eLife

Latest preprint reviews

1. A genome-wide CRISPR/Cas9 screen identifies calreticulin as a selective repressor of ATF6α

   This article has 6 authors:

   1. Joanne Tung
   2. Lei Huang
   3. Ginto George
   4. Heather P Harding
   5. David Ron
   6. Adriana Ordonez

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     In this important study, the authors explore ER stress signaling mediated by ATF6 using a genome-wide gene depletion screen. They find that the ER chaperone Calreticulin binds and directly represses ATF6, a new and intriguing function for Calreticulin. The evidence presented is convincing, based on CHO genetics and biochemical analysis.

   Reviewed by eLife

2. Probing PAC1 receptor activation across species with an engineered sensor

   This article has 14 authors:

   1. Reto B Cola
   2. Salome N Niethammer
   3. Preethi Rajamannar
   4. Andrea Gresch
   5. Musadiq A Bhat
   6. Kevin Assoumou
   7. Elyse T Williams
   8. Patrick Hauck
   9. Nina Hartrampf
   10. Dietmar Benke
   11. Miriam Stoeber
   12. Gil Levkowitz
   13. Sarah Melzer
   14. Tommaso Patriarchi

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This fundamental paper reports a new biosensor to study G protein-coupled receptor activation by the pituitary adenylyl cyclase-activating polypeptide (PACAP) in cell culture, ex vivo (mouse brain slices), and in vivo (zebrafish, mouse). Convincing data are presented that show the new sensor works with high affinity in vitro, while requiring very high (non-physiological) concentrations of exogenous PACAP when applied to intact tissues. The sensor has not yet been used to detect endogenously released PACAP, raising questions about whether the sensor can be used for its intended purpose. While further work must be pursued to achieve broad in vivo applications under physiological conditions, the new tool will be of interest to cell biologists, especially those studying the large and significant GPCR family.

   Reviewed by eLife

3. Visualization of endogenous G proteins on endosomes and other organelles

   This article has 5 authors:

   1. Wonjo Jang
   2. Kanishka Senarath
   3. Gavin Feinberg
   4. Sumin Lu
   5. Nevin A Lambert

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This important study investigates the intracellular localization patterns of G proteins involved in GPCR signaling, presenting compelling evidence for their preference for plasma and lysosomal membranes over endosomal, endoplasmic reticulum, and Golgi membranes. This discovery has significant implications for understanding GPCR action and signaling from intracellular locations. This research will interest cell biologists studying protein trafficking and pharmacologists exploring localized signaling phenomena.

   Reviewed by eLife

4. Characterisation and comparison of semen microbiota and bacterial load in men with infertility, recurrent miscarriage, or proven fertility

   This article has 19 authors:

   1. Shahriar Mowla
   2. Linda Farahani
   3. Tharu Tharakan
   4. Rhianna Davies
   5. Goncalo DS Correia
   6. Yun S Lee
   7. Samit Kundu
   8. Shirin Khanjani
   9. Emad Sindi
   10. Raj Rai
   11. Lesley Regan
   12. Dalia Khalifa
   13. Ralf Henkel
   14. Suks Minhas
   15. Waljit S Dhillo
   16. Jara Ben Nagi
   17. Phillip Bennett
   18. David A MacIntyre
   19. Channa N Jayasena

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This valuable study reports a potential connection between the seminal microbiome and sperm quality/male fertility. The data are generally convincing. This study will be of interest to clinicians and biomedical researchers who work on microbiome and male fertility.

   Reviewed by eLife

5. Novel 3D Approach to Model Non-Alcoholic Fatty Liver Disease using human Pluripotent Stem Cells

   This article has 18 authors:

   1. Carola Maria Morell
   2. Samantha Grace Tilson
   3. Rute Alexandra Tomaz
   4. Arash Shahsavari
   5. Andi Munteanu
   6. Giovanni Canu
   7. Brandon Tyler Wesley
   8. Marion Perrin
   9. Imbisaat Geti
   10. Subhankar Mukhopadhyay
   11. Francesca Mazzacuva
   12. Paul Gissen
   13. Jose Garcia-Bernardo
   14. Martin Bachman
   15. Casey Allison Rimland
   16. Fotios Sampaziotis
   17. Irina Mohorianu
   18. Ludovic Vallier

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     The authors present an important study of a multi-cellular platform involving co-culturing of various hiPSC-derived hepatocyte like cells, cholangiocytes, stellate cells and macrophages to mimic the liver microenvironment. The aggregates are then treated with fatty acids and examined through transcriptomic and functional assays. The techniques and methodologically are sound, and the evidence supporting the conclusion is convincing, although more clinically relevant data demonstrating the effect of some potential pharmacological agents on the platform would serve to strengthen the study.

   Reviewed by eLife

6. Transcription factor condensates, 3D clustering, and gene expression enhancement of the MET regulon

   This article has 7 authors:

   1. James Lee
   2. Leman Simpson
   3. Yi Li
   4. Samuel Becker
   5. Fan Zou
   6. Xin Zhang
   7. Lu Bai

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This important study investigates the relationship between transcription factor condensate formation, transcription, and 3D gene clustering of the MET regulon in the model organism S. cerevisiae. The authors provide solid experimental evidence that transcription factor condensates enhance transcription of MET-regulated genes, but evidence for the role of Met4 IDRs and Met4-containing condensates in mediating target gene clustering in the MET regulon is not as strong. This paper will be of interest to molecular biologists working on chromatin and transcription, although its impact would be strengthened by further investigation.

   Reviewed by eLife

7. The title and authors for this article are not available from our external data provider yet:
   10.48550/arxiv.2202.13658v4

8. Expression of most retrotransposons in human blood correlates with biological aging

   This article has 8 authors:

   1. Yi-Ting Tsai
   2. Nogayhan Seymen
   3. I Richard Thompson
   4. Xinchen Zou
   5. Warisha Mumtaz
   6. Sila Gerlevik
   7. Ghulam J Mufti
   8. Mohammad M Karimi

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     The study by Tsai et al. employed multi-omics approaches, including transcriptomic, methylomic, and single-cell RNA-seq, and provided a solid and comprehensive analysis of the correlation between retrotransposable element (RTE) expression and biological aging in human blood. Their findings highlight the differential roles of RTE families, providing valuable insights for understanding the mechanisms of human aging.

   Reviewed by eLife

9. Deciphering the actin structure-dependent preferential cooperative binding of cofilin

   This article has 6 authors:

   1. Kien Xuan Ngo
   2. Huong T Vu
   3. Kenichi Umeda
   4. Minh-Nhat Trinh
   5. Noriyuki Kodera
   6. Taro Uyeda

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     In this manuscript the authors present high-speed atomic force microscopy (HSAFM) to analyze real-time structural changes in actin filaments induced by cofilin binding. This important study enhances our understanding of actin dynamics which plays a crucial role in a broad spectrum of cellular activities based on solid experimental evidence. Some technical questions, however, remain, making the data interpretation incomplete.

   Reviewed by eLife

10. Feature sequence-based genome mining uncovers the hidden diversity of bacterial siderophore pathways

    This article has 14 authors:

    1. Shaohua Gu
    2. Yuanzhe Shao
    3. Karoline Rehm
    4. Laurent Bigler
    5. Di Zhang
    6. Ruolin He
    7. Ruichen Xu
    8. Jiqi Shao
    9. Alexandre Jousset
    10. Ville-Petri Friman
    11. Xiaoying Bian
    12. Zhong Wei
    13. Rolf Kümmerli
    14. Zhiyuan Li

    This article has been curated by 1 group:

    • Curated by eLife

      eLife assessment

      This important study presents a novel pipeline for the large-scale genomic prediction of members of the non-ribosomal peptide group of pyoverdines based on a dataset from nearly 2000 Pseudomonas genomes. The advance presented in this study is based on convincing evidence. This study of bacterial siderophores has broad theoretical and practical implications beyond a singular subfield.

    Reviewed by eLife