Immunology

Polycomb repressive complex 1.1 coordinates homeostatic and emergency myelopoiesis

1. Yaeko Nakajima-Takagi
2. Motohiko Oshima
3. Junichiro Takano
4. Shuhei Koide
5. Naoki Itokawa
6. Shun Uemura
7. Masayuki Yamashita
8. Shohei Andoh
9. Kazumasa Aoyama
10. Yusuke Isshiki
11. Daisuke Shinoda
12. Atsunori Saraya
13. Fumio Arai
14. Kiyoshi Yamaguchi
15. Yoichi Furukawa
16. Haruhiko Koseki
17. Tomokatsu Ikawa
18. Atsushi Iwama

• Curated by eLife

  eLife assessment

  The authors present a manuscript aiming to understand the mechanism(s) underlying myeloid bias in HSCs, specifically focused on the role of Pcgf1, and therefore PRC1.1, in the regulation of hematopoiesis. This important work is of interest to the community of researchers interested in myeloid differentiation, lineage fate decisions in hematopoietic stem cells, and the molecular mechanisms that contribute to the initiation of myeloid malignancies. The methods are rigorous and the results convincingly support the authors' conclusions.

Reviewed by eLife

Oxygen levels at the time of activation determine T cell persistence and immunotherapeutic efficacy

1. Pedro P Cunha
2. Eleanor Minogue
3. Lena CM Krause
4. Rita M Hess
5. David Bargiela
6. Brennan J Wadsworth
7. Laura Barbieri
8. Carolin Brombach
9. Iosifina P Foskolou
10. Ivan Bogeski
11. Pedro Velica
12. Randall S Johnson

• Curated by eLife

  eLife assessment

  In the current manuscript, the authors study the effects of hypoxia or genetic and pharmacologic modulation of the hypoxic pathways on T cells. The findings about T cells sense hypoxia and how hypoxia affects T cell (and CAR T cell) differentiation and function are significant and interesting for the field. The data supporting these findings are mostly robust, yet some questions remain open and some statements seem unsupported by evidence.

Reviewed by eLife

Integrated signaling and transcriptome analysis reveals Src family kinase individualities and novel pathways controlled by their constitutive activity

1. Nikolaos Koutras
2. Vasileios Morfos
3. Kyriakos Konnaris
4. Adamantia Kouvela
5. Athanasios-Nasir Shaukat
6. Constantinos Stathopoulos
7. Vassiliki Stamatopoulou
8. Konstantina Nika

• Curated by eLife

  **eLife assessment
  **
  This study presents valuable findings on how the ectopic expression of the Lck protein tyrosine kinase in Chronic Lymphocytic Leukemias (CLL) contributes to malignant transformation. The evidence supporting the claims of the authors is solid, although the use of gene editing to directly explore the functions unique to LCK in a CLL model would increase the appeal of the work.

Reviewed by eLife

Global profiling of human blood ILC subtypes reveals that NK cells produce homeostatic cytokine amphiregulin and sheds light on HIV-1 pathogenesis

1. Yetao Wang
2. Lawrence Lifshitz
3. Noah J. Silverstein
4. Esther Mintzer
5. Kevin Luk
6. Pam St. Louis
7. Michael A Brehm
8. Scot A. Wolfe
9. Steven G. Deeks
10. Jeremy Luban

Reviewed by Review Commons

Defining the Characteristics of Type I Interferon Stimulated Genes: Insight from Expression Data and Machine Learning

1. Haiting Chai
2. Quan Gu
3. Joseph Hughes
4. David L. Robertson

Reviewed by GigaScience

Antigenic mapping and functional characterization of human New World hantavirus neutralizing antibodies

1. Taylor B Engdahl
2. Elad Binshtein
3. Rebecca L Brocato
4. Natalia A Kuzmina
5. Lucia M Principe
6. Steven A Kwilas
7. Robert K Kim
8. Nathaniel S Chapman
9. Monique S Porter
10. Pablo Guardado-Calvo
11. Félix A Rey
12. Laura S Handal
13. Summer M Diaz
14. Irene A Zagol-Ikapitte
15. Minh H Tran
16. W Hayes McDonald
17. Jens Meiler
18. Joseph X Reidy
19. Andrew Trivette
20. Alexander Bukreyev
21. Jay W Hooper
22. James E Crowe

• Curated by eLife

  eLife assessment

  Antibodies perform a critical function in host defense against viruses and have emerged as major therapeutic tools in modern medicine, as evidenced by the large scale use antibody-based therapies during the COVID-19 pandemic. This paper describes the characterization of human antibodies to hantaviruses that have the potential to create devastating epidemics. The results teach us about the viral structures that are targets for neutralization and the results are relevant for vaccine development and antibody therapeutic design.

Reviewed by eLife

Statistical inference reveals the role of length, GC content, and local sequence in V(D)J nucleotide trimming

1. Magdalena L Russell
2. Noah Simon
3. Philip Bradley
4. Frederick A Matsen

• Curated by eLife

  eLife assessment

  Russel et al. study and reveal compelling evidence for potential sequence-based factors that may drive VDJ trimming, a mechanism involved in VDJ recombination that shapes adaptive immune repertoire generation. The work is based on a rigorous statistical comparison of logistic regression models to reveal the role and function of cutting enzymes in shaping T- and B-cell receptor diversity. It could provide fundamental new insights into these processes with some claims being currently incomplete.

Reviewed by eLife

BCR-induced protein dynamics and the emerging role of SUMOylation revealed by proximity proteomics

1. Luqman O. Awoniyi
2. Alexey V. Sarapulov
3. Sara Hernández-Pérez
4. Marika Runsala
5. Diogo M. Cunha
6. Blanca Tejeda-González
7. Vid Šustar
8. M. Özge Balci
9. Petar Petrov
10. Pieta K. Mattila

Reviewed by Review Commons

Maintained imbalance of triglycerides, apolipoproteins, energy metabolites and cytokines in long-term COVID-19 syndrome patients

1. Georgy Berezhnoy
2. Rosi Bissinger
3. Anna Liu
4. Claire Cannet
5. Hartmut Schäfer
6. Katharina Kienzle
7. Michael Bitzer
8. Helene Häberle
9. Siri Göpel
10. Christoph Trautwein
11. Yogesh Singh

Reviewed by PeerRef

ATRAP - Accurate T cell Receptor Antigen Pairing through data-driven filtering of sequencing information from single-cells

1. Helle Rus Povlsen
2. Amalie Kai Bentzen
3. Mohammad Kadivar
4. Leon Eyrich Jessen
5. Sine Reker Hadrup
6. Morten Nielsen

• Curated by eLife

  eLife assessment

  This paper is of interest to immunologists conducting single-cell analyses of T-cell recognition. It provides a means of curating datasets to ensure T cell-antigen pairs are identified. The data generated through this method often suffers from a relatively high background, so the authors present a computational approach to enhance the signal-to-noise of this type of analysis. At this stage, it is unclear if the thresholds and filtering steps described by the authors can be generally applied to other datasets of different qualities than the one used here.

Reviewed by eLife