Genomics

In vitro culture of freshly isolated Trypanosoma brucei brucei bloodstream forms results in gene copy-number changes

1. Julius Mulindwa
2. Geofrey Ssentamu
3. Enock Matovu
4. Kevin Kamanyi Marucha
5. Francisco Aresta-Branco
6. Claudia Helbig
7. Christine Clayton

Reviewed by Review Commons

Natural variation in the consequences of gene overexpression and its implications for evolutionary trajectories

1. DeElegant Robinson
2. Michael Place
3. James Hose
4. Adam Jochem
5. Audrey P Gasch

• Curated by eLife

  Evaluation Summary:

  This study investigates the effect of copy number variants across all genes in Saccharomyces cerevisiae, and the variation across different genetic backgrounds. Interestingly, apart from universal effects common to most of the genetic backgrounds, the authors also report strain-specific effects related to gene copy number variants.

  (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 eLife

High Rate of Mutational Events in SARS-CoV-2 Genomes across Brazilian Geographical Regions, February 2020 to June 2021

1. Ueric José Borges de Souza
2. Raíssa Nunes dos Santos
3. Fabrício Souza Campos
4. Karine Lima Lourenço
5. Flavio Guimarães da Fonseca
6. Fernando Rosado Spilki
7. Corona-ômica.BR/MCTI Network

Reviewed by ScreenIT

SARS-CoV-2 genome sequencing with Oxford Nanopore Technology and Rapid PCR Barcoding in Bolivia

1. Oscar M. Rollano-Peñaloza
2. Carmen Delgado Barrera
3. Aneth Vasquez Michel

Reviewed by ScreenIT

Genome Profiling of SARS-CoV-2 in Indonesia, ASEAN and the Neighbouring East Asian Countries: Features, Challenges and Achievements

1. Inswasti Cahyani
2. Eko W. Putro
3. Asep M. Ridwanuloh
4. Satrio Wibowo
5. Hariyatun Hariyatun
6. Gita Syahputra
7. Gilang Akbariani
8. Ahmad R. Utomo
9. Mohammad Ilyas
10. Matthew Loose
11. Wien Kusharyoto
12. Susanti Susanti

Reviewed by ScreenIT

Construction of a new chromosome-scale, long-read reference genome assembly for the Syrian hamster, Mesocricetus auratus

1. R Alan Harris
2. Muthuswamy Raveendran
3. Dustin T Lyfoung
4. Fritz J Sedlazeck
5. Medhat Mahmoud
6. Trent M Prall
7. Julie A Karl
8. Harshavardhan Doddapaneni
9. Qingchang Meng
10. Yi Han
11. Donna Muzny
12. Roger W Wiseman
13. David H O'Connor
14. Jeffrey Rogers

Reviewed by GigaScience, ScreenIT

Betacoronavirus-specific alternate splicing

1. Guy Karlebach
2. Bruce Aronow
3. Stephen B. Baylin
4. Daniel Butler
5. Jonathan Foox
6. Shawn Levy
7. Cem Meydan
8. Christopher Mozsary
9. Amanda M. Saravia-Butler
10. Deanne M. Taylor
11. Eve Wurtele
12. Christopher E. Mason
13. Afshin Beheshti
14. Peter N. Robinson

Reviewed by ScreenIT

CRISPRa screening with real world evidence identifies potassium channels as neuronal entry factors and druggable targets for SARS-CoV-2

1. Chengkun Wang
2. Ravi K. Dinesh
3. Yuanhao Qu
4. Arjun Rustagi
5. Henry Cousins
6. James Zengel
7. Tianyi Zhang
8. Nicholas Magazine
9. Yinglong Guo
10. Taryn Hall
11. Aimee Beck
12. Lucas Miecho Heilbroner
13. Grace Peters-Schulze
14. Aaron Wilk
15. Luke Tso
16. Elif Tokar Erdemic
17. Kae Tanudtanud
18. Sheng Ren
19. Kathy Tzy-Hwa Tzeng
20. Mengdi Wang
21. Brooke Howitt
22. Weishan Huang
23. Jan Carette
24. Russ Altman
25. Catherine A. Blish
26. Le Cong

Reviewed by ScreenIT

Detection of potential new SARS-CoV-2 Gamma-related lineage in Tocantins shows the spread and ongoing evolution of P.1 in Brazil

1. U.J.B. Souza
2. R.N. Santos
3. A. Belmok
4. F.L. Melo
5. J.D. Galvão
6. S.B. Damasceno
7. T.C.V. Rezende
8. M.S. Andrade
9. B.M. Ribeiro
10. J.C. Ribeiro Junior
11. R.F. Carvalho
12. I.G.C. Santos
13. M.S. Oliveira
14. F.R. Spilki
15. F.S. Campos

Reviewed by ScreenIT

Contrasting effects of Western vs Mediterranean diets on monocyte inflammatory gene expression and social behavior in a primate model

1. Corbin SC Johnson
2. Carol A Shively
3. Kristofer T Michalson
4. Amanda J Lea
5. Ryne J DeBo
6. Timothy D Howard
7. Gregory A Hawkins
8. Susan E Appt
9. Yongmei Liu
10. Charles E McCall
11. David M Herrington
12. Edward H Ip
13. Thomas C Register
14. Noah Snyder-Mackler

• Curated by eLife

  Evaluation Summary:

  This is an interesting study aiming to link the evolutionary effects of dietary mismatch in humans to increased inflammatory responses and risk of chronic diseases. To uncover more insights into the causal links, the study used a non-human primate (macaque) model to show that the dietary switch from a Mediterranean to a modern Western diet leads to the polarisation of monocyte cell populations toward a more pro-inflammatory state, which in addition to increasing the chronic health risk can also impose behavioural changes such as anxiety and social isolation. The results of this study are convincing, interesting, and have fundamental importance in evolutionary biology, immunology and psychology. The extent to which these findings can be extrapolated to human populations remains to be established.

  (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. Reviewer #1 and Reviewer #2 agreed to share their names with the authors.)

Reviewed by eLife