Uncovering pathogenesis of the DNAJ-PKAc fusion in fibrolamellar carcinoma

Thesis (Ph.D.)--University of Washington, 2018Fibrolamellar carcinoma (FLC) is a rare liver cancer that occurs in healthy adolescents and young adults. FLCs uniquely produce DNAJ-PKAc, a de novo chimeric enzyme consisting of a chaperonin-binding domain fused to the Cα subunit of protein kinase A. FLC patients do not consistently respond to conventional chemotherapy, or to any directed agents that have been tested to date; the search for new therapies for these patients is hindered by the limited availability of clinical samples and a lack of disease relevant cell lines or viable animal models that faithfully recapitulate the pathogenesis of FLC. We performed gene-editing on non-transformed mouse hepatocytes to generate disease-relevant cell lines (AML12DNAJ-PKAc cells). Biochemical analyses of clinical samples and disease-relevant cell lines reveal that a unique property of DNAJ-PKAc is its ability to recruit and bind heat shock protein 70 (Hsp70). Drug screening reveals that Hsp70 and MEK kinase inhibitor combinations that selectively block proliferation of AML12DNAJ-PKAc cells. Further analyses indicate that the proto-oncogene A-kinase anchoring protein (AKAP)-Lbc is up-regulated in FLC and functions to cluster DNAJ-PKAc/Hsp70 sub-complexes with a RAF-MEK-ERK kinase module. Phosphoproteomic profiling of AML12DNAJ-PKAc cells demonstrates that DNAJ-PKAc biases the signaling landscape toward ERK activation, and mobilizes other downstream kinase cascades. Thus we propose the oncogenic action of DNAJ-PKAc proceeds through an acquired scaffolding function that permits recruitment of Hsp70 and local ERK signaling

Development of a new generation of waste form for entrapment and immobilization of highly volatile and soluble radionuclides.

The United States is now re-assessing its nuclear waste disposal policy and re-evaluating the option of moving away from the current once-through open fuel cycle to a closed fuel cycle. In a closed fuel cycle, used fuels will be reprocessed and useful components such as uranium or transuranics will be recovered for reuse. During this process, a variety of waste streams will be generated. Immobilizing these waste streams into appropriate waste forms for either interim storage or long-term disposal is technically challenging. Highly volatile or soluble radionuclides such as iodine ({sup 129}I) and technetium ({sup 99}Tc) are particularly problematic, because both have long half-lives and can exist as gaseous or anionic species that are highly soluble and poorly sorbed by natural materials. Under the support of Sandia National Laboratories (SNL) Laboratory-Directed Research & Development (LDRD), we have developed a suite of inorganic nanocomposite materials (SNL-NCP) that can effectively entrap various radionuclides, especially for {sup 129}I and {sup 99}Tc. In particular, these materials have high sorption capabilities for iodine gas. After the sorption of radionuclides, these materials can be directly converted into nanostructured waste forms. This new generation of waste forms incorporates radionuclides as nano-scale inclusions in a host matrix and thus effectively relaxes the constraint of crystal structure on waste loadings. Therefore, the new waste forms have an unprecedented flexibility to accommodate a wide range of radionuclides with high waste loadings and low leaching rates. Specifically, we have developed a general route for synthesizing nanoporous metal oxides from inexpensive inorganic precursors. More than 300 materials have been synthesized and characterized with x-ray diffraction (XRD), BET surface area measurements, and transmission electron microscope (TEM). The sorption capabilities of the synthesized materials have been quantified by using stable isotopes I and Re as analogs to {sup 129}I and {sup 99}Tc. The results have confirmed our original finding that nanoporous Al oxide and its derivatives have high I sorption capabilities due to the combined effects of surface chemistry and nanopore confinement. We have developed a suite of techniques for the fixation of radionuclides in metal oxide nanopores. The key to this fixation is to chemically convert a target radionuclide into a less volatile or soluble form. We have developed a technique to convert a radionuclide-loaded nanoporous material into a durable glass-ceramic waste form through calcination. We have shown that mixing a radionuclide-loaded getter material with a Na-silicate solution can effectively seal the nanopores in the material, thus enhancing radionuclide retention during waste form formation. Our leaching tests have demonstrated the existence of an optimal vitrification temperature for the enhancement of waste form durability. Our work also indicates that silver may not be needed for I immobilization and encapsulation

MicroRNA-375 Suppresses the Growth and Invasion of Fibrolamellar CarcinomaSummary

Background & Aims: Fibrolamellar carcinoma (FLC) is a rare liver cancer that primarily affects adolescents and young adults. It is characterized by a heterozygous approximately 400-kb deletion on chromosome 19 that results in a unique fusion between DnaJ heat shock protein family member B1 (DNAJB1) and the alpha catalytic subunit of protein kinase A (PRKACA). The role of microRNAs (miRNAs) in FLC remains unclear. We identified dysregulated miRNAs in FLC and investigated whether dysregulation of 1 key miRNA contributes to FLC pathogenesis. Methods: We analyzed small RNA sequencing (smRNA-seq) data from The Cancer Genome Atlas to identify dysregulated miRNAs in primary FLC tumors and validated the findings in 3 independent FLC cohorts. smRNA-seq also was performed on a FLC patient-derived xenograft model as well as purified cell populations of the liver to determine whether key miRNA changes were tumor cell–intrinsic. We then used clustered regularly interspaced short palindromic repeats/CRISPR-associated protein 9 (Cas9) technology and transposon-mediated gene transfer in mice to determine if the presence of DNAJB1-PRKACA is sufficient to suppress miR-375 expression. Finally, we established a new FLC cell line and performed colony formation and scratch wound assays to determine the functional consequences of miR-375 overexpression. Results: We identified miR-375 as the most dysregulated miRNA in primary FLC tumors (27-fold down-regulation; P = .009). miR-375 expression also was decreased significantly in a FLC patient-derived xenograft model compared to 4 different cell populations of the liver. Introduction of DNAJB1-PRKACA by clustered regularly interspaced short palindromic repeats/CRISPR-associated protein 9 engineering and transposon-mediated somatic gene transfer in mice was sufficient to induce significant loss of miR-375 expression (P < .05). Overexpression of miR-375 in FLC cells inhibited Hippo signaling pathway proteins, including yes-associated protein 1 and connective tissue growth factor, and suppressed cell proliferation and migration (P < .05). Conclusions: We identified miR-375 as the most down-regulated miRNA in FLC tumors and showed that overexpression of miR-375 mitigated tumor cell growth and invasive potential. These findings open a potentially new molecular therapeutic approach. Further studies are necessary to determine how DNAJB1-PRKACA suppresses miR-375 expression and whether miR-375 has additional important targets in this tumor. Transcript profiling: GEO accession numbers: GSE114974 and GSE125602. Keywords: Fibrolamellar Carcinoma, Pediatric Cancer, miRNA, Cancer Genomic