LIVIVO - The Search Portal for Life Sciences

zur deutschen Oberfläche wechseln
Advanced search

Search results

Result 1 - 7 of total 7

Search options

  1. Article ; Online: Liver biopsy derived induced pluripotent stem cells provide unlimited supply for the generation of hepatocyte-like cells.

    Diego Calabrese / Guglielmo Roma / Sebastian Bergling / Walter Carbone / Valentina Mele / Sandro Nuciforo / Isabel Fofana / Benedetta Campana / Dagmara Szkolnicka / David C Hay / Jan Tchorz / Tewis Bouwmeester / Stefan Wieland / Markus H Heim

    PLoS ONE, Vol 14, Iss 8, p e

    2019  Volume 0221762

    Abstract: Background & aims Hepatocyte-like cells (HLCs) differentiated from induced pluripotent stem cells (iPSCs) have emerged as a promising cell culture model to study metabolism, biotransformation, viral infections and inherited liver diseases. iPSCs provide ... ...

    Abstract Background & aims Hepatocyte-like cells (HLCs) differentiated from induced pluripotent stem cells (iPSCs) have emerged as a promising cell culture model to study metabolism, biotransformation, viral infections and inherited liver diseases. iPSCs provide an unlimited supply for the generation of HLCs, but incomplete HLC differentiation remains a major challenge. iPSC may carry-on a tissue of origin dependent expression memory influencing iPSC differentiation into different cell types. Whether liver derived iPSCs (Li-iPSCs) would allow the generation of more fully differentiated HLCs is not known. Methods In the current study, we used primary liver cells (PLCs) expanded from liver needle biopsies and reprogrammed them into Li-iPSCs using a non-integrative Sendai virus-based system. Li-iPSCs were differentiated into HLCs using established differentiation protocols. The HLC phenotype was characterized at the protein, functional and transcriptional level. RNA sequencing data were generated from the originating liver biopsies, the Li-iPSCs, fibroblast derived iPSCs, and differentiated HLCs, and used to characterize and compare their transcriptome profiles. Results Li-iPSCs indeed retain a liver specific transcriptional footprint. Li-iPSCs can be propagated to provide an unlimited supply of cells for differentiation into Li-HLCs. Similar to HLCs derived from fibroblasts, Li-HLCs could not be fully differentiated into hepatocytes. Relative to the originating liver, Li-HLCs showed lower expression of liver specific transcription factors and increased expression of genes involved in the differentiation of other tissues. Conclusions PLCs and Li-iPSCs obtained from small pieces of human needle liver biopsies constitute a novel unlimited source for the production of HLCs. Despite the preservation of a liver specific gene expression footprint in Li-iPSCs, the generation of fully differentiated hepatocytes cannot be achieved with the current differentiation protocols.
    Keywords Medicine ; R ; Science ; Q
    Subject code 610
    Language English
    Publishing date 2019-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    More links

    Kategorien

  2. Article ; Online: An iron-dependent metabolic vulnerability underlies VPS34-dependence in RKO cancer cells.

    Marek J Kobylarz / Jonathan M Goodwin / Zhao B Kang / John W Annand / Sarah Hevi / Ellen O'Mahony / Gregory McAllister / John Reece-Hoyes / Qiong Wang / John Alford / Carsten Russ / Alicia Lindeman / Martin Beibel / Guglielmo Roma / Walter Carbone / Judith Knehr / Joseph Loureiro / Christophe Antczak / Dmitri Wiederschain /
    Leon O Murphy / Suchithra Menon / Beat Nyfeler

    PLoS ONE, Vol 15, Iss 8, p e

    2020  Volume 0235551

    Abstract: VPS34 is a key regulator of endomembrane dynamics and cargo trafficking, and is essential in cultured cell lines and in mice. To better characterize the role of VPS34 in cell growth, we performed unbiased cell line profiling studies with the selective ... ...

    Abstract VPS34 is a key regulator of endomembrane dynamics and cargo trafficking, and is essential in cultured cell lines and in mice. To better characterize the role of VPS34 in cell growth, we performed unbiased cell line profiling studies with the selective VPS34 inhibitor PIK-III and identified RKO as a VPS34-dependent cellular model. Pooled CRISPR screen in the presence of PIK-III revealed endolysosomal genes as genetic suppressors. Dissecting VPS34-dependent alterations with transcriptional profiling, we found the induction of hypoxia response and cholesterol biosynthesis as key signatures. Mechanistically, acute VPS34 inhibition enhanced lysosomal degradation of transferrin and low-density lipoprotein receptors leading to impaired iron and cholesterol uptake. Excess soluble iron, but not cholesterol, was sufficient to partially rescue the effects of VPS34 inhibition on mitochondrial respiration and cell growth, indicating that iron limitation is the primary driver of VPS34-dependency in RKO cells. Loss of RAB7A, an endolysosomal marker and top suppressor in our genetic screen, blocked transferrin receptor degradation, restored iron homeostasis and reversed the growth defect as well as metabolic alterations due to VPS34 inhibition. Altogether, our findings suggest that impaired iron mobilization via the VPS34-RAB7A axis drive VPS34-dependence in certain cancer cells.
    Keywords Medicine ; R ; Science ; Q
    Subject code 570
    Language English
    Publishing date 2020-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    More links

    Kategorien

  3. Article ; Online: PAX8 activates metabolic genes via enhancer elements in Renal Cell Carcinoma

    Melusine Bleu / Swann Gaulis / Rui Lopes / Kathleen Sprouffske / Verena Apfel / Sjoerd Holwerda / Marco Pregnolato / Umut Yildiz / Valentina Cordoʹ / Antonella F. M. Dost / Judith Knehr / Walter Carbone / Felix Lohmann / Charles Y. Lin / James E. Bradner / Audrey Kauffmann / Luca Tordella / Guglielmo Roma / Giorgio G. Galli

    Nature Communications, Vol 10, Iss 1, Pp 1-

    2019  Volume 10

    Abstract: Transcription factors are critical regulators of cell identity. Here, the authors use computational and functional genomic approaches to show an oncogenic role of PAX8 in renal cancer. Mechanistic dissection of PAX8 functions reveal its role in ... ...

    Abstract Transcription factors are critical regulators of cell identity. Here, the authors use computational and functional genomic approaches to show an oncogenic role of PAX8 in renal cancer. Mechanistic dissection of PAX8 functions reveal its role in activating genes associated with metabolic pathways.
    Keywords Science ; Q
    Language English
    Publishing date 2019-08-01T00:00:00Z
    Publisher Nature Publishing Group
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    More links

    Kategorien

  4. Article ; Online: PAX8 activates metabolic genes via enhancer elements in Renal Cell Carcinoma

    Melusine Bleu / Swann Gaulis / Rui Lopes / Kathleen Sprouffske / Verena Apfel / Sjoerd Holwerda / Marco Pregnolato / Umut Yildiz / Valentina Cordoʹ / Antonella F. M. Dost / Judith Knehr / Walter Carbone / Felix Lohmann / Charles Y. Lin / James E. Bradner / Audrey Kauffmann / Luca Tordella / Guglielmo Roma / Giorgio G. Galli

    Nature Communications, Vol 10, Iss 1, Pp 1-

    2019  Volume 10

    Abstract: Transcription factors are critical regulators of cell identity. Here, the authors use computational and functional genomic approaches to show an oncogenic role of PAX8 in renal cancer. Mechanistic dissection of PAX8 functions reveal its role in ... ...

    Abstract Transcription factors are critical regulators of cell identity. Here, the authors use computational and functional genomic approaches to show an oncogenic role of PAX8 in renal cancer. Mechanistic dissection of PAX8 functions reveal its role in activating genes associated with metabolic pathways.
    Keywords Science ; Q
    Language English
    Publishing date 2019-08-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    More links

    Kategorien

  5. Article ; Online: A comparative transcriptomic analysis of replicating and dormant liver stages of the relapsing malaria parasite Plasmodium cynomolgi

    Annemarie Voorberg-van der Wel / Guglielmo Roma / Devendra Kumar Gupta / Sven Schuierer / Florian Nigsch / Walter Carbone / Anne-Marie Zeeman / Boon Heng Lee / Sam O Hofman / Bart W Faber / Judith Knehr / Erica Pasini / Bernd Kinzel / Pablo Bifani / Ghislain M C Bonamy / Tewis Bouwmeester / Clemens H M Kocken / Thierry Tidiane Diagana

    eLife, Vol

    2017  Volume 6

    Abstract: Plasmodium liver hypnozoites, which cause disease relapse, are widely considered to be the last barrier towards malaria eradication. The biology of this quiescent form of the parasite is poorly understood which hinders drug discovery. We report a ... ...

    Abstract Plasmodium liver hypnozoites, which cause disease relapse, are widely considered to be the last barrier towards malaria eradication. The biology of this quiescent form of the parasite is poorly understood which hinders drug discovery. We report a comparative transcriptomic dataset of replicating liver schizonts and dormant hypnozoites of the relapsing parasite Plasmodium cynomolgi. Hypnozoites express only 34% of Plasmodium physiological pathways, while 91% are expressed in replicating schizonts. Few known malaria drug targets are expressed in quiescent parasites, but pathways involved in microbial dormancy, maintenance of genome integrity and ATP homeostasis were robustly expressed. Several transcripts encoding heavy metal transporters were expressed in hypnozoites and the copper chelator neocuproine was cidal to all liver stage parasites. This transcriptomic dataset is a valuable resource for the discovery of vaccines and effective treatments to combat vivax malaria.
    Keywords malaria ; liver stages ; hypnozoites ; transcriptomics ; plasmodium ; Plasmodium cynomolgi ; Medicine ; R ; Science ; Q ; Biology (General) ; QH301-705.5
    Subject code 572
    Language English
    Publishing date 2017-12-01T00:00:00Z
    Publisher eLife Sciences Publications Ltd
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    More links

    Kategorien

  6. Article ; Online: Transcriptomic analysis reveals reduced transcriptional activity in the malaria parasite Plasmodium cynomolgi during progression into dormancy

    Nicole L Bertschi / Annemarie Voorberg-van der Wel / Anne-Marie Zeeman / Sven Schuierer / Florian Nigsch / Walter Carbone / Judith Knehr / Devendra K Gupta / Sam O Hofman / Nicole van der Werff / Ivonne Nieuwenhuis / Els Klooster / Bart W Faber / Erika L Flannery / Sebastian A Mikolajczak / Vorada Chuenchob / Binesh Shrestha / Martin Beibel / Tewis Bouwmeester /
    Niwat Kangwanrangsan / Jetsumon Sattabongkot / Thierry T Diagana / Clemens HM Kocken / Guglielmo Roma

    eLife, Vol

    2018  Volume 7

    Abstract: Relapses of Plasmodium dormant liver hypnozoites compromise malaria eradication efforts. New radical cure drugs are urgently needed, yet the vast gap in knowledge of hypnozoite biology impedes drug discovery. We previously unraveled the transcriptome of ... ...

    Abstract Relapses of Plasmodium dormant liver hypnozoites compromise malaria eradication efforts. New radical cure drugs are urgently needed, yet the vast gap in knowledge of hypnozoite biology impedes drug discovery. We previously unraveled the transcriptome of 6 to 7 day-old P. cynomolgi liver stages, highlighting pathways associated with hypnozoite dormancy (Voorberg-van der Wel et al., 2017). We now extend these findings by transcriptome profiling of 9 to 10 day-old liver stage parasites, thus revealing for the first time the maturation of the dormant stage over time. Although progression of dormancy leads to a 10-fold decrease in transcription and expression of only 840 genes, including genes associated with housekeeping functions, we show that pathways involved in quiescence, energy metabolism and maintenance of genome integrity remain the prevalent pathways active in mature hypnozoites.
    Keywords malaria ; liver stages ; hypnozoites ; transcriptomics ; plasmodium ; maturation ; Medicine ; R ; Science ; Q ; Biology (General) ; QH301-705.5
    Subject code 572
    Language English
    Publishing date 2018-12-01T00:00:00Z
    Publisher eLife Sciences Publications Ltd
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    More links

    Kategorien

  7. Article ; Online: Functional CRISPR screening identifies the ufmylation pathway as a regulator of SQSTM1/p62

    Rowena DeJesus / Francesca Moretti / Gregory McAllister / Zuncai Wang / Phil Bergman / Shanming Liu / Elizabeth Frias / John Alford / John S Reece-Hoyes / Alicia Lindeman / Jennifer Kelliher / Carsten Russ / Judith Knehr / Walter Carbone / Martin Beibel / Guglielmo Roma / Aylwin Ng / John A Tallarico / Jeffery A Porter /
    Ramnik J Xavier / Craig Mickanin / Leon O Murphy / Gregory R Hoffman / Beat Nyfeler

    eLife, Vol

    2016  Volume 5

    Abstract: SQSTM1 is an adaptor protein that integrates multiple cellular signaling pathways and whose expression is tightly regulated at the transcriptional and post-translational level. Here, we describe a forward genetic screening paradigm exploiting CRISPR- ... ...

    Abstract SQSTM1 is an adaptor protein that integrates multiple cellular signaling pathways and whose expression is tightly regulated at the transcriptional and post-translational level. Here, we describe a forward genetic screening paradigm exploiting CRISPR-mediated genome editing coupled to a cell selection step by FACS to identify regulators of SQSTM1. Through systematic comparison of pooled libraries, we show that CRISPR is superior to RNAi in identifying known SQSTM1 modulators. A genome-wide CRISPR screen exposed MTOR signalling and the entire macroautophagy machinery as key regulators of SQSTM1 and identified several novel modulators including HNRNPM, SLC39A14, SRRD, PGK1 and the ufmylation cascade. We show that ufmylation regulates SQSTM1 by eliciting a cell type-specific ER stress response which induces SQSTM1 expression and results in its accumulation in the cytosol. This study validates pooled CRISPR screening as a powerful method to map the repertoire of cellular pathways that regulate the fate of an individual target protein.
    Keywords autophagy ; SQSTM1 ; ER stress ; CRISPR ; Medicine ; R ; Science ; Q ; Biology (General) ; QH301-705.5
    Subject code 570
    Language English
    Publishing date 2016-06-01T00:00:00Z
    Publisher eLife Sciences Publications Ltd
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    More links

    Kategorien

To top