Transcriptome profiling of hiPSC-derived LSECs with nanoCAGE
MOLECULAR OMICS
Authors: Danoy, Mathieu; Poulain, Stephane; Koui, Yuta; Tauran, Yannick; Scheidecker, Benedikt; Kido, Taketomo; Miyajima, Atsushi; Sakai, Yasuyuki; Plessy, Charles; Leclerc, Eric
Abstract
Liver Sinusoidal Endothelial Cells (LSECs) are an important component of the liver as they compose the microvasculature which allows the supply of oxygen, blood, and nutrients. However, maintenance of these cells in vitro remains challenging as they tend to rapidly lose some of their characteristics such as fenestration or as their immortalized counterparts present poor characteristics. In this work, human induced pluripotent stem cells (hiPSCs) have been differentiated toward an LSEC phenotype. After differentiation, the RNA quantification allowed demonstration of high expression of specific vascular markers (CD31, CD144, and STAB2). Immunostaining performed on the cells was found to be positive for both Stabilin-1 and Stabilin-2. Whole transcriptome analysis performed with the nanoCAGE method further confirmed the overall vascular commitment of the cells. The gene expression profile revealed the upregulation of the APLN, LYVE1, VWF, ESAM and ANGPT2 genes while VEGFA appeared to be downregulated. Analysis of promoter motif activities highlighted several transcription factors (TFs) of interest in LSECs (IRF2, ERG, MEIS2, SPI1, IRF7, WRNIP1, HIC2, NFIX_NFIB, BATF, and PATZ1). Based on this investigation, we compiled the regulatory network involving the relevant TFs, their target genes as well as their related signaling pathways. The proposed hiPSC-derived LSEC model and its regulatory network were then confirmed by comparing the experimental data to primary human LSEC reference datasets. Thus, the presented model appears as a promising tool to generate more complex in vitro liver multi-cellular tissues.
Analyses of the interaction of WRNIP1 with Werner syndrome protein (WRN) in vitro and in the cell
DNA REPAIR
Authors: Kawabe, Yoh-ichi; Seki, Masayuki; Yoshimura, Akari; Nishino, Katsuaki; Hayashi, Tomoko; Takeuchi, Takashi; Iguchi, Sohta; Kusa, Yumiko; Ohtsuki, Makoto; Tsuyama, Takashi; Imamura, Osamu; Matsumoto, Takehisa; Furuichi, Yasuhiro; Tada, Shusuke; Enomoto, Takemi
Abstract
Werner was originally identified as a protein that interacts with the product of the Werner syndrome (WS) gene, WRN. To examine the function of the WRNIP1/WRN complex in cells, we generated knock-out cell lines that were deficient in either WRN (WRN-I-), WRNIP1 (WRNIP1(-/-/-)), or both (WRNIP1(-/-/-)/WRN-/-), using a chicken B lymphocyte cell line, DT40. WRNIP1(-/-/-)/WRN-/- DT40 cells grew at a similar rate as wild-type cells, but the rate of spontaneous sister-chromatid exchange was augmented compared to that of either of the single mutant cell lines. Moreover, while WRNIP1(-/-/-) and WRN-/- cells were moderately sensitive to camptothecin (CPT), double mutant cells showed a synergistic increase in CPT sensitivity. This suggested that WRNIP1 and WRN do not always function cooperatively to repair DNA lesions. The lack of a discernable functional interaction between WRNIP1 and WRN prompted us to reevaluate the nature of the physical interaction between these proteins. We found that MBP-tagged WRNIP1 interacted directly with WRN, and that the interaction was enhanced by the addition of ATP. Mutations in the Walker A motifs of the two proteins revealed that WRNIP1, but not WRN, must bind ATP before an efficient interaction can occur. (c) 2006 Elsevier B.V. All rights reserved.