polymorphisms designed, based on the detected SNPs, would help in the rapid screening of large number of animals in a breeding population for identifying individual animals with desired genetic characteristics.
Collapse
Affiliation(s)
- T Naicy
- Department of Animal Breeding, Genetics and Biostatistics, College of Veterinary and Animal Sciences, Thrissur, Kerala, India.
| | - R T Venkatachalapathy
- Centre for Advanced Studies in Animal Genetics and Breeding, College of Veterinary and Animal Sciences, Thrissur, Kerala, India
| | - T V Aravindakshan
- Centre for Advanced Studies in Animal Genetics and Breeding, College of Veterinary and Animal Sciences, Thrissur, Kerala, India
| | - G Radhika
- Department of Animal Breeding, Genetics and Biostatistics, College of Veterinary and Animal Sciences, Thrissur, Kerala, India
| | - K C Raghavan
- Centre for Advanced Studies in Animal Genetics and Breeding, College of Veterinary and Animal Sciences, Thrissur, Kerala, India
| | - M Mini
- Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Thrissur, Kerala, India
| | - K Shyama
- Department of Animal Nutrition, College of Veterinary and Animal Sciences, Thrissur, Kerala, India
| |
Collapse
|
8
|
Streiter S, Fisch B, Sabbah B, Ao A, Abir R. The importance of neuronal growth factors in the ovary. Mol Hum Reprod 2015; 22:3-17. [DOI: 10.1093/molehr/gav057] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2014] [Accepted: 10/14/2015] [Indexed: 12/29/2022] Open
|
9
|
Tian YG, Yue M, Gu Y, Gu WW, Wang YJ. Single-nucleotide polymorphism analysis of GH, GHR, and IGF-1 genes in minipigs. ACTA ACUST UNITED AC 2014; 47:753-8. [PMID: 25098617 PMCID: PMC4143202 DOI: 10.1590/1414-431x20143945] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2014] [Accepted: 05/12/2014] [Indexed: 11/22/2022]
Abstract
Tibetan (TB) and Bama (BM) miniature pigs are two popular pig breeds that are used as experimental animals in China due to their small body size. Here, we analyzed single-nucleotide polymorphisms (SNPs) in gene fragments that are closely related to growth traits [growth hormone (GH), growth hormone receptor (GHR), and insulin-like growth factor (IGF)-1)] in these pig breeds and a large white (LW) control pig breed. On the basis of the analysis of 100 BMs, 108 TBs, and 50 LWs, the polymorphic distribution levels of GH, GHR, and IGF-1 were significantly different among these three pig breeds. According to correlation analyses between SNPs and five growth traits--body weight (BW), body length (BL), withers height (WH), chest circumference (CC), and abdomen circumference (AC)--three SNP loci in BMs and four SNP loci in TBs significantly affected growth traits. Three SNP sites in BMs and four SNP sites in TBs significantly affected growth traits. SNPs located in the GH gene fragment significantly affected BL and CC at locus 12 and BL at locus 45 in BMs, and also BW, WH, CC, and AC at locus 45 and WH and CC at locus 93 in TBs. One SNP at locus 85 in the BM GHR gene fragment significantly affected all growth traits. All indices were significantly reduced with a mixture of alleles at locus 85. These results provide more information regarding the genetic background of these minipig species and indicate useful selection markers for pig breeding programs.
Collapse
Affiliation(s)
- Y G Tian
- Laboratory Animal Center, Southern Medical University, Guangzhou, Guangdong, China
| | - M Yue
- Laboratory Animal Center, Southern Medical University, Guangzhou, Guangdong, China
| | - Y Gu
- Laboratory Animal Center, Southern Medical University, Guangzhou, Guangdong, China
| | - W W Gu
- Laboratory Animal Center, Southern Medical University, Guangzhou, Guangdong, China
| | - Y J Wang
- Laboratory Animal Center, Southern Medical University, Guangzhou, Guangdong, China
| |
Collapse
|