eLife

Latest preprint reviews

1. Near infrared radiation-driven oxygenic photosynthesis contributes substantially to primary production in biofilms harboring chlorophyll f-containing cyanobacteria

   This article has 4 authors:

   1. Maria Mosshammer
   2. Erik CL Trampe
   3. Niels-Ulrik Frigaard
   4. Michael Kühl

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This valuable study investigates the contribution of far-red light photo-acclimated cyanobacteria to primary production in intertidal beachrock habitats. Though the study presents solid evidence, the text would benefit from an improved discussion section and some additional methodological details.

   Reviewed by eLife

2. Adipocyte microRNA-802 promotes adipose tissue inflammation and insulin resistance by modulating macrophages in obesity

   This article has 14 authors:

   1. Yue Yang
   2. Bin Huang
   3. Yimeng Qin
   4. Danwei Wang
   5. Yinuo Jin
   6. Linmin Su
   7. Qingxin Wang
   8. Yi Pan
   9. Yanfeng Zhang
   10. Yumeng Shen
   11. Wenjun Hu
   12. Zhengyu Cao
   13. Liang Jin
   14. Fangfang Zhang

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This important study utilizes a comprehensive array of animal and cellular models, alongside various techniques, to elucidate the mechanism by which adipose tissue miR-802 contributes to inflammation and metabolic dysfunction in obesity. The data is solid, with clear, reproducible changes showing low variability among biological replicates and consistency across different models. However, some conclusions should be further substantiated with additional data to enhance the scope and strength of the manuscript.

   Reviewed by eLife

3. Time-resolved proximity proteomics uncovers a membrane tension-sensitive caveolin-1 interactome at the rear of migrating cells

   This article has 4 authors:

   1. Eleanor Martin
   2. Rossana Girardello
   3. Gunnar Dittmar
   4. Alexander Ludwig

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This important study uses convincing time-resolved proximity proteomics, validated with proximity ligation assays, to provide new insight into mechanical regulation of caveolin-1 complexes that form in migrating cells. Solid follow up experiments reveal a reciprocal relationship between mechanosensitive caveolae and RhoGTPase signalling in migrating cells, but evidence supporting a direct link between the newly identified factors with a specific caveolae subpopulation remains incomplete at this stage.

   Reviewed by eLife

4. Integration of overlapping sequences emerges with consolidation through medial prefrontal cortex neural ensembles and hippocampal–cortical connectivity

   This article has 2 authors:

   1. Alexa Tompary
   2. Lila Davachi

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This important study investigates how memory representations are transformed over time (24h period). The work advances our understanding of the neural processes supporting the behavioral integration of memories for distinct events that are never experienced together in time but are linked by shared predictive cues. Evidence supporting the claims is solid, and reporting of additional comparisons would have strengthened the study.

   Reviewed by eLife

5. Genome-wide analysis of Smad and Schnurri transcription factors in C. elegans demonstrates widespread interaction and a function in collagen secretion

   This article has 7 authors:

   1. Mehul Vora
   2. Jonathan Dietz
   3. Zachary Wing
   4. Karen George
   5. Jun Kelly Liu
   6. Christopher Rongo
   7. Cathy Savage-Dunn

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     Modulation of BMP signalling affects body size in the nematode Caenorhabditis elegans, and this paper examines the effects on C. elegans body size brought about by the modulation of BMP signalling. Thw study provides valuable analyses of ChIP-seq and RNA-Seq data to understand the function of SMA-3 (Smad) and SMA-9 (Schnurri) in this model. The authors provide compelling evidence that the BMP-dependent body size effect could be due to defects in cuticle collagen secretion, a finding of interest to those studying organismal growth and epidermal function.

   Reviewed by eLife

6. Artificial intelligence driven tumor risk stratification from single-cell transcriptomics using phenotype algebra

   This article has 17 authors:

   1. Namrata Bhattacharya
   2. Anja Rockstroh
   3. Sanket Suhas Deshpande
   4. Sam Koshy Thomas
   5. Anunay Yadav
   6. Chitrita Goswami
   7. Smriti Chawla
   8. Pierre Solomon
   9. Cynthia Fourgeux
   10. Gaurav Ahuja
   11. Brett Hollier
   12. Himanshu Kumar
   13. Antoine Roquilly
   14. Jeremie Poschmann
   15. Melanie Lehman
   16. Colleen C Nelson
   17. Debarka Sengupta

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This manuscript presents an important contribution to the field of single-cell transcriptomic analysis in cancer by introducing a novel computational framework-SCellBOW-which applies embedding techniques from natural language processing to model phenotypic heterogeneity in tumors. The revised version includes new validation experiments and significant clarifications that provide convincing evidence for the method's utility. The authors have benchmarked SCellBOW across diverse datasets, including glioblastoma, breast, and metastatic prostate cancer, and have demonstrated its superior performance compared to existing state-of-the-art methods.

   Reviewed by eLife

7. Neural basis of cognitive control signals in anterior cingulate cortex during delay discounting

   This article has 8 authors:

   1. Jeremy K Seamans
   2. Shelby White
   3. Mitchell Morningstar
   4. Eldon Emberly
   5. David Linsenbardt
   6. Baofeng Ma
   7. Cristine L Czachowski
   8. Christopher C Lapish

   Reviewed by eLife

8. Systems genomics of salinity stress response in rice

   This article has 13 authors:

   1. Sonal Gupta
   2. Simon Niels Groen
   3. Maricris L Zaidem
   4. Andres Godwin C Sajise
   5. Irina Calic
   6. Mignon Natividad
   7. Kenneth McNally
   8. Georgina V Vergara
   9. Rahul Satija
   10. Steven J Franks
   11. Rakesh K Singh
   12. Zoé Joly-Lopez
   13. Michael D Purugganan

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     Working with a diverse panel of rice accessions grown in field conditions, this valuable study measures changes in transcript abundance, tests for patterns of selection on gene expression, and maps the genetic basic of variation in gene expression in normal and elevated salinity treatments. The manuscript provides solid evidence that mean gene expression levels are further from the optimum abundance for more genes under the elevated salinity treatment compared to normal treatment, and that a relatively small number of genes are hotspots that harbor genetic variants which affect broader genome-wide patterns of natural variation in gene expression under high salinity conditions. However, the design, clarity, and interpretation of several statistical analyses can be improved, some opportunities for integration among datasets and analyses could yet be realized, and genetic manipulation is required to confirm functional involvement of any specific genes in regulatory networks or organismal traits that confer adaptation to higher salinity conditions. The manuscript will be of interest to evolutionary biologists studying the genetics of complex traits and a resource for plant biologists studying mechanisms of abiotic stress tolerance.

   Reviewed by eLife

9. Sarcomere dynamic instability and stochastic heterogeneity drive robust cardiomyocyte contraction

   This article has 6 authors:

   1. Daniel Haertter
   2. Lara Hauke
   3. Til Driehorst
   4. Kengo Nishi
   5. Wolfram-Hubertus Zimmermann
   6. Christoph F Schmidt

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This important study provides a detailed characterization of individual sarcomeres' contractility and of their synchrony in spontaneously beating cardiomyocytes derived from human induced pluripotent stem cells. The combination of high-resolution tracking, statistical analysis and mesoscopic modeling leads to compelling evidence that sarcomeres operate as dynamically unstable units, leading to stochastic heterogeneities in their contraction-elongation cycles depending on substrate stiffness. The work will be relevant to scientists interested in muscle biophysics, nonlinear dynamics and synchronization phenomena in biological systems.

   Reviewed by eLife

10. Nuclear translocation of SIRT4 mediates deacetylation of U2AF2 to modulate renal fibrosis through alternative splicing-mediated upregulation of CCN2

    This article has 9 authors:

    1. Guangyan Yang
    2. Jiaqing Xiang
    3. Xiaoxiao Yang
    4. Xiaomai Liu
    5. Yanchun Li
    6. Lixing Li
    7. Lin Kang
    8. Zhen Liang
    9. Shu Yang

    This article has been curated by 1 group:

    • Curated by eLife

      eLife Assessment

      This study demonstrates a novel role for SIRT4; a mitochondrial deacetylase, shown to translocate into nuclei where it regulates RNA alternative splicing by modulating U2AF2 and the gene expression of CCN2 in tubular cells in response to TGF-β. This fundamental work substantially advances our understanding of kidney fibrosis development and offers a potential therapeutic approach. The evidence supporting the conclusions of a SIRT4-U2AF2-CCN2 axis activated by TGF-β is compelling and adds a new layer of complexity to the pathogenesis of chronic kidney disease.

    Reviewed by eLife