Bovine pituitary homeobox 2 (PITX2): mRNA expression profiles of different alternatively spliced variants and association analyses with growth traits

Zhang, Sihuan; Xu, Han; Kang, Zihong; Cai, Hanfang; Dang, Ruihua; Lei, Chuzhao; Chen, Hong; Guo, Xian; Lan, Xianyong

doi:10.1016/j.gene.2018.05.083

Cited by 10 publications

(7 citation statements)

References 38 publications

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“…MEF2A may also promote the transcriptional activity of other factors, thus promoting stem-like properties of oral squamous cell carcinoma and playing an important role in the development of HNSC ( Wang et al, 2022 ). Moreover, PITX2 plays a crucial role in embryogenesis, ontogenesis, growth, and development via the Wnt/beta-catenin and POU1F1 pathways ( Zhang et al, 2018 ).…”

Section: Discussionmentioning

confidence: 99%

The expression and methylation of PITX genes is associated with the prognosis of head and neck squamous cell carcinoma

Zhao

Zhong

et al. 2022

Front. Genet.

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Background: The PITX gene family, comprising PITX1, PITX2, and PITX3, is critical in organogenesis and has been evolutionary conserved in animals. PITX genes are associated with the advanced progression and poor prognosis of multiple cancers. However, the relationship between the PITX genes and head and neck squamous cell carcinoma (HNSC) has not been reported.Methods: We used data from The Cancer Genome Atlas (TCGA) to analyze the association between PITX mRNA expression and clinicopathological parameters of patients with HNSC. The prognostic value of PITX genes was evaluated using the Kaplan-Meier plotter. Multivariate Cox analysis was used to screen out prognosis-associated genes to identify better prognostic indicators. The potential roles of PITX1 and PITX2 in HNSC prognosis were investigated using the protein-protein interaction (PPI) network, Gene Ontology (GO) analysis, and the Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. The correlation between PITX1 and PITX2 expression or methylation and immune cell infiltration was evaluated using the tumor-immune system interaction database (TISIDB). MethSurv was used to identify DNA methylation and its effect on HNSC prognosis.Results:PITX genes expression was correlated with different cancers. PITX1 and PITX2 expression was lower in the patients with HNSC. In HNSC, PITX1 expression was significantly related to the clinical stage, histologic grade, and N stage, while PITX2 expression was only significantly related to the histologic grade. The high expression of PITX3 was significantly related to the histologic grade, T stage, and N stage. Survival analysis revealed that PITX genes had prognostic value in HNSC, which was supported by multivariate Cox analysis. PPI network and enrichment analysis showed that the genes interacting with PITX1 and PITX2 belonged predominantly to signaling pathways associated with DNA binding and transcription. Of the CpG DNA methylation sites in PITX1 and PITX2, 28 and 22 were related to the prognosis of HNSC, respectively. Additionally, PITX1 and PITX2 expression and methylation was associated with tumor-infiltrating lymphocytes (TILs).Conclusion: The PITX genes were differentially expressed in patients with HNSC, highlighting their essential role in DNA methylation and tumor-infiltrating immune cell regulation, as well as overall prognostic value in HNSC.

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Section: Discussionmentioning

confidence: 99%

The expression and methylation of PITX genes is associated with the prognosis of head and neck squamous cell carcinoma

Zhao

Zhong

et al. 2022

Front. Genet.

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“…After acute heat stress, certain genes regulating growth and development such as PITX2 (pituitary homeobox 2) were significantly downregulated. Previous studies reported that PITX2 participates in growth, vertebrate left-right asymmetry development, cell proliferation and differentiation, and myogenesis via the Wnt/beta-catenin pathway (Hernandez-Torres et al 2017;Zhang et al 2018;Jiang et al 2018). FOXA3, also known as hepatocyte nuclear factor 3γ, is a transcription factor in the evolutionarily conserved forkhead box protein superfamily.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome analysis reveals corresponding genes and key pathways involved in heat stress in Hu sheep

Xiao

Wang

et al. 2019

Cell Stress and Chaperones

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Heat stress (HS) seriously affects animal performance. In view of global warming, it is essential to understand the regulatory mechanisms by which animals adapt to heat stress. In this study, our aim was to explore the genes and pathways involved in heat stress in sheep. To this end, we used transcriptome analysis to understand the molecular responses to heat stress and thereby identify means to protect sheep from heat shock. To obtain an overview of the effects of heat stress on sheep, we used the hypothalamus for transcriptome sequencing and identified differentially expressed genes (DEGs; false discovery rate (FDR) < 0.01; fold change > 2) during heat stress. A total of 1423 DEGs (1122 upregulated and 301 downregulated) were identified and classified into Gene Ontology (GO) categories and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. Heat stress triggered dramatic and complex alterations in gene expression in the hypothalamus. We hypothesized that heat stress induced apoptosis and dysfunction in cells and vital organs and affected growth, development, reproduction, and circadian entrainment via the calcium signaling pathway, which influences ribosome assembly and function. Real-time PCR was used to evaluate the expression of the genes regulating important biological functions or whose expression profiles were significantly changed after acute heat stress (FDR < 0.01; fold change > 4), and the results showed that the expression patterns of these genes were consistent with the results of transcriptome sequencing, indicating that the credibility of the sequencing results. Our data indicated that heat stress induced calcium dyshomeostasis, blocked biogenesis, caused ROS accumulation, impaired the antioxidant system and innate defense, and induced apoptosis through the P53 signaling pathway activated by PEG3, decreased growth and development, and enhanced organ damage. These data is very important and helpful to elucidate the molecular mechanism of heat stress and finally to find ways to deal with heat stress damage in sheep. KeywordsHu sheep . Heat stress . Transcriptome sequencing . GO annotation . KEGG pathway Abbreviations DEG differentially expressed gene FDR false discovery rate FPKM fragments per kilobase of transcript per million fragment mapped KEGG Kyoto Encyclopedia of Genes and Genomes GO Gene Ontology ROS reactive oxygen species * SX Cao

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“…Additionally, Hardy-Weinberg equilibrium (HWE) was measured using the SHEsis online website. The general linear model was as follows: Y ijk = µ +S i + G j + E ijk , where Y ijk is the phenotypic value, µ is the overall population mean, S i is the effect of sex, G j is the genotype, and E ijk is the random error [31]. Reflecting the interaction between alleles…”

Section: Statistical Analysesmentioning

confidence: 99%

Genetic Variations within the Bovine CRY2 Gene Are Significantly Associated with Carcass Traits

Jiang

Zhang

et al. 2022

Animals

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As an important part of the circadian rhythm, the circadian regulation factor 2 of cryptochrome (CRY2), regulates many physiological functions. Previous studies have reported that CRY2 is involved in growth and development. However, the relationship between CRY2 gene polymorphism and cattle carcass traits remains unclear. The aim of this study was to detect the possible variations of the CRY2 gene and elucidate the association between the CRY2 gene and carcass traits in the Shandong Black Cattle Genetic Resource (SDBCGR) population (n = 705). We identified a 24-bp deletion variation (CRY2-P6) and a 6-bp insertion variation (CRY2-P7) in the bovine CRY2 gene. The frequency of the homozygous II genotype is higher than the heterozygous ID genotype in both two loci. In addition, CRY2-P6 was consistent with HWE (p > 0.05). Importantly, the CRY2-P6 variant was significantly associated with 12 carcass traits, including gross weight, ribeye, high rib, thick flank, etc. and the II was the dominant genotype. The CRY2-P7 site was also significantly correlated with five traits (gross weight, beef-tongue, etc.). Collectively, these outcomes indicated that the two Indel loci in the CRY2 gene could be used for marker-assisted selection of cattle carcass traits.

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Bovine pituitary homeobox 2 (PITX2): mRNA expression profiles of different alternatively spliced variants and association analyses with growth traits

Cited by 10 publications

References 38 publications

The expression and methylation of PITX genes is associated with the prognosis of head and neck squamous cell carcinoma

The expression and methylation of PITX genes is associated with the prognosis of head and neck squamous cell carcinoma

Transcriptome analysis reveals corresponding genes and key pathways involved in heat stress in Hu sheep

Genetic Variations within the Bovine CRY2 Gene Are Significantly Associated with Carcass Traits

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