eLife

Latest preprint reviews

1. Tissue-specific modifier alleles determine Mertk loss-of-function traits

   This article has 18 authors:

   1. Yemsratch T Akalu
   2. Maria E Mercau
   3. Marleen Ansems
   4. Lindsey D Hughes
   5. James Nevin
   6. Emily J Alberto
   7. Xinran N Liu
   8. Li-Zhen He
   9. Diego Alvarado
   10. Tibor Keler
   11. Yong Kong
   12. William M Philbrick
   13. Marcus Bosenberg
   14. Silvia C Finnemann
   15. Antonio Iavarone
   16. Anna Lasorella
   17. Carla V Rothlin
   18. Sourav Ghosh

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The authors show that a widely used knock-out mouse for Mertk carries multiple additional changes in its genome, affecting the expression of a number of genes besides Mertk. They show that, although the line was back-crossed to the C57 background, these changes are due to the original 129P2 genome of the embryonic stem cells in which the knock-out was originally created. Through the generation of two new knock-out mouse strains, in C57 embryonic stem cells, the authors here show only part of the phenotype of the original Mertk knock-out mouse can be reproduced. Overall, this study raises awareness as to the limitations of the Mertk-/- v1 model and limits direct inference of Mertk-/-v1 observed phenotypes to Mertk deficiency alone.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 and Reviewer #2 agreed to share their name with the authors.)

   Reviewed by eLife

2. Antibiotic-induced accumulation of lipid II synergizes with antimicrobial fatty acids to eradicate bacterial populations

   This article has 11 authors:

   1. Ashelyn E Sidders
   2. Katarzyna M Kedziora
   3. Melina Arts
   4. Jan-Martin Daniel
   5. Stefania de Benedetti
   6. Jenna E Beam
   7. Duyen T Bui
   8. Joshua B Parsons
   9. Tanja Schneider
   10. Sarah E Rowe
   11. Brian P Conlon

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The authors here present how specific fatty acids modulate the bactericidal effect of the antibiotic vancomycin. The authors find that palmitoleic acid significantly increases the bactericidal activity of vancomycin and investigate the mechanism responsible. The key finding will be of interest to a broad audience of researchers focused on microbiology, host-pathogen interactions, and antimicrobial development, as well as to clinicians that treat antibiotic-recalcitrant infections.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 agreed to share their name with the authors.)

   Reviewed by eLife

3. Defining cellular population dynamics at single-cell resolution during prostate cancer progression

   This article has 22 authors:

   1. Alexandre A Germanos
   2. Sonali Arora
   3. Ye Zheng
   4. Erica T Goddard
   5. Ilsa M Coleman
   6. Anson T Ku
   7. Scott Wilkinson
   8. Hanbing Song
   9. Nicholas J Brady
   10. Robert A Amezquita
   11. Michael Zager
   12. Annalysa Long
   13. Yu Chi Yang
   14. Jason H Bielas
   15. Raphael Gottardo
   16. David S Rickman
   17. Franklin W Huang
   18. Cyrus M Ghajar
   19. Peter S Nelson
   20. Adam G Sowalsky
   21. Manu Setty
   22. Andrew C Hsieh

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Prostate cancer cellular heterogeneity is a major problem for disease progression and treatment resistance. This body of work addresses the cellular identity and populations that make up prostate cancer using single-cell sequencing technology and state-of-the-art mouse models. The cellular identities, associated signaling networks, and immune complexes accompanying the heterogeneity of the prostate are identified in this work and a resource is provided for scientists in the field.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #2 agreed to share their name with the authors.)

   Reviewed by eLife

4. Trio-based whole exome sequencing in patients with suspected sporadic inborn errors of immunity: A retrospective cohort study

   This article has 20 authors:

   1. Anne Hebert
   2. Annet Simons
   3. Janneke HM Schuurs-Hoeijmakers
   4. Hans JPM Koenen
   5. Evelien Zonneveld-Huijssoon
   6. Stefanie SV Henriet
   7. Ellen JH Schatorjé
   8. Esther PAH Hoppenreijs
   9. Erika KSM Leenders
   10. Etienne JM Janssen
   11. Gijs WE Santen
   12. Sonja A de Munnik
   13. Simon V van Reijmersdal
   14. Esther van Rijssen
   15. Simone Kersten
   16. Mihai G Netea
   17. Ruben L Smeets
   18. Frank L van de Veerdonk
   19. Alexander Hoischen
   20. Caspar I van der Made

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This study reports on the diagnostic utility of TRIO-based whole-exome sequencing (WES) in a cohort of 123 unrelated patients with suspected monogenic inborn errors of immunity. The authors further explored the diagnostic rate in this cohort by focusing their analyses on the identification of de novo variants (DNVs). This manuscript will be of interest to medical geneticists, immunologists, and physicians working with patients with primary immunodeficiencies.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

   Reviewed by eLife

5. Rewiring of liver diurnal transcriptome rhythms by triiodothyronine (T3) supplementation

   This article has 10 authors:

   1. Leonardo Vinicius Monteiro de Assis
   2. Lisbeth Harder
   3. José Thalles Lacerda
   4. Rex Parsons
   5. Meike Kaehler
   6. Ingolf Cascorbi
   7. Inga Nagel
   8. Oliver Rawashdeh
   9. Jens Mittag
   10. Henrik Oster

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Monteiro de Assis et al. demonstrate a role for T3 in modulating circadian metabolic rhythms both systemically and within the liver. The findings extend the molecular framework in which organismal metabolism is coordinated in a circadian fashion.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #2 agreed to share their name with the authors.)

   Reviewed by eLife

6. Disrupted-in-schizophrenia-1 is required for normal pyramidal cell–interneuron communication and assembly dynamics in the prefrontal cortex

   This article has 2 authors:

   1. Jonas-Frederic Sauer
   2. Marlene Bartos

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript investigates the consequences of Disrupted-in-schizophrenia-1 (Disc1) gene knock out in the medial prefrontal cortex (mPFC) of mice. This work marks a potentially significant contribution to elucidate cortical circuits alterations in this genetic model of schizophrenia. The main message is that communication between cortical pyramidal neurons and fast spiking interneurons is altered with consequence on cortical network activities. The data generally support the conclusions made but analyses of electrophysiological data should improve.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 agreed to share their name with the authors.)

   Reviewed by eLife

7. Global chromatin mobility induced by a DSB is dictated by chromosomal conformation and defines the HR outcome

   This article has 7 authors:

   1. Fabiola García Fernández
   2. Etienne Almayrac
   3. Ànnia Carré Simon
   4. Renaud Batrin
   5. Yasmine Khalil
   6. Michel Boissac
   7. Emmanuelle Fabre

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This study is of relevance to the field of DNA repair. It uses a cleverly designed new recombination assay in yeast to address the impact of DNA break position on global genome mobility. A centromere-proximal DNA double-strand break (DSB) induces an H2A(X) phosphorylation-dependent global mobility that accelerates but is not essential for DSB repair, while a centromere-distal DSB triggers global mobility that is essential for repair and which depends on H2A(X) phosphorylation, Rad9 and Rad51. Together, these data support a model where global genome mobility promotes homologous recombination repair, particularly for centromere-distal DSBs, and help settle some recent controversy in the field.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #3 agreed to share their name with the authors.)

   Reviewed by eLife

8. Condensin DC loads and spreads from recruitment sites to create loop-anchored TADs in C. elegans

   This article has 10 authors:

   1. Jun Kim
   2. David S Jimenez
   3. Bhavana Ragipani
   4. Bo Zhang
   5. Lena A Street
   6. Maxwell Kramer
   7. Sarah E Albritton
   8. Lara H Winterkorn
   9. Ana K Morao
   10. Sevinc Ercan

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper is potentially of broad interest to researchers in the chromosome biology field. With specific loading sequences identified, the condensin DC complex studied here provides an elegant system to investigate the in vivo activities of SMC complexes. Combining Hi-C, ChIP-seq and RNA-seq, the authors have a comprehensive suite of assays to probe their questions. However, not all of their major conclusions are currently supported by the data.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

   Reviewed by eLife

9. Polycomb-mediated repression of paternal chromosomes maintains haploid dosage in diploid embryos of Marchantia

   This article has 8 authors:

   1. Sean Akira Montgomery
   2. Tetsuya Hisanaga
   3. Nan Wang
   4. Elin Axelsson
   5. Svetlana Akimcheva
   6. Milos Sramek
   7. Chang Liu
   8. Frédéric Berger

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Mechanisms for controlling gene dosage and uniparental gene expression vary widely across the eukaryotic tree, with many such mechanisms still unknown. Montgomery et al. describe an epigenetic mechanism used to modulate paternal chromosome gene dosage during the transient diploid state of the primarily haploid plant, Marchantia polymorpha. This fascinating case of genome-wide genomic imprinting will be of broad interest to evolutionary biologists, epigeneticists, and those focused on understanding the context and mechanisms of gene dosage control.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

   Reviewed by eLife

10. Natural killer (NK) cell-derived extracellular-vesicle shuttled microRNAs control T cell responses

    This article has 13 authors:

    1. Sara G Dosil
    2. Sheila Lopez-Cobo
    3. Ana Rodriguez-Galan
    4. Irene Fernandez-Delgado
    5. Marta Ramirez-Huesca
    6. Paula Milan-Rois
    7. Milagros Castellanos
    8. Alvaro Somoza
    9. Manuel José Gómez
    10. Hugh T Reyburn
    11. Mar Vales-Gomez
    12. Francisco Sánchez Madrid
    13. Lola Fernandez-Messina

    This article has been curated by 1 group:

    • Curated by eLife

      Evaluation Summary:

      This report identified NK-extracellular-vesicle (NK-EV)-associated microRNAs and characterized them by small RNA next-generation sequencing. They found that NK-EVs promote Th1 polarization and activation of monocyte and monocyte-derived dendritic cells. The findings are potentially important for understanding NK cell function.

      (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #2 agreed to share their name with the authors.)

    Reviewed by eLife