Evaluated articles

A list by eLife

Articles that have been evaluated by eLife.

8259 articlesLast updated

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  1. Human Erbb2-induced Erk activity robustly stimulates cycling and functional remodeling of rat and human cardiomyocytes

    1. Nicholas Strash
    2. Sophia DeLuca
    3. Geovanni L Janer Carattini
    4. Soon Chul Heo
    5. Ryne Gorsuch
    6. Nenad Bursac

    • Curated by eLife

      Evaluation Summary:

      This paper will be of interest to scientists in the field of regenerative medicine. The authors compare effects of persistent lentiviral expression of various mitogens in cardiomyocytes in vitro. Technically experiments are of a very high standard, but the data are somewhat difficult to translate to the in vivo situation. The statistical analyses would have to be robust and sufficient for the conclusions to be supported by the data.

      (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #3 agreed to share their name with the authors.)

    Reviewed by eLife

    4 evaluationsAppears in 1 listLatest version Latest activity

  2. A low Smc flux avoids collisions and facilitates chromosome organization in Bacillus subtilis

    1. Anna Anchimiuk
    2. Virginia S Lioy
    3. Florian Patrick Bock
    4. Anita Minnen
    5. Frederic Boccard
    6. Stephan Gruber

    • Curated by eLife

      Evaluation Summary:

      This manuscript presents some intriguing data to support the notion that B. subtilis cells have tuned a variety of parameters related to SMC loading and translocation to ensure that individual complexes do not collide. This is likely an important but poorly understood aspect of condensins/SMCs, and as such represents a valuable contribution to the field and should be of interest to a broad set of readers.

      (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

    Reviewed by eLife

    4 evaluationsAppears in 1 listLatest version Latest activity

  3. Ligand sensing enhances bacterial flagellar motor output via stator recruitment

    1. Farha Naaz
    2. Megha Agrawal
    3. Soumyadeep Chakraborty
    4. Mahesh S Tirumkudulu
    5. KV Venkatesh

    • Curated by eLife

      Summary: This is an interesting study reporting an increase in the rotation speed of the E. coli flagellar motor upon the sensing of a non-metabolizable glucose analog (2Dg) by the cell. The authors conclude that this increase is due to an increase in the number of torque-generating stator complexes that drive the motor. Knockout of the trg gene abolished this effect, suggesting that sensing of 2Dg by the Trg chemosensor is responsible. Involvement of membrane potential, the PTS pathway, and the chemotaxis response regulator CheY is ruled out. The manuscript is well-written, and the data are convincing. But the mechanism remains unclear.

      Reviewer #3 opted to reveal their name to the authors in the decision letter after review.

    Reviewed by eLife

    4 evaluationsAppears in 1 listLatest version Latest activity

  4. Widespread premature transcription termination of Arabidopsis thaliana NLR genes by the spen protein FPA

    1. Matthew T Parker
    2. Katarzyna Knop
    3. Vasiliki Zacharaki
    4. Anna V Sherwood
    5. Daniel Tomé
    6. Xuhong Yu
    7. Pascal GP Martin
    8. Jim Beynon
    9. Scott D Michaels
    10. Geoffrey J Barton
    11. Gordon G Simpson

    • Curated by eLife

      Evaluation Summary:

      In this study, the authors examined the function of the RNA-binding protein FPA through analyzing its protein interactome and its global impact on gene expression using a combined approach of Nanopore DRS, Helicos DRS, and short-read Illumina RNA-Seq. The combined datasets and new computational approaches developed by the authors permitted them to identify the predominant role of FPA in promoting poly(A) site choice. The authors further revealed that FPA mediates widespread premature cleavage and polyadenylation of transcripts of NLR genes, important plant immune regulators. Overall, this study suggests that control of transcription termination processes mediated by FPA provides an additional layer of the regulatory dynamics of NLRs in plant immune responses.

      (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 and Reviewer #3 agreed to share their names with the authors.)

    Reviewed by eLife

    5 evaluationsAppears in 2 listsLatest version Latest activity

  7. Predominantly linear summation of metabotropic postsynaptic potentials follows coactivation of neurogliaform interneurons

    1. Attila Ozsvár
    2. Gergely Komlósi
    3. Gáspár Oláh
    4. Judith Baka
    5. Gábor Molnár
    6. Gábor Tamás

    • Curated by eLife

      Evaluation Summary:

      This manuscript provides quantitative information of the integration of GABA-A and GABA-B receptor inhibitory responses in cortical pyramidal neurons induced by a presynaptic GABAergic neuron type called neurogliaform cell (NGFC). Experimental and modeling data suggest that NGFCs converge onto postsynaptic neurons with sublinear summation of ionotropic GABA-A potentials and linear summation of metabotropic GABA-B potentials probably due to a preferential spatial distribution of GABA-B receptor-GIRK clusters on the dendritic spines of postsynaptic neurons. The data represent an attempt to gain insights into the logic of GABA volume transmission within cortical microcircuits.

      (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 and Reviewer #2 agreed to share their names with the authors.)

    Reviewed by eLife

    5 evaluationsAppears in 1 listLatest version Latest activity

  9. An expanding manifold in transmodal regions characterizes adolescent reconfiguration of structural connectome organization

    1. Bo-yong Park
    2. Richard AI Bethlehem
    3. Casey Paquola
    4. Sara Larivière
    5. Raul Rodríguez-Cruces
    6. Reinder Vos de Wael
    7. Neuroscience in Psychiatry Network (NSPN) Consortium
    8. Edward Bullmore
    9. Raymond Dolan
    10. Ian Goodyer
    11. Peter Fonagy
    12. Peter Jones
    13. Michael Moutoussis
    14. Tobias Hauser
    15. Sharon Neufeld
    16. Rafael Romero-Garcia
    17. Michelle St Clair
    18. Petra Vértes
    19. Kirstie Whitaker
    20. Becky Inkster
    21. Gita Prabhu
    22. Cinly Ooi
    23. Umar Toseeb
    24. Barry Widmer
    25. Junaid Bhatti
    26. Laura Villis
    27. Ayesha Alrumaithi
    28. Sarah Birt
    29. Aislinn Bowler
    30. Kalia Cleridou
    31. Hina Dadabhoy
    32. Emma Davies
    33. Ashlyn Firkins
    34. Sian Granville
    35. Elizabeth Harding
    36. Alexandra Hopkins
    37. Daniel Isaacs
    38. Janchai King
    39. Danae Kokorikou
    40. Christina Maurice
    41. Cleo McIntosh
    42. Jessica Memarzia
    43. Harriet Mills
    44. Ciara O’Donnell
    45. Sara Pantaleone
    46. Jenny Scott
    47. Beatrice Kiddle
    48. Ela Polek
    49. Pasco Fearon
    50. John Suckling
    51. Anne-Laura van Harmelen
    52. Rogier Kievit
    53. Sam Chamberlain
    54. Edward T Bullmore
    55. Boris C Bernhardt

    • Curated by eLife

      Summary: This manuscript describes a longitudinal study of the adolescent structural connectome. Park et al. report on an analysis of existing semi-longitudinal NSPN 2400 data to learn how the projections of high-dimensional structural connectivity patterns onto a three dimensional subspace change with age during adolescence. They employ a non-linear manifold learning algorithm (diffusion embedding), thereby linking the maturation of global structural connectivity patterns to an emerging approach in understanding brain organization through spatial gradient representations. The authors find strong effects of expansion of structural connectomes in transmodal brain regions during adolescence. They also report findings centered on the caudate and thalamus, and supplement the structural connectivity analyses with transcriptome association analyses revealing genes enriched in specific brain regions. Finally, intelligence measures are predicted from baseline structural measures.

      This is an interesting and comprehensive set of analyses on an important topic. Overall, the figures are lovely. The sensitivity analyses are particularly commendable. The paper is well written, the data are fantastic, and the analyses are interesting. Some suggestions and points for clarification (both theoretical and methodological) are below.

      Reviewer #3 opted to reveal their name to the authors in the decision letter after review.

    Reviewed by eLife

    4 evaluationsAppears in 1 listLatest version Latest activity

  10. Adiponectin Preserves Metabolic Fitness During Aging

    1. Na Li
    2. Zhuzhen Zhang
    3. Shangang Zhao
    4. Yi Zhu
    5. Christy M. Gliniak
    6. Lavanya Vishvanath
    7. Yu A. An
    8. May-yun Wang
    9. Yingfeng Deng
    10. Qingzhang Zhu
    11. Toshiharu Onodera
    12. Orhan K Oz
    13. Ruth Gordillo
    14. Rana K. Gupta
    15. Ming Liu
    16. Tamas L. Horvath
    17. Vishwa Deep Dixit
    18. Philipp E. Scherer

    Reviewed by eLife

    1 evaluationAppears in 1 listLatest version Latest activity

  11. Graded spikes differentially signal neurotransmitter input in cerebrospinal fluid contacting neurons of the mouse spinal cord

    1. Emily Johnson
    2. Marilyn Clark
    3. Merve Oncul
    4. Andreea Pantiru
    5. Claudia MacLean
    6. Jim Deuchars
    7. Susan A. Deuchars
    8. Jamie Johnston

    • Curated by eLife

      Summary: The reviewers have found the topic of your study of high interest, with very intriguing findings on the different origins of calcium transients in CSFcNs.

      However, after a careful examination of your work , the reviewers have raised the following major concerns:

      1. To conclude on calcium spikes, the imaging data without electrophysiological calibration leaves too much unknown. A careful electrophysiological examination should reveal how calcium transients of different amplitude correlate with the electrical activity of the cell, calcium spikes and spontaneous PKD2L1 channel openings as described extensively in these cells, is absolutely mandatory to conclude.

      2. The manuscript shows a lack of consideration of the importance of the sensory functions and of the role of channel PKDL1 that are both well-established in CSFcNs in mice and other models. More work is necessary to relate to these critical aspects.

      3. The number of animals for juvenile and adult mice used by the authors should be clearly stated (the manuscript only refers to the total number) but also largely increased for the authors to reach robust conclusions.

      4. Overall, more rigor should be implemented throughout the entire manuscript, with a deep writing improvement and a careful inspection of figure panels (choice and fair / complete representation of the data) and more information on conditions used for experiments (promoter used, concentrations for pharmacological agents, selection of ROIs, ventral versus dorsal CSF-cNs, definition and proportion of silent cells, enrichment in the T and L type calcium channels, etc ... ).

      Reviewer #2 and Reviewer #4 opted to reveal their name to the authors in the decision letter after review.

    Reviewed by eLife

    4 evaluationsAppears in 1 listLatest version Latest activity

  13. A naturalistic environment to study visual cognition in unrestrained monkeys

    1. Georgin Jacob
    2. Harish Katti
    3. Thomas Cherian
    4. Jhilik Das
    5. KA Zhivago
    6. SP Arun

    • Curated by eLife

      Summary: This manuscript describes a new experimental environment for training macaque monkeys to perform behavioral tasks. Using this facility, the authors trained freely moving macaques to perform a visual "same-different" task using operant conditioning, and under voluntary head restraint. The authors demonstrate that they could obtain reliable eye-tracking data and high-performance accuracy from macaques in this facility. They also noted that subordinate macaques can learn to perform basic aspects of the task by observing their dominant conspecifics perform the task in this facility. The authors conclude that this naturalistic environment can facilitate the study of brain activity during natural and controlled behavioral tasks.

      The manuscript is broadly organized along three distinct lines of inquiry. First, the authors describe a customized living space for a small group of macaque monkeys. Second, the authors train two of these monkeys to perform a cognitive task in a purpose-built room of the living enclosure. Third, the authors describe their experience training a third monkey to complete the cognitive task.

    Reviewed by eLife

    4 evaluationsAppears in 1 listLatest version Latest activity

  15. Occurrence of foamy macrophages during the innate response of zebrafish to trypanosome infections

    1. Sem H Jacobs
    2. Eva Dóró
    3. Ffion R Hammond
    4. Mai E Nguyen-Chi
    5. Georges Lutfalla
    6. Geert F Wiegertjes
    7. Maria Forlenza

    • Curated by eLife

      Summary: This study investigates the role of the innate immune response in controlling bloodstream trypanosome infection in the zebrafish infection model recently developed by the authors. The study found that an innate immune response, characterized by controlled inflammatory response was sufficient to control infection in some individuals, while failure to control infection was associated with a strong inflammatory response characterized by expansion of foamy macrophages. The findings highlight the importance of a balanced immune response in controlling bloodstream trypanosome infections that are likely relevant to mammalian infections.

      Reviewer #1 and Reviewer #2 opted to reveal their name to the authors in the decision letter after review.

    Reviewed by eLife

    4 evaluationsAppears in 1 listLatest version Latest activity

  18. Evolution of cytokine production capacity in ancient and modern European populations

    1. Jorge Domínguez-Andrés
    2. Yunus Kuijpers
    3. Olivier B Bakker
    4. Martin Jaeger
    5. Cheng-Jian Xu
    6. Jos WM Van der Meer
    7. Mattias Jakobsson
    8. Jaume Bertranpetit
    9. Leo AB Joosten
    10. Yang Li
    11. Mihai G Netea

    • Curated by eLife

      Evaluation Summary:

      Dominguez-Andrés et al. collect a large amount of immune-related trait association data from a cohort made up of 534 individuals of Western European ancestry. The goal was to track the evolutionary trajectories of cytokine production capacity over time in a number of patients with different exposure to infectious organisms, infectious disease, autoimmune and inflammatory diseases, using the 500 Functional Genomics cohort of the Human Functional Genomics Project. From this analysis it was hypothesized that the Neolithic transition was characterized by strong changes in the adaptive response to pathogens in human biology. Overall, the manuscript is interesting but could be improved by significant enhancements to statistical methodology.

      (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #2 agreed to share their name with the authors.)

    Reviewed by eLife

    4 evaluationsAppears in 1 listLatest version Latest activity

  20. Major genetic discontinuity and novel toxigenic species in Clostridioides difficile taxonomy

    1. Daniel R Knight
    2. Korakrit Imwattana
    3. Brian Kullin
    4. Enzo Guerrero-Araya
    5. Daniel Paredes-Sabja
    6. Xavier Didelot
    7. Kate E Dingle
    8. David W Eyre
    9. César Rodríguez
    10. Thomas V Riley

    • Curated by eLife

      Summary: We appreciate this study and find that the conclusions that reclassify Clostridiodes are largely justified by the data/analysis. The major concern is that the work represents the application of standard approaches to refine species classification, as opposed to either proposing a novel approach to classify species or defining a split that might be more surprising and/or clinically significant (e.g. Kumar et al. Nature Genetics, 2019). Consequently, despite being a useful contribution to the literature we believe it is more suitable for a specialized audience.

      Reviewer #1 opted to reveal their name to the authors in the decision letter after review.

    Reviewed by eLife

    3 evaluationsAppears in 1 listLatest version Latest activity
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