eLife

Latest preprint reviews

1. Disparity in temporal and spatial relationships between resting-state electrophysiological and fMRI signals

   This article has 3 authors:

   1. Wenyu Tu
   2. Samuel R Cramer
   3. Nanyin Zhang

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This important study combines fMRI and electrophysiology in sedated and awake rats to show that LFPs strongly explain spatial correlations in resting-state fMRI but only weakly explain temporal variability. The authors propose that other, electrophysiology-invisible mechanisms contribute to the fMRI signal. The evidence supporting the separation of spatial and temporal correlations is convincing, and the authors consider alternative potential factors that could account for the differences in spatial and temporal correlation that were observed. This work will be of interest to researchers who study the mechanisms behind resting-state fMRI.

   Reviewed by eLife

2. Trade-offs in modeling context dependency in complex trait genetics

   This article has 4 authors:

   1. Eric Weine
   2. Samuel Pattillo Smith
   3. Rebecca Kathryn Knowlton
   4. Arbel Harpak

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     It is known from model organisms that genes' effects on traits are often modulated by environmental variables, but similar gene-by-environment (GxE) interactions have been difficult to detect using statistical analyses of genomic data, e.g., in humans. This study introduces a new framework to estimate gene-by-environment effects, treating it as a bias-variance tradeoff problem. The authors convincingly show that greater statistical power can be achieved in detecting GxE if an underlying model of polygenic GxE is assumed. This polygenic amplification model is a truly novel view with fundamental promise for the detection of GxE in genomic datasets, especially with continued development to detect more complex signals of amplification.

   Reviewed by eLife

3. Thymic self-recognition-mediated TCR signal strength modulates antigen- specific CD8+ T cell pathogenicity in non-obese diabetic mice

   This article has 5 authors:

   1. Chia-Lo Ho
   2. Li-Tzu Yeh
   3. Yu-Wen Liu
   4. Jia-Ling Dong
   5. Huey-Kang Sytwu

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This valuable study addresses T cell receptor activation during autoreactive T cell development and how the strength of T cell receptor engagement in naïve cells can predispose T cells to develop into effector/memory T cells. The authors lead with solid results that are largely consistent with data in the field suggesting that, in comparison to their counterparts with relatively lower basal self-reactivity, naive CD5hi CD8 T cells in non-obese diabetic (NOD) mice are poised for activation. They propose that diabetogenic T cells are preferentially found among the naive CD5hi CD8 T cell population. While the evidence does not fully support all the authors' conclusions, the data provide a foundation that sets up future studies.

   Reviewed by eLife

4. Single-nucleus transcriptomics reveal the cytological mechanism of conjugated linoleic acids in regulating intramuscular fat deposition

   This article has 6 authors:

   1. Liyi Wang
   2. Shiqi Liu
   3. Shu Zhang
   4. Yizhen Wang
   5. Yanbing Zhou
   6. Tizhong Shan

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This study provides valuable information on the single nucleus RNA sequencing transcriptome, pathways, and cell types in pig skeletal muscle in response to conjugated linoleic acid (CLA) supplementation. Based on the comprehensive data analyses, the data are considered compelling and provide new insight into the mechanisms underlying intramuscular fat deposition and muscle fiber remodeling. The study contributes significantly to the understanding of nutritional strategies for fat infiltration in pig muscle.

   Reviewed by eLife

5. Structural and dynamic impacts of single-atom disruptions to guide RNA interactions within the recognition lobe of Geobacillus stearothermophilus Cas9

   This article has 9 authors:

   1. Helen B Belato
   2. Alexa L Knight
   3. Alexandra M D'Ordine
   4. Chinmai Pindi
   5. Zhiqiang Fan
   6. Jinping Luo
   7. Giulia Palermo
   8. Gerwald Jogl
   9. George P Lisi

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This study offers valuable insights into the conformational dynamics of the nucleic acid recognition lobe of GeoCas9, a thermophilic Cas9 from Geobacillus stearothermophilus. The authors investigate the influence of local dynamics and allosteric regulation on guide RNA binding affinity and DNA cleavage specificity through molecular dynamics simulations, advanced NMR techniques, RNA binding studies, and mutagenesis. While the mutations studied do not lead to significant changes in GeoCas9 cleavage activity, the study provides convincing evidence for the role of allosteric mechanisms and interdomain communication in Cas9 enzymes, and will be of great interest to biochemists and biophysicists exploring these complex systems.

   Reviewed by eLife

6. Major nuclear locales define nuclear genome organization and function beyond A and B compartments

   This article has 13 authors:

   1. Omid Gholamalamdari
   2. Tom van Schaik
   3. Yuchuan Wang
   4. Pradeep Kumar
   5. Liguo Zhang
   6. Yang Zhang
   7. Gabriela A Hernandez Gonzalez
   8. Athanasios E Vouzas
   9. Peiyao A Zhao
   10. David M Gilbert
   11. Jian Ma
   12. Bas van Steensel
   13. Andrew S Belmont

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     In this valuable study, the authors integrate several datasets to describe how the genome interacts with nuclear bodies across distinct cell types and in Lamin A and LBR knockout cells. They provide convincing evidence to support their claims and particularly find that specific genomic regions segregate relative to the equatorial plane of the cell when considering their interaction with various nuclear bodies.

   Reviewed by eLife

7. Increased inflammatory signature in myeloid cells of non-small cell lung cancer patients with high clonal hematopoiesis burden

   This article has 7 authors:

   1. Hyungtai Sim
   2. Hyun Jung Park
   3. Geun-Ho Park
   4. Yeon Jeong Kim
   5. Woong-Yang Park
   6. Se-Hoon Lee
   7. Murim Choi

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This valuable article represents a significant body of work that addresses some novel aspects of the biology of lung cancer, the overall influence of CHIP and its impacts on responses to therapy. While a high clonal hematopoiesis (CHIP) burden was previously linked with an inflammatory phenotype in other disease settings, the authors demonstrate with solid evidence that this is also true for lung cancer. CHIP is complex and more data will be required to substantiate more evidence with regard perhaps to specific mutations in certain situations and how this might influence therapy choices.

   Reviewed by eLife

8. Dysfunctional S1P/S1PR1 signaling in the dentate gyrus drives vulnerability of chronic pain-related memory impairment

   This article has 15 authors:

   1. Mengqiao Cui
   2. Xiaoyuan Pan
   3. Zhijie Fan
   4. Shulin Wu
   5. Ran Ji
   6. Xianlei Wang
   7. Xiangxi Kong
   8. Zhou Wu
   9. Lingzhen Song
   10. Weiyi Song
   11. Jun-Xia Yang
   12. Hongjie Zhang
   13. Hongxing Zhang
   14. Hai-Lei Ding
   15. Jun-Li Cao

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This study investigates the molecular mechanisms underlying chronic pain-related memory impairment by focusing on S1P/S1PR1 signaling in the dentate gyrus (DG) of the hippocampus. Through behavioral tests (Y-maze and Morris water maze) and RNA-seq analysis, the researchers discovered that S1P/S1PR1 signaling is crucial for determining susceptibility to memory impairment, with decreased S1PR1 expression linked to structural plasticity changes and memory deficits. This work has important significance and a convincing level of evidence, thus offering new insights into the mechanisms underlying chronic pain-related memory impairment.

   Reviewed by eLife

9. TRPγ regulates lipid metabolism through Dh44 neuroendocrine cells

   This article has 3 authors:

   1. Dharmendra Kumar Nath
   2. Subash Dhakal
   3. Youngseok Lee

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     This important study reports findings that Trpγ, a type of transient receptor potential (TRP) channel expressed in Dh44-releasing neuroendocrine cells, mediates starvation-dependent lipid catabolism. Overall, the claims of the authors are supported by solid evidence. The work should be of interest to both basic and medical biologists working on lipid metabolism.

   Reviewed by eLife

10. Cortical tracking of hierarchical rhythms orchestrates the multisensory processing of biological motion

    This article has 5 authors:

    1. Li Shen
    2. Shuo Li
    3. Yuhao Tian
    4. Ying Wang
    5. Yi Jiang

    This article has been curated by 1 group:

    • Curated by eLife

      eLife Assessment

      Wang et al. presented visual (dot) motion and/or the sound of a walking person and found solid evidence that EEG activity tracks the step rhythm, as well as the gait (2-step cycle) rhythm, with some demonstration that the gait rhythm is tracked superadditively (power for A+V condition is higher than the sum of the A-only and V-only condition). The valuable findings will be of wide interest to those examining biological motion perception and oscillatory processes more broadly.

    Reviewed by eLife