Genome-Wide Analysis and Function Prediction of Long Noncoding RNAs in Sheep Pituitary Gland Associated with Sexual Maturation

Yang, Hua; Ma, Junwu; Wang, Zhen; Yao, Xiaolei; Jie, Zhao; Zhao, Xinyue; Wang, Feng

doi:10.3390/genes11030320

Cited by 20 publications

(23 citation statements)

References 68 publications

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“…Several comparable studies in sheep pituitaries were performed to explore the functions of lncRNAs in sexual maturation and reproductive function. Comparison of the lncRNAs in pituitaries of immature and mature rams revealed 2417 known lncRNAs and 1256 new lncRNAs, including 193 that were DE ( 134 ), while 1407 DE mRNAs were identified. For the DE protein-coding genes related to growth, reproduction, or steroid synthesis, interactions with the lncRNAs were predicted and networks constructed.…”

Section: Screening For Functional Pituitary Lncrnas Associated With Sexual Maturation and Reproductive Functionmentioning

confidence: 99%

Enhancing Gonadotrope Gene Expression Through Regulatory lncRNAs

Refael

Melamed

2021

Endocrinology

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The world of long non-coding RNAs (lncRNAs) has opened up massive new prospects in understanding the regulation of gene expression. Not only are there seemingly almost infinite numbers of lncRNAs in the mammalian cell, but they have highly diverse mechanisms of action. In the nucleus, some are chromatin-associated, transcribed from transcriptional enhancers (eRNAs) and/or direct changes in the epigenetic landscape with profound effects on gene expression. The pituitary gonadotrope is responsible for activation of reproduction through production and secretion of appropriate levels of the gonadotropic hormones. As such, it exemplifies a cell whose function is defined through changes in developmental and temporal patterns of gene expression, including those that are hormonally-induced. Roles for diverse distal regulatory elements and eRNAs in gonadotrope biology have only just begun to emerge. Here, we will present an overview of the different kinds of lncRNAs that alter gene expression, and what is known about their roles in regulating some of the key gonadotrope genes. We will also review various screens that have detected differentially expressed pituitary lncRNAs associated with changes in reproductive state, and those whose expression is found to play a role in gonadotrope-derived non-functioning pituitary adenomas. We hope to shed light on this exciting new field, emphasize the open questions, and encourage research to illuminate the roles of lncRNAs in various endocrine systems.

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Section: Screening For Functional Pituitary Lncrnas Associated With Sexual Maturation and Reproductive Functionmentioning

confidence: 99%

Enhancing Gonadotrope Gene Expression Through Regulatory lncRNAs

Refael

Melamed

2021

Endocrinology

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“…Then, Feng et al (2018) identified 5 lncRNAs and 76 mRNAs in ovaries of Hu sheep with high and low prolificacy, respectively [ 15 ]. Yang et al (2020) analyzed lncRNA and mRNA in male sheep pituitary and found that 5 candidate lncRNAs and their targeted genes enriched in growth and reproduction related pathways [ 16 ]. Su et al (2020) screened differential lncRNA through high-throughput sequencing, concluded that XLOC-2222497 and its target AKR1C1 could interact with progesterone in porcine endometrium for controlling pregnancy maintenance [ 17 ].…”

Section: Introductionmentioning

confidence: 99%

Pineal gland transcriptomic profiling reveals the differential regulation of lncRNA and mRNA related to prolificacy in STH sheep with two FecB genotypes

Ren

et al. 2021

BMC Genom Data

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Background Long noncoding RNA (lncRNA) has been identified as important regulator in hypothalamic-pituitary-ovarian axis associated with sheep prolificacy. However, little is known of their expression pattern and potential roles in the pineal gland of sheep. Herein, RNA-Seq was used to detect transcriptome expression pattern in pineal gland between follicular phase (FP) and luteal phase (LP) in FecBBB (MM) and FecB++ (ww) STH sheep, respectively, and differentially expressed (DE) lncRNAs and mRNAs associated with reproduction were identified. Results Overall, 135 DE lncRNAs and 1360 DE mRNAs in pineal gland between MM and ww sheep were screened. Wherein, 39 DE lncRNAs and 764 DE mRNAs were identified (FP vs LP) in MM sheep, 96 DE lncRNAs and 596 DE mRNAs were identified (FP vs LP) in ww sheep. Moreover, GO and KEGG enrichment analysis indicated that the targets of DE lncRNAs and DE mRNAs were annotated to multiple biological processes such as phototransduction, circadian rhythm, melanogenesis, GSH metabolism and steroid biosynthesis, which directly or indirectly participate in hormone activities to affect sheep reproductive performance. Additionally, co-expression of lncRNAs-mRNAs and the network construction were performed based on correlation analysis, DE lncRNAs can modulate target genes involved in related pathways to affect sheep fecundity. Specifically, XLOC_466330, XLOC_532771, XLOC_028449 targeting RRM2B and GSTK1, XLOC_391199 targeting STMN1, XLOC_503926 targeting RAG2, XLOC_187711 targeting DLG4 were included. Conclusion All of these differential lncRNAs and mRNAs expression profiles in pineal gland provide a novel resource for elucidating regulatory mechanism underlying STH sheep prolificacy.

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“…In addition, the animal quantitative trait loci database suggested 1 intronic and 6 intergenic lncRNAs as candidates of sheep fat-tail development. Transcriptome analyses were performed in speci c sheep tissues to reveal the potential regulatory roles of lncRNAs, such as in the skeletal muscle [11,12,13], pituitary [14,15,16], testis [17,18], and ovaries [19,20,21]. However, related research on lncRNA in sheep tail fat is still lacking, including the regulation mechanism of fat deposition and related molecular pathways of tail fat development.…”

Section: Introductionmentioning

confidence: 99%

Transcriptome analysis of messenger RNA and long noncoding RNA related to different developmental stages of tail adipose tissues of sunite sheep

Yun

et al. 2020

Preprint

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Background: Sunite sheep are a fat-tailed sheep species with a low percentage of intramuscular fat and good quality lean meat, and their tail fat can be used as a source of dietary fat by humans. To understand the potential regulatory mechanism of different growth stages of tail fat in Sunite sheep, we performed high-throughput RNA sequencing to characterize the long noncoding RNA (lncRNA) and messenger RNA (mRNA) expression profiles of the sheep tail fat at the age of 6 months, 18 months, and 30 months.Results: A total of 223 differentially expressed genes (DEGs) and 148 differentially expressed lncRNAs were found in the tail fat of 6-, 18-, and 30-month-old sheep (false discovery rate < 0.05, |Fold Change| ≥ 2). Based on the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis, we found that fat-related DEGs were mainly expressed at 6 months of age, and gradually decreased at 18 and 30 months of age. The target gene prediction analysis shows that most of the lncRNAs target more than 20 mRNAs as their trans-regulators (53 mRNAs at most). Further, we obtained several fat-related differentially-expressed target genes; these target genes interact with different differentially expressed lncRNAs at various ages and play an important role in the development of tail fat. Based on the DEGs and differentially expressed lncRNAs, we established three co-expression networks for each comparison group. Conclusions: Finally, we conclude that the development of the sheep tail fat is more active during the early stage of growth and gradually decreases with the increase in age. The mutual regulation of lncRNAs and mRNAs may play a key role in this complex biological process, and our findings will provide some basic theoretical data for future studies on tail fat development of fat-tailed sheep.

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Genome-Wide Analysis and Function Prediction of Long Noncoding RNAs in Sheep Pituitary Gland Associated with Sexual Maturation

Cited by 20 publications

References 68 publications

Enhancing Gonadotrope Gene Expression Through Regulatory lncRNAs

Enhancing Gonadotrope Gene Expression Through Regulatory lncRNAs

Pineal gland transcriptomic profiling reveals the differential regulation of lncRNA and mRNA related to prolificacy in STH sheep with two FecB genotypes

Transcriptome analysis of messenger RNA and long noncoding RNA related to different developmental stages of tail adipose tissues of sunite sheep

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