Draft genome assembly of the Bengalese finch, Lonchura striata domestica, a model for motor skill variability and learning
February 2018
Authors:
Bradley Colquitt, David Mets, and Michael Brainard
Info:
Scientists generated a high-quality draft genome and gene annotation for Bengalese finch, which has a more variable song than other finches, making it an important model for sensorimotor learning. They used BluePippin for size selection prior to sequencing.
Citation:
GigaScience
doi: 10.1093/gigascience/giy008
Ribonuclease Inhibitor 1 regulates erythropoiesis by controlling GATA1 translation
February 2018
Authors:
Vijaykumar Chennupati, Diogo Veiga, Kendle Maslowski, Nicola Andina, et al.
Info:
Scientists studying the ribonuclease inhibitor protein found that it controls translation of GATA1 and thereby regulates erythropoiesis, helping to explain anemia-associated diseases caused by mutations in ribosomal proteins. For this work, the team size-selected libraries for an RNA-seq workflow using a PippinHT instrument.
Citation:
J Clin Invest.
doi:10.1172/JCI94956
Oligomeric proanthocyanidins (OPCs) target cancer stem-like cells and suppress tumor organoid formation in colorectal cancer
February 2018
Authors:
Shusuke Toden, Preethi Ravindranathan, Jinghua Gu, Jacob Cardenas, Madelaine Yuchang &
Ajay Goel
Info:
Scientists from Baylor University Medical Center studied the chemoprotective role of oligomeric proanthocyanidins, finding that they inhibited cellular proliferation and spurred apoptosis. RNA sequencing data showed that these elements disrupted self-renewal pathways. The team used PippinHT to size-select pooled libraries prior to RNA sequencing.
Citation:
Scientific Reports
Vol 8, Article number: 3335(2018)
doi:10.1038/s41598-018-21478-8
Identification of a precursor processing protease from the spider Cupiennius saleiessential for venom neurotoxin maturation
February 2018
Authors:
Nicolas Langenegger, Dominique Koua, Stefan Schürch, Manfred Heller, Wolfgang Nentwig and Lucia Kuhn-Nentwig
Info:
In this paper, scientists from the University of Bern and collaborators report the identification and purification of a protease that’s an important neurotoxin element in spider venom. PippinHT was used to size-select cDNAs prior to sequencing.
Citation:
The Journal of Biological Chemistry
doi: 10.1074/jbc.M117.810911
Transcription-associated mutation promotes RNA complexity in highly expressed genes — a major new source of selectable variation
February 2018
Authors:
Shengkai Pan, Michael Bruford, Yusong Wang, Zhenzhen Lin, et al.
Info:
In this project, researchers studied transcriptomes in falcons, mice, and chickens and found that highly expressed genes are more likely to alternatively spliced. They also studied methylation patterns and its effect on alternative splicing. For this work, the team used SageELF to size and separate fractions for Iso-Seq analysis on the PacBio RS II system.
Citation:
Molecular Biology and Evolution
doi: 10.1093/molbev/msy017