eLife

Latest preprint reviews

1. A dentate gyrus-CA3 inhibitory circuit promotes evolution of hippocampal-cortical ensembles during memory consolidation

   This article has 4 authors:

   1. Hannah Twarkowski
   2. Victor Steininger
   3. Min Jae Kim
   4. Amar Sahay

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper will be of interest to scientists across systems neuroscience or to those interested in how one component of a neural circuit contributes to downstream functions longitudinally. This study investigates how increasing feed forward inhibition in the dentate gyrus-CA3 hippocampal circuit impacts the formation and maintenance of context-specific ensembles in CA1 and the anterior cingulate cortex. However not all the claims of this manuscript are fully 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. Reviewer #1 agreed to share their name with the authors.)

   Reviewed by eLife

2. Differences in the gut microbiomes of distinct ethnicities within the same geographic area are linked to host metabolic health

   This article has 12 authors:

   1. Qi Yan Ang
   2. Diana L. Alba
   3. Vaibhav Upadhyay
   4. Jordan E. Bisanz
   5. Jingwei Cai
   6. Ho Lim Lee
   7. Eliseo Barajas
   8. Grace Wei
   9. Cecilia Noecker
   10. Andrew D. Patterson
   11. Suneil K. Koliwad
   12. Peter J. Turnbaugh

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This study aims to measure interpersonal and interethnic variation in human microbiomes and metabolomes in the San Franciso, CA, area. The strength of the study is in the level of robust analysis of the microbiota. It is interesting that diet is not one of the apparent associations in this study, yet the relationship of microbiota diversity to body habitus is strong in Caucasian subjects. Overall, the key results of this work nicely confirm that there are dissimilarities in gut microbiomes related to differences in ethnicity of subjects.

     (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

3. Single-molecule imaging of chromatin remodelers reveals role of ATPase in promoting fast kinetics of target search and dissociation from chromatin

   This article has 11 authors:

   1. Jee Min Kim
   2. Pat Visanpattanasin
   3. Vivian Jou
   4. Sheng Liu
   5. Xiaona Tang
   6. Qinsi Zheng
   7. Kai Yu Li
   8. Jonathan Snedeker
   9. Luke D Lavis
   10. Timothee Lionnet
   11. Carl Wu

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     In this study, Kim and co-workers track the dynamics of a large set of different ATP-dependent chromatin remodelers in living cells by utilizing state-of-the-art single-molecule imaging. They report that the remodelers exhibit very high turnover rates at target loci/nucleosomes, find evidence for cooperativity among the remodelers, and reveal the role of ATP hydrolysis in those interactions. These observations allow the authors to put forward a model for tug-of-war activities that modulate the accessibility of promoter regions for transcriptional activity. This manuscript brings important new information to the remodeler and chromatin dynamics 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. Edge-strand of BepA interacts with immature LptD on the β-barrel assembly machine to direct it to on- and off-pathways

   This article has 4 authors:

   1. Ryoji Miyazaki
   2. Tetsuro Watanabe
   3. Kohei Yoshitani
   4. Yoshinori Akiyama

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This study reports a pivotal role of the conserved edge-strand of the periplasmic metalloprotease BepA in the folding and quality control of an outer membrane protein (OMP), the lipopolysaccharide transporter LptD, in gram-negative bacteria. The authors have discovered that, in addition to proteolytic activity, BepA has a chaperone-like activity and that BepA-mediated quality control of LptD and likely other OMPs occurs during their membrane insertion at the barrel assembly machinery. This result provides new insights into the biogenesis mechanisms of bacterial OMPs and the maintenance of OM integrity.

     (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

5. Single-cell RNA analysis identifies pre-migratory neural crest cells expressing markers of differentiated derivatives

   This article has 3 authors:

   1. Ezra Lencer
   2. Rytis Prekeris
   3. Kristin Bruk Artinger

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript is of interest to researchers interested in specification and differentiation of the neural crest. This work presents a small single-cell RNAseq dataset from zebrafish trunk neural crest cells during the early stages of migration that identifies the subpopulations of trunk neural crest cells, new genetic markers and a subset of Rohon-Beard neurons. The paper confirms and extends previous work and reports expression of differentiated pigment cell types in the pre-migratory neural crest populations.

     (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

6. The use of non-functional clonotypes as a natural calibrator for quantitative bias correction in adaptive immune receptor repertoire profiling

   This article has 8 authors:

   1. Anastasia O Smirnova
   2. Anna M Miroshnichenkova
   3. Yulia V Olshanskaya
   4. Michael A Maschan
   5. Yuri B Lebedev
   6. Dmitriy M Chudakov
   7. Ilgar Z Mamedov
   8. Alexander Komkov

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper describes a newly developed, publicly available algorithm (iROAR) that was tested on pre-exisiting datasets and is of interest to T and B cell immunologists who perform repertoire analysis via multiplex PCR based techniques. iROAR utilises naturally occurring non-functional sequences to improve and partially correct the amplification bias inherent in multiplex PCR based sequencing technologies.

     (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

7. Tracking the relation between gist and item memory over the course of long-term memory consolidation

   This article has 4 authors:

   1. Tima Zeng
   2. Alexa Tompary
   3. Anna C Schapiro
   4. Sharon L Thompson-Schill

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper is of interest to psychologists and neuroscientist investigating systems memory consolidation. It describes an experimental protocol that allows precise, quantitative behavioural measurements to assess the development and interactions of item and gist memory traces over extended time periods. The study design and hypotheses are elegant and bring together ideas from several other fields of cognitive psychology (working memory, category learning). However, additional analyses, and in particular, comparison of some simple computational models, are needed before the conclusions are justified.

     (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 and Reviewer #3 agreed to share their names with the authors.)

   Reviewed by eLife

8. Natural variation in the consequences of gene overexpression and its implications for evolutionary trajectories

   This article has 5 authors:

   1. DeElegant Robinson
   2. Michael Place
   3. James Hose
   4. Adam Jochem
   5. Audrey P Gasch

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This study investigates the effect of copy number variants across all genes in Saccharomyces cerevisiae, and the variation across different genetic backgrounds. Interestingly, apart from universal effects common to most of the genetic backgrounds, the authors also report strain-specific effects related to gene copy number variants.

     (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. Decoding locomotion from population neural activity in moving C. elegans

   This article has 9 authors:

   1. Kelsey M Hallinen
   2. Ross Dempsey
   3. Monika Scholz
   4. Xinwei Yu
   5. Ashley Linder
   6. Francesco Randi
   7. Anuj K Sharma
   8. Joshua W Shaevitz
   9. Andrew M Leifer

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper will be of interest to a wide range of systems neuroscientists seeking to understanding the relationship between neuronal activity and behavior. Building on previous technical advances in brain-wide imaging of neuronal activity (Ca signals) in freely moving animals (Caenorhabditis elegans), it demonstrates that a linear regression model is sufficient reconstruct key parameters of locomotion - velocity and body curvature - from the imaging data and documents differences in activity between freely moving and immobilized worms.

     (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. Cortical magnification in human visual cortex parallels task performance around the visual field

    This article has 5 authors:

    1. Noah C Benson
    2. Eline R Kupers
    3. Antoine Barbot
    4. Marisa Carrasco
    5. Jonathan Winawer

    This article has been curated by 1 group:

    • Curated by eLife

      Evaluation Summary:

      This manuscript is of broad interest to readers in the field of human vision and its cortical topography as well as behavioral and genetic links. The investigation of the neurobiological basis of visual task performance asymmetries represents an important contribution to our understanding of how visual system architecture shapes perception. The key claims of the manuscript are well supported by the data, and the approaches used are thoughtful and rigorous.

      (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. Reviewers #1, #2, and #3 agreed to share their names with the authors.)

    Reviewed by eLife