eLife

Latest preprint reviews

1. Identification of orphan ligand-receptor relationships using a cell-based CRISPRa enrichment screening platform

   This article has 7 authors:

   1. Dirk H Siepe
   2. Lukas T Henneberg
   3. Steven C Wilson
   4. Gaelen T Hess
   5. Michael C Bassik
   6. Kai Zinn
   7. K Christopher Garcia

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript reports the development of a proteo-genomic screening methodology to identify protein-protein interactions between secreted proteins and their cell surface receptors. The authors use a CRISPRa-based approach to overexpress membrane proteins in cells and then use magnetic cell sorting to identify receptors that bind candidate ligands. This approach leads to the identification of several novel interaction pairs that are validated biochemically, including receptor tyrosine phosphatase ligands and other interactions with implications for immune system function. The work is of interest to a wide variety of fields including biochemistry and signaling.

     (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

2. RNA sequence to structure analysis from comprehensive pairwise mutagenesis of multiple self-cleaving ribozymes

   This article has 5 authors:

   1. Jessica M Roberts
   2. James D Beck
   3. Tanner B Pollock
   4. Devin P Bendixsen
   5. Eric J Hayden

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The authors provide a summary of single and double mutants in five self-cleaving ribozymes using next-generation sequencing. They dissect their data in terms of epistasis effects, which provides a new angle to understanding ribozyme function. In principle, this allows conclusions to be drawn on bases involved in pairs and in catalysis that have the potential to be of use to the field, although there is also a series of technical weaknesses that should be addressed.

     (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 name with the authors.)

   Reviewed by eLife

3. The meningeal transcriptional response to traumatic brain injury and aging

   This article has 9 authors:

   1. Ashley C Bolte
   2. Daniel A Shapiro
   3. Arun B Dutta
   4. Wei Feng Ma
   5. Katherine R Bruch
   6. Michael A Kovacs
   7. Ana Royo Marco
   8. Hannah E Ennerfelt
   9. John R Lukens

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Identification of transcriptional phenotypes driven by TBI across meningeal immune cell subsets and the effect of aging on these responses is an important and not well-defined area in the field. Multiple complementary and high-end approaches are taken to demonstrate the long-lasting effects that TBI drives in the brain and support the main findings of the manuscript. This manuscript will be of interest to readers in the field(s) of neuroimmunology, aging, and traumatic brain injury.

     (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. Arginase 1 is a key driver of immune suppression in pancreatic cancer

   This article has 20 authors:

   1. Rosa E Menjivar
   2. Zeribe C Nwosu
   3. Wenting Du
   4. Katelyn L Donahue
   5. Hanna S Hong
   6. Carlos Espinoza
   7. Kristee Brown
   8. Ashley Velez-Delgado
   9. Wei Yan
   10. Fatima Lima
   11. Allison Bischoff
   12. Padma Kadiyala
   13. Daniel Salas-Escabillas
   14. Howard C Crawford
   15. Filip Bednar
   16. Eileen Carpenter
   17. Yaqing Zhang
   18. Christopher J Halbrook
   19. Costas A Lyssiotis
   20. Marina Pasca di Magliano

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Menjivar et al. identify a previously unrecognized role of myeloid cell Arginase1 (Arg1) activity in shaping the anti-tumor immune response in pancreatic ductal adenocarcinoma (PDAC). The proposed therapeutic combination is a new approach for pancreatic cancer, with an enhanced response to immune therapy upon arginase inhibition.

     (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 agreed to share their name with the authors.)

   Reviewed by eLife

5. Bumblebees retrieve only the ordinal ranking of foraging options when comparing memories obtained in distinct settings

   This article has 10 authors:

   1. Cwyn Solvi
   2. Yonghe Zhou
   3. Yunxiao Feng
   4. Yuyi Lu
   5. Mark Roper
   6. Li Sun
   7. Rebecca J Reid
   8. Lars Chittka
   9. Andrew B Barron
   10. Fei Peng

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The authors investigate what type and degree of information (either absolute, relative, or a weighted combination of both) is used by bumblebees when retrieving the value of an item. There is recent evidence in humans and birds that suggests that these organisms use a combination of absolute memories and remembering of subjective ranking in these tasks. The authors conclude that bumblebees indeed use remembered ranking, but that they seem not to be able to retain (or at least utilise) absolute property information for very long. The absence of relevant work in invertebrates would make this study a potentially valuable addition to the scientific literature.

     (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

6. Rabphilin 3A binds the N-peptide of SNAP-25 to promote SNARE complex assembly in exocytosis

   This article has 4 authors:

   1. Tianzhi Li
   2. Qiqi Cheng
   3. Shen Wang
   4. Cong Ma

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Li et al. use biochemical binding analysis to explore the role of Rabphilin 3A in dense-core vesicle exocytosis in neuroendocrine PC12 cells and in an in vitro SNARE assembly assay. They propose that the Rph3A binding to SNAP25 pre-structures the protein to efficiently assemble with Syntaxin and VAMP2, and thus, promoting the vesicle docking and priming process. This work will be of interest to scientists studying the molecular basis of synaptic vesicle release.

     (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

7. Sporulation activated via σ ^W protects Bacillus from a Tse1 peptidoglycan hydrolase T6SS effector

   This article has 4 authors:

   1. Alicia I. Pérez-Lorente
   2. Carlos Molina-Santiago
   3. Antonio de Vicente
   4. Diego Romero

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript will be of interest to readers in the field of microbiology, particularly those interested in bacterial interactions, secretion systems, and stress responses. It identifies the molecules and mechanisms that explain a competitive interaction between two soil-dwelling bacterial species. The data support most of the conclusions of the manuscript, but some controls are lacking and some of the interpretations are not fully justified by the experiments shown.

     (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

8. Structure of Geobacter OmcZ filaments suggests extracellular cytochrome polymers evolved independently multiple times

   This article has 9 authors:

   1. Fengbin Wang
   2. Chi Ho Chan
   3. Victor Suciu
   4. Khawla Mustafa
   5. Madeline Ammend
   6. Dong Si
   7. Allon I Hochbaum
   8. Edward H Egelman
   9. Daniel R Bond

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript reports the CryoEM structure of OmcZ cytochrome nanowires of Geobacter sulfurreducens, the third cytochrome nanowire of Geobacter to be structurally resolved. OmcZ differs structurally from these previously determined nanowire structures, showing a different heme chain configuration. Based on these and other differences the authors speculate about the evolutionary origin of these nanowires and the mechanism of long-range electron transport. This manuscript is an important contribution to the field of electron transfer and will be of interest to everyone working in electron transfer and filament formation and interested in their evolution.

     (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 agreed to share their name with the authors.)

   Reviewed by eLife

9. Deep mutational scanning and machine learning reveal structural and molecular rules governing allosteric hotspots in homologous proteins

   This article has 4 authors:

   1. Megan Leander
   2. Zhuang Liu
   3. Qiang Cui
   4. Srivatsan Raman

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This article seeks to address a key question in protein biophysics: are the amino acid positions (and mutations) that influence allostery conserved across homologs of a protein family? Or is allostery implemented by a distinct set of residues that varies amongst homologs? To address this question, the authors follow an innovative approach that combines deep mutational scanning with machine learning. Significant revisions are required to clarify whether the conclusions of the study are well-supported by the data. The work is potentially highly relevant to protein engineers and biophysicists.

     (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

10. Contrasting parental roles shape sex differences in poison frog space use but not navigational performance

    This article has 13 authors:

    1. Andrius Pašukonis
    2. Shirley Jennifer Serrano-Rojas
    3. Marie-Therese Fischer
    4. Matthias-Claudio Loretto
    5. Daniel A Shaykevich
    6. Bibiana Rojas
    7. Max Ringler
    8. Alexandre B Roland
    9. Alejandro Marcillo-Lara
    10. Eva Ringler
    11. Camilo Rodríguez
    12. Luis A Coloma
    13. Lauren A O'Connell

    This article has been curated by 1 group:

    • Curated by eLife

      Evaluation Summary:

      This paper is of interest to organismal biologists and evolutionary scientists who study cognitive and behavioral sex differences including those with interests in the evolution of complex spatial behaviors. Using intensive field monitoring and experimentally induced navigational challenges, the authors examine two different hypotheses for sex differences in spatial ability in three species of poison frog. A rich and complex story emerges, including from the provision of evidence that is consistent with (but not necessarily yet definitively or exclusively in support of) the hypothesis that androgens may inadvertently affect spatial ability.

      (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