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Table of Contents

December 2019 | Volume 2, No. 6

Research Articles

  • Distinct signals and immune cells drive liver pathology and glomerulonephritis in ABIN1[D485N] mice
    Open Access
    Distinct signals and immune cells drive liver pathology and glomerulonephritis in ABIN1[D485N] mice

    Sambit Kumar Nanda, Tsvetana Petrova, Francesco Marchesi, Marek Gierlinski, Momchil Razsolkov, Katherine L Lee, Stephen W Wright, Vikram R Rao, Philip Cohen, J Simon C Arthur

    Sambit Kumar Nanda ... J Simon C Arthur

    Published 6 November 2019

    This article shows that liver and kidney damage in a lupus-prone mouse line occurs by different mechanisms and that only drugs targeting core components of signaling pathway, such as IRAK4, are able to suppress all facets of the disease.

  • TRAIL-induced variation of cell signaling states provides nonheritable resistance to apoptosis
    Open Access
    TRAIL-induced variation of cell signaling states provides nonheritable resistance to apoptosis

    Reema Baskar, Harris G Fienberg, Zumana Khair, Patricia Favaro, Sam Kimmey, Douglas R Green, Garry P Nolan, Sylvia Plevritis, Sean C Bendall

    Reema Baskar ... Sean C Bendall

    Published 8 November 2019

    This work summarizes cellular apoptotic and signaling response to TRAIL across 10 cell lines and for the first time links signaling diversity to nongenetic resistance. This high-dimensional, single-cell approach toward TRAIL resistance sets a standard in studying nongenetic resistance.

  • Thymosin β4 promotes autophagy and repair via HIF-1α stabilization in chronic granulomatous disease
    Open Access
    Thymosin β4 promotes autophagy and repair via HIF-1α stabilization in chronic granulomatous disease

    Giorgia Renga, Vasilis Oikonomou, Silvia Moretti, Claudia Stincardini, Marina M Bellet, Marilena Pariano, Andrea Bartoli, Stefano Brancorsini, Paolo Mosci, Andrea Finocchi, Paolo Rossi, Claudio Costantini, Enrico Garaci, Allan L Goldstein, Luigina Romani

    Giorgia Renga ... Luigina Romani

    Published 12 November 2019

    This study demonstrates that thymosin β4 stabilizes HIF-1a to promote autophagy and up-regulate genes involved in tissue and mucosal barrier protection in chronic granulomatous disease.

  • In vitro education of human natural killer cells by KIR3DL1
    Open Access
    In vitro education of human natural killer cells by KIR3DL1

    Jason Pugh, Neda Nemat-Gorgani, Zakia Djaoud, Lisbeth A Guethlein, Paul J Norman, Peter Parham

    Jason Pugh ... Peter Parham

    Published 13 November 2019

    Using NK cells isolated from individuals who lack the Bw4 epitope on HLA-B, Pugh et al reveal that KIR3DL1+ NK cells can be educated in vitro by co-culturing them with target cells that display the missing epitope.

  • MMP9 modulates the metastatic cascade and immune landscape for breast cancer anti-metastatic therapy
    Open Access
    MMP9 modulates the metastatic cascade and immune landscape for breast cancer anti-metastatic therapy

    Mark Owyong, Jonathan Chou, Renske JE van den Bijgaart, Niwen Kong, Gizem Efe, Carrie Maynard, Dalit Talmi-Frank, Inna Solomonov, Charlotte Koopman, Elin Hadler-Olsen, Mark Headley, Charlene Lin, Chih-Yang Wang, Irit Sagi, Zena Werb, Vicki Plaks

    Mark Owyong ... Vicki Plaks

    Published 14 November 2019

    Inhibition of active MMP9 early during tumorigenesis suppresses tumor cell migration, invasion, and colony formation and tilts the balance towards anti-tumor immunity by activating CD8+ T cells.

  • <em>Pseudomonas aeruginosa</em> lectin LecB impairs keratinocyte fitness by abrogating growth factor signalling
    Open Access
    Pseudomonas aeruginosa lectin LecB impairs keratinocyte fitness by abrogating growth factor signalling

    Alessia Landi, Muriel Mari, Svenja Kleiser, Tobias Wolf, Christine Gretzmeier, Isabel Wilhelm, Dimitra Kiritsi, Roland Thünauer, Roger Geiger, Alexander Nyström, Fulvio Reggiori, Julie Claudinon, Winfried Römer

    Alessia Landi ... Winfried Römer

    Published 15 November 2019

    This study provides a novel function of the bacterial lectin LecB, which dampens cell proliferation and survival by targeting the insulin-like growth factor-1 for degradation, without receptor activation.

  • TMEM16A chloride channel does not drive mucus production
    Open Access
    TMEM16A chloride channel does not drive mucus production

    Filipa B Simões, Margarida C Quaresma, Luka A Clarke, Iris AL Silva, Ines Pankonien, Violeta Railean, Arthur Kmit, Margarida D Amaral

    Filipa B Simões ... Margarida D Amaral

    Published 15 November 2019

    Despite being essential for airway hydration, TMEM16A is not required for mucus (MUC5AC) production. Cell proliferation is the main driver for TMEM16A up-regulation during inflammation.

  • The role of MHC class I recycling and Arf6 in cross-presentation by murine dendritic cells
    Open Access
    The role of MHC class I recycling and Arf6 in cross-presentation by murine dendritic cells

    Sebastian Montealegre, Anastasia Abramova, Valerie Manceau, Anne-Floor de Kanter, Peter van Endert

    Sebastian Montealegre ... Peter van Endert

    Published 18 November 2019

    MHC-I internalization and recycling in DCs neither requires Arf6 nor provides MHC-I to the Rab11+ endocytic recycling compartment; however, cross-presentation of immune complexes depends on Arf6.

  • Plasticity in salt bridge allows fusion-competent ubiquitylation of mitofusins and Cdc48 recognition
    Open Access
    Plasticity in salt bridge allows fusion-competent ubiquitylation of mitofusins and Cdc48 recognition

    Vincent Anton, Ira Buntenbroich, Ramona Schuster, Felix Babatz, Tânia Simões, Selver Altin, Gaetano Calabrese, Jan Riemer, Astrid Schauss, Mafalda Escobar-Henriques

    Vincent Anton ... Mafalda Escobar-Henriques

    Published 18 November 2019

    Mitochondrial fusion requires an alternating salt bridge between CMT2A-associated disease residues that enable GTP hydrolysis; Fzo1 ubiquitylation then licenses post-fusion recycling by Cdc48.

  • Refining the adipose progenitor cell landscape in healthy and obese visceral adipose tissue using single-cell gene expression profiling
    Open Access
    Refining the adipose progenitor cell landscape in healthy and obese visceral adipose tissue using single-cell gene expression profiling

    Dong Seong Cho, Bolim Lee, Jason D Doles

    Dong Seong Cho ... Jason D Doles

    Published 25 November 2019

    This work dissects adipose progenitor cell (APC) heterogeneity in normal and obese adipose tissue using single-cell expression profiling. Novel APC subpopulations are identified and characterized.

  • The AKT isoforms 1 and 2 drive B cell fate decisions during the germinal center response
    Open Access
    The AKT isoforms 1 and 2 drive B cell fate decisions during the germinal center response

    Zilu Zhu, Ashima Shukla, Parham Ramezani-Rad, John R Apgar, Robert C Rickert

    Zilu Zhu ... Robert C Rickert

    Published 25 November 2019

    B cell–intrinsic AKT1/2 are essential for germinal center formation, antibody production and affinity maturation, and plasma cell differentiation.

  • <em>Cx3cr1-</em>deficient microglia exhibit a premature aging transcriptome
    Open Access
    Cx3cr1-deficient microglia exhibit a premature aging transcriptome

    Stefka Gyoneva, Raghavendra Hosur, David Gosselin, Baohong Zhang, Zhengyu Ouyang, Anne C Cotleur, Michael Peterson, Norm Allaire, Ravi Challa, Patrick Cullen, Chris Roberts, Kelly Miao, Taylor L Reynolds, Christopher K Glass, Linda Burkly, Richard M Ransohoff

    Stefka Gyoneva ... Richard M Ransohoff

    Published 2 December 2019

    Gyoneva et al use RNA-seq to show that Cx3cr1-deficient microglia in young mice display a gene expression profile similar to microglia in aged mice, suggesting premature microglial aging.

  • Phenotypic proteomic profiling identifies a landscape of targets for circadian clock–modulating compounds
    Open Access
    Phenotypic proteomic profiling identifies a landscape of targets for circadian clock–modulating compounds

    Sandipan Ray, Radoslaw Lach, Kate J Heesom, Utham K Valekunja, Vesela Encheva, Ambrosius P Snijders, Akhilesh B Reddy

    Sandipan Ray ... Akhilesh B Reddy

    Published 2 December 2019

    This study provides comprehensive insights into the mechanism of action and cellular effects of circadian period–modulating compounds, which is critical for clearly defining molecular targets to modulate daily rhythms for therapeutic benefit.

  • ADAP1 promotes invasive squamous cell carcinoma progression and predicts patient survival
    Open Access
    ADAP1 promotes invasive squamous cell carcinoma progression and predicts patient survival

    Avery Van Duzer, Sachiko Taniguchi, Ajit Elhance, Takahiro Tsujikawa, Naoki Oshimori

    Avery Van Duzer ... Naoki Oshimori

    Published 2 December 2019

    ADAP1, a GTPase-activating protein (GAP) for the small GTPase ARF6, is a strong predictor of poor survival in early-stage squamous cell carcinoma patients and a critical mediator of TGF-β-induced invasive cell migration by facilitating basement membrane breakdown.

  • CHUK/IKK-α loss in lung epithelial cells enhances NSCLC growth associated with HIF up-regulation
    Open Access
    CHUK/IKK-α loss in lung epithelial cells enhances NSCLC growth associated with HIF up-regulation

    Evangelia Chavdoula, David M Habiel, Eugenia Roupakia, Georgios S Markopoulos, Eleni Vasilaki, Antonis Kokkalis, Alexander P Polyzos, Haralabia Boleti, Dimitris Thanos, Apostolos Klinakis, Evangelos Kolettas, Kenneth B Marcu

    Evangelia Chavdoula ... Kenneth B Marcu

    Published 2 December 2019

    IKKα is an NSCLC suppressor and its loss in mouse AT-II lung epithelial cells or in human NSCLC lines increased urethane-induced adenoma growth and xenograft burdens, respectively. IKKα loss can up-regulate HIF-1α, enhancing tumor growth under hypoxia.

Methods

  • Reference-free transcriptome exploration reveals novel RNAs for prostate cancer diagnosis
    Open Access
    Reference-free transcriptome exploration reveals novel RNAs for prostate cancer diagnosis

    Marina Pinskaya, Zohra Saci, Mélina Gallopin, Marc Gabriel, Ha TN Nguyen, Virginie Firlej, Marc Descrimes, Audrey Rapinat, David Gentien, Alexandre de la Taille, Arturo Londoño-Vallejo, Yves Allory, Daniel Gautheret, Antonin Morillon

    Marina Pinskaya ... Antonin Morillon

    Published 15 November 2019

    A reference-free computational workflow for the discovery of unannotated RNA biomarkers retrieves novel noncoding RNAs with high potential for prostate cancer diagnosis.

  • Evaluation of colorectal cancer subtypes and cell lines using deep learning
    Open Access
    Evaluation of colorectal cancer subtypes and cell lines using deep learning

    Jonathan Ronen, Sikander Hayat, Altuna Akalin

    Jonathan Ronen ... Altuna Akalin

    Published 2 December 2019

    A deep learning approach refines the state-of-the-art subtypes of colorectal cancer and evaluates the fidelity of cell lines that model cancer.

Resource

  • ADAPTABLE: a comprehensive web platform of antimicrobial peptides tailored to the user’s research
    Open Access
    ADAPTABLE: a comprehensive web platform of antimicrobial peptides tailored to the user’s research

    Francisco Ramos-Martín, Thibault Annaval, Sébastien Buchoux, Catherine Sarazin, Nicola D’Amelio

    Francisco Ramos-Martín ... Nicola D’Amelio

    Published 18 November 2019

    ADAPTABLE is a webserver and database of antimicrobial peptides that uses sequence and property alignment to highlight their mode of action against the threat of resistance in medicine and agriculture.

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In this Issue

Volume 2, No. 6
December 2019
  • Table of Contents
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