Focus |

Stem Cells and Disease

  • Nature Communications | Article | open

    Nanopore sensors have long analysis times when analytes are at low concentration and non-specific signals in complex media. Here the authors use antibody-modified magnetic nanoparticles to detect prostate-specific antigen at sub-femtomolar concentrations in blood.

    • Kyloon Chuah
    • , Yanfang Wu
    • , S. R. C. Vivekchand
    • , Katharina Gaus
    • , Peter J. Reece
    • , Adam P. Micolich
    •  &  J. Justin Gooding
  • Nature Communications | Article | open

    Blood clotting is a complex process involving platelet adhesion and clot stiffening. Here the authors present a microfluidic system to recapitulate the dynamic changes in clot mechanics under physiological shear.

    • Zhaowei Chen
    • , Jiankai Lu
    • , Changjie Zhang
    • , Isaac Hsia
    • , Xinheng Yu
    • , Leo Marecki
    • , Eric Marecki
    • , Mohammadnabi Asmani
    • , Shilpa Jain
    • , Sriram Neelamegham
    •  &  Ruogang Zhao
  • Nature Communications | Article | open

    Hyperspectral imaging (HSI) enables recording both morphological and biochemical information, but image acquisition time and geometric distortions limit its clinical applicability. Here the authors overcome these challenges with an endoscope combining HSI and white light to correct for image distortion during freehand operation.

    • Jonghee Yoon
    • , James Joseph
    • , Dale J. Waterhouse
    • , A. Siri Luthman
    • , George S. D. Gordon
    • , Massimiliano di Pietro
    • , Wladyslaw Januszewicz
    • , Rebecca C. Fitzgerald
    •  &  Sarah E. Bohndiek
  • Nature Communications | Article | open

    Studying adrenergic signalling in the heart requires perfusion with receptor agonists, which lacks cell specificity and spatiotemporal control. Here the authors use the light sensitive G-coupled receptor JellyOp to optogenetically control Gs-signaling in cardiomyocytes and intact hearts with high spatiotemporal precision.

    • Philipp Makowka
    • , Tobias Bruegmann
    • , Vanessa Dusend
    • , Daniela Malan
    • , Thomas Beiert
    • , Michael Hesse
    • , Bernd K. Fleischmann
    •  &  Philipp Sasse
  • Nature Communications | Article | open

    Current optoacoustic probes for cancer imaging have limitations including background noise, long-term toxicity and scarce imaging depth in living tissue. Here the authors use Rhodobacter, purple bacteria rich in bacteriochlorophyll a, as an optoacoustic reporter to image tumor-associated macrophages in mice in vivo.

    • Lena Peters
    • , Ina Weidenfeld
    • , Uwe Klemm
    • , Anita Loeschcke
    • , Robin Weihmann
    • , Karl-Erich Jaeger
    • , Thomas Drepper
    • , Vasilis Ntziachristos
    •  &  Andre C. Stiel
  • Nature Communications | Article | open

    Detecting Alzheimer’s disease from blood samples is challenging because amyloid β blood levels are lower than the ELISA detection limit. Here the authors capture amyloid β bound to circulating exosomes on a plasmonic nanosensor, followed by enzymatic amplification to improve detection sensitivity.

    • Carine Z. J. Lim
    • , Yan Zhang
    • , Yu Chen
    • , Haitao Zhao
    • , Mary C. Stephenson
    • , Nicholas R. Y. Ho
    • , Yuan Chen
    • , Jaehoon Chung
    • , Anthonin Reilhac
    • , Tze Ping Loh
    • , Christopher L. H. Chen
    •  &  Huilin Shao
  • Nature Communications | Article | open

    Reactive oxygen (ROS) and nitrogen (RNS) species are involved in key physiological processes and their balance is altered in various human diseases. Here the authors develop near-infrared upconversion nanoprobes to screen ROS/RNS dynamics simultaneously by multispectral optoacoustic imaging in vivo.

    • Xiangzhao Ai
    • , Zhimin Wang
    • , Haolun Cheong
    • , Yong Wang
    • , Ruochong Zhang
    • , Jun Lin
    • , Yuanjin Zheng
    • , Mingyuan Gao
    •  &  Bengang Xing
  • Nature Communications | Article | open

    Measuring growth factors in single cells at physiologically relevant stimulation doses is challenging. Here the authors use fluorescent quantum dots and calibrated three-dimensional deconvolution microscopy to digitally count growth factors in single cells and reveal stimulation distributions in cancer cells.

    • Phuong Le
    • , Sung Jun Lim
    • , Brian C. Baculis
    • , Hee Jung Chung
    • , Kristopher A. Kilian
    •  &  Andrew M. Smith
  • Nature Communications | Article | open

    Single-cell detection methods are limited by the trade-off between flow rate and measurement precision. Here the authors introduce active loading, an optically triggered microfluidic system to concentrate diluted cell samples, which reduces clogging and decreases processing time in single-cell assays.

    • Nicholas L. Calistri
    • , Robert J. Kimmerling
    • , Seth W. Malinowski
    • , Mehdi Touat
    • , Mark M. Stevens
    • , Selim Olcum
    • , Keith L. Ligon
    •  &  Scott R. Manalis
  • Nature Communications | Article | open

    Therapeutic alteration of protein expression using modified mRNA is limited by immunogenicity and instability in vivo. Here the authors use antibody-coated lipid nanoparticles to deliver mRNA to leukocytes and drive expression of anti-inflammatory cytokines in an inflammatory bowel disease mouse model.

    • Nuphar Veiga
    • , Meir Goldsmith
    • , Yasmin Granot
    • , Daniel Rosenblum
    • , Niels Dammes
    • , Ranit Kedmi
    • , Srinivas Ramishetti
    •  &  Dan Peer
  • Nature Communications | Article | open

    Diagnostic tests need optimization to avoid invasive and costly repeated biopsies. Here the authors present an antibody-DNA barcoding approach where harvested single cells can be re-stained through custom oligonucleotide-fluorophore conjugates, enabling multiplexed analysis of cancer pathways.

    • Randy J. Giedt
    • , Divya Pathania
    • , Jonathan C. T. Carlson
    • , Philip J. McFarland
    • , Andres Fernandez del Castillo
    • , Dejan Juric
    •  &  Ralph Weissleder
  • Nature Communications | Article | open

    In vitro expansion of human epidermal keratinocytes to resurface severe wound defects still relies on a human/mouse xenograft culture system. Here the authors develop a fully human, xeno-free culture system using skin-associated laminins, normally present in vivo, to replace mouse feeder cells.

    • Monica Suryana Tjin
    • , Alvin Wen Choong Chua
    • , Aida Moreno-Moral
    • , Li Yen Chong
    • , Po Yin Tang
    • , Nathan Peter Harmston
    • , Zuhua Cai
    • , Enrico Petretto
    • , Bien Keem Tan
    •  &  Karl Tryggvason
  • Nature Communications | Article | open

    Autophagic clearance of aggregates, aggrephagy, is essential for cellular homeostasis but tools to induce and monitor it are limited. Here the authors present a fluorescence-based aggrephagy induction assay to study spatiotemporal dynamics and control mechanisms driving protein aggregate clearance.

    • Anne F. J. Janssen
    • , Eugene A. Katrukha
    • , Wendy van Straaten
    • , Pauline Verlhac
    • , Fulvio Reggiori
    •  &  Lukas C. Kapitein
  • Nature Communications | Article | open

    Super-resolution microscopy often suffers from low contrast and slow recording times. Here the authors present an optical implementation which makes the fluorescent proteins’ ON–OFF switching cycles more efficient, enhancing contrast and spatio-temporal resolution in 3D cell and tissue imaging.

    • Luciano A. Masullo
    • , Andreas Bodén
    • , Francesca Pennacchietti
    • , Giovanna Coceano
    • , Michael Ratz
    •  &  Ilaria Testa
  • Nature Communications | Article | open

    Non-destructive methods to image metabolism in situ in living tissues are limited. Here the authors combine deuterium oxide probing and stimulated Raman scattering microscopy to image lipid metabolic dynamics and protein synthesis in cells and in vivo in mice, C. elegans, and zebrafish.

    • Lingyan Shi
    • , Chaogu Zheng
    • , Yihui Shen
    • , Zhixing Chen
    • , Edilson S. Silveira
    • , Luyuan Zhang
    • , Mian Wei
    • , Chang Liu
    • , Carmen de Sena-Tomas
    • , Kimara Targoff
    •  &  Wei Min
  • Nature Communications | Article | open

    Current sensors for intracellular H2O2 are not sensitive enough to detect all biologically relevant H2O2 fluctuations. Here the authors develop a peroxiredoxin-2-based FRET probe that is sensitive enough to measure changes in H2O2 concentration in response to the cancer therapeutic piperlongumine.

    • Troy F. Langford
    • , Beijing K. Huang
    • , Joseph B. Lim
    • , Sun Jin Moon
    •  &  Hadley D. Sikes
  • Nature Communications | Article | open

    Methods to study anti-cancer drugs cytotoxicity are often low throughput and rely on population average. Here the authors present an automated image-based cytometry method to quantify multiple cytotoxicity parameters in single cells, and use it to study the effect of PARP inhibitors in cancer cells.

    • Jone Michelena
    • , Aleksandra Lezaja
    • , Federico Teloni
    • , Thomas Schmid
    • , Ralph Imhof
    •  &  Matthias Altmeyer
  • Nature Communications | Article | open

    Detecting proteins and post-translational modifications is important for drug screens, but the number of proteins measurable simultaneously is limited. Here the authors use antibodies tagged with DNA barcodes and high-throughput sequencing to detect up to 70 (phospho-)proteins in stem cells.

    • Jessie A. G. van Buggenum
    • , Jan P. Gerlach
    • , Sabine E. J. Tanis
    • , Mark Hogeweg
    • , Pascal W. T. C. Jansen
    • , Jesse Middelwijk
    • , Ruud van der Steen
    • , Michiel Vermeulen
    • , Hendrik G. Stunnenberg
    • , Cornelis A. Albers
    •  &  Klaas W. Mulder
  • Nature Communications | Article | open

    Large RNAs and ribonucleoprotein complexes have shown potential as novel therapeutic agents, but their targeted delivery to cells is still challenging. Here the authors present a modular aptamer nanostructure for intracellular delivery of RNAs up to 250 nucleotides to cancer cells.

    • David Porciani
    • , Leah N. Cardwell
    • , Kwaku D. Tawiah
    • , Khalid K. Alam
    • , Margaret J. Lange
    • , Mark A. Daniels
    •  &  Donald H. Burke
  • Nature Communications | Article | open

    Label-free and real-time visualization of the tumor microenvironment is attractive but challenging. Here the authors present an approach for simultaneous autofluorescence functional imaging and second/third harmonic generation imaging of structural features, using a single excitation source.

    • Sixian You
    • , Haohua Tu
    • , Eric J. Chaney
    • , Yi Sun
    • , Youbo Zhao
    • , Andrew J. Bower
    • , Yuan-Zhi Liu
    • , Marina Marjanovic
    • , Saurabh Sinha
    • , Yang Pu
    •  &  Stephen A. Boppart
  • Nature Communications | Article | open

    A bottleneck in developing new anti-fibrosis therapies is the absence of suitable in vitro models that recapitulate key features of fibrogenesis. Here the authors develop a tissue-on-a-chip model of lung fibrosis and test the therapeutic efficacy of two recent FDA-approved drugs.

    • Mohammadnabi Asmani
    • , Sanjana Velumani
    • , Yan Li
    • , Nicole Wawrzyniak
    • , Isaac Hsia
    • , Zhaowei Chen
    • , Boris Hinz
    •  &  Ruogang Zhao
  • Nature Communications | Article | open

    Long-term in vitro models for hepatitis B virus (HBV) infection are important to understand this infection, but are lacking. Here the authors develop a microfluidic primary human hepatocyte organoid culture system that can be maintained over 40 days and recapitulates all of the steps of the HBV life cycle.

    • A. M. Ortega-Prieto
    • , J. K. Skelton
    • , S. N. Wai
    • , E. Large
    • , M. Lussignol
    • , G. Vizcay-Barrena
    • , D. Hughes
    • , R. A. Fleck
    • , M. Thursz
    • , M. T. Catanese
    •  &  M. Dorner
  • Nature Communications | Article | open

    A pool of quality control proteins (QC) maintains the protein-folding homeostasis in the cell, but its quantitative analysis is challenging. Here the authors develop a FRET sensor based on the protein barnase, able to quantify QC holdase activity and its ability to suppress protein aggregation.

    • Rebecca J. Wood
    • , Angelique R. Ormsby
    • , Mona Radwan
    • , Dezerae Cox
    • , Abhishek Sharma
    • , Tobias Vöpel
    • , Simon Ebbinghaus
    • , Mikael Oliveberg
    • , Gavin E. Reid
    • , Alex Dickson
    •  &  Danny M. Hatters
  • Nature Communications | Article | open

    The development of IgG and albumin-based therapeutics with increased half-lives needs more efficient screening procedures. Here the authors report a human endothelial cell-based recycling assay enabling screening of IgG and albumin variants without chemical labelling and prior to animal testing.

    • Algirdas Grevys
    • , Jeannette Nilsen
    • , Kine M. K. Sand
    • , Muluneh B. Daba
    • , Inger Øynebråten
    • , Malin Bern
    • , Martin B. McAdam
    • , Stian Foss
    • , Tilman Schlothauer
    • , Terje E. Michaelsen
    • , Gregory J. Christianson
    • , Derry C. Roopenian
    • , Richard S. Blumberg
    • , Inger Sandlie
    •  &  Jan Terje Andersen
  • Nature Communications | Article | open

    Pathologies related to protein:protein interaction are hard to treat but cystine-dense peptides have the potential to disrupt such interactions. Here the authors develop a high-diversity mammalian cell screen for cystine-dense peptides with drug potential and use it to identify a YAP:TEAD inhibitor.

    • Zachary R. Crook
    • , Gregory P. Sevilla
    • , Della Friend
    • , Mi-Youn Brusniak
    • , Ashok D. Bandaranayake
    • , Midori Clarke
    • , Mesfin Gewe
    • , Andrew J. Mhyre
    • , David Baker
    • , Roland K. Strong
    • , Philip Bradley
    •  &  James M. Olson
  • Nature Communications | Article | open

    The epidermis is a multi-layered epithelium formed by the differentiation of basal cells and movement into suprabasal layers. Here the authors define a role for the desmosomal cadherin desmoglein-1 in promoting the delamination of basal cells by remodeling the actin cytoskeleton through interactions with the dynein light chain Tctex-1 and cortactin.

    • Oxana Nekrasova
    • , Robert M. Harmon
    • , Joshua A. Broussard
    • , Jennifer L. Koetsier
    • , Lisa M. Godsel
    • , Gillian N. Fitz
    • , Margaret L. Gardel
    •  &  Kathleen J. Green
  • Nature Communications | Article | open

    Meditope-Fab is a peptide-antibody complex potentially useful for drug delivery and diagnostic, but a short half-life prevents its use in vivo. Here the authors engineer the complex to improve its stability, create functionalized antibodies by click chemistry and use them for in vivo tumor imaging.

    • Krzysztof P. Bzymek
    • , James W. Puckett
    • , Cindy Zer
    • , Jun Xie
    • , Yuelong Ma
    • , Jeremy D. King
    • , Leah H. Goodstein
    • , Kendra N. Avery
    • , David Colcher
    • , Gagandeep Singh
    • , David A. Horne
    •  &  John C. Williams
  • Nature Communications | Article | open

    Targeting tumors with bacteria as vehicles for metabolite therapy suffers from low efficiency and robustness. Here, the authors combine carbon nitride with nitric oxide generation enzyme-positive E. coli for photo-controlled metabolite therapy (PMT) and observe increased effects both in vitro and in tumor-bearing mice.

    • Di-Wei Zheng
    • , Ying Chen
    • , Zi-Hao Li
    • , Lu Xu
    • , Chu-Xin Li
    • , Bin Li
    • , Jin-Xuan Fan
    • , Si-Xue Cheng
    •  &  Xian-Zheng Zhang
  • Nature Communications | Article | open

    Cell protrusion dynamics are heterogeneous at the subcellular level, but current analyses operate at the cellular or ensemble level. Here the authors develop a computational framework to quantify subcellular protrusion phenotypes and reveal the underlying actin regulator dynamics at the leading edge.

    • Chuangqi Wang
    • , Hee June Choi
    • , Sung-Jin Kim
    • , Aesha Desai
    • , Namgyu Lee
    • , Dohoon Kim
    • , Yongho Bae
    •  &  Kwonmoo Lee