eLife

Latest preprint reviews

1. RAB14-dependent tubulovesicular recycling directs MET to invadopodia promoting TNBC cell invasion

   This article has 6 authors:

   1. Amrita Khamari
   2. Atreyee Guria
   3. Kiran Tak
   4. Rajiv Sharma
   5. Yannis Kalaidzidis
   6. Sunando Datta

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This valuable paper advances understanding of the role of the HGF receptor, MET, in cancer cell invasion by demonstrating HGF-induced coordinated trafficking of MET and metalloprotease MT1-MMP into invadopodia. The results are generally solid, but there are concerns about the cell biology and whether the trafficking mechanism is clinically relevant. It's also unclear whether this is a general mechanism or specific to triple-negative breast cancer cells. The paper will be of interest to cancer cell biologists.

   Reviewed by eLife

2. Bruce suppresses autophagy-regulated caspase activity and wing tissue growth in Drosophila

   This article has 4 authors:

   1. Natsuki Shinoda
   2. Yutaro Hama
   3. Nozomi Hanawa
   4. Masayuki Miura

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This study reports insights into how the caspase Dcp-1, best known for cell death, can also promote tissue growth in Drosophila, extending the authors' earlier work by identifying regulatory factors that shape this non-lethal activity. The valuable findings identify new Dcp-1-interacting proteins Sirt1, Fkbp59, Debcl, Buffy, Atg2, and Atg8a, and help broaden understanding of how growth and death pathways intersect. The evidence is solid, but some conclusions would be strengthened by additional studies, particularly regarding the nature of the cell death observed and the involvement of autophagy.

   Reviewed by eLife

3. Efficient transduction of pancreas tissue slices with genetically encoded calcium integrators

   This article has 9 authors:

   1. Charles S. Lazimi
   2. Austin E. Stis
   3. Julia K. Panzer
   4. Helmut Hiller
   5. Maria L. Beery
   6. Amelia K. Linnemann
   7. Cherie L. Stabler
   8. Clayton E. Mathews
   9. Edward A. Phelps

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This study presents a valuable advance by enabling functional mapping of Ca²⁺ responses in live human pancreatic tissue slices, providing new opportunities to study islet heterogeneity and diabetes-related dysfunction in an intact tissue context. The evidence supporting the main conclusions is solid, based on reproducible methodology and functional validation across multiple human donor samples. Key revisions needed include clearer quantification of transduction efficiency and tissue viability, and improved clarification of how CaMPARI2 signals should be interpreted.

   Reviewed by eLife

4. Rapid evolution of fine-scale recombination during domestication: a perspective from population genomics

   This article has 17 authors:

   1. Zheng-Xi Liu
   2. Ming Li
   3. Xue-Hai Ge
   4. Kun Wang
   5. Si Si
   6. Chang-Rong Ge
   7. Jian-Hai Chen
   8. Li-Rong Hu
   9. Min-Sheng Peng
   10. Ting-Ting Yin
   11. Ali Esmailizadeh
   12. Chang Zhang
   13. Lu-Jiang Qu
   14. Xue-Mei Lu
   15. Jian-Lin Han
   16. Ya-Ping Zhang
   17. Ming-Shan Wang

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This paper addresses valuable questions about the evolution of recombination landscape under domestication by examining recombination maps in domesticated chickens and their wild ancestor. However, despite employing a state-of-the-art deep learning method for recombination map inference, the lack of systematic benchmarking and presence of some unexpected patterns raise concerns about the reliability of the inferred maps, thus providing incomplete support for rapid evolution of recombination landscapes. Additionally, due to methodological limitations in testing for intra-genome correlations between evolutionary processes, the current evidence is inadequate to support the associations of recombination with selection and/or introgression in domesticated chickens.

   Reviewed by eLife

5. Specialisation of meiotic kinetochores revealed through a synthetic SAC strategy

   This article has 3 authors:

   1. Lori B Koch
   2. Christos Spanos
   3. Adele L Marston

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     Koch et al. describe a valuable novel methodology, SynSAC, to synchronise cells to analyse meiosis I or meiosis II or mitotic metaphase in budding yeast. The authors present convincing data to validate abscisic acid-induced dimerisation to induce a synthetic spindle assembly checkpoint (SAC) arrest that will be of particular importance to analyse meiosis II. The authors use their approach to determine the composition and phosphorylation of kinetochores from meiotic metaphase I and metaphase II that will be of interest to the broader meiosis research community.

     [Editors' note: this paper was reviewed by Review Commons.]

   Reviewed by eLife, Review Commons

6. Improved cryo-EM reconstruction of sub-50 kDa complexes using 2D template matching

   This article has 3 authors:

   1. Kexin Zhang
   2. Timothy Grant
   3. Nikolaus Grigorieff

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This important study builds on previous work from the same authors to present a conceptually distinct workflow for cryo-EM reconstruction that uses 2D template matching to enable high-resolution structure determination of small (sub-50 kDa) protein targets. The paper describes how density for small-molecule ligands bound to such targets can be reconstructed without these ligands being present in the template. However, the evidence described for the claim that this technique "significantly" improves the alignment of the reconstruction of small complexes is incomplete. The authors could better evaluate the effects of model bias on the reconstructed densities.

   Reviewed by eLife

7. Reproducibility of Scientific Claims in Drosophila Immunity: A Retrospective Analysis of 400 Publications

   This article has 30 authors:

   1. Hannah Westlake
   2. Fabrice David
   3. Yao Tian
   4. Kenan Krakovic
   5. Asya Dolgikh
   6. Liza Juravlev
   7. Thomas Esmangart de Bournonville
   8. Alexia Carboni
   9. Claudia Melcarne
   10. Tisheng Shan
   11. Yang Wang
   12. Yizhu Mu
   13. Akshata Kotwal
   14. Nadia Pirko
   15. Jean Philippe Boquete
   16. Fanny Schüpfer
   17. Samuel Rommelaere
   18. Mickael Poidevin
   19. Zhonggeng Liu
   20. Shu Kondo
   21. Girish S. Ratnaparkhi
   22. Sveta Chakrabarti
   23. Guiqing Liu
   24. Florent Masson
   25. Li Xiaoxue
   26. Mark A. Hanson
   27. Haobo Jiang
   28. Francesca Di Cara
   29. Estee Kurant
   30. Bruno Lemaitre

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This fundamental study is part of an impressive, large-scale effort to assess the reproducibility of published findings in the field of Drosophila immunity. In a companion article, the authors analyze 400 papers published between 1959 and 2011, and assess how many of the claims in these papers have been tested in subsequent publications. In this article, the authors report the results of validation experiments to assess a subset of the claims that, according to the literature, have not been corroborated. While the evidence reported for some of these validation studies is convincing, it remains incomplete for others.

   Reviewed by eLife

8. Distinct goal location beta frequency dynamics in hippocampus and prefrontal cortex across learning

   This article has 4 authors:

   1. Glingna Wang
   2. Nan Zhou
   3. Zachary M Leveroni
   4. Jai Y Yu

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This paper represents a valuable contribution to our understanding of how LFP oscillations and beta band coordination between the hippocampus and prefrontal cortex of rats may relate to learning. Enthusiasm for the reported results was moderated by the concern that some key analyses need to be done, and highly relevant details about task, data, and statistics were missing. Consequently, the reviewers considered the evidence to be incomplete in this version of the manuscript.

   Reviewed by eLife

9. Dual-feature selectivity enables bidirectional coding in visual cortical neurons

   This article has 19 authors:

   1. Katrin Franke
   2. Nikos Karantzas
   3. Konstantin Willeke
   4. Maria Diamantaki
   5. Kandan Ramakrishnan
   6. Hasan Atakan Bedel
   7. Pavithra Elumalai
   8. Kelli Restivo
   9. Paul Fahey
   10. Cate Nealley
   11. Tori Shinn
   12. Gabrielle Garcia
   13. Saumil Patel
   14. Alexander Ecker
   15. Edgar Y Walker
   16. Emmanouil Froudarakis
   17. Sophia Sanborn
   18. Fabian H Sinz
   19. Andreas Tolias

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     The authors combine a modeling approach, using a digital twin, with electrophysiological evidence in two species to assess the role of inhibition in shaping selectivity in the visual cortex. The results provide an important advance beyond the classic view of sensory coding by proving compelling evidence that many neurons in visual areas exhibit dual-feature selectivity. Overall, the work exceptionally showcases how in silico experiments can generate concrete hypotheses about neuronal coding that are difficult to discover experimentally.

   Reviewed by eLife

10. A novel high-throughput single-cell DNA sequencing method reveals hidden genomic heterogeneity in the unicellular eukaryote Leishmania

    This article has 4 authors:

    1. Gabriel H Negreira
    2. Pieter Monsieurs
    3. Jean-Claude Dujardin
    4. Malgorzata A Domagalska

    This article has been curated by 1 group:

    • Curated by eLife

      eLife Assessment

      This important study, which tackles the challenge of analyzing genome integrity and instability in unicellular pathogens by introducing a novel single-cell genomics approach, presents compelling evidence that this new tool outperforms standard whole-genome amplification techniques. While thorough and rigorous, the work's impact would increase by providing scripts and data, as well as a description of the biological relevance that would make this method more appealing to the broad community studying genetic heterogeneity in diverse organisms.

    Reviewed by eLife