Identification of Differentially Expressed Genes in Porcine Ovaries at Proestrus and Estrus Stages Using RNA-Seq Technique

Yang, Songbai; Zhou, Xiao‐Long; Pei, Yanxi; Wang, Han; He, Ke; Zhao, Ayong

doi:10.1155/2018/9150723

Cited by 15 publications

(18 citation statements)

References 54 publications

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“…different patterns of gene expression [48]. In this study, there were polymorphisms of gene expression clusters between O. mekongensis and O. songkhramensis.…”

Section: Plos Onementioning

confidence: 55%

“…songkhramensis , as annotated by KOG, GO and KEGG. Regarding TF expression and DEGs, TFs have been investigated as an important step in gene regulatory networks [ 47 ], and DEGs are utilized as potential markers to observe different patterns of gene expression [ 48 ]. In this study, there were polymorphisms of gene expression clusters between O .…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Molecular assessment and transcriptome profiling of wild fish populations of Oryzias mekongensis and O. songkhramensis (Adrianichthyidae: Beloniformes) from Thailand

Ngamniyom

2020

PLoS ONE

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Among the fish of the genus Oryzias, two species are frequently used as model animals in biological research. In Thailand, Oryzias mekongensis is usually found in natural freshwater near the Mekong Basin in the northeast region, while O. songkhramensis inhabits the Songkhram Basin. For differential morphological identification, the coloured bands on the dorsal and ventral margins of the caudal fin are used to distinguish O. mekongensis from O. songkhramensis. However, these characteristics are insufficient to justify species differentiation, and little molecular evidence is available to supplement them. This study aimed to investigate the molecular population and transcriptome profiles of adult O. mekongensis and O. songkhramensis. In the molecular tree based on cytochrome b sequences, O. mekongensis exhibited four clades that were clearly distinguished from O. songkhramensis. Clade 1 of the O. mekongensis population was close to the Mekong River and lived in the eastern portion of the upper northeast region. Clade 2 was far from the Mekong River and inhabited the middle region of the Songkhram River. Clade 3 was positioned to the west of the Songkhram River, and clade 4 was to the south of the Songkhram River Basin. After RNA sequencing using an Illumina HiSeq 2500 platform, the gene category annotations hardly differentiated the species and were discussed in the text. Based on the present findings, population dispersal of these Oryzias species might be associated with geographic variations of the upper northeast region. Molecular genetics and transcriptome profiling might advance our understanding of the evolution of teleost fish.

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“…different patterns of gene expression [48]. In this study, there were polymorphisms of gene expression clusters between O. mekongensis and O. songkhramensis.…”

Section: Plos Onementioning

confidence: 55%

Section: Discussionmentioning

confidence: 99%

Molecular assessment and transcriptome profiling of wild fish populations of Oryzias mekongensis and O. songkhramensis (Adrianichthyidae: Beloniformes) from Thailand

Ngamniyom

2020

PLoS ONE

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“…Yang et al compared the gene expression profiles of the proestrus and estrus stages. The authors identified more down-regulated genes in the estrus group when compared to the proestrus group, and demonstrated that the sow estrous cycle affects sow fecundity [31]. These two studies indicate that several genes could affect estrus.…”

Section: Discussionmentioning

confidence: 91%

Identification of Ovarian Circular RNAs and Differential Expression Analysis between MeiShan and Large White Pigs

Liang

Yan

Guo

et al. 2020

Animals

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MeiShan and Large White pigs differ in their female fecundity. However, the mechanisms behind the gene expression and regulation that cause these differences remain unclear. In this study, we profiled circRNAs and identified 5,879 circRNAs from the ovaries of MeiShan and Large White pigs. Eighty-five circRNAs were differentially expressed between the two pig breeds. Of these, 37 were up-regulated and 48 were down-regulated in MeiShan pigs. Gene ontology enrichment analysis suggested that the differentially expressed circRNA were involved in the hormone-mediated signaling pathway. We verified that circSCIN and its parent gene, scinderin (SCIN), were differentially expressed by reverse transcription and quantitative PCR (RT-qPCR). Luciferase assays demonstrated that circSCIN can target and sponge miR-133 and miR-148a/b. The identification of differentially expressed circRNAs (DECs) and their regulatory functions increased our understanding of the differences in reproductive efficiency between MeiShan and Large White pigs.

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“…A previous study of the ovary screened the major functional genes or molecular markers of estrus expression during diestrus and estrus in gilts from two different breeds [6]. In addition, previous research has provided comprehensive transcriptome data on the porcine ovary at the proestrus and estrus stages through RNA-seq technology [7]. Although we previously analyzed the whole estrous cycle using RNA-seq, we focused on the interaction and connectivity between three reproductive tissues (ovary, oviduct, and endometrium), rather than on examining the changes that occurred during the estrous cycle in a particular tissue [8].…”

Section: Introductionmentioning

confidence: 99%

Time Series Ovarian Transcriptome Analyses of the Porcine Estrous Cycle Reveals Gene Expression Changes during Steroid Metabolism and Corpus Luteum Development

Park

Lim

et al. 2022

Animals

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The porcine estrous cycle is influenced by reproductive hormones, which affect porcine reproduction and result in physiological changes in the reproductive organs. The ovary is involved in ovulation, luteinization, corpus luteum development, and luteolysis. Here, we aimed to provide a comprehensive understanding of the gene expression patterns in porcine ovarian transcriptomes during the estrous cycle through differentially expressed genes profiling and description of molecular mechanisms. The transcriptomes of porcine ovary were obtained during the estrous cycle at three-day intervals from day 0 to day 18 using RNA-seq. At seven time points of the estrous cycle, 4414 DEG were identified; these were classified into three clusters according to their expression patterns. During the late metestrus and diestrus periods, the expression in cluster 1 increased rapidly, and steroid biosynthesis was significant in the pathway. Cluster 2 gene expression patterns represented the cytokine–cytokine receptor interaction in significant pathways. In cluster 3, the hedgehog signaling pathway was selected as the significant pathway. Our study exhibited dynamic gene expression changes with these three different patterns of cluster 1, 2, and 3. The results helped identify the functions and related significant genes especially during the late metestrus and diestrus periods in the estrous cycle.

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Identification of Differentially Expressed Genes in Porcine Ovaries at Proestrus and Estrus Stages Using RNA-Seq Technique

Cited by 15 publications

References 54 publications

Molecular assessment and transcriptome profiling of wild fish populations of Oryzias mekongensis and O. songkhramensis (Adrianichthyidae: Beloniformes) from Thailand

Molecular assessment and transcriptome profiling of wild fish populations of Oryzias mekongensis and O. songkhramensis (Adrianichthyidae: Beloniformes) from Thailand

Identification of Ovarian Circular RNAs and Differential Expression Analysis between MeiShan and Large White Pigs

Time Series Ovarian Transcriptome Analyses of the Porcine Estrous Cycle Reveals Gene Expression Changes during Steroid Metabolism and Corpus Luteum Development

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