eLife

Latest preprint reviews

1. Mechanical vibration patterns elicit behavioral transitions and habituation in crawling Drosophila larvae

   This article has 7 authors:

   1. Alexander Berne
   2. Tom Zhang
   3. Joseph Shomar
   4. Anggie J Ferrer
   5. Aaron Valdes
   6. Tomoko Ohyama
   7. Mason Klein

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This is a strong manuscript due to its sophisticated behavioral analysis and modeling of behavioral output. The system and results provide a framework for future genetic analysis examining the biological basis of sensory behaviors.

     (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

2. Image3C, a multimodal image-based and label-independent integrative method for single-cell analysis

   This article has 6 authors:

   1. Alice Accorsi
   2. Andrew C Box
   3. Robert Peuß
   4. Christopher Wood
   5. Alejandro Sánchez Alvarado
   6. Nicolas Rohner

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript develops new software tools to analyze and classify single cells with high throughput based on single cell phenotyping using an existing imaging system. The authors show that tissues can be reproducibly decomposed into clusters of cells based on their feature space and that cell composition dynamics can be reliably detected. The main impact is to make single cell phenotyping more tractable, including for samples and organisms for which sequencing-based or fluorescent-labeling-based approaches are not readily available. Applicability was demonstrated in two research model organisms, zebrafish and freshwater snail.

     (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

3. Global organization of neuronal activity only requires unstructured local connectivity

   This article has 11 authors:

   1. David Dahmen
   2. Moritz Layer
   3. Lukas Deutz
   4. Paulina Anna Dąbrowska
   5. Nicole Voges
   6. Michael von Papen
   7. Thomas Brochier
   8. Alexa Riehle
   9. Markus Diesmann
   10. Sonja Grün
   11. Moritz Helias

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper details coordinated work to both measure and model long-range correlations in the primate brain, during either rest or a reach-to-grasp task. The careful analysis shows that these long-range correlations are modulated by behavioral state, and can exist in the absence of common input or long-range anatomical connections. An analytical model is developed that shows how a disordered system with heterogeneous connections can give rise to this kind of long-range correlations, with only short-range direct connections between neurons.

     (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

4. Pak1 kinase controls cell shape through ribonucleoprotein granules

   This article has 2 authors:

   1. Joseph O Magliozzi
   2. James B Moseley

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper is of interest to cell biologists studying the signal transduction regulation of RNP granule assembly and its effects on cell growth. The work provides insight into the novel role of Pak1 kinase in the control of mRNA binding protein Sts5 and determines that Pak1 colocalizes with Processing (P) bodies during starvation and has function in P body dissolution after refeeding. Overall, the data are well presented, and support previous known findings.

     (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

5. Inducible and reversible inhibition of miRNA-mediated gene repression in vivo

   This article has 20 authors:

   1. Gaspare La Rocca
   2. Bryan King
   3. Bing Shui
   4. Xiaoyi Li
   5. Minsi Zhang
   6. Kemal M Akat
   7. Paul Ogrodowski
   8. Chiara Mastroleo
   9. Kevin Chen
   10. Vincenzo Cavalieri
   11. Yilun Ma
   12. Viviana Anelli
   13. Doron Betel
   14. Joana Vidigal
   15. Thomas Tuschl
   16. Gunter Meister
   17. Craig B Thompson
   18. Tullia Lindsten
   19. Kevin Haigis
   20. Andrea Ventura

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     MicroRNAs (miRNAs) control gene expression during development and play crucial roles in disease. Loss-of-function mutations in key pathway components are embryonically lethal. Here, La Rocca et al. establish an elegant mouse model that enables acute and reversible inhibition of miRNA-guided silencing. Analysis of this model has convincingly demonstrated that miRNA activity is dispensable for homeostasis in most adult tissues, with the notable exception of heart and skeletal muscle. This work provides an extremely useful tool for the study of miRNAs in vivo and provides new insights into the roles of miRNAs in adult mammalian tissues. The findings presented will impact many fields given the well-established roles of miRNAs in normal development and diseases.

     (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

6. GIV/Girdin, a non-receptor modulator for Gαi/s, regulates spatiotemporal signaling during sperm capacitation and is required for male fertility

   This article has 10 authors:

   1. Sequoyah Reynoso
   2. Vanessa Castillo
   3. Gajanan Dattatray Katkar
   4. Inmaculada Lopez-Sanchez
   5. Sahar Taheri
   6. Celia Espinoza
   7. Cristina Rohena
   8. Debashis Sahoo
   9. Pascal Gagneux
   10. Pradipta Ghosh

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This work is of interest to the field of reproduction. Prior to fertilization, spermatozoa undergo a series of morphological and biochemical changes to become fertilization competent, driven by a rapid and poorly understood signaling cascade, culminating in the acrosome reaction. This latter reaction releases to the outside components from a vesicle, the acrosome, in the spermatozoan head and transforms the head plasma membrane so that sperm can fuse with the egg. The work shows that a G protein modulator GIV/Girdin, influences sperm motility and the acrosome reaction. In so doing it is important for fertilization and is one more strategy to control untimely acrosome reaction. The proposed mechanism is well supported by a variety of different experimental approaches.

     (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

7. 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

8. 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

9. 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

10. 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