eLife

Latest preprint reviews

1. Manganese is a physiologically relevant TORC1 activator in yeast and mammals

   This article has 10 authors:

   1. Raffaele Nicastro
   2. Hélène Gaillard
   3. Laura Zarzuela
   4. Marie-Pierre Péli-Gulli
   5. Elisabet Fernández-García
   6. Mercedes Tomé
   7. Néstor García-Rodríguez
   8. Raúl V Durán
   9. Claudio De Virgilio
   10. Ralf Erik Wellinger

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Nicastro et al. uncover a new input for the central metabolic regulator TOR complex 1 (TORC1) , namely manganese (Mn) levels, in budding yeast and they show that this dependence on Mn is conserved in humans. TORC1 is a central coordinator of multiple inputs to guide cellular decisions of catabolism vs anabolism, and information on an additional way to modulate its activity will be highly influential in both basic cell biology as well as therapeutic research.

     (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

   Reviewed by eLife

2. Independent regulation of mitochondrial DNA quantity and quality in Caenorhabditis elegans primordial germ cells

   This article has 5 authors:

   1. Aaron ZA Schwartz
   2. Nikita Tsyba
   3. Yusuff Abdu
   4. Maulik R Patel
   5. Jeremy Nance

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Mitochondria have their own DNA, which is much more likely to gain mutation (due to error-prone DNA polymerase). It is widely appreciated that there are quality control mechanisms such that functional mitochondria are passed from one generation to the next. The proposed mechanisms include a passive mechanism (generation of the bottleneck) as well as an active mechanism (selective removal of non-functional mitochondria), but the processes are not fully understood. This manuscript presents fascinating observations as to how C. elegans germline may remove mitochondria by creating bottlenecks as well as selectively removing non-functional mitochondria. Building upon the authors' previous finding that the C. elegans primordial germ cells (PGCs) shed much of cytoplasm during embryogenesis through 'cannibalism', they now describe that a bulk of mitochondria are removed from PGCs through this process.

     (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. Sonic hedgehog-dependent recruitment of GABAergic interneurons into the developing visual thalamus

   This article has 7 authors:

   1. Rachana Deven Somaiya
   2. Katelyn Stebbins
   3. Ellen C Gingrich
   4. Hehuang Xie
   5. John N Campbell
   6. A Denise R Garcia
   7. Michael A Fox

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper proposes a novel mechanism used by the visual system to recruit interneurons into the visual thalamus. The primary claims that retinal ganglion cell axons secrete Shh in the visual thalamus that induces FGF15 expression by astrocytes, that then attract interneurons are sound. Because Shh signaling, interneuron migration, and astrocyte functions are studied by a large number of neuroscientists this study will have a high impact on 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 #1 and Reviewer #2 agreed to share their names with the authors.)

   Reviewed by eLife

4. Tethering distinct molecular profiles of single cells by their lineage histories to investigate sources of cell state heterogeneity

   This article has 3 authors:

   1. Anna Minkina
   2. Junyue Cao
   3. Jay Shendure

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The authors use single-cell RNA-sequencing, single-cell ATAC-sequencing, a CRISPR-based lineage tracing system, and a novel computational pipeline to characterize heritable expression changes. Aspects of this work were found to be both impactful and technically sound, but there is a concern with the scalability/generalizability of the approach, the use of the single cell ATAC-sequencing data, and some technical aspects of the computational pipeline. This work will appeal to groups working on lineage tracing and gene regulation.

     (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

5. 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

6. 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

7. 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

8. 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

9. 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

10. 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