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Development of SNP Panels from Low-Coverage Whole Genome Sequencing (lcWGS) to Support Indigenous Fisheries for Three Salmonid Species in Northern Canada

Author(s): Beemelmanns A; Bouchard R; Michaelides S; Normandeau E; Jeon HB; Chamlian B; Babin C; Hénault P; Perrot O; Harris LN; Zhu X; Fraser D; Bernatchez L; Moore JS;

Single nucleotide polymorphism (SNP) panels are powerful tools for assessing the genetic population structure and dispersal of fishes and can enhance management practices for commercial, recreational and subsistence mixed-stock fisheries. Arctic Char (Salvelinus alpinus), Brook Trout (Salvelinus ...

Article GUID: 39552382


Amorphous Cu/Fe nanoparticles with tandem intracellular and extracellular electron capacity for enhancing denitrification performance and recovery of co-contaminant suppressed denitrification

Author(s): Fu J; Guo T; Li H; Liu W; Chen Z; Wang X; Guo J;

In this study, a functionally stable insoluble Cu/Fe nanoparticles (Cu/Fe NPs) were synthesized and applied denitrification with different contaminants. The results showed that 50 mg/L Cu/Fe NPs increased NO3--N reduction rate up to 14.3 mg/(L·h) about 3 folds compared with the control system (4.7 mg/(L·h)), and Cu/Fe NPs exhibited excellent restorative e ...

Article GUID: 39542060


Genome and secretome insights: unravelling the lignocellulolytic potential of Myceliophthora verrucosa for enhanced hydrolysis of lignocellulosic biomass

Author(s): Sharma G; Kaur B; Singh V; Raheja Y; Falco MD; Tsang A; Chadha BS;

Lignocellulolytic enzymes from a novel Myceliophthora verrucosa (5DR) strain was found to potentiate the efficacy of benchmark cellulase during saccharification of acid/alkali treated bagasse by ~ 2.24 fold, indicating it to be an important source of auxiliary enzymes. The De-novo sequencing and analysis of M. verrucosa genome (31.7 Mb) revealed to encode ...

Article GUID: 38676717


Candida albicans exhibits heterogeneous and adaptive cytoprotective responses to anti-fungal compounds

Author(s): Dumeaux V; Massahi S; Bettauer V; Mottola A; Dukovny A; Khurdia SS; Costa ACBP; Omran RP; Simpson S; Xie JL; Whiteway M; Berman J; Hallett MT;

Candida albicans, an opportunistic human pathogen, poses a significant threat to human health and is associated with significant socio-economic burden. Current antifungal treatments fail, at least in part, because C. albicans can initiate a strong drug tolerance response that allows some cells to ...

Article GUID: 37888959


A metagenomic-based study of two sites from the Barbadian reef system

Author(s): Simpson S; Bettauer V; Ramachandran A; Kraemer S; Mahon S; Medina M; Vallès Y; Dumeaux V; Vallès H; Walsh D; Hallett MT;

We study the microbiome of sea water collected from two locations of the Barbadian coral reefs. The two sites differ in several environmental and ecological variables including their endogenous benthic community and their proximity to urban development and runoffs from inland watersheds. The comp ...

Article GUID: 37009568


A resistome survey across hundreds of freshwater bacterial communities reveals the impacts of veterinary and human antibiotics use

Author(s): Kraemer SA; Barbosa da Costa N; Oliva A; Huot Y; Walsh DA;

Our decreasing ability to fight bacterial infections is a major health concern. It is arising due to the evolution of antimicrobial resistance (AMR) in response to the mis- and overuse of antibiotics in both human and veterinary medicine. Lakes integrate watershed processes and thus may act as receptors and reservoirs of antibiotic resistance genes (ARGs) ...

Article GUID: 36338036


Community-led risk analysis of direct-to-consumer whole-genome sequencing

Author(s): Samlali K; Thornbury M; Venter A;

Direct-to-consumer (DTC) genetic testing is cheaper and more accessible than ever before. What is generally hidden from the consumer is the intention to combine, reuse, and resell this genetic information as powerful datasets. This financial gain is creating a competitive DTC market, reducing the price of whole genome sequencing (WGS) down to USD 299. Ent ...

Article GUID: 35939839


Neutral and adaptive drivers of genomic change in introduced brook trout (Salvelinus fontinalis) populations revealed by pooled sequencing

Author(s): Brookes B; Jeon HB; Derry AM; Post JR; Rogers SM; Humphries S; Fraser DJ;

Understanding the drivers of successful species invasions is important for conserving native biodiversity and for mitigating the economic impacts of introduced species. However, whole-genome resolution investigations of the underlying contributions of neutral and adaptive genetic variation in successful introductions are rare. Increased propagule pressure ...

Article GUID: 35154655


ChIP-seq protocol for sperm cells and embryos to assess environmental impacts and epigenetic inheritance

Author(s): Lismer A; Lambrot R; Lafleur C; Dumeaux V; Kimmins S;

In the field of epigenetic inheritance, delineating molecular mechanisms implicated in the transfer of paternal environmental conditions to descendants has been elusive. This protocol details how to track sperm chromatin intergenerationally. We describe mouse model design to probe chromatin states in single mouse sperm and techniques to assess pre-implant ...

Article GUID: 34159325


Tools and Techniques for Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)/COVID-19 Detection

Author(s): Safiabadi Tali SH; LeBlanc JJ; Sadiq Z; Oyewunmi OD; Camargo C; Nikpour B; Armanfard N; Sagan SM; Jahanshahi-Anbuhi S;

The coronavirus disease 2019 (COVID-19) pandemic, caused by severe acute respiratory disease coronavirus 2 (SARS-CoV-2), has led to millions of confirmed cases and deaths worldwide. Efficient diagnostic tools are in high demand, as rapid and large-scale testing plays a pivotal role in patient man ...

Article GUID: 33980687


Genetic Characterization of Mutations Related to Conidiophore Stalk Length Development in Aspergillus niger Laboratory Strain N402

Author(s): Demirci E; Arentshorst M; Yilmaz B; Swinkels A; Reid ID; Visser J; Tsang A; Ram AFJ;

Aspergillus niger is an important filamentous fungus in industrial biotechnology for the production of citric acid and enzymes. In the late 1980s, the A. niger N400/NRRL3 strain was selected for both fundamental and applied studies in relation to several processes including gluconic acid and protein production. To facilitate handling of A. niger, the N400 ...

Article GUID: 33959152


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