Magnetic hydrogel particles improve nanopore sequencing of SARS-CoV-2 and other respiratory viruses

Presented here is a magnetic hydrogel particle enabled workflow for capturing and concentrating SARS-CoV-2 from diagnostic remnant swab samples that significantly improves sequencing results using the Oxford Nanopore Technologies MinION sequencing platform. Our approach utilizes a novel affinity-based magnetic hydrogel particle, circumventing low input sample volumes and allowing for both rapid manual and automated high throughput workflows that are compatible with Nanopore sequencing. This approach enhances standard RNA extraction protocols, providing up to 40 × improvements in viral mapped reads, and improves sequencing coverage by 20-80% from lower titer diagnostic remnant samples. Furthermore, we demonstrate that this approach works for contrived influenza virus and respiratory syncytial virus samples, suggesting that it can be used to identify and improve sequencing results of multiple viruses in VTM samples. These methods can be performed manually or on a KingFisher automation platform.

Evaluation of corn fiber, cottonseed hulls, oat hulls and soybean hulls as roughage sources for ruminants

An in situ trial (randomized complete block design) using cows, and a site and extent of digestion trial (Latin square design) using sheep were conducted to study the potential of corn fiber (CF), cottonseed hulls (CSH), oat hulls (OH) and soybean hulls (SH) as roughage sources for ruminants. Two feedlot trials with steers and one with lambs (completely randomized design with factorial arrangements of treatments) were conducted to study the potential of CF and SH as energy supplements relative to corn. In situ rate of ruminal dry matter (DM) disappearance (3 to 36 h) and extent of DM disappearance (36 h) indicated that CF and SH were more fermentable in the rumen compared with OH or CSH, with SH being the most fermentable. Total tract digestibilities of DM, organic matter (OM), neutral detergent fiber (NDF) and acid detergent fiber (ADF) were above 70% for sheep fed CF and SH diets, and were 50% or less for sheep fed OH and CSH diets. A ranking of by-products in terms of nutritive value followed the trend: CF greater than SH greater than OH greater than CSH. Lamb feedlot trial data showed that CF was of similar nutritive value to corn and of higher nutritive value than SH at the 50% level of supplementation. Corn-fed lambs responded better than CF- or SH-fed lambs at the 70% level of supplementation. Data from steer feedlot trials showed that CF was of similar quality to corn and of higher quality than SH. Dramatic differences exist in by-product feed utilization by ruminants. All by-products tested appeared to have some usefulness as dietary components.