3 Works

Data from: Quantitative proteomics reveals key roles for post-transcriptional gene regulation in the molecular pathology of FSHD

Sujatha Jagannathan, Yuko Ogata, Philip R. Gafken, Stephen J. Tapscott & Robert K. Bradley
DUX4 is a transcription factor whose misexpression in skeletal muscle causes facioscapulohumeral muscular dystrophy (FSHD). While DUX4's transcriptional activity has been extensively characterized, the DUX4-induced proteome remains undescribed. Here, we report concurrent measurement of RNA and protein levels in DUX4-expressing cells via RNA-seq and quantitative mass spectrometry. DUX4 transcriptional targets were robustly translated, confirming the likely clinical relevance of proposed FSHD biomarkers. However, a multitude of mRNAs and proteins exhibited discordant expression changes upon DUX4...

Data from: Single-cell virus sequencing of influenza infections that trigger innate immunity

Alistair B. Russell, Elizaveta Elshina, Jacob R. Kowalsky, Aartjan J. W. Te Velthuis & Jesse D. Bloom
Influenza-infected cells vary widely in their expression of viral genes, and only occasionally activate innate immunity. Here we develop a new method to assess how the genetic variation in viral populations contributes to this heterogeneity. We do this by determining the transcriptome and full-length sequences of all viral genes in single cells infected with a nominally "pure" stock of influenza virus. Most cells are infected by virions with defects, some of which increase the frequency...

Data from: A key metabolic gene for recurrent freshwater colonization and radiation in fishes

Asano Ishikawa, Naoki Kabeya, Koki Ikeya, Ryo Kakioka, Jennifer N. Cech, Naoki Osada, Miguel C. Leal, Jun Inoue, Manabu Kume, Atsushi Toyoda, Ayumi Tezuka, Atsushi J. Nagano, Yo Y. Yamasaki, Yuto Suzuki, Tomoyuki Kokita, Hiroshi Takahashi, Kay Lucek, David Marques, Yusuke Takehana, Kiyoshi Naruse, Seiichi Mori, Oscar Monroig, Nemiah Ladd, Carsten J. Schubert, Blake Matthews … & Jun Kitano
Colonization of new ecological niches has triggered large adaptive radiations. Although some lineages have made use of such opportunities, not all do so. The factors causing this variation among lineages are largely unknown. Here, we show that deficiency in docosahexaenoic acid (DHA), an essential ω-3 fatty acid, can constrain freshwater colonization by marine fishes. Our genomic analyses revealed multiple independent duplications of the fatty acid desaturase gene Fads2 in stickleback lineages that subsequently colonized and...

Registration Year

  • 2019
    3

Resource Types

  • Dataset
    3

Affiliations

  • Fred Hutchinson Cancer Research Center
    3
  • Gifu Kyoritsu University
    1
  • Swiss Federal Institute of Aquatic Science and Technology
    1
  • Ryukoku University
    1
  • University of Cambridge
    1
  • Fukui Prefectural University
    1
  • Hokkaido University
    1
  • Spanish National Research Council
    1
  • Okinawa Institute of Science and Technology
    1
  • National Institute of Genetics
    1