Gene Cloning and Biochemical Characterization of the BMP-2 of<i>Pinctada fucata</i>

Miyashita, Tomoyuki; Hanashita, Takuo; Toriyama, Minoru; Takagi, Ryousuke; Akashika, Tamaki; Higashikubo, Nobuto

doi:10.1271/bbb.70302

Cited by 37 publications

(22 citation statements)

References 38 publications

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“…The down-regulated genes in the subnetwork, namely, WNT5A , FOXF2 and RARB , play important roles in the differentiation of embryonic stem cells [57], [58], [59]. It is interesting to observe that these genes have GLI binding sites in their promoter region or cis-regulatory domains, which suggests that GLI1 and ZIC3 could potentially regulate their expression in ES cells [60], [61]. Also, GLI proteins participate in regulation of Hedgehog signaling, of which RARB and FOXF2 are members, and GLI is also known to regulate the members of WNT family [62].…”

Section: Resultsmentioning

confidence: 99%

A Scalable Approach for Discovering Conserved Active Subnetworks across Species

et al. 2010

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Overlaying differential changes in gene expression on protein interaction networks has proven to be a useful approach to interpreting the cell's dynamic response to a changing environment. Despite successes in finding active subnetworks in the context of a single species, the idea of overlaying lists of differentially expressed genes on networks has not yet been extended to support the analysis of multiple species' interaction networks. To address this problem, we designed a scalable, cross-species network search algorithm, neXus (Network - cross(X)-species - Search), that discovers conserved, active subnetworks based on parallel differential expression studies in multiple species. Our approach leverages functional linkage networks, which provide more comprehensive coverage of functional relationships than physical interaction networks by combining heterogeneous types of genomic data. We applied our cross-species approach to identify conserved modules that are differentially active in stem cells relative to differentiated cells based on parallel gene expression studies and functional linkage networks from mouse and human. We find hundreds of conserved active subnetworks enriched for stem cell-associated functions such as cell cycle, DNA repair, and chromatin modification processes. Using a variation of this approach, we also find a number of species-specific networks, which likely reflect mechanisms of stem cell function that have diverged between mouse and human. We assess the statistical significance of the subnetworks by comparing them with subnetworks discovered on random permutations of the differential expression data. We also describe several case examples that illustrate the utility of comparative analysis of active subnetworks.

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Section: Resultsmentioning

confidence: 99%

A Scalable Approach for Discovering Conserved Active Subnetworks across Species

et al. 2010

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“…Additionally Dennler et al reported that GLI2 and GLI1 could be induced through a SMAD-mediated mechanism [36]. The TGF-β superfamily genes BMP-2, 4 , & 7 all have GLI-responsive elements in their promoters[37]–[39]. Lin et al found a SHH-responsive element in the 5′-upstream promoter region of TGF-β2 [40].…”

Section: Discussionmentioning

confidence: 99%

GLI2 Regulates TGF-β1 in Human CD4+ T Cells: Implications in Cancer and HIV Pathogenesis

Furler

Uíttenbogaart

2012

PLoS ONE

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Elevated levels of the immunoregulatory cytokine TGF-β1 in cancer and HIV infection have been linked to the suppression of protective immune responses. The transcriptional regulation of TGF-β1 is complex and still not completely understood. We report here for the first time that the transcription factor GLI2 regulates the expression of TGF-β1 in human CD4+ T cells. In silico screening revealed five novel putative GLI binding sites in the human TGF-β1 promoter. At least two of these sites within the human TGF-β1 promoter are regulated by the GLI2 activator as knockdown of GLI2 in regulatory CD4+CD25hi T cells, high producers of TGF-β1, significantly decreased TGF-β1 transcription. Additionally, naïve CD4+ T cells, low producers of TGF-β1, increased their basal level of TGF-β1 mRNA following lentiviral infection with GLI2. The transcriptional regulation of TGF-β1 by GLI2 is a new extension to Sonic Hedgehog (SHH) and TGF-β1 cross-regulation and may provide insight into the detrimental elevation of TGF-β1 leading to pathogenesis in cancer and HIV infection.

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“…The construction of the genomic library and the cloning of genomic clones of nacrein were performed essentially as described previously (Miyashita et al 2008), with the following modifications. Hybridization was performed at 50 °C, and the filters were washed twice with 0.1× SSC (standard saline citrate), 1 % SDS, for 10 min at room temperature, before being washed twice with 0.1× SSC, 1 % SDS, for 20 min at 50 °C.…”

Section: Methodsmentioning

confidence: 99%

“…The membrane was hybridized with a nacrein cDNA of approximately 2.3 kbp or human β-actin cDNA and labeled with digoxigenin-dUTP by the random primer method (Boehringer Mannheim). Hybridization and detection were performed as described previously (Miyashita et al 2008). …”

Section: Methodsmentioning

confidence: 99%

Molecular Cloning and Characterization of the 5′-Flanking Regulatory Region of the Carbonic Anhydrase Nacrein Gene of the Pearl Oyster Pinctada fucata and Its Expression

2012

Self Cite

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The carbonic anhydrase nacrein participates in the formation of the nacreous or prismatic layer of Pinctada fucata. We isolated a genomic clone containing the nacrein gene and cloned the 5 0 -flanking region. Within the 1336 bp 5 0 flanking region, we identified putative cis-acting elements, including the TATA box (TATAAAA) at -82 bp, and AP1 (-819 bp) and Oct-1 (-1244 bp) binding sites. In addition to the mantle, the nacrein gene is also expressed in the adductor muscle, liver, and foot. These results showed that nacrein not only takes part in the formation of the hard tissue but also might be involved in acid-base balance, ion transport, and maintenance of ionic concentration. In vitro transcription experiments showed that the addition of human c-jun activates transcription from the nacrein promoter. This is the first report of a promoter from a gene that controls the formation of the hard tissue of mollusk shells.

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Gene Cloning and Biochemical Characterization of the BMP-2 ofPinctada fucata

Cited by 37 publications

References 38 publications

A Scalable Approach for Discovering Conserved Active Subnetworks across Species

A Scalable Approach for Discovering Conserved Active Subnetworks across Species

GLI2 Regulates TGF-β1 in Human CD4+ T Cells: Implications in Cancer and HIV Pathogenesis

Molecular Cloning and Characterization of the 5′-Flanking Regulatory Region of the Carbonic Anhydrase Nacrein Gene of the Pearl Oyster Pinctada fucata and Its Expression

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