Using case studies for enhancing capacity in managing forest genetic resources

Forest trees are long-lived species with high genetic diversity that is crucial for their survival, regeneration and adaptation. However, forest managers and conservationists are often not well informed about the relevance of genetic aspects to population viability. Lack of understanding of forest genetic resources (FGR) therefore constrains conservation of tree species, increases genetic risks in subsequent generations and hinders adaptation to climate change. Examination of tertiary forestry education curricula shows poor or no coverage of FGR issues, while biology teaching is often devoid of the social and practical realities. A vicious cycle is looming in which teaching and understanding of FGR and its importance to conserving and using forest tree species in protected areas and in production landscapes becomes increasingly marginalised. We describe a case study based approach to teaching and learning about FGR use and conservation, based on real research results and subsequent recommendations. Designed to promote ‘FGR-friendly’ decision-making, the Training Guide covers practical issues in forest and tree conservation and management of both global and local relevance. Each case study provides genetic, ecological and socioeconomic information as a basis for students’ analysis. Teacher’s notes, PowerPoint presentations and videos give background information to each case. The guide is intended for both tertiary education and on-the-job training. The material has proved popular with trainees and is flexible and easy to use in a range of formal and informal learning situations. Case study based modules are currently available in English, Spanish, French, with Russian and Chinese in preparatio

North Sea mackerel egg survey: dutch participation may and June 2011

Every three years an international North Sea survey is carried out by two European institutes, Institute for Marine Research (IMR) from Norway and Institute for Marine Resources and Ecosystem Studies (IMARES) from the Netherlands, to monitor the spatial and seasonal distribution of North Sea mackerel. In 2011 the North Sea mackerel egg survey was performed. The entire spawning area was sampled by IMR, Norway and IMARES, The Netherlands. The whole spawning area was sampled three times. IMARES covered the complete sampling area in the first period, in the second period IMR covered the northern part and IMARES the southern part of the spawning area. The third period the whole spawning area was covered by IMR. In total 190 ichthyoplankton samples were taken with a Gulf VII plankton torpedo with a Seabird CTD mounted on top. Additionally, adult fish samples for the estimation of fecundity and atresia were taken using a pelagic trawl. The survey was successful and IMARES managed to sample all but 3 of the planned stations. Numbers of mackerel eggs found in the samples were comparable to 2008. Total mackerel egg production in 2011 was 116*1012 and Spawning Stock Biomass (SSB) was estimated at 165*103 tons, which is slightly higher compared to 2008. Highest egg production was found in the first sampling week and it is possible that the beginning of mackerel spawning is missed

Is local best? Examining the evidence for local adaptation in trees and its scale

Although the importance of using local provenance planting stock for woodland production, habitat conservation and restoration remains contentious, the concept is easy to understand, attractive and easy to ‘sell’. With limited information about the extent and scale of adaptive variation in native trees, discussion about suitable seed sources often emphasises “local” in a very narrow sense or within political boundaries, rather than being based on sound evidence of the scale over which adaptation occurs. Concerns exist over the actual scale (magnitude and spatial scale) of adaptation in trees and the relative dangers of incorrect seed source or restricted seed collection, leading to the establishment of trees with restricted genetic diversity and limited adaptive potential. Tree provenance and progeny field trials in many parts of the world have shown the existence of genotype by environment interaction in many tree species, but have not necessarily looked at whether this is expressed as a home site advantage (i.e. whether provenance performance is unstable across sites, and there is better performance of a local seed source). This review will examine the evidence for local adaptation and its scale in a number of native tree species from different trial sites across the globe (e.g. tropical, Mediterranean, temperate). These trials have been measured and in some cases results published in a range of formats. The data have, however, usually been presented in the form of which provenances grow best at which sites. The review will examine existing data (published and unpublished) in the context of the scale of local adaptation, with the results being presented in two formats: (a) relating survival, performance of provenances (classified by seed zone/provenance region of origin) to seed zone/provenance region of the planting site; (b) plotting survival, performance provenances against the distance (Euclidean/ecological) between the provenance and the trial site

Genetic considerations in ecosystem restoration using native tree species. State of the World’s Forest Genetic Resources – Thematic Study.

There is renewed interest in the use of native tree species in ecosystem restoration for their biodiversity benefits. Growing native tree species in production systems (e.g. plantation forests and subsistence agriculture) can also ensure landscape functionality and support for human livelihoods. Achieving these full benefits requires consideration of genetic aspects that are often neglected, such as suitability of germplasm to the site, quality and quantity of the genetic pool used and regeneration potential. Understanding the extent and nature of gene flow across fragmented agro-ecosystems is also crucial to successful ecosystem restoration. We review the role of genetic considerations in a wide range of ecosystem restoration activities involving trees and evaluate how different approaches take, or could take, genetic aspects into account, leading towards the identification and selection of the most appropriate methods

Destabilization of dark states and optical spectroscopy in Zeeman-degenerate atomic systems

We present a general discussion of the techniques of destabilizing dark states in laser-driven atoms with either a magnetic field or modulated laser polarization. We show that the photon scattering rate is maximized at a particular evolution rate of the dark state. We also find that the atomic resonance curve is significantly broadened when the evolution rate is far from this optimum value. These results are illustrated with detailed examples of destabilizing dark states in some commonly-trapped ions and supported by insights derived from numerical calculations and simple theoretical models.Comment: 14 pages, 10 figure

The resilience of forest fragmentation genetics — no longer a paradox — we were just looking in the wrong place

Editorial

Post-vaccination COVID-19: A case-control study and genomic analysis of 119 breakthrough infections in partially vaccinated individuals

BACKGROUND: Post-vaccination infections challenge the control of the COVID-19 pandemic. METHODS: We matched 119 cases of post-vaccination SARS-CoV-2 infection with BNT162b2 mRNA, or ChAdOx1 nCOV-19, to 476 unvaccinated patients with COVID-19 (Sept 2020-March 2021), according to age and sex. Differences in 60-day all-cause mortality, hospital admission, and hospital length of stay were evaluated. Phylogenetic, single nucleotide polymorphism (SNP) and minority variant allele (MVA) full genome sequencing analysis was performed. RESULTS: 116/119 cases developed COVID-19 post first vaccination dose (median 14 days, IQR 9 - 24 days). Overall, 13/119 (10∙9%) cases and 158/476 (33∙2%) controls died (p<0.001), corresponding to 4∙5 number needed to treat (NNT). Multivariably, vaccination was associated with 69∙3% (95%CI 45∙8 - 82∙6) relative risk (RR) reduction in mortality. Similar results were seen in subgroup analysis for patients with infection onset ≥14 days after first vaccination (RR reduction 65∙1%, 95%CI 27∙2 - 83∙2, NNT 4∙5), and across vaccine subgroups (BNT162b2: RR reduction 66%, 95%CI 34∙9 - 82∙2, NNT 4∙7, ChAdOx1: RR reduction 78∙4%, 95%CI 30∙4 - 93∙3, NNT 4∙1). Hospital admissions (OR 0∙80, 95%CI 0∙51 - 1∙28), and length of stay (-1∙89 days, 95%CI -4∙57 - 0∙78) were lower for cases, while Ct values were higher (30∙8 versus 28∙8, p = 0.053). B.1.1.7 was the predominant lineage in cases (100/108, 92.6%) and controls (341/446, 76.5%). Genomic analysis identified one post-vaccination case harboring the E484K vaccine escape mutation (B.1.525 lineage). CONCLUSIONS: Previous vaccination reduces mortality when B.1.1.7 is the predominant lineage. No significant lineage-specific genomic changes during phylogenetic, SNP and MVA analysis were detected