Arcadia Science

Latest preprint reviews

1. Protein evidence of unannotated ORFs in Drosophila reveals diversity in the evolution and properties of young proteins

   This article has 2 authors:

   1. Eric B Zheng
   2. Li Zhao

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     By integrating in silico predictions and mass-spectrometry, this manuscript tackles the problem of annotating the currently nameless stretches of genomic sequence that actually code for proteins. The hundreds of protein coding fruit fly genes described here offer new inroads for studying some of the very youngest functional elements in genomes, particularly those that have recently emerged from non-coding DNA sequences. To clarify the biological significance of the present study, the authors should both highlight the genes mostly like to encode functional products and conduct a comparison to published datasets that used different methods to identify such genes in fruit flies.

     (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 Arcadia Science, eLife

2. Tunnelling nanotube formation is driven by Eps8/IRSp53‐dependent linear actin polymerization

   This article has 11 authors:

   1. J Michael Henderson
   2. Nina Ljubojevic
   3. Sevan Belian
   4. Thibault Chaze
   5. Daryl Castaneda
   6. Aude Battistella
   7. Quentin Giai Gianetto
   8. Mariette Matondo
   9. Stéphanie Descroix
   10. Patricia Bassereau
   11. Chiara Zurzolo

   Reviewed by Arcadia Science, Review Commons

3. Mechanical compression induces persistent bacterial growth during bacteriophage predation

   This article has 2 authors:

   1. Guy Mason
   2. Enrique R. Rojas

   Reviewed by Arcadia Science

4. Workflow sharing with automated metadata validation and test execution to improve the reusability of published workflows

   This article has 4 authors:

   1. Hirotaka Suetake
   2. Tsukasa Fukusato
   3. Takeo Igarashi
   4. Tazro Ohta

   Reviewed by Arcadia Science, GigaScience

5. Soil protists can actively redistribute beneficial bacteria along Medicago truncatula roots

   This article has 6 authors:

   1. Christopher J. Hawxhurst
   2. Jamie L. Micciulla
   3. Charles M. Bridges
   4. Mikhael Shor
   5. Daniel J. Gage
   6. Leslie M. Shor

   Reviewed by Arcadia Science

6. AlphaPulldown—a python package for protein–protein interaction screens using AlphaFold-Multimer

   This article has 4 authors:

   1. Dingquan Yu
   2. Grzegorz Chojnowski
   3. Maria Rosenthal
   4. Jan Kosinski

   Reviewed by Arcadia Science

7. Ranking Peptide Binders by Affinity with AlphaFold**

   This article has 2 authors:

   1. Liwei Chang
   2. Alberto Perez

   Reviewed by Arcadia Science

8. Longitudinal, Multi-Platform Metagenomics Yields a High-Quality Genomic Catalog and Guides an In Vitro Model for Cheese Communities

   This article has 7 authors:

   1. Christina C. Saak
   2. Emily C. Pierce
   3. Cong B. Dinh
   4. Daniel Portik
   5. Richard Hall
   6. Meredith Ashby
   7. Rachel J. Dutton

   Reviewed by Arcadia Science