Scalable, accessible and reproducible reference genome assembly and evaluation in Galaxy

D Larivière, L Abueg, N Brajuka, C Gallardo-Alba… - Nature …, 2024 - nature.com
The Earth BioGenome Project aims to produce reference genomes for all~ 1.8 million known
eukaryotic species over the next decade 1–4. Achieving this goal will require the current …

Plasma metabolomics supports non-fasted sampling for metabolic profiling across a spectrum of glucose tolerance in the Nile rat model for type 2 diabetes

BJ Anderson, AM Curtis, A Jen, JA Thomson, DO Clegg… - Lab Animal, 2023 - nature.com
Type 2 diabetes is a challenge in modern healthcare, and animal models are necessary to
identify underlying mechanisms. The Nile rat (Arvicanthis niloticus) develops diet-induced …

Effects of light therapy on sleep/wakefulness, daily rhythms, and the central orexin system in a diurnal rodent model of seasonal affective disorder

A Costello, K Linning-Duffy, C Vandenbrook… - Journal of Affective …, 2023 - Elsevier
Background Bright light therapy (BLT) is the first-line treatment for seasonal affective
disorder. However, the neural mechanisms underlying BLT are unclear. To begin filling this …

A high-quality blue whale genome, segmental duplications, and historical demography

YV Bukhman, PA Morin, S Meyer, LF Chu… - Molecular Biology …, 2024 - academic.oup.com
The blue whale, Balaenoptera musculus, is the largest animal known to have ever existed,
making it an important case study in longevity and resistance to cancer. To further this and …

Chromosome level genome assembly of the Etruscan shrew Suncus etruscus

YV Bukhman, S Meyer, LF Chu, L Abueg… - Scientific Data, 2024 - nature.com
Suncus etruscus is one of the world's smallest mammals, with an average body mass of
about 2 grams. The Etruscan shrew's small body is accompanied by a very high energy …

Effects of bright light therapy on neuroinflammatory and neuroplasticity markers in a diurnal rodent model of Seasonal Affective Disorder

A Costello, K Linning-Duffy, C Vandenbrook… - Annals of …, 2023 - Taylor & Francis
Background Bright light therapy (BLT) is widely used for treating Seasonal Affective Disorder
(SAD). However, the neural mechanisms underlying the therapeutic effects of BLT remain …

Degeneration of the olfactory system in a murid rodent that evolved diurnalism

BY Liao, MP Weng, TY Chang… - Molecular Biology …, 2024 - academic.oup.com
In mammalian research, it has been debated what can initiate an evolutionary tradeoff
between different senses, and the phenomenon of sensory tradeoff in rodents, the most …

CRISPR-based genome editing of a diurnal rodent, Nile grass rat (Arvicanthis niloticus)

H Xie, K Linning-Duffy, EY Demireva, H Toh… - BMC biology, 2024 - Springer
Background Diurnal and nocturnal mammals have evolved distinct pathways to optimize
survival for their chronotype-specific lifestyles. Conventional rodent models, being nocturnal …

RNA-Seq transcriptome profiling of Nile rat livers reveals novel insights on the anti-diabetic mechanisms of Water-Soluble Palm Fruit Extract

SS Leow, JS Khoo, WK Lee, CC Hoh, S Fairus… - Journal of Applied …, 2024 - Springer
Abstract Water-Soluble Palm Fruit Extract (WSPFE) has been shown to confer anti-diabetic
effects in the Nile rat (NR)(Arvicanthis niloticus). Liquid and powder WSPFE both deterred …

[HTML][HTML] Highlighting the Importance of Correct Sex Identification in Chondrichthyan Genomic Studies, Using the White Shark as an Example

SH Lee, L Yang, GJP Naylor - Fishes, 2024 - mdpi.com
The increased availability of reference genome assemblies of sharks and rays has
contributed greatly to our understanding of their biology, including their sex-determination …