Genomics

Signatures of transposon-mediated genome inflation, host specialization, and photoentrainment in Entomophthora muscae and allied entomophthoralean fungi

1. Jason E Stajich
2. Brian Lovett
3. Emily Lee
4. Angie M Macias
5. Ann E Hajek
6. Benjamin L de Bivort
7. Matt T Kasson
8. Henrik H De Fine Licht
9. Carolyn Elya

• Curated by eLife

  eLife assessment

  This important study reports on the genome evolution of a poorly studied fungal group. By combining long-read sequencing and different bioinformatic analyses, the authors show that the giant genome of Entomophthora muscae expanded due to extensive transposable element activity. The strength of evidence is compelling and the authors are to be commended for their multiple comparative analyses of gene content along with transparently written and visualized techniques, data curation, and methods. This paper will be of relevance to fungal biologists as well as to evolutionary biologists interested in the study of genome size dynamics.

Reviewed by eLife

Transcriptional profiling of human brain cortex identifies novel lncRNA-mediated networks dysregulated in amyotrophic lateral sclerosis

1. Alessandro Palma
2. Monica Ballarino

Reviewed by preLights

Global diversity and evolution of Salmonella Panama, an understudied serovar causing gastrointestinal and invasive disease worldwide: a genomic epidemiology study

1. Caisey Victoria Pulford
2. Blanca M Perez-Sepulveda
3. Danielle J Ingle
4. Rebecca J Bengtsson
5. Rebecca J Bennet
6. Ella V Rodwell
7. Maria Pardos de la Gandara
8. Charlotte Chong
9. P. Malaka De Silva
10. Magali Ravel
11. Veronique Guibert
12. Elisabeth Njamkepo
13. Neil Hall
14. Marie A Chattaway
15. Benjamin Howden
16. Deborah A Williamson
17. Jay C. D. Hinton
18. Francois-Xavier Weill
19. Kate S Baker

Reviewed by PREreview

A complex Plasmodium falciparum cryptotype circulating at low frequency across the African continent

1. Olivo Miotto
2. Alfred Amambua-Ngwa
3. Lucas Amenga-Etego
4. Muzamil M Abdel Hamid
5. Ishag Adam
6. Enoch Aninagyei
7. Tobias Apinjoh
8. Gordon A Awandare
9. Philip Bejon
10. Gwladys I Bertin
11. Marielle Bouyou-Akotet
12. Antoine Claessens
13. David J Conway
14. Umberto D’Alessandro
15. Mahamadou Diakite
16. Abdoulaye Djimdé
17. Arjen M Dondorp
18. Patrick Duffy
19. Rick M Fairhurst
20. Caterina I Fanello
21. Anita Ghansah
22. Deus Ishengoma
23. Mara Lawniczak
24. Oumou Maïga-Ascofaré
25. Sarah Auburn
26. Anna Rosanas-Urgell
27. Varanya Wasakul
28. Nina FD White
29. Jacob Almagro-Garcia
30. Richard D Pearson
31. Sonia Goncalves
32. Cristina Ariani
33. Zbynek Bozdech
34. William Hamilton
35. Victoria Simpson
36. Dominic P Kwiatkowski

Reviewed by preLights

Integrated multiplexed assays of variant effect reveal determinants of catechol-O-methyltransferase gene expression

1. Ian Hoskins
2. Shilpa Rao
3. Charisma Tante
4. Can Cenik

Reviewed by Review Commons

Transcription decouples estrogen-dependent changes in enhancer-promoter contact frequencies and spatial proximity

1. Luciana I. Gómez Acuña
2. Ilya Flyamer
3. Shelagh Boyle
4. Elias Friman
5. Wendy A. Bickmore

Reviewed by Review Commons

Post-meiotic mechanism of facultative parthenogenesis in gonochoristic whiptail lizard species

1. David V Ho
2. Duncan Tormey
3. Aaron Odell
4. Aracely A Newton
5. Robert R Schnittker
6. Diana P Baumann
7. William B Neaves
8. Morgan R Schroeder
9. Rutendo F Sigauke
10. Anthony J Barley
11. Peter Baumann

Reviewed by Review Commons

YY1 binding is a gene-intrinsic barrier to Xist-mediated gene silencing

1. Joseph S Bowness
2. Mafalda Almeida
3. Tatyana B Nesterova
4. Neil Brockdorff

Reviewed by Review Commons

DNA-binding factor footprints and enhancer RNAs identify functional non-coding genetic variants

1. Simon C Biddie
2. Giovanna Weykopf
3. Elizabeth F. Hird
4. Elias T. Friman
5. Wendy A Bickmore

Reviewed by Review Commons

An improved chromosome-level genome assembly of perennial ryegrass ( Lolium perenne L.)

1. Yutang Chen
2. Roland Kölliker
3. Martin Mascher
4. Dario Copetti
5. Axel Himmelbach
6. Nils Stein
7. Bruno Studer

• Curated by GigaByte

  Editors Assessment:

  This Data Release paper presents an updated genome assembly of the doubled haploid perennial ryegrass (Lolium perenne L.) genotype Kyuss (Kyuss v2.0). To correct for structural the authors de novo assembled the genome again with ONT long-reads and generated 50-fold coverage high-throughput chromosome conformation capture (Hi-C) data to assist pseudo-chromosome construction. After being asked for some more improvements to gene and repeat annotation the authors now demonstrate the new assembly is more contiguous, more complete, and more accurate than Kyuss v1.0 and shows the correct pseudo-chromosome structure. This more accurate data have great potential for downstream genomic applications, such as read mapping, variant calling, genome-wide association studies, comparative genomics, and evolutionary biology. These future analyses being able to benefit forage and turf grass research and breeding.

  This evaluation refers to version 1 of the preprint

Reviewed by GigaByte