Genomics

Transition of Staphylococcus aureus tetracycline resistance plasmid pT181 from independent multicopy replicon to predominantly integrated chromosomal element over 65 years

1. Megan A Phillips
2. Robert A Petit
3. Daniel B Weissman
4. Timothy D Read

• Curated by eLife

  eLife Assessment

  Using genome databases, the authors performed solid bioinformatic analyses to trace the genomic history of the clinically relevant Staphylococcus aureus tetracycline resistance plasmid pT181 over the last seven decades. They discovered that this element has transitioned from a multicopy plasmid to a chromosomally integrated element, and the work represents a valuable demonstration of the use of publicly available data to investigate plasmid biology and inform clinical epidemiology. This work will appeal to researchers interested in staphylococcal evolution and plasmid biology.

Reviewed by eLife

Nuclear genome profiling of two species of Epidendrum (Orchidaceae): genome size, repeatome, and ploidy

1. Miguel A Alcalá-Gaxiola
2. Gerardo A Salazar
3. Eric Hágsater
4. Mónica A Flores-Iniestres
5. Lidia I Cabrera
6. Aldo I Aviña-Rivera
7. Pedro Mercado-Ruaro
8. Susana Magallon
9. Carolina Granados Mendoza
10. Aleida Núñez-Ruiz
11. Gloria Soldevila
12. Araxi O Urrutia
13. Rubi N Meza-Lázaro

Reviewed by Review Commons

Expression-Driven Genetic Dependency Reveals Targets for Precision Medicine

1. Abdulkadir Elmas
2. Hillary M. Layden
3. Jacob D. Ellis
4. Luke N. Bartlett
5. Xian Zhao
6. Reika Kawabata-Iwakawa
7. Hideru Obinata
8. Scott W. Hiebert
9. Kuan-lin Huang

Reviewed by GigaScience

Haplotype-resolved chromosome-level genome assemblies of four Diamesa species reveal the genetic basis of cold tolerance and high-altitude adaptations in arctic chironomids

1. Sarah L F Martin
2. Renato La Torre
3. Bram Danneels
4. Ave Tooming-Klunderud
5. Morten Skage
6. Spyridon Kollias
7. Ole Kristian Tørresen
8. Mohsen Falahati Anbaran
9. Elisabeth Stur
10. Kjetill S Jakobsen
11. Michael D Martin
12. Torbjørn Ekrem

Reviewed by GigaScience

Raman2RNA: Live-cell label-free prediction of single-cell RNA expression profiles by Raman microscopy

1. Koseki J. Kobayashi-Kirschvink
2. Shreya Gaddam
3. Taylor James-Sorenson
4. Emanuelle Grody
5. Johain R. Ounadjela
6. Baoliang Ge
7. Ke Zhang
8. Jeon Woong Kang
9. Ramnik Xavier
10. Peter T. C. So
11. Tommaso Biancalani
12. Jian Shu
13. Aviv Regev

Reviewed by Arcadia Science

Integrating bulk and single cell RNA-seq refines transcriptomic profiles of individual C. elegans neurons

1. Alec Barrett
2. Erdem Varol
3. Alexis Weinreb
4. Seth R Taylor
5. Rebecca M McWhirter
6. Cyril Cros
7. Berta Vidal
8. Manasa Basaravaju
9. Abigail Poff
10. John A Tipps
11. Maryam Majeed
12. Chen Wang
13. Emily A Bayer
14. Molly Reilly
15. Eviatar Yemini
16. HaoSheng Sun
17. Oliver Hobert
18. David M Miller
19. Marc Hammarlund

• Curated by eLife

  eLife Assessment

  This paper uses a new computational method that integrates bulk sequencing and single-cell sequencing data to provide refined gene expression datasets for 52 neuron classes in C. elegans. The paper's findings are convincing, presenting an approach that alleviates a key shortcoming of single-cell RNA sequencing. While the datasets have some limitations that the authors acknowledge, the new methodology and refined datasets will be important resources for those interested in understanding how gene expression shapes neuronal morphology and physiology.

Reviewed by eLife