Whole-genome sequencing identifies potential candidate genes for reproductive traits in pigs

Li, Xiuling; Ye, Jianwei; Han, Xuelei; Qiao, Ruimin; Lv, Gang; Wang, Kejun

doi:10.1016/j.ygeno.2019.01.014

Cited by 46 publications

(44 citation statements)

References 40 publications

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“…in the TGF-signaling pathway were found to be associated with litter size in pigs [37] . There was a significant correlation between litter size in mutant indigenous Chinese Hu sheep and mutations in the three genes encoding the TGFβ superfamily (FecB, GDF9, and TGFBR2);; moreover, the FecB, GDF9 and TGFBR2 polymorphisms are considered to be potentially important genetic markers in marker-assisted selection (MAS) strategies to increase litter size in these sheep) [38] .…”

Section: Discussionmentioning

confidence: 95%

Exploring the Roles of Fecundity-related mRNAs and Long Non-coding RNAs in the Adrenal Glands of Small-tailed Han Sheep

Xia

Gan

et al. 2019

Preprint

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Background Long non-coding RNAs (lncRNAs) can play important roles in uterine and ovarian functions. However, little researches have been done on the role of lncRNAs in the adrenal gland of sheep. Herein, RNA sequencing was used to compare and analyze gene expressions in adrenal tissues between FecB ++ (WW) and FecB BB (MM) sheep in the follicular and luteal phases and key lncRNAs and genes associated with reproduction were identified.Results In MM sheep, 38 lncRNAs and 545 mRNAs were differentially expressed in the adrenal gland between the luteal and follicular phases; In WW sheep, 30 differentially expressed lncRNAs and 210 mRNAs were identified. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses indicated that differentially expressed lncRNAs and their target genes are mainly involved in the circadian rhythm, the mitogen activated protein kinase, thyroid, ovarian steroidogenesis and transforming growth factor beta signaling pathways. Key lncRNAs can regulate reproduction by modulating genes involved in these signaling pathways and biological processes. Specifically, XLOC_254761 , XLOC_357966 , 105614839 and XLOC_212877 targeting CREB1 , PER3 , SMAD1 and TGFBR2 , respectively, appear to play key regulatory roles.Conclusion These results broaden our understanding of lncRNAs in adrenal gland of sheep and provide new insights into the molecular mechanisms underlying sheep reproduction.

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Section: Discussionmentioning

confidence: 95%

Exploring the Roles of Fecundity-related mRNAs and Long Non-coding RNAs in the Adrenal Glands of Small-tailed Han Sheep

Xia

Gan

et al. 2019

Preprint

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show abstract

“…The TGFβ superfamily ligand initiates an intracellular signaling pathway upon binding to a cell surface receptor complex. In addition, TGFBR2 in the TGF-β signaling pathway were found to be associated with litter size in pigs [39]. There was a significant correlation between litter size in mutant indigenous Chinese Hu sheep and mutations in the three genes encoding the TGFβ superfamily (FecB, GDF9, and TGFBR2); moreover, the FecB, GDF9 and TGFBR2 polymorphisms are considered to be potentially important genetic markers in marker-assisted selection (MAS) strategies to increase litter size in these sheep) [40].…”

Section: Discussionmentioning

confidence: 99%

Exploring the roles of fecundity-related long non-coding RNAs and mRNAs in the adrenal glands of small-tailed Han Sheep

Xia

Gan

et al. 2020

BMC Genet

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Background: Long non-coding RNAs (lncRNAs) can play important roles in uterine and ovarian functions. However, little researches have been done on the role of lncRNAs in the adrenal gland of sheep. Herein, RNA sequencing was used to compare and analyze gene expressions in adrenal tissues between follicular phases and luteal phases in FecB BB (MM) and FecB ++ (WW) sheep, respectively, and differentially expressed lncRNAs and genes associated with reproduction were identified. Results: In MM sheep, 38 lncRNAs and 545 mRNAs were differentially expressed in the adrenal gland between the luteal and follicular phases; In WW sheep, 513 differentially expressed lncRNAs and 2481 mRNAs were identified. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses indicated that differentially expressed lncRNAs and their target genes are mainly involved in the circadian rhythm, the mitogen activated protein kinase, thyroid, ovarian steroidogenesis and transforming growth factor beta signaling pathways. Differentially expressed lncRNAs can regulate reproduction by modulating genes involved in these signaling pathways and biological processes. Specifically, XLOC_254761, XLOC_357966, 105,614,839 and XLOC_212877 targeting CREB1, PER3, SMAD1 and TGFBR2, respectively, appear to play key regulatory roles. Conclusion: These results broaden our understanding of lncRNAs in adrenal gland of sheep and provide new insights into the molecular mechanisms underlying sheep reproduction.

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“…Functionally, we showed that Smad4 could rescue the granulosa cell apoptosis induced by BMPR1B silencing, demonstrating that this feedback regulation is involved in ovine granulosa cell apoptosis. It is well known that the canonical BMP/Smad signaling pathway is associated with fecundity in domestic animals, and is essential for gonadogenesis, steroidogenesis, follicular development, and ovulation [8,10,38]. Meanwhile, BMP/Smad signaling pathway also plays an important role in follicular atresia, another fate of follicular development [39,40,41].…”

Section: Discussionmentioning

confidence: 99%

“…The BMP/Smad signaling pathway is known to be involved in follicular development, ovulation, and female reproduction, especially fecundity in domestic animals. In pigs, multiple core members of this signaling pathway, such as BMP5 , BMP6 , BMP7 , BMP15 , and BMPR1B , have been identified as candidate genes responsible for reproductive traits through genome-wide association analysis (GWAS) and whole-genome sequencing (WGS) [7,8,9]. In sheep, three ( BMP15 , BMPR1B , and GDF9 ) of the four major genes ( BMP15 , BMPR1B , GDF9 , and B4GALNT2 ) identified to affect the high fecundity of sheep are core components of the BMP/Smad signaling pathway [10,11].…”

Section: Introductionmentioning

confidence: 99%

Smad4 Feedback Enhances BMPR1B Transcription in Ovine Granulosa Cells

Abdurahman

Yao

et al. 2019

IJMS

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BMPR1B is a type 1B receptor of the canonical bone morphogenetic protein (BMP)/Sma- and mad-related protein (Smad) signaling pathway and is well known as the first major gene associated with sheep prolificacy. However, little is known about the transcriptional regulation of the ovine BMPR1B gene. In this study, we identified the ovine BMPR1B gene promoter and demonstrated that its transcription was regulated by Smad4. In sheep ovarian follicles, three transcriptional variants of BMPR1B gene with distinct transcription start sites were identified using 5′ RACE assay while variants II and III were more strongly expressed. Luciferase assay showed that the region −405 to −200 nt is the PII promoter region of variant II. Interestingly, two putative Smad4-binding elements (SBEs) were detected in this region. Luciferase and ChIP assay revealed that Smad4 enhances PII promoter activity of the ovine BMPR1B gene by directly interacting with SBE1 motif. Furthermore, in the ovine granulosa cells, Smad4 regulated BMPRIB expression, and BMPRIB-mediated granulosa cells apoptosis. Overall, our findings not only characterized the 5’ regulatory region of the ovine BMPR1B gene, but also uncovered a feedback regulatory mechanism of the canonical BMP/Smad signaling pathway and provided an insight into the transcriptional regulation of BMPR1B gene and sheep prolificacy.

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Whole-genome sequencing identifies potential candidate genes for reproductive traits in pigs

Cited by 46 publications

References 40 publications

Exploring the Roles of Fecundity-related mRNAs and Long Non-coding RNAs in the Adrenal Glands of Small-tailed Han Sheep

Exploring the Roles of Fecundity-related mRNAs and Long Non-coding RNAs in the Adrenal Glands of Small-tailed Han Sheep

Exploring the roles of fecundity-related long non-coding RNAs and mRNAs in the adrenal glands of small-tailed Han Sheep

Smad4 Feedback Enhances BMPR1B Transcription in Ovine Granulosa Cells

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