Evaluated articles

Single-cell RNA-sequencing reveals immune system compartmentalization under symbiosis in the stony coral Oculina arbuscula

1. Maria Valadez-Ingersoll
2. Hanny E. Rivera
3. Jeric Da-Anoy
4. Matthew R. Kanke
5. Kelly Gomez-Campo
6. M. Isabel Martinez-Rugerio
7. Julian Kwan
8. Ryan Hekman
9. Andrew Emili
10. Thomas D. Gilmore
11. Sarah W. Davies

Reviewed by Arcadia Science

Slowest possible replicative life at frigid temperatures for yeast

1. Diederik S. Laman Trip
2. Théo Maire
3. Hyun Youk

Reviewed by Arcadia Science

Multiple Protein Structure Alignment at Scale with FoldMason

1. Cameron L.M. Gilchrist
2. Milot Mirdita
3. Martin Steinegger

Reviewed by Arcadia Science

Macroscopic label-free biomedical imaging with shortwave infrared Raman scattering

1. Bernardo A. Arús
2. Joycelyn Yiu
3. Jakob G. P. Lingg
4. Anja Hofmann
5. Amy R. Fumo
6. Honglei Ji
7. Carolin Jethwa
8. Roy K. Park
9. James Henderson
10. Kanuj Mishra
11. Iuliia Mukha
12. Andre C. Stiel
13. Donato Santovito
14. Christian Weber
15. Christian Reeps
16. Maria Rohm
17. Alexander Bartelt
18. Tulio A. Valdez
19. Andriy Chmyrov
20. Oliver T. Bruns

Reviewed by Arcadia Science

Genomic localization bias of secondary metabolite gene clusters and association with histone modifications in Aspergillus

1. Xin Zhang
2. Iseult Leahy
3. Jérȏme Collemare
4. Michael F. Seidl

Reviewed by Arcadia Science

Secondary metabolite profiling of Pseudomonas aeruginosa isolates reveals rare genomic traits

1. Rachel L Neve
2. Emily Giedraitis
3. Madeline S Akbari
4. Shirli Cohen
5. Vanessa V. Phelan

Reviewed by Arcadia Science

Experimental bleaching of photosymbiotic amoeba revealed strain-dependent differences in algal symbiosis ability

1. Daisuke Yamagishi
2. Ryo Onuma
3. Sachihiro Matsunaga
4. Shin-ya Miyagishima
5. Shinichiro Maruyama

Reviewed by Arcadia Science

Amidase and Lysozyme Dual Functions in TseP Reveal a New Family of Chimeric Effectors in the Type VI Secretion System

1. Zeng-Hang Wang
2. Ying An
3. Ting Zhao
4. Tong-Tong Pei
5. Dora Yuping Wang
6. Xiaoye Liang
7. Wenming Qin
8. Tao Dong

• Curated by eLife

  eLife Assessment

  This valuable study describes how a single effector of the Type Six Secretion System (T6SS) has two distinct enzymatic functions that together may contribute to bacterial survival and dynamics in a community and provide potential for developing new antimicrobial compounds. The authors have deployed a range of methods in biochemistry, microbiology, and microscopy, generating solid data that support the main assertions. While the manuscript could benefit from additional clarifying experiments and a more detailed discussion of the methods, it will appeal to those studying T6SS, particularly those interested in effectors and bacterial enzymes.

Reviewed by eLife, Arcadia Science

Structure-aware protein sequence alignment using contrastive learning

1. Ronghui You
2. Yuhao Yi
3. Shanfeng Zhu

Reviewed by Arcadia Science

Inference of gene regulatory networks for overcoming low performance in real-world data

1. Yusuke Hiki
2. Yuta Tokuoka
3. Takahiro G. Yamada
4. Akira Funahashi

Reviewed by Arcadia Science

Protein Set Transformer: A protein-based genome language model to power high diversity viromics

1. Cody Martin
2. Anthony Gitter
3. Karthik Anantharaman

Reviewed by Arcadia Science

Lepidopteran scale cells derive from sensory organ precursors through a canonical lineage

1. Ling S. Loh
2. Kyle A. DeMarr
3. Martina Tsimba
4. Christa Heryanto
5. Alejandro Berrio
6. Nipam H. Patel
7. Arnaud Martin
8. W. Owen McMillan
9. Gregory A. Wray
10. Joseph J. Hanly

Reviewed by Arcadia Science

Peptide-enabled ribonucleoprotein delivery for CRISPR engineering (PERC) in primary human immune cells and hematopoietic stem cells

1. Srishti Sahu
2. Madalena Castro
3. Joseph J Muldoon
4. Kunica Asija
5. Stacia K Wyman
6. Netravathi Krishnappa
7. Lorena de Onate
8. Justin Eyquem
9. David N Nguyen
10. Ross C Wilson

Reviewed by Arcadia Science

A novel HER2 protein identification methodology in breast cancer cells using Raman spectroscopy and Raman imaging: an analytical validation study

1. H. Abramczyk
2. J. Surmacki
3. M. Kopeć

Reviewed by Arcadia Science

An Intra-brainstem Circuit for Pain-induced Inhibition of Itch

1. Jagat Narayan Prajapati
2. Devanshi Piyush Shah
3. Arnab Barik

Reviewed by Arcadia Science

Autoprot: Processing, Analysis and Visualization of Proteomics Data in Python

1. Julian Bender
2. Wignand W. D. Mühlhäuser
3. Johannes P. Zimmerman
4. Friedel Drepper
5. Bettina Warscheid

Reviewed by Arcadia Science

Proteome of human glioblastoma and meningioma tissue small extracellular vesicles

1. Huaqi Su
2. Adityas Purnianto
3. Andrew Kaye
4. Andrew Morokoff
5. Katherine j Drummond
6. Stanley Stylli
7. Laura J Vella

Reviewed by Arcadia Science

Annelid comparative genomics and the evolution of massive lineage-specific genome rearrangement in bilaterians

1. Thomas D. Lewin
2. Isabel Jiah-Yih Liao
3. Yi-Jyun Luo

Reviewed by Arcadia Science

Mapping the human hematopoietic stem and progenitor cell hierarchy through integrated single-cell proteomics and transcriptomics

1. Benjamin Furtwängler
2. Nil Üresin
3. Sabrina Richter
4. Mikkel Bruhn Schuster
5. Despoina Barmpouri
6. Henrietta Holze
7. Anne Wenzel
8. Kirsten Grønbæk
9. Kim Theilgaard-Mönch
10. Fabian J. Theis
11. Erwin M. Schoof
12. Bo T Porse

Reviewed by Arcadia Science

Comprehensive Phenotyping of Extracellular Vesicles in Blood of Healthy Humans – Insights into Cellular Origin and Biological Variability

1. Marija Holcar
2. Ivica Marić
3. Tobias Tertel
4. Katja Goričar
5. Urška Čegovnik Primožič
6. Darko Černe
7. Bernd Giebel
8. Metka Lenassi

Reviewed by Arcadia Science