Volume 3 Issue 12, December 2018

Volume 3 Issue 12

Filling in the fungal family tree

Single-cell genome sequencing of eight uncultured fungal species provides insights into the phylogenetic placement of early-diverging lineages, highlights metabolic deficiencies and identifies gene expansions correlated with parasitism and unculturability.

See Ahrendt et al.

Image: Gerald Benny. Cover design: Samantha Whitham.

Editorial

  • Editorial |

    Academic titles are often used without much thought; however, a recent discussion on social media has highlighted how the use of a title can have important implications for individuals, in particular women, and how they can be perceived as elitist by the general public.

News & Views

  • News & Views |

    Bacteria employ a specialized weapon known as the type VI secretion system to defend themselves from competing organisms. A new study reveals the molecular architecture of the type VI secretion system and highlights conserved mechanistic similarities with contractile phage tails.

    • Alan R. Davidson
    •  & Karen L. Maxwell
  • News & Views |

    Gut microbiota are known to produce an intermediate metabolite in the production of trimethylamine N-oxide that promotes atherosclerosis. Now, another metabolite produced by the same bacteria has been identified that prevents atherosclerosis. The basis for these opposing microbial effects are dictated by diet.

    • Scott J. Bultman
  • News & Views |

    It is now clear that key autophagy proteins possess alternative functions, distinct from their conventional roles in autophagy. Adding to this emerging field, a new study shows how ATG16L1 acts to promote plasma membrane repair following damage by pore-forming bacteria.

    • Oliver Florey
  • News & Views |

    Primate immunodeficiency virus accessory proteins Vpx/Vpr associate with and induce proteasomal degradation of the HUSH complex, thereby counteracting HUSH-mediated epigenetic transcriptional repression of proviral and cellular genes. These findings open new therapeutic avenues against HIV.

    • Carine Van Lint

Research

  • Letter |

    The effects of multidrug antimicrobial combinations follow a null model in which inhibitory effects are additive and where drug dosage is orthogonal, leading to a square-root scaling of potency with the number of drugs.

    • D. Russ
    •  & R. Kishony
  • Letter |

    The interferon-inducible short isoform of human nuclear receptor coactivator 7 (NCOA7) inhibits influenza virus entry into the cytoplasm by interacting with and stimulating the activity of the vacuolar H+-ATPase, which leads to inhibition of viral and endosomal membrane fusion.

    • Tomas Doyle
    • , Olivier Moncorgé
    • , Boris Bonaventure
    • , Darja Pollpeter
    • , Marion Lussignol
    • , Marine Tauziet
    • , Luis Apolonia
    • , Maria-Teresa Catanese
    • , Caroline Goujon
    •  & Michael H. Malim
  • Letter |

    Chlamydia trachomatis DUB1 uses a single catalytic centre to carry out dual lysine deubiquitinase and acetyltransferase activity. Deubiquitination is required for Golgi fragmentation during bacterial infection.

    • Jonathan N. Pruneda
    • , Robert J. Bastidas
    • , Erithelgi Bertsoulaki
    • , Kirby N. Swatek
    • , Balaji Santhanam
    • , Michael J. Clague
    • , Raphael H. Valdivia
    • , Sylvie Urbé
    •  & David Komander
  • Letter |

    Although essential to restrict systemic replication, the small interfering RNA pathway fails to efficiently silence dengue virus in the midgut of Aedes aegypti in the absence of ectopic expression of the double-stranded RNA-binding protein Loqs2.

    • Roenick P. Olmo
    • , Alvaro G. A. Ferreira
    • , Tatiane C. Izidoro-Toledo
    • , Eric R. G. R. Aguiar
    • , Isaque J. S. de Faria
    • , Kátia P. R. de Souza
    • , Kátia P. Osório
    • , Lauriane Kuhn
    • , Philippe Hammann
    • , Elisa G. de Andrade
    • , Yaovi Mathias Todjro
    • , Marcele N. Rocha
    • , Thiago H. J. F. Leite
    • , Siad C. G. Amadou
    • , Juliana N. Armache
    • , Simona Paro
    • , Caroline D. de Oliveira
    • , Fabiano D. Carvalho
    • , Luciano A. Moreira
    • , Eric Marois
    • , Jean-Luc Imler
    •  & João T. Marques
  • Article |

    The cryo-EM structure of the TssKFGE baseplate wedge complex of the type VI secretion system (T6SS) from enteroaggregative Escherichia coli helps to elucidate the molecular architecture of the whole T6SS baseplate, and its assembly and mode of action.

    • Yassine Cherrak
    • , Chiara Rapisarda
    • , Riccardo Pellarin
    • , Guillaume Bouvier
    • , Benjamin Bardiaux
    • , Fabrice Allain
    • , Christian Malosse
    • , Martial Rey
    • , Julia Chamot-Rooke
    • , Eric Cascales
    • , Rémi Fronzes
    •  & Eric Durand
  • Article | | Open Access

    Single-cell genome sequencing of eight uncultured fungal species provides insights into the phylogenetic placement of early-diverging lineages, highlights metabolic deficiencies and identifies gene expansions correlated with parasitism and unculturability.

    • Steven R. Ahrendt
    • , C. Alisha Quandt
    • , Doina Ciobanu
    • , Alicia Clum
    • , Asaf Salamov
    • , Bill Andreopoulos
    • , Jan-Fang Cheng
    • , Tanja Woyke
    • , Adrian Pelin
    • , Bernard Henrissat
    • , Nicole K. Reynolds
    • , Gerald L. Benny
    • , Matthew E. Smith
    • , Timothy Y. James
    •  & Igor V. Grigoriev
  • Article |

    A combination of cryo-electron microscopy (cryo-EM) and targeted mutagenesis studies elucidates the structure and organization of the core complex of the type IV secretion system used by Xanthomonas citri to kill competing bacteria.

    • Germán G. Sgro
    • , Tiago R. D. Costa
    • , William Cenens
    • , Diorge P. Souza
    • , Alexandre Cassago
    • , Luciana Coutinho de Oliveira
    • , Roberto K. Salinas
    • , Rodrigo V. Portugal
    • , Chuck S. Farah
    •  & Gabriel Waksman
  • Article |

    Faecal carbon:nitrogen measurements and manipulation of nitrogen availability via diet and host secretions in a murine model suggest that intestinal nitrogen limitation occurs due to host absorption and microbial use, leading to benefits for specific taxa.

    • Aspen T. Reese
    • , Fátima C. Pereira
    • , Arno Schintlmeister
    • , David Berry
    • , Michael Wagner
    • , Laura P. Hale
    • , Anchi Wu
    • , Sharon Jiang
    • , Heather K. Durand
    • , Xiyou Zhou
    • , Richard T. Premont
    • , Anna Mae Diehl
    • , Thomas M. O’Connell
    • , Susan C. Alberts
    • , Tyler R. Kartzinel
    • , Robert M. Pringle
    • , Robert R. Dunn
    • , Justin P. Wright
    •  & Lawrence A. David
  • Article |

    Bacillus subtilis mutants lacking either of the biofilm extracellular matrix components, exopolysaccharide or the fibre protein TasA, can evolve compensatory mutations that act on the residual matrix component to restore biofilm formation.

    • Anna Dragoš
    • , Marivic Martin
    • , Carolina Falcón García
    • , Lara Kricks
    • , Patrick Pausch
    • , Thomas Heimerl
    • , Balázs Bálint
    • , Gergely Maróti
    • , Gert Bange
    • , Daniel López
    • , Oliver Lieleg
    •  & Ákos T. Kovács
  • Article |

    Roseburia intestinalis is a butyrate-producing member of the gut microbiome that can use dietary plant polysaccharides to alter host metabolism, transcription and epigenetics, and lower inflammation and endotoxaemia, resulting in reduced atherosclerosis.

    • Kazuyuki Kasahara
    • , Kimberly A. Krautkramer
    • , Elin Org
    • , Kymberleigh A. Romano
    • , Robert L. Kerby
    • , Eugenio I. Vivas
    • , Margarete Mehrabian
    • , John M. Denu
    • , Fredrik Bäckhed
    • , Aldons J. Lusis
    •  & Federico E. Rey

    Collection:

  • Article |

    Autophagy-related proteins ATG16L1, ATG5 and ATG12 are required for plasma membrane repair and help to restrict Listeria monocytogenes toxin-mediated cell-to-cell spread.

    • Joel M. J. Tan
    • , Nora Mellouk
    • , Suzanne E. Osborne
    • , Dustin A. Ammendolia
    • , Diana N. Dyer
    • , Ren Li
    • , Diede Brunen
    • , Jorik M. van Rijn
    • , Ju Huang
    • , Mark A. Czuczman
    • , Marija A. Cemma
    • , Amy M. Won
    • , Christopher M. Yip
    • , Ramnik J. Xavier
    • , Donna A. MacDuff
    • , Fulvio Reggiori
    • , Jayanta Debnath
    • , Tamotsu Yoshimori
    • , Peter K. Kim
    • , Gregory D. Fairn
    • , Etienne Coyaud
    • , Brian Raught
    • , Aleixo M. Muise
    • , Darren E. Higgins
    •  & John H. Brumell

Amendments & Corrections

  • Author Correction |

    • Tracey Goldstein
    • , Simon J. Anthony
    • , Aiah Gbakima
    • , Brian H. Bird
    • , James Bangura
    • , Alexandre Tremeau-Bravard
    • , Manjunatha N. Belaganahalli
    • , Heather L. Wells
    • , Jasjeet K. Dhanota
    • , Eliza Liang
    • , Michael Grodus
    • , Rohit K. Jangra
    • , Veronica A. DeJesus
    • , Gorka Lasso
    • , Brett R. Smith
    • , Amara Jambai
    • , Brima O. Kamara
    • , Sorie Kamara
    • , William Bangura
    • , Corina Monagin
    • , Sagi Shapira
    • , Christine K. Johnson
    • , Karen Saylors
    • , Edward M. Rubin
    • , Kartik Chandran
    • , W. Ian Lipkin
    •  & Jonna A. K. Mazet