eLife

Latest preprint reviews

1. Inhibitory control of frontal metastability sets the temporal signature of cognition

   This article has 5 authors:

   1. Vincent Fontanier
   2. Matthieu Sarazin
   3. Frederic M Stoll
   4. Bruno Delord
   5. Emmanuel Procyk

   This article has been curated by 1 group:

   • Curated by eLife

     Summary: Both reviewers found this study's findings to be interesting and novel, and they appreciated the integration of intrinsic timescale analysis, coding of behavioral signals, and exploration of mechanisms in a biophysical circuit model. However, they both raised serious concerns about methodological and interpretational aspects of the analyses which would need to be satisfactorily addressed in subsequent review. In consultation, both reviewers were in agreement with all points raised in the other's review. I view the two reviewers' requests and suggestions as appropriate and complementary, and all of them needed response.

     I highlight here two of the major concerns raised by the reviewers (but all raised by the reviewers merit addressing). First is the need for intrinsic timescale analysis to not be confounded by slowly varying changes in firing rate coding task variables (Point 1.2 of Reviewer 2). This is important for interpretation on intrinsic timescale and its correlation with task variable coding as a major result. Second is the interpretation and implementation of Hidden Markov Models to non-simultaneously recorded neurons (Points 6 of Reviewer 1 and 3 of Reviewer 2). Here again the HMM states may be driven by task variable coding which is not corrected for, which could confound interpretation of results as in terms of meta-stable states and its link to the circuit model. Furthermore, HMM analysis of the circuit model does not match its methodology for experimental data, but could be through non-simultaneous model spike trains, which the manuscript does not justify. I will add my own suggestion that perhaps both of these methodological data analysis concerns could potentially be addressed through comparison to the null model of a non-homogeneous Poisson process with firing rate given by the variable-coding PSTH. I do not consider it necessary to study a network model that performs the task, as suggested for consideration by Reviewer 1.

   Reviewed by eLife

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

   This article has 6 authors:

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

   This article has been curated by 1 group:

   • 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

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

   This article has 6 authors:

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

   This article has been curated by 1 group:

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

   This article has 5 authors:

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

   This article has been curated by 1 group:

   • 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

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

   This article has 11 authors:

   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

   This article has been curated by 1 group:

   • 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

6. Glypicans specifically regulate Hedgehog signaling through their interaction with Ihog in cytonemes

   This article has 9 authors:

   1. Eleanor Simon
   2. Carlos Jimenez-Jimenez
   3. Irene Seijo-Barandiaran
   4. Gustavo Aguilar
   5. David Sanchez-Hernandez
   6. Adrian Aguirre-Tamaral
   7. Laura Gonzalez-Mendez
   8. Pedro Ripoll
   9. Isabel Guerrero

   Reviewed by eLife

7. Artistoo, a library to build, share, and explore simulations of cells and tissues in the web browser

   This article has 2 authors:

   1. Inge MN Wortel
   2. Johannes Textor

   Reviewed by eLife

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

   This article has 6 authors:

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

   This article has been curated by 1 group:

   • 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

9. Bacterial diet affects the age-dependent decline of associative learning in Caenorhabditis elegans

   This article has 9 authors:

   1. Satoshi Higurashi
   2. Sachio Tsukada
   3. Binta Maria Aleogho
   4. Joo Hyun Park
   5. Yana Al-Hebri
   6. Masaru Tanaka
   7. Shunji Nakano
   8. Ikue Mori
   9. Kentaro Noma

   Reviewed by eLife

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

    This article has 55 authors:

    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

    This article has been curated by 1 group:

    • 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