eLife

Latest preprint reviews

1. Single-nuclei characterization of pervasive transcriptional signatures across organs in response to COVID-19

   This article has 11 authors:

   1. The COVID Tissue Atlas Consortium
   2. Alejandro A Granados
   3. Simon Bucher
   4. Hanbing Song
   5. Aditi Agrawal
   6. Ann T Chen
   7. Tien Peng
   8. Norma Neff
   9. Angela Oliveira Pisco
   10. Franklin Huang
   11. Bruce Wang

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This study provides a valuable data resource to study the systemic effects of severe COVID-19. It shows compelling evidence that the transcriptional response to COVID-19 is coordinated across the body, and it highlights cell interactions between macrophages and endothelial cells in COVID-19. This analysis and the associated resource will be valuable to understand the pathogenic mechanism of long-COVID.

   Reviewed by eLife, ScreenIT

2. Kinetics of blood cell differentiation during hematopoiesis revealed by quantitative long-term live imaging

   This article has 4 authors:

   1. Kevin Yueh Lin Ho
   2. Rosalyn Leigh Carr
   3. Alexandra Dmitria Dvoskin
   4. Guy Tanentzapf

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This important study develops a new technical advancement in ex vivo live imaging of hematopoietic tissues to monitor blood cells in their native microenvironment. The new method for live imaging and tracking is compelling, and the strength and breadth of hematopoietic analysis are convincing. This work provides a very useful new system for immunologists and cell biologists, which will supply new perspectives on the system-level mechanisms of cell differentiation and innate immunity.

   Reviewed by eLife

3. ATRAP - Accurate T cell Receptor Antigen Pairing through data-driven filtering of sequencing information from single-cells

   This article has 6 authors:

   1. Helle Rus Povlsen
   2. Amalie Kai Bentzen
   3. Mohammad Kadivar
   4. Leon Eyrich Jessen
   5. Sine Reker Hadrup
   6. Morten Nielsen

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This paper is of interest to immunologists conducting single-cell analyses of T-cell recognition. It provides a means of curating datasets to ensure T cell-antigen pairs are identified. The data generated through this method often suffers from a relatively high background, so the authors present a computational approach to enhance the signal-to-noise of this type of analysis. At this stage, it is unclear if the thresholds and filtering steps described by the authors can be generally applied to other datasets of different qualities than the one used here.

   Reviewed by eLife

4. Optimal cancer evasion in a dynamic immune microenvironment generates diverse post-escape tumor antigenicity profiles

   This article has 2 authors:

   1. Jason T George
   2. Herbert Levine

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This study presents a valuable mathematical model for the adaptive dynamics of cancer evolution in response to immune recognition. The mathematical analysis is rigorous and convincing, and overall the framework presented could be used in the future as a solid base for analytically tracking tumor evasion strategies. However additional discussion is needed to clarify certain gaps between the theory and cancer evolution in real systems. The work will be of interest to evolutionary cancer biologists and potentially it may also have implications for the design of clinical interventions.

   Reviewed by eLife

5. The landscape of m1A modification and its posttranscriptional regulatory functions in primary neurons

   This article has 16 authors:

   1. Chi Zhang
   2. Xianfu Yi
   3. Mengfan Hou
   4. Qingyang Li
   5. Xueying Li
   6. Lu Lu
   7. Enlin Qi
   8. Mingxin Wu
   9. Lin Qi
   10. Huan Jian
   11. Zhangyang Qi
   12. Yigang Lv
   13. Xiaohong Kong
   14. Mingjun Bi
   15. Shiqing Feng
   16. Hengxing Zhou

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This study presents a valuable finding on the critical features and patterns of m1A modification and in neurons and OGD/R-treated neurons. Moreover, the authors identified m1A modifications on different RNAs and explored the possible effects of m1A modification on the functions of different RNAs via an integrated approach of omics and bioinformatics. The evidence supporting the claims of the authors is solid, although inclusion of more in-depth studies to analyze the transcription factors for the upstream regulation would have strengthened the study. The work will be of interest to neurobiologist and scientists in the field of RNAs.

   Reviewed by eLife

6. Glia-neuron coupling via a bipartite sialylation pathway promotes neural transmission and stress tolerance in Drosophila

   This article has 14 authors:

   1. Hilary Scott
   2. Boris Novikov
   3. Berrak Ugur
   4. Brooke Allen
   5. Ilya Mertsalov
   6. Pedro Monagas-Valentin
   7. Melissa Koff
   8. Sarah Baas Robinson
   9. Kazuhiro Aoki
   10. Raisa Veizaj
   11. Dirk J Lefeber
   12. Michael Tiemeyer
   13. Hugo Bellen
   14. Vladislav Panin

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     Scott et al use Drosophila as a model to study the sialylation pathway and its role in nervous system function. Surprisingly, they find that the critical substrate for sialylation, CMP-Neu5Ac, is 'outsourced' to glia. This significant study presents a new twist in mechanisms underlying protein glycosylation and uncovers a new layer in the complex interplay of neurons and glia.

   Reviewed by eLife

7. Interplay between acetylation and ubiquitination of imitation switch chromatin remodeler Isw1 confers multidrug resistance in Cryptococcus neoformans

   This article has 15 authors:

   1. Yang Meng
   2. Zhuoran Li
   3. Tianhang Jiang
   4. Tianshu Sun
   5. Yanjian Li
   6. Xindi Gao
   7. Hailong Li
   8. Chenhao Suo
   9. Chao Li
   10. Sheng Yang
   11. Tian Lan
   12. Guojian Liao
   13. Tong-Bao Liu
   14. Ping Wang
   15. Chen Ding

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This study links chromatin remodeling with antifungal drug resistance in Cryptococcus neoformans. The work is important because it reveals a new facet of how drug resistance can emerge and associates. The work presented is well done but the story is incomplete since there are questions about methods and association that need to be addressed. Establishing a link between chromatin remodeling and antifungal resistance is a finding that would be of interest to infectious disease researchers, cell biologists, and drug developers.

   Reviewed by eLife

8. Roles for mycobacterial DinB2 in frameshift and substitution mutagenesis

   This article has 7 authors:

   1. Pierre Dupuy
   2. Shreya Ghosh
   3. Allison Fay
   4. Oyindamola Adefisayo
   5. Richa Gupta
   6. Stewart Shuman
   7. Michael S Glickman

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This study uses a combination of compelling biochemical and genetic approaches to identify a highly mutagenic DNA polymerase, which drives a wide spectrum of mutations when overexpressed. The important findings advance the understanding of mutagenesis in mycobacteria. The work will be of interest to bacteriologists interested in mutagenesis and the emergence of drug resistance.

   Reviewed by eLife

9. Three-dimensional imaging of vascular development in the mouse epididymis

   This article has 16 authors:

   1. Christelle Damon-Soubeyrand
   2. Antonino Bongiovanni
   3. Areski Chorfa
   4. Chantal Goubely
   5. Nelly Pirot
   6. Luc Pardanaud
   7. Laurence Piboin-Fragner
   8. Caroline Vachias
   9. Stephanie Bravard
   10. Rachel Guiton
   11. Jean-Leon Thomas
   12. Fabrice Saez
   13. Ayhan Kocer
   14. Meryem Tardivel
   15. Joël R Drevet
   16. Joelle Henry-Berger

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     There are many strengths in this paper that examines patterns of epididymal blood and lymphatic vasculature, supported by quantitative methods, and well-conducted 3D imaging studies (graphics and videos). Minor weaknesses include the lack of higher magnification images and the organization of image panels in some figures. Overall, this is a very important contribution to the epididymis research field.

   Reviewed by eLife

10. Limited role of generation time changes in driving the evolution of the mutation spectrum in humans

    This article has 5 authors:

    1. Ziyue Gao
    2. Yulin Zhang
    3. Nathan Cramer
    4. Molly Przeworski
    5. Priya Moorjani

    This article has been curated by 1 group:

    • Curated by eLife

      eLife assessment

      This study, of interest to population geneticists and evolutionary biologists alike, aims at investigating temporal variation in patterns of germline mutation during the evolution of human populations. The authors suggest that shifts in mutation spectra occur frequently, over a few thousands of generations, possibly as a consequence of changes in environmental exposure, or of genetic modifiers. There are several important aspects of methodology that need to be clarified, and several additional tests have to be done to confirm that the reported observations are not the result of methodological artifacts. The paper also overstates certain weaknesses of previously published papers on mutation spectrum evolution as well as the generation time hypothesis; correcting these oversimplifications would more accurately capture what the paper's new analyses add to the state of knowledge in these areas.

    Reviewed by eLife