Genomics

Evolutionary remodeling of non-canonical ORF translation in mammals

1. Yue Chang
2. Tianyu Lei
3. Feng Zhou
4. Jiawen Jiang
5. Yu Huang
6. Ziyang Zhu
7. Hong Zhang

• Curated by eLife

  eLife Assessment

  This study presents a large, systematically curated catalog of non-canonical open reading frames (ncORFs) in human and mouse through the reanalysis of nearly 400 Ribo-seq datasets using a standardized pipeline; the resulting atlas consolidates ncORF annotations across tissues and provides a valuable resource for investigating non-canonical translation and ORF emergence. The main conclusions are supported by consistent data processing and multiple computational measures of translation and conservation. While the pipeline is transparent and technically robust, some analytical criteria and dataset limitations could be described more explicitly, and several downstream conclusions would benefit from more cautious interpretation, some evolutionary inferences are primarily correlative; dataset heterogeneity, uneven tissue representation, and limited experimental validation also constrain the strength of a subset of the findings. Overall, the evidence is solid, and the resource is likely to be broadly beneficial to the community.

Reviewed by eLife, Arcadia Science

Crossing host boundaries: the evolutionary drivers and correlates of viral host jumps

1. Cedric C.S. Tan
2. Lucy van Dorp
3. Francois Balloux

Reviewed by Rapid Reviews Infectious Diseases

Paired plus-minus sequencing is an ultra-high throughput and accurate method for dual strand sequencing of DNA molecules

1. Alexandre Pellan Cheng
2. Itai Rusinek
3. Aaron Sossin
4. Adam J. Widman
5. Eti Meiri
6. Gat Krieger
7. Ori Hirschberg
8. Doron Shem Tov
9. Shlomit Gilad
10. Ariel Jaimovich
11. Omer Barad
12. Sammantha Avaylon
13. Srinivas Rajagopalan
14. Catherine Potenski
15. Tamara Prieto
16. Dennis J. Yuan
17. Rob Furatero
18. Alexi Runnels
19. Benjamin M. Costa
20. Jonathan E. Shoag
21. Majd Al Assaad
22. Michael Sigouros
23. Jyothi Manohar
24. Abigail King
25. David Wilkes
26. John Otilano
27. Murtaza S. Malbari
28. Olivier Elemento
29. Juan Miguel Mosquera
30. Nasser K. Altorki
31. Ashish Saxena
32. Margaret K. Callahan
33. Nicolas Robine
34. Soren Germer
35. Gilad D. Evrony
36. Bishoy M. Faltas
37. Dan-Avi Landau

Reviewed by PREreview

MicroFinder: conserved gene-set mapping and assembly ordering for manual curation of bird dot microchromosomes

1. Thomas C Mathers
2. Michael Paulini
3. Cibele G Sotero-Caio
4. Jonathan M D Wood

Reviewed by GigaScience

Sex Chromosome Turnover and Structural Interspecific Genome Divergence Shapes Meiotic Outcomes in Hybridizing Cobitis

1. S. A. Schlebusch
2. V. Trifonov
3. Z. Halenková
4. M. Klianitskaya
5. D. Dedukh
6. A. Ruiz Herrera
7. L. Álvarez González
8. G. Pujol Infantes
9. E. Hřibová
10. L. Andjel
11. O. Bartoš
12. P. Pajer
13. T. Tichopád
14. D. Kulik
15. J. Kotusz
16. M. Kaštánková Doležálková
17. A. Bohne
18. A. Marta
19. P. Horna
20. R. Reifová
21. Y. Guiguen
22. J. Pačes
23. K. Janko

Reviewed by GigaScience

The CLAMP GA-binding transcription factor regulates heat stress-induced transcriptional repression

1. Joseph Aguilera
2. Jingyue Duan
3. Kaitlyn Cortez
4. Rachel S Lee
5. Angelica Aragon
6. Mukulika Ray
7. Erica Larschan

• Curated by eLife

  eLife Assessment

  This important study presents evidence that the Chromatin-linked adaptor for MSL complex proteins (CLAMP) GA-binding transcription factor (TF) regulates ~75% of HS-induced repression in Drosophila and suggests that CLAMP is the first known transcription factor to induce heat-stress-mediated repression of gene expression. While mechanistic details remain to be sorted out, this manuscript provides convincing evidence that novel pathways involving the CLAMP transcription factor repress gene expression during heat shock stress.

Reviewed by eLife