1. Improved base editing and functional screening in Leishmania via co-expression of the AsCas12a ultra variant, a T7 RNA polymerase, and a cytosine base editor

    This article has 7 authors:
    1. Nicole Herrmann May
    2. Anh Cao
    3. Annika Schmid
    4. Fabian Link
    5. Jorge Arias-del-Angel
    6. Elisabeth Meiser
    7. Tom Beneke
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This important article describes a meticulously-developed improved strategy for generation of functionally null mutants in Leishmania spp. via cytosine base editing, with reduced background toxicity and enhanced efficiency relative to a previously-described method. The authors show use of the strategy in a small-scale loss-of-function screen, providing compelling evidence that large-scale screens will be possible. The newly developed tools will be of great interest to researchers working with Leishmania and beyond.

    Reviewed by eLife

    This article has 10 evaluationsAppears in 1 listLatest version Latest activity
  2. Embryological cellular origins and hypoxia-mediated mechanisms in PIK3CA -Driven refractory vascular malformations

    This article has 13 authors:
    1. Sota Torii
    2. Keiki Nagaharu
    3. Nanako Nakanishi
    4. Hidehito Usui
    5. Yumiko Hori
    6. Katsutoshi Hirose
    7. Satoru Toyosawa
    8. Eiichi Morii
    9. Mitsunaga Narushima
    10. Yoshiaki Kubota
    11. Osamu Nakagawa
    12. Kyoko Imanaka-Yoshida
    13. Kazuaki Maruyama

    Reviewed by Review Commons

    This article has 3 evaluationsAppears in 1 listLatest version Latest activity
  3. A transcriptional control model for doublesex -dependent sex differentiation in Nasonia wasps

    This article has 3 authors:
    1. Julien Rougeot
    2. Filippo Guerra
    3. Eveline C. Verhulst

    Reviewed by Arcadia Science

    This article has 2 evaluationsAppears in 1 listLatest version Latest activity
  4. Sperm fertility in mice with oligo-astheno-teratozoospermia restored by in vivo injection and electroporation of naked mRNA

    This article has 25 authors:
    1. Charline Vilpreux
    2. Guillaume Martinez
    3. Paul Fourquin
    4. Magali Court
    5. Florence Appaix
    6. Jean-Luc Duteyrat
    7. Maxime Henry
    8. Julien Vollaire
    9. Camille Ayad
    10. Altan Yavuz
    11. Lisa De Macedo
    12. Geneviève Chevalier
    13. Edgar Del Llano
    14. Emeline Lambert
    15. Sekou Ahmed Conte
    16. Zeina Wehbe
    17. Elsa Giordani
    18. Véronique Josserand
    19. Jacques Brocard
    20. Coutton Charles
    21. Bernard Verrier
    22. Pierre F Ray
    23. Corinne Loeuillet
    24. Christophe Arnoult
    25. Jessica Escoffier
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This study reports an approach for restoring sperm motility in mice. The strength lies in in the novelty of the methodology being developed, but the evidence for the success of the method or its mechanism is inadequate. Additional experimental support would be required to support the conclusions of the authors.

    Reviewed by eLife

    This article has 9 evaluationsAppears in 1 listLatest version Latest activity
  5. Conformational changes, excess area, and elasticity of the Piezo protein-membrane nanodome from coarse-grained and atomistic simulations

    This article has 3 authors:
    1. Sneha Dixit
    2. Frank Noé
    3. Thomas R. Weikl
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This work represents an important contribution to our understanding of how membrane energetics influence protein conformation and function in mechano-sensitive channels. Through extensive molecular dynamics simulations and energetic analysis, the study demonstrates how the channel structure is shaped by a balance of protein and membrane-induced forces, effectively reconciling experimental data from different membrane environments. However, while much of the computational data is convincing, some aspects of the energetic analysis and models employed remain incomplete.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  6. N6-methyladenosine in DNA promotes genome stability

    This article has 16 authors:
    1. Brooke A Conti
    2. Leo Novikov
    3. Deyan Tong
    4. Qing Xiang
    5. Savon Vigil
    6. Thomas J McLellan
    7. Chuong Nguyen
    8. Nancy De La Cruz
    9. Reshma T Veettil
    10. Prashant Pradhan
    11. Parag Sahasrabudhe
    12. Jason D Arroyo
    13. Lei Shang
    14. Benjamin R Sabari
    15. David J Shields
    16. Mariano Oppikofer
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This manuscript reports important findings that the methyltransferase METTL3 is involved in the repair of abasic sites and uracil in DNA, mediating resistance to floxuridine-driven cytotoxicity. The presented evidence is conclusive for the involvement of m6A in DNA involving single cell imaging and mass spectrometry data. The authors present convincing evidence that the m6A signal does not result from bacterial contamination or RNA.

    Reviewed by eLife

    This article has 9 evaluationsAppears in 1 listLatest version Latest activity
  7. Secondary structure of the SARS-CoV-2 genome is predictive of nucleotide substitution frequency

    This article has 1 author:
    1. Zach Hensel
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This short manuscript uses mutation counts in phylogenies of millions of SARS-CoV-2 genomes to show that mutation rates systematically differ between regions that are paired or unpaired in the predicted RNA secondary structure of the viral genome. Such an effect of pairing state is not unexpected, but its systematic demonstration using millions of viral genomes is valuable and convincing.

    Reviewed by eLife

    This article has 7 evaluationsAppears in 1 listLatest version Latest activity
  8. PAbFold: Linear Antibody Epitope Prediction using AlphaFold2

    This article has 6 authors:
    1. Jacob DeRoo
    2. James S Terry
    3. Ning Zhao
    4. Timothy J Stasevich
    5. Christopher D Snow
    6. Brian J Geiss
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      In this manuscript, the authors describe a new AlphaFold2 pipeline called PabFold that can represent a useful tool for identifying linear antibody epitopes (B-cell epitopes) for different antigens. This information can be used in the selection of different reagents in competitive ELISA assays which can save time and reduce costs. Because several questions about the work remain, the study is currently incomplete.

    Reviewed by eLife

    This article has 7 evaluationsAppears in 1 listLatest version Latest activity
  9. Mediator kinase inhibition suppresses hyperactive interferon signaling in Down syndrome

    This article has 14 authors:
    1. Kira A Cozzolino
    2. Lynn Sanford
    3. Samuel Hunter
    4. Kayla Molison
    5. Benjamin Erickson
    6. Meaghan CS Courvan
    7. Taylor Jones
    8. Deepa Ajit
    9. Matthew D Galbraith
    10. Joaquín M Espinosa
    11. David Bentley
    12. Mary Ann Allen
    13. Robin D Dowell
    14. Dylan J Taatjes
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This is an important study providing compelling evidence that the Mediator kinase module mediates an elevated inflammatory response, manifested by heightened cytokine levels, associated with Downs syndrome (DS) via transcriptional changes impacting cell signaling and metabolism that involve mobilization of nuclear receptors by altered lipid metabolites, which has significance for the treatment of DS and other chronic inflammatory conditions. Particular strengths of the study include the combined experimental approaches of transcriptomics, untargeted metabolomics and cytokine screens and the use of sibling matched cell lines (trisomy 21 vs disomy 21) from various donors. Evidence is also provided implicating the Mediator kinase module in controlling mRNA splicing and mitochondrial function that should stimulate new research to elucidate the mechanistic bases for these novel functions.

    Reviewed by eLife

    This article has 7 evaluationsAppears in 1 listLatest version Latest activity
  10. Decoding m6Am by simultaneous transcription-start mapping and methylation quantification

    This article has 4 authors:
    1. Jianheng Fox Liu
    2. Ben R Hawley
    3. Luke S Nicholson
    4. Samie R Jaffrey
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This study presents a new quantitative method, CROWN-seq, to map the cap-adjacent RNA modification N6,2'-O-dimethyladenosine (m6Am) with single nucleotide resolution. Using thoughtful controls and well-validated reagents, the authors provide compelling evidence that the method is reliable and reproducible. Additionally, the study provides important evidence that m6Am may increase transcription in modified mRNAs. However, the data only demonstrates a correlation between m6Am and transcriptional regulation rather than causality. Overall, this study is poised to advance m6Am research, being of broad interest to the RNA biology and gene regulation fields.

    Reviewed by eLife

    This article has 10 evaluationsAppears in 1 listLatest version Latest activity
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