Agri‐environment schemes (AES) have been criticized for being inadequately monitored and for not delivering the expected benefits to nature. Consequently, the Welsh Government funded a comprehensive ...programme of monitoring of AES between 2009 and 2012. The AES assessment focused on Tir Gofal (which translates as “Land in Care”) but also included the Organic Farming Scheme, and monitoring focused on a range of taxa of conservation importance: arable plants, grassland fungi, bats (six species), butterflies (three species), birds (five species), water vole and brown hare.
Field surveys were carried out on matched farms and fields within and outside of AES. Response variables were spatial trends of abundance, occurrence and species richness, and were modelled against AES status. Existing data were also available for two bird species.
Few differences were observed between AES and non‐AES farms and fields. Those that were observed were for species that use arable habitats (which are uncommon in Wales): arable plants, yellowhammers and brown hares. The lack of differences in non‐arable habitats may reflect the smaller contrast between AES and non‐AES management in these habitats. It may also reflect the original condition of habitat entered into AES prescriptions, as most non‐arable prescriptions were defined by mandatory management of existing habitats, rather than optional habitat creation or restoration, which is the case for most arable prescriptions.
Despite the lack of differences observed, AES may help to maintain populations of species, making it more likely that they will persist in the landscape. There is evidence, from this monitoring programme and elsewhere, that AES can increase the populations of species, when well targeted and implemented.
Policy implications. Our results indicate that Welsh Agri‐environment schemes (AES) have been only partly successful in achieving their stated aim of “maintaining and enhancing species abundance”. They can be used to improve AES design and management, both in Wales and more widely, by identifying and promoting effective management interventions, and by identifying ineffective management interventions and seeking alternatives. Comprehensive monitoring of AES, combined with specific targets regarding expected outcomes, is essential to determine whether AES are providing value for money.
Next-generation sequencing (NGS), including whole genome sequencing (WGS) and whole exome sequencing (WES), is increasingly being used for clinic care. While NGS data have the potential to be ...repurposed to support clinical pharmacogenomics (PGx), current computational approaches have not been widely validated using clinical data. In this study, we assessed the accuracy of the Aldy computational method to extract PGx genotypes from WGS and WES data for 14 and 13 major pharmacogenes, respectively.
Germline DNA was isolated from whole blood samples collected for 264 patients seen at our institutional molecular solid tumor board. DNA was used for panel-based genotyping within our institutional Clinical Laboratory Improvement Amendments- (CLIA-) certified PGx laboratory. DNA was also sent to other CLIA-certified commercial laboratories for clinical WGS or WES. Aldy v3.3 and v4.4 were used to extract PGx genotypes from these NGS data, and results were compared to the panel-based genotyping reference standard that contained 45 star allele-defining variants within
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Mean WGS read depth was >30x for all variant regions except for
(average read depth was 29 reads), and mean WES read depth was >30x for all variant regions. For 94 patients with WGS, Aldy v3.3 diplotype calls were concordant with those from the genotyping reference standard in 99.5% of cases when excluding diplotypes with additional major star alleles not tested by targeted genotyping, ambiguous phasing, and
hybrid alleles. Aldy v3.3 identified 15 additional clinically actionable star alleles not covered by genotyping within
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. Within the WGS cohort, Aldy v4.4 diplotype calls were concordant with those from genotyping in 99.7% of cases. When excluding patients with
copy number variation, all Aldy v4.4 diplotype calls except for one
diplotype call were concordant with genotyping for 161 patients in the WES cohort.
Aldy v3.3 and v4.4 called diplotypes for major pharmacogenes from clinical WES and WGS data with >99% accuracy. These findings support the use of Aldy to repurpose clinical NGS data to inform clinical PGx.
"Agricultural advisory services play an important role in supporting the use of the agricultural sector as an engine of pro-poor growth and enabling small farmers to meet new challenges, such as ...accessing export markets, adopting environmentally sustainable production techniques, and coping with HIV/AIDS and other health challenges that affect agriculture...There is now renewed interest in agricultural advisory services in many countries... The questions under debate include: What should be the roles of the public sector, private sector, and civil society? How can we ensure that agricultural advisory services are demand-driven and meet the diverse information needs of farmers? How can advisory services be made efficient and financially sustainable? How can we ensure that female farmers, the poor, and other marginalized groups have access to agricultural advisory services?" from Authors' Summary
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