eLife

Latest preprint reviews

1. Regulation of chromatin architecture by transcription factor binding

   This article has 4 authors:

   1. Stephanie Portillo-Ledesma
   2. Suckwoo Chung
   3. Jill Hoffman
   4. Tamar Schlick

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     In this important study, chromatin is simulated as a polymer at the scale of genes, and the 3D organization of chromatin is analyzed at nucleosome resolution. There is convincing evidence for the emergence of chromatin microdomains due to the action of transcription factors, based on the simulation incorporating well-known biophysical properties of DNA, of nucleosomes, of linker histones, and of the transcription factor pair Myc:Max, as well as considering how the 3D organization of chromatin results from bending and looping of DNA. The work greatly improves our understanding of how the joint action of transcription factors and chromatin features affects chromatin structure and accessibility, which is of interest to anyone studying gene regulation.

   Reviewed by eLife

2. A novel MARV glycoprotein-specific antibody with potentials of broad-spectrum neutralization to filovirus

   This article has 18 authors:

   1. Yuting Zhang
   2. Min Zhang
   3. Haiyan Wu
   4. Xinwei Wang
   5. Hang Zheng
   6. Junjuan Feng
   7. Jing Wang
   8. Longlong Luo
   9. He Xiao
   10. Chunxia Qiao
   11. Xinying Li
   12. Yuanqiang Zheng
   13. Weijin Huang
   14. Youchun Wang
   15. Yi Wang
   16. Yanchun Shi
   17. Jiannan Feng
   18. Guojiang Chen

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     In this valuable study, the discovery and subsequent design of the AF03-NL chimeric antibody led to a tool for studying filoviruses and provides a possible blueprint for future therapeutics. In general, the data presented are solid, although further improvements can be made in the overall presentation of the results. The work will be of interest to virologists studying antibodies.

   Reviewed by eLife

3. Natural genetic variation underlying the negative effect of elevated CO2 on ionome composition in Arabidopsis thaliana

   This article has 10 authors:

   1. Oceane Cassan
   2. Lea-Lou Pimpare
   3. Timothy Mozzanino
   4. Cecile Fizames
   5. Sebastien Devidal
   6. Fabrice Roux
   7. Alexandru Milcu
   8. Sophie Lebre
   9. Alain Gojon
   10. Antoine Martin

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This paper provides useful information about how the ionome of Arabidopsis thaliana adapts to very high CO2-levels, backed up by solid evidence and carefully designed studies. The work will be of interest to anyone studying natural genetic variation as well as the response of plants to altered CO2 levels in the atmosphere.

   Reviewed by eLife

4. Netrin signaling mediates survival of dormant epithelial ovarian cancer cells

   This article has 13 authors:

   1. Pirunthan Perampalam
   2. James I MacDonald
   3. Komila Zakirova
   4. Daniel T Passos
   5. Sumaiyah Wasif
   6. Yudith Ramos-Valdes
   7. Maeva Hervieu
   8. Patrick Mehlen
   9. Rob Rottapel
   10. Benjamin Gibert
   11. Rohann JM Correa
   12. Trevor G Shepherd
   13. Frederick A Dick

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     The authors further corroborated their model that Netrin signaling promotes survival and dissemination of non-proliferating ovarian cancer cells. These valuable results were found to be of significant potential interest to cancer biologists in as much as they address gaps in knowledge pertinent to the mechanisms underpinning ovarian cancer spread. In general, it was thought that solid experimental evidence was provided to support the role of Netrin signaling in fueling ovarian cancer progression.

   Reviewed by eLife

5. Single-cell multiomics analysis of chronic myeloid leukemia links cellular heterogeneity to therapy response

   This article has 11 authors:

   1. Rebecca Warfvinge
   2. Linda Geironson Ulfsson
   3. Parashar Dhapola
   4. Fatemeh Safi
   5. Mikael Sommarin
   6. Shamit Soneji
   7. Henrik Hjorth-Hansen
   8. Satu Mustjoki
   9. Johan Richter
   10. Ram Krishna Thakur
   11. Göran Karlsson

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This study presents fundamental insights into the heterogeneity of chronic myeloid leukemia (CML) stem cells and their response to tyrosine kinase inhibitor therapy, shedding light on potential mechanisms underlying treatment failure. The study's robust methodology, supported by validation with bulk RNA-seq data and surface marker analysis, provides compelling evidence for the identified associations between cellular composition and treatment outcome. These findings contribute to our understanding of CML pathogenesis and may inform the development of more targeted therapeutic strategies.

   Reviewed by eLife

6. Itaconate stabilizes CPT1a to enhance lipid utilization during inflammation

   This article has 7 authors:

   1. Rabina Mainali
   2. Nancy Buechler
   3. Cristian Otero
   4. Laken Edwards
   5. Chia-Chi Key
   6. Cristina Furdui
   7. Matthew A Quinn

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This work describes a connection between inflammation and metabolism, in which itaconate stabilizes the mitochondrial fatty acid uptake enzyme Cpt1a to enhance fatty acid oxidation. The mechanism for itaconate action may be generalizable to other protein targets. This is an important advance, which is supported by solid experimental data.

   Reviewed by eLife

7. Divergent downstream biosynthetic pathways are supported by L-cysteine synthases of Mycobacterium tuberculosis

   This article has 10 authors:

   1. Mehak Zahoor Khan
   2. Debbie M Hunt
   3. Biplab Singha
   4. Yogita Kapoor
   5. Nitesh Kumar Singh
   6. D V Sai Prasad
   7. Sriram Dharmarajan
   8. Divya Tej Sowpati
   9. Luiz Pedro S de Carvalho
   10. Vinay Kumar Nandicoori

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     Sulphur atoms derived from cysteine are thought to play significant roles in maintaining redox homeostasis in Mycobacterium tuberculosis, which encounters stresses associated with immune cell interactions. In this valuable manuscript, the authors provide solid evidence that the genes encoding cysteine biosynthetic enzymes (cysM and cysK2) are required to maintain full viability of M. tuberculosis under in vitro stress conditions, macrophage infections, and within the lung tissues of mice. The manuscript presents transcriptomic and metabolomic evidence to support the hypothesis that CysM and CysK2 play distinct roles in maintaining cysteine-derived metabolite pools under stress conditions. The work will be of interest to microbiologists in general.

   Reviewed by eLife

8. Peptidoglycan-tethered and free forms of the Braun lipoprotein are in dynamic equilibrium in Escherichia coli

   This article has 4 authors:

   1. Yucheng Liang
   2. Jean-Emmanuel Hugonnet
   3. Filippo Rusconi
   4. Michel Arthur

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This useful study describes a single set of label-chase mass spectrometry experiments to confirm the molecular function of YafK as a peptidoglycan hydrolase, and to describe the timing of its attachment to the peptidoglycan. Confirmation of the molecular function of YafK is helpful for further studies to examine the function and regulation of the outer membrane-peptidoglycan link in bacteria. The evidence supporting the molecular function of YafK and that lpp molecules are shuffled on and off the peptidoglycan is solid, however, some of the other data still remain incomplete in the revised version. The work will be of interest to researchers studying lipoproteins in gram negative bacteria.

   Reviewed by eLife

9. Bacteria are a major determinant of Orsay virus transmission and infection in Caenorhabditis elegans

   This article has 4 authors:

   1. Brian G Vassallo
   2. Noemie Scheidel
   3. Sylvia E J Fischer
   4. Dennis H Kim

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     Using a C. elegans/virus system, this important work demonstrates that viral susceptibility can be greatly altered by the bacterial food that C. elegans consumes. The work is rigorous with solid support for the conclusions: the authors show that quorum-sensing compounds play a role in reducing host susceptibility, and they perform control experiments to rule out nutrition and pathogenicity of the bacteria as the cause of impacts on viral susceptibility.

   Reviewed by eLife

10. Sequentially activated discrete modules appear as traveling waves in neuronal measurements with limited spatiotemporal sampling

    This article has 6 authors:

    1. Yuval Orsher
    2. Ariel Rom
    3. Rotem Perel
    4. Yoav Lahini
    5. Pablo Blinder
    6. Mark Shein-Idelson

    This article has been curated by 1 group:

    • Curated by eLife

      eLife assessment

      In this important work, authors show that brain activity thought to be a travelling wave may just be a series of sequentially activated sources at the neuron spiking level. They support this with convincing results from a turtle cortex preparation and relevant simulations. This work will be of interest to neuroscientists interested in understanding how cortical computations are made.

    Reviewed by eLife