Metagenomic sequencing unravels gene fragments with phylogenetic signatures of O2-tolerant NiFe membrane-bound hydrogenases in lacustrine sediment

Many promising hydrogen technologies utilising hydrogenase enzymes have been slowed by the fact that most hydrogenases are extremely sensitive to O2. Within the group 1 membrane-bound NiFe hydrogenase, naturally occurring tolerant enzymes do exist, and O2 tolerance has been largely attributed to changes in iron–sulphur clusters coordinated by different numbers of cysteine residues in the enzyme’s small subunit. Indeed, previous work has provided a robust phylogenetic signature of O2 tolerance [1], which when combined with new sequencing technologies makes bio prospecting in nature a far more viable endeavour. However, making sense of such a vast diversity is still challenging and could be simplified if known species with O2-tolerant enzymes were annotated with information on metabolism and natural environments. Here, we utilised a bioinformatics approach to compare O2-tolerant and sensitive membrane-bound NiFe hydrogenases from 177 bacterial species with fully sequenced genomes for differences in their taxonomy, O2 requirements, and natural environment. Following this, we interrogated a metagenome from lacustrine surface sediment for novel hydrogenases via high-throughput shotgun DNA sequencing using the Illumina™ MiSeq platform. We found 44 new NiFe group 1 membrane-bound hydrogenase sequence fragments, five of which segregated with the tolerant group on the phylogenetic tree of the enzyme’s small subunit, and four with the large subunit, indicating de novo O2-tolerant protein sequences that could help engineer more efficient hydrogenases

Agile training to help enable standardisation of phytoplankton sampling and gross gill terminology across the Scottish sector

Current aquaculture operations in the UK are dominated by finfish farming in Scotland, contributing over £1.8 billion to the Scottish economy with the ambition to double this value by 2030. Finfish health is the top priority across the sector as healthy fish enjoy higher survival rates. One of the most important threats is the occurrence of gill disease, e.g. due to HABs, with potentially devastating impacts on fish health resulting in mortality, reduced welfare, and associated losses in profit on the rise. To understand this threat better, high-quality data generation for reporting is essential. For example, a significant body of work – catalysed by the Scottish Government’s Farmed Fish Health Framework and involving SAIC, agencies, regulators, and a large representation from producers within the sector – acknowledged the need for procedures for sustained and standardised surveillance and reporting of algal blooms, and a standardised operating procedure was developed. The sector representatives are unanimous in the need for developing specific skills to operate under the HABs SOP and in fish health generally. Two courses have been funded by Defra, UK, in the area of aquaculture operators’ skills development. The first course aims for standardisation of HABs sampling and classification, and understanding of the data and modelling associated with mitigation and management of HABs events, and will be delivered through a partnership between SAIC, the Scottish Association for Marine Science (SAMS) and Lantra. The second course is under the health framework and aims to improve the skills and knowledge of technicians and veterinary professionals currently working in, or interested in diversifying into, the seafood sector. An initial aim of the latter course, a partnership between SRUC and SSF, is to standardise salmon gross gill health monitoring terminology

Agile training to help enable standardisation of phytoplankton sampling and gross gill terminology across the Scottish sector

Current aquaculture operations in the UK are dominated by finfish farming in Scotland, contributing over £1.8 billion to the Scottish economy with the ambition to double this value by 2030. Finfish health is the top priority across the sector as healthy fish enjoy higher survival rates. One of the most important threats is the occurrence of gill disease, e.g. due to HABs, with potentially devastating impacts on fish health resulting in mortality, reduced welfare, and associated losses in profit on the rise. To understand this threat better, high-quality data generation for reporting is essential. For example, a significant body of work – catalysed by the Scottish Government’s Farmed Fish Health Framework and involving SAIC, agencies, regulators, and a large representation from producers within the sector – acknowledged the need for procedures for sustained and standardised surveillance and reporting of algal blooms, and a standardised operating procedure was developed. The sector representatives are unanimous in the need for developing specific skills to operate under the HABs SOP and in fish health generally. Two courses have been funded by Defra, UK, in the area of aquaculture operators’ skills development. The first course aims for standardisation of HABs sampling and classification, and understanding of the data and modelling associated with mitigation and management of HABs events, and will be delivered through a partnership between SAIC, the Scottish Association for Marine Science (SAMS) and Lantra. The second course is under the health framework and aims to improve the skills and knowledge of technicians and veterinary professionals currently working in, or interested in diversifying into, the seafood sector. An initial aim of the latter course, a partnership between SRUC and SSF, is to standardise salmon gross gill health monitoring terminology