Showing page 26 of 333 pages of list content

  1. Reported transgenerational responses to Pseudomonas aeruginosa in C. elegans are not robust

    This article has 3 authors:
    1. D. Patrick Gainey
    2. Andrey V. Shubin
    3. Craig P. Hunter
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study reports numerous attempts to replicate reports on transgenerational inheritance of a learned behavior, pathogen avoidance, in C. elegans. While the authors observe parental effects that are limited to a single generation (also called intergenerational inheritance), the authors failed to find any evidence for transmission over multiple generations, or transgenerational inheritance. The experiments presented are meticulously described, making for compelling evidence that in the authors' hands transgenerational inheritance cannot be observed, although there remains the possibility that subtle differences in culture conditions or lab environment explain the failure to reproduce previous observations. Given the prominence of the original reports of transgenerational inheritance, the present study is of broad interest to anyone studying genetics, epigenetics, or learned behavior.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  2. Distinct Activation Mechanisms of CXCR4 and ACKR3 Revealed by Single-Molecule Analysis of their Conformational Landscapes

    This article has 5 authors:
    1. Christopher T Schafer
    2. Raymond F Pauszek
    3. Martin Gustavsson
    4. Tracy M Handel
    5. David P Millar
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This manuscript describes the characterization of the conformational dynamics of two chemokine receptors at the single-molecule level using FRET. The authors make a convincing case for attributing the distinct interaction and pharmacology of the two receptors to differences in their conformational energy landscape. These important findings will be of interest to scientists working on activation mechanisms of GPCRs and signal transduction.

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    This article has 5 evaluationsAppears in 2 listsLatest version Latest activity
  3. Bam complex associated proteins in Escherichia coli are functionally linked to peptidoglycan biosynthesis, membrane fluidity and DNA replication

    This article has 16 authors:
    1. Jack A Bryant
    2. Kara A Staunton
    3. Hannah M Doherty
    4. Micheal B Alao
    5. Xuyu Ma
    6. Joanna Morcinek-Orłowska
    7. Emily CA Goodall
    8. Jessica Gray
    9. Mathew Milner
    10. Jeffrey A Cole
    11. Felicity de Cogan
    12. Timothy J Knowles
    13. Monika Glinkowska
    14. Danesh Moradigaravand
    15. Ian R Henderson
    16. Manuel Banzhaf
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This is a useful study that generated a rich inventory of genetic interactions with the potential to produce new insight into the molecular function of Bam-associated proteins. The interactions with genes of unknown function are of special interest as they may suggest experiments to find the functions of these genes. The overall data provided to support their conclusions is solid, but there is a major concern with known polar effects on certain mutations, which should be addressed by complementation.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  4. The paradox of extremely fast evolution driven by genetic drift in multi-copy gene systems

    This article has 10 authors:
    1. Xiaopei Wang
    2. Yongsen Ruan
    3. Lingjie Zhang
    4. Xiangnyu Chen
    5. Zongkun Shi
    6. Haiyu Wang
    7. Bingjie Chen
    8. Miles E Tracy
    9. Chung-I Wu
    10. Haijun Wen
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This study presents a useful theoretical model of molecular evolution and attempts to use it to resolve the paradox of rapid evolution of ribosomal RNA genes. While intuitive, the model's underlying issue is grouping many factors under "variance in reproductive success" without explicitly modeling the molecular processes. This limitation, along with insufficient consideration of technical challenges in alignment and variants calling, provides incomplete support for the authors' claim that the observed paradoxical patterns in rRNA genes can largely be explained by homogenizing processes, such as gene conversion, unequal crossover and replication slippage.

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    This article has 8 evaluationsAppears in 1 listLatest version Latest activity
  5. Structural basis for molecular assembly of fucoxanthin chlorophyll a/c-binding proteins in a diatom photosystem I supercomplex

    This article has 8 authors:
    1. Koji Kato
    2. Yoshiki Nakajima
    3. Jian Xing
    4. Minoru Kumazawa
    5. Haruya Ogawa
    6. Jian-Ren Shen
    7. Kentaro Ifuku
    8. Ryo Nagao
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This important study presents a high-resolution cryoEM structure of the supercomplex between photosystem I (PSI) and fucoxanthin chlorophyll a/c-binding proteins (FCPs) from the model diatom Thalassiosira pseudonana CCMP1335, revealing subunits, protein:protein interactions and pigments not previously seen in other diatoms or red/green photosynthetic lineages. Combining structural, sequence and phylogenetic analyses, the authors provide convincing evidence of conserved motifs crucial for the binding of FCPs, accompanied by interesting speculation about the mechanisms governing the assembly of PSI-FCP supercomplexes in diatoms and their implications for related PSI-LHC supercomplexes in plants. The findings set the stage for functional experiments that will further advance the fields of photosynthesis, bioenergy, ocean biogeochemistry and evolutionary relationships between photosynthetic organisms.

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    This article has 7 evaluationsAppears in 1 listLatest version Latest activity
  6. Spatial integration of sensory input and motor output in Pseudomonas aeruginosa chemotaxis through colocalized distribution

    This article has 6 authors:
    1. Zhengyu Wu
    2. Maojin Tian
    3. Sanyuan Fu
    4. Min Chen
    5. Rongjing Zhang
    6. Junhua Yuan
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This valuable study by Wu et al presents data on bacterial cell organization, with the goal of demonstrating that the two structures that account for bacterial motility - the chemotaxis complex and the flagella - colocalize to the same pole in Pseudomonas aeruginosa cells and expose the regulation underlying their spatial organization and functioning. The subject is of importance and the manuscript is well written. However, the work is incomplete and the conclusions are too strong for the presented data. This manuscript will be of interest to cell biologists, mainly those studying bacteria, but not only, if the evidence is substantiated, the assumptions clarified, and the novelty is made clear during the revision process.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  7. An applicable and efficient retrograde monosynaptic circuit mapping tool for larval zebrafish

    This article has 11 authors:
    1. Tian-Lun Chen
    2. Qiu-Sui Deng
    3. Kun-Zhang Lin
    4. Xiu-Dan Zheng
    5. Xin Wang
    6. Yong-Wei Zhong
    7. Xin-Yu Ning
    8. Ying Li
    9. Fu-Qiang Xu
    10. Jiu-Lin Du
    11. Xu-Fei Du
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study provides substantial technical development for neural circuit tracing in larval zebrafish, a widely used model for systems and developmental neurobiology, and the tool could greatly benefit neural circuit research by enabling a detailed investigation of circuit structure and function in a major model organism. The supporting evidence is solid, although a more detailed description of validation experiments would have increased confidence in the technique's utility. The work will interest zebrafish neurobiologists who are working on identifying novel neuronal connectivity patterns, provided that reagents generated in this study are made widely available; issues such as glial cell labeling, detailed toxicity analysis, and the impact of virus dose on tracing efficiency need further exploration to enhance the findings' applicability and robustness.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  8. sisterless A is required for activation of Sex lethal in the Drosophila germline

    This article has 3 authors:
    1. Raghav Goyal
    2. Ellen Baxter
    3. Mark Van Doren
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This useful study reports that the Drosophila transcription factor sisterless A (sisA) regulates the expression of Sex-lethal (Sxl) in female germ cells. The data supporting claims regarding the genetic requirement of sisA are convincing, but the characterization of the cis-regulatory elements controlling Sxl expression in the female germline is viewed as incomplete. The work will be of significant interest to colleagues studying reproductive biology and sex determination.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  9. Formin-like 1β phosphorylation at S1086 is necessary for secretory polarized traffic of exosomes at the immune synapse in Jurkat T lymphocytes

    This article has 9 authors:
    1. Javier Ruiz-Navarro
    2. Sara Fernández-Hermira
    3. Irene Sanz-Fernández
    4. Pablo Barbeito
    5. Alfonso Navarro-Zapata
    6. Antonio PĂ©rez-MartĂ­nez
    7. Francesc R Garcia-Gonzalo
    8. VĂ­ctor Calvo
    9. Manuel Izquierdo Pastor
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This important study uses the Jurkat T cell model to study the role of Formin-like 1 β phosphorylation at S1086 on actin dynamics and exosome release at the immunological synapse. The evidence supporting these findings is compelling within the framework of the Jurkat model. As the Jurkat model is known to have a bias toward formin-mediated actin filament formation at the expense of Arp2/3-mediated branched F-actin foci observed in primary T cells, it will be beneficial in the future to confirm major findings in primary T cells.

    Reviewed by eLife

    This article has 11 evaluationsAppears in 1 listLatest version Latest activity
  10. Re-focusing visual working memory during expected and unexpected memory tests

    This article has 2 authors:
    1. Sisi Wang
    2. Freek van Ede
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study examined the dynamics of attentional reorientation in working memory by assessing alpha-band lateralization in EEG recordings and saccade bias and provides convincing evidence for a second stage of internal attentional deployment during WM. This work provides novel insights into the dynamic mechanism in WM and will be of broad interest and impact to cognitive neuroscience, including attention and working memory. Performing additional analysis to disentangle the roles of saccade and micro-saccade and to show behavioral relevance would further strengthen the conclusion.

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    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  11. Cone bipolar cell synapses generate transient versus sustained signals in parallel ON pathways of the mouse retina

    This article has 9 authors:
    1. Sidney P Kuo
    2. Wan-Qing Yu
    3. Prerna Srivastava
    4. Haruhisa Okawa
    5. Luca Della Santina
    6. David M Berson
    7. Gautam B Awatramani
    8. Rachel OL Wong
    9. Fred Rieke
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This study shows that retinal bipolar cell subtype-specific differences in the size of synaptic ribbon-associated vesicle pools contribute to the transient versus sustained kinetics of the responses of retinal ganglion cells. The findings are important and the data is extensive and solid, however, there is also the possibility that glutamate release could be modulated by the kinetics of presynaptic inhibition at bipolar cell terminals and this may contribute to mediating the transient and/or sustained kinetics of glutamate release. This work will be of broad interest to researchers working on synaptic transmission, retinal signal processing, and sensory neurobiology.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  12. Brain-wide arousal signals are segregated from movement planning in the superior colliculus

    This article has 2 authors:
    1. Richard Johnston
    2. Matthew A Smith
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This study presents a valuable finding relating to how the state of arousal is represented within the superior colliculus, a principal visuo-oculomotor structure. The main conclusion that the representation of arousal is segregated, and thus does not directly influence motor output, is incompletely supported by the evidence and the work would be improved if additional analyses were performed to rule out alternative explanations. The work will be of interest to sensory, motor, and cognitive neuroscientists.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  13. Bridging verbal coordination and neural dynamics

    This article has 6 authors:
    1. IsaĂŻh Schwab-Mohamed
    2. Manuel R Mercier
    3. Agnès Trébuchon
    4. Benjamin Morillon
    5. Leonardo Lancia
    6. Daniele Schön
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study aims to move beyond current experimental approaches in speech production by (1) investigating speech in the context of a fully interactive task and (2) employing advanced methodology to record intracranial brain activity. Together these allow for examination of the unfolding temporal dynamics of brain-behaviour relationships during interactive speech. While this approach makes the findings highly compelling, the data are currently deemed incomplete in that neural recordings were only analysed from the left hemisphere (due to insufficient clinical electrode implantation in the right), neglecting the contribution of the right hemisphere.

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    This article has 3 evaluationsAppears in 1 listLatest version Latest activity
  14. Accelerated spike-triggered non-negative matrix factorization reveals coordinated ganglion cell subunit mosaics in the primate retina

    This article has 10 authors:
    1. Sören J Zapp
    2. Mohammad H Khani
    3. Helene M Schreyer
    4. Shashwat Sridhar
    5. Varsha Ramakrishna
    6. Steffen KrĂĽppel
    7. Matthias Mietsch
    8. Dario A Protti
    9. Dimokratis Karamanlis
    10. Tim Gollisch
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This paper introduces an efficient approach to identify subunits in the receptive fields of retinal ganglion cells. The general approach has been used in this application previously and this limits the conceptual advance of the paper. The improved speed is valuable, as it allows a more thorough exploration of the control parameters in this analysis and facilitates application to larger populations of cells. Validation of the approach is convincing. The paper would benefit from a more thorough exploration of the method and its limitations, or an extension of the new results about subunit populations.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  15. 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 KĂĽhl
    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.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  16. Adipocyte microRNA-802 promotes adipose tissue inflammation and insulin resistance by modulating macrophages in obesity

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

    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  17. 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

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  18. 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.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  19. Genome-wide analysis of Smad and Schnurri transcription factors in C. elegans demonstrates widespread interaction and a function in collagen secretion

    This article has 6 authors:
    1. Mehul Vora
    2. Jonathan Dietz
    3. Zachary Wing
    4. Jun Liu
    5. Christopher Rongo
    6. Cathy Savage-Dunn
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This study presents valuable findings that will allow for a better understanding of the targets of SMAD and Schnurri, transcription factors that act downstream in the BMP signalling pathway. The evidence presented in this manuscript is solid, but because the claims of a SMA-3/SMA-9 complex are not experimentally supported, they should be toned down. Revising the discussion to give a broader context of BMP-driven body size control would help the readers put this work in a larger context. This work will be of broad interest to colleagues studying BMP signalling across phyla.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  20. Pseudo-grading of tumor subpopulations from single-cell transcriptomic data 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 G 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 valuable study introduces SCellBOW, a novel tool leveraging natural language processing techniques to enhance cell clustering and infer survival risks from single-cell RNA sequencing data. The methodology and results are convincing, demonstrating superior clustering performance and the ability to assign risk scores to cancer cell clusters across multiple datasets. SCellBOW's unique approach promises significant advancements in understanding cancer cell heterogeneity and identifying aggressive cancer cell subgroups.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity