eLife

Latest preprint reviews

1. End-to-end proteogenomics for discovery of cryptic and non-canonical cancer proteoforms using long-read transcriptomics and multi-dimensional proteomics

   This article has 8 authors:

   1. Katarzyna Kulej
   2. Asher Preska Steinberg
   3. Jinxin Zhang
   4. Gabriella Casalena
   5. Eli Havasov
   6. Sohrab P. Shah
   7. Andrew McPherson
   8. Alex Kentsis

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This manuscript describes a useful integrated proteogenomics pipeline to enable the discovery of novel peptides in cancer cell lines. The method combines long-read RNA sequencing with a multi-protease digestion and proteomics approach. The method is a further development of the authors' previous approaches to identify cancer-specific peptides; however, the current study focuses on a single cell line, and the characterization remains incomplete and lacks validation for candidate alterations. The manuscript will be of interest to scientists focusing on identifying unique alterations in cancer cells.

   Reviewed by eLife

2. Endothelial TLR4 signaling drives tissue inflammation, Claudin-5 internalization, and vascular barrier breakdown in a mouse model of neonatal meningitis

   This article has 4 authors:

   1. Philip V. Seegren
   2. Amir Rattner
   3. Philip M. Smallwood
   4. Jeremy Nathans

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This study demonstrates that endothelial toll-like receptor 4 is a central regulator of leptomeningeal inflammation in the context of neonatal E. coli meningitis. The data are derived from cell type-specific gene knockout in mice as well as from cultured endothelial cells, and are generally solid, with only minor weaknesses in analysis and interpretation. This work is important as it advances our understanding of host cellular processes and molecular pathways underlying meningitis pathogenesis.

   Reviewed by eLife

3. A mediterranean-mimicking diet harnesses gut microbiota–derived 3-IAA to rejuvenate T cell

   This article has 9 authors:

   1. Xin Yu
   2. Wenge Li
   3. Hongfang Feng
   4. Zhiyu Li
   5. Hongmei Zheng
   6. Shengrong Sun
   7. Juanjuan Li
   8. Bei Li
   9. Qi Wu

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This fundamental study advances our understanding of how dietary patterns shape cancer immunity by identifying a link between a Mediterranean-mimicking diet, gut bacteria, and a metabolite that enhances anti-tumor immune responses. The evidence supporting the main conclusions is solid, based on carefully controlled diet experiments, measurements of gut-derived molecules, and functional immune analyses across multiple models, together with supportive observations in human data. The work will be of broad interest to biologists working on microbiota and cancer. However, there are several issues that the authors should address to improve the manuscript.

   Reviewed by eLife

4. TGF-β drives the conversion of conventional NK cells into uterine tissue-resident NK cells to support murine pregnancy

   This article has 4 authors:

   1. Josselyn D. Barahona
   2. Liping Yang
   3. D. Michael Nelson
   4. Wayne M. Yokoyama

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     The importance of uterine natural killer (NK) cells in reproductive success has been demonstrated in mice and humans; however, it is still unclear how uterine NK cells are developed. In this valuable manuscript, the authors provide convincing evidence that TGF-b signaling in NK cells supports normal pregnancy in mice by the conversion of conventional NK cells into uterine tissue-resident NK cells. There are some concerns about the paper, particularly around Figures 1A, 1C, and 2E.

   Reviewed by eLife

5. Depletion of rRNA Methyltranferase METTL5 Enhances Anti-Tumor Immune Response via Neoantigen Generated from Cryptic Translation

   This article has 8 authors:

   1. Yangyi Zhang
   2. Xiaoyan Shi
   3. Yuci Wang
   4. Ruiqi Wang
   5. Folan Lin
   6. Yanlan Cao
   7. Wanqiu Li
   8. Hao Chen

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This study presents a valuable finding that depletion of the rRNA methyltransferase METTL5 enhances anti-tumor immunity through a novel mechanism involving neoantigen generation from non-canonical translation. The evidence supporting the central conclusions is solid, with comprehensive multi-omics data including ribosome profiling, immunopeptidomics, TCR sequencing, and multiple in vivo tumor models demonstrating synergy with immune checkpoint blockade.

   Reviewed by eLife

6. Sexual dimorphism in sensorimotor transformation of optic flow

   This article has 7 authors:

   1. Sarah Nicholas
   2. Katja Sporar Klinge
   3. Luke Turnbull
   4. Annabel Moran
   5. Aika Young
   6. Yuri Ogawa
   7. Karin Nordström

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     Hoverflies are known for their sexually dimorphic visual systems and exquisite flight behaviors. This valuable study reports how two types of visual descending neurons differ between males and females in their motion- and speed-dependent responses, yet surprisingly, the behavior they control lacks any sexual dimorphism. The results convincingly support these findings, which will be of interest for studies of visuomotor transformations and network-level brain organization.

   Reviewed by eLife

7. Trehalose metabolism regulates transcriptional control of muscle development in lepidopteran insects

   This article has 6 authors:

   1. Sharada Mohite
   2. Tanaji Devkate
   3. Prashant Kalaskar
   4. Prashant Singh
   5. Abhishek Subramanian
   6. Rakesh Shamsunder Joshi

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This useful study examines whether the sugar trehalose, coordinates energy supply with the gene programs that build muscle in the cotton bollworm (Helicoverpa armigera). The evidence for this currently is incomplete. The central claim - that trehalose specifically regulates an E2F/Dp-driven myogenic program - is not supported by the specificity of the data: perturbations and sequencing are systemic, alternative explanations such as general energy or amino-acid scarcity remain plausible, and mechanistic anchors are also limited. The work will interest researchers in insect metabolism and development; focused, tissue-resolved measurements together with stronger mechanistic controls would substantially strengthen the conclusions.

   Reviewed by eLife

8. Tunable Bessel beam two-photon fluorescence microscopy for high-speed volumetric imaging of brain dynamics

   This article has 9 authors:

   1. Mengyang Jacky Li
   2. Jinghui Wang
   3. Mikolaj Walczak
   4. Yuqing Qiu
   5. Colleen Russell
   6. Miroslaw Janowski
   7. Piotr Walczak
   8. Yajie Liang
   9. Tian-Ming Fu

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This important study substantially advances the imaging toolbox available to neuroscientists by presenting a tunable Bessel (tBessel-TPFM) platform that enables high-speed volumetric two-photon imaging. The evidence supporting the novel methodology is convincing, with rigorous benchmarking and demonstrations of a wide range of neuroimaging applications covering vascular dynamics, neurovascular coupling, optogenetic perturbation, and microglial responses. The work will be of broad interest to neuroscientists and imaging system tool developers.

   Reviewed by eLife

9. Gait transition mechanism from quadrupedal to bipedal locomotion in the Japanese macaque based on inverted pendulum

   This article has 11 authors:

   1. Koki Nishizaki
   2. Mau Adachi
   3. Yuichi Ambe
   4. Yushi Tsuruse
   5. Ryo Iba
   6. Hiroko Oshima
   7. Takashi Suzuki
   8. Yasuo Higurashi
   9. Kei Mochizuki
   10. Katsumi Nakajima
   11. Shinya Aoi

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This is an important study that advances our understanding of the transition from quadrupedal to bipedal gait in a neuromechanical model of the Japanese macaque. The method and results are solid; the neuromusculoskeletal model successfully reproduces experimental data, and the stability analysis based on an inverted pendulum model effectively explains the effects of different transition strategies. However, the study would benefit from a more comprehensive sensitivity analysis. The findings are highly relevant for researchers in motor control, comparative physiology/biomechanics, and robotics.

   Reviewed by eLife

10. Divergent spatial codes in retrosplenial cortex and hippocampus support multi-scale representation of complex environments

    This article has 5 authors:

    1. Célia Laurent
    2. Nada El Mahmoudi
    3. David M Smith
    4. Francesca Sargolini
    5. Pierre-Yves Jacob

    This article has been curated by 1 group:

    • Curated by eLife

      eLife Assessment

      This valuable study reports results showing how different neurons in the dysgranular retrosplenial cortex code spatial orientation. Specifically, the paper reports that some neurons maintain tuning for a single head direction across multi-compartmental environments, while other neurons are tuned to different head directions that reflect the geometry within each compartment. The study was viewed as likely to expand the field's understanding of directional tuning of neurons, but incomplete evidence was provided to support the conclusions.

    Reviewed by eLife