Ecological Genomics for the Conservation of Dwarf Birch

PhDThe persistence of woody plant populations faces numerous environmental challenges, including climate change, hybridisation and population fragmentation. Here I explore the genomic signatures and relative importance of these pressures in Dwarf Birch (Betula nana), which has declined significantly over the last century across the Scottish Highlands. Firstly, I find that future climate is likely to result in a significant range reduction and that relict populations are likely to display reduced fitness. Secondly, I show that combining multiple mutation rate markers yields more accurate estimates of demographic history and the impact of fragmentation. I develop a novel method to derive high mutation rate markers from short sequencing reads, to facilitate more widespread application. Thirdly, I assess the degree of local adaptation, and explore potential for composite provenancing for the restoration of B. nana populations. Surprisingly, the data yields little evidence of adaptive introgression from the related tree B. pubescens, suggesting that this may not be an alternative route to climate tolerance. Finally, I review published literature on the population structure and genetic diversity of genus Betula in Europe and consider options for the conservation and management of B. nana, including assisted gene flow and prioritization of in situ genetic diversity.NERC CASE studentship NE/J017388/

Enset‐based agricultural systems in Ethiopia: A systematic review of production trends, agronomy, processing and the wider food security applications of a neglected banana relative

Enset (Ensete ventricosum (Welw.) Cheesman) is the major starch staple of the Ethiopian Highlands, where its unique attributes enhance the food security of approximately 20 million people and have earned it the title “The Tree Against Hunger”. Yet enset‐based agriculture is virtually unknown outside of its narrow zone of cultivation, despite growing wild across much of East and Southern Africa. Here, we review historical production data to show that the area of land under enset production in Ethiopia has reportedly increased 46% in two decades, whilst yield increased 12‐fold over the same period, making enset the second most produced crop species in Ethiopia—though we critically evaluate potential issues with these data. Furthermore, we address a major challenge in the development and wider cultivation of enset, by reviewing and synthesizing the complex and fragmented agronomic and ethnobotanic knowledge associated with this species; including farming systems, processing methods, products, medicinal uses and cultural importance. Finally, we provide a framework to improve the quality, consistency and comparability of data collected across culturally diverse enset‐based agricultural systems to enhanced sustainable use of this neglected starch staple. In conclusion, we discuss the challenges and opportunities for enset cultivation beyond its restricted distribution, and the regional food security potential it could afford smallholders elsewhere in Southern and East Africa

Measure of indigenous perennial staple crop, Ensete ventricosum, associated with positive food security outcomes in southern Ethiopian highlands

Enset-based food systems are unique to southern Ethiopia where they serve as a staple food for millions of households. Enset, a banana relative of which the entire pseudostem and corm are edible, possesses a highly unusual combination of crop traits including perenniality, highly flexible planting and harvest times, and tolerance of a very wide range of environmental conditions, which together earn it the local name of “the tree against hunger.” Previous studies have identified the strategic food security value of mature enset stands for household food security, but a multisector panel data set makes identifying wider enset food security associations tractable for the first time. We assess whether household data on area of mature enset is associated with four indicators of food security together with demographic, asset, and consumption covariates. We find that area of mature enset significantly improves estimates for three of four food security indicators, thus improving our understanding of the role of understudied indigenous crops. Consistent and reliable food security indicators are needed to improve monitoring, particularly with regard to stability. Variance components of multilevel longitudinal models indicate that exposure to both idiosyncratic and covariate disturbance affects food security stability in a way that is consistent with reports of enset acting as both a food security buffer and an active adaptation strategy in the face of shocks or change. Here we show that living assets comprising culturally relevant indigenous crops such as enset can improve accuracy of food insecurity assessments, which may encourage wider investigation of other agrifood system-specific asset-like natural stores of value associated with food security and resilience

Smallholder farmers expand production area of the perennial crop enset as a climate coping strategy in a drought‐prone indigenous agrisystem

Societal Impact Statement Climate resilient crops will become increasingly important, especially in regions where smallholder farmers are vulnerable to climate extremes. Enset, a multipurpose perennial staple crop consumed by over 20 million people in Ethiopia, purportedly provides food security during periods of drought. Here, we find evidence that frequent severe drought events led to an increase in enset production area. This is consistent with a broader pattern whereby farmers preferentially cultivate perennial and storable crops after long-term drought events, providing an example of adaptation to fluctuations in climate through crop choice in indigenous agrisystems. Summary Smallholder farms in the semiarid and subhumid tropics are particularly vulnerable to increased climate variability. Indigenous agrisystems that have co-evolved with climate variability may have developed resilience strategies. In the Southwest Ethiopian Highlands, agrisystems are dominated by the multipurpose perennial staple enset (Ensete ventricosum), characterised by flexible harvest timing, high yield, long storage, and putative drought tolerance, earning it the name ‘the tree against hunger’. We tested three hypotheses using crop production area and climate data. First, that enset production area is greatest in the most drought-prone locations. Second, that farmers respond to drought events by increasing enset production area. And third, that drought encourages shifts in agrisystem composition more widely towards perennial or storable crops. We found that regions with a higher severe drought frequency are associated with significantly higher proportion of enset production. Similarly, the Standardised Precipitation Evapotranspiration Index of the previous 3 years is significantly negatively correlated with enset production area time series, suggesting that prior drier conditions led farmers to increase the land under enset production. Regarding other crops, storage crops roots and tubers were also preferentially selected after long-term drought over annual crops, indicating their capacity for longer-term resilience. Promoting the production of crops such as perennials, which have more extensive and established root systems, may be a strategy to ensure food security during drought or climate variability. These results indicate the potential of farmer's resilience strategies to improve food security in a changing climate

STAT6 variants associate with relapse of fosinophilic esophagitis in patients receiving long-term proton pump inhibitor therapy

Background & Aims: Based on histologic features, variants in STAT6 are associated with a poor initial response to proton pump inhibitor (PPI) therapy in pediatric patients with eosinophilic esophagitis (EoE). We investigated whether these genetic variants are associated with a poor long-term response in children with EoE who initially responded to PPI therapy. Methods: We performed a prospective longitudinal cohort study of children ages 2 to 16 years who met the diagnostic criteria for EoE (≥15 eosinophils/high-power field [eos/hpf]), responded to 8 weeks of treatment with 2 mg/kg/d PPI (<15 eos/hpf), and whose dose then was reduced to 1 mg/kg/d PPI (maintenance therapy) for 1 year, at which point biopsy specimens were collected by endoscopy. Genomic DNA was isolated from formalin-fixed paraffin-embedded biopsy tissue and was genotyped for variants of STAT6. Remission of inflammation was assessed at eos/hpf thresholds of <15 and ≤5. Results: Among 73 patients who received 1 mg/kg/d PPI maintenance therapy for 1 year, 13 patients (18%) had 6 to 14 eos/hpf, 36 patients (49%) had 5 or fewer eos/hpf, and 24 patients (33%) relapsed to EoE (≥15 eos/hpf). Carriage of any of 3 STAT6 variants in linkage disequilibrium (r2 ≥0.8; rs324011, rs167769, or rs12368672) was associated with a 2.3- to 2.8-fold increase in the odds of EoE relapse, and with a 2.8- to 4.1-fold increase in the odds of having 6 to 14 eos/hpf. For rs324011, the odds ratio [95% CI] for relapse was 2.77 [1.11, 6.92]; P = .029, and the odds ratio [95% CI] for having 6 to 14 eos/hpf was 3.06 [1.27, 7.36]; P = .012. Conclusions: Pediatric EoE patients who initially respond to PPI therapy and carry STAT6 variants rs324011, rs167769, or rs12368672 are at increased risk of relapse after 1 year of PPI maintenance therapy

A new frog species of the subgenus Asperomantis (Anura, Mantellidae, Gephyromantis) from the Bealanana District of northern Madagascar

A recent study on a group of rough-skinned Gephyromantis frogs from Madagascar (Anura: Mantellidae: Mantellinae) established a new subgenus, Asperomantis, with five described species and one undescribed candidate species. Based on newly collected material from the Bealanana District, we address the taxonomy of this candidate species, and reveal that it consists of two populations with low genetic and morphological divergence but considerable bioacoustic differences that are obvious to the human ear. As a result, we describe some of the specimens formerly assigned to Gephyromantis sp. Ca28 as G. angano sp. n. and assign the remaining specimens from a locality between Bealanana and Antsohihy to a new Unconfirmed Candidate Species, G. sp. Ca29. Gephyromantis angano sp. n. is a small species that strongly resembles G. asper and G. ceratophrys, but it differs from these and all other Gephyromantis species by a unique, clinking advertisement call. The new species may be highly threatened by habitat fragmentation, but at present we recommend it be treated as Data Deficient until more data are available to assess its distribution. We discuss the curious relationship between G. angano sp. n. and G. sp. Ca29, which we suspect may represent a case of incipient speciation. We also identify two additional new Unconfirmed Candidate Species of Gephyromantis based on sequence data from other specimens collected during our surveys in the Bealanana District

Toward unifying global hotspots of wild and domesticated biodiversity

Global biodiversity hotspots are areas containing high levels of species richness, endemism and threat. Similarly, regions of agriculturally relevant diversity have been identified where many domesticated plants and animals originated, and co-occurred with their wild ancestors and relatives. The agro-biodiversity in these regions has, likewise, often been considered threatened. Biodiversity and agro-biodiversity hotspots partly overlap, but their geographic intricacies have rarely been investigated together. Here we review the history of these two concepts and explore their geographic relationship by analysing global distribution and human use data for all plants, and for major crops and associated wild relatives.We highlight a geographic continuum between agro-biodiversity hotspots that contain high richness in species that are intensively used and well known by humanity (i.e., major crops and most viewed species onWikipedia) and biodiversity hotspots encompassing species that are less heavily used and documented (i.e., crop wild relatives and species lacking information on Wikipedia). Our contribution highlights the key considerations needed for further developing a unifying concept of agro-biodiversity hotspots that encompasses multiple facets of diversity (including genetic and phylogenetic) and the linkage with overall biodiversity. This integration will ultimately enhance our understanding of the geography of human-plant interactions and help guide the preservation of nature and its contributions to people

Clinical Outcomes by Race and Ethnicity in the Systolic Blood Pressure Intervention Trial (SPRINT): A Randomized Clinical Trial

BACKGROUND: The Systolic Blood Pressure Intervention Trial (SPRINT) showed that targeting a systolic blood pressure (SBP) of ≤ 120 mm Hg (intensive treatment) reduced cardiovascular disease (CVD) events compared to SBP of ≤ 140 mm Hg (standard treatment); however, it is unclear if this effect is similar in all racial/ethnic groups. METHODS: We analyzed SPRINT data within non-Hispanic White (NHW), non-Hispanic Black (NHB), and Hispanic subgroups to address this question. High-risk nondiabetic hypertensive patients (N = 9,361; 30% NHB; 11% Hispanic) 50 years and older were randomly assigned to intensive or standard treatment. Primary outcome was a composite of the first occurrence of a myocardial infarction, acute coronary syndrome, stroke, decompensated heart failure, or CVD death. RESULTS: Average postbaseline SBP was similar among NHW, NHB, and Hispanics in both treatment arms. Hazard ratios (HRs) (95% confidence interval) (intensive vs. standard treatment groups) for primary outcome were 0.70 (0.57–0.86), 0.71 (0.51–0.98), 0.62 (0.33–1.15) (interaction P value = 0.85) in NHW, NHB, and Hispanics. CVD mortality HRs were 0.49 (0.29–0.81), 0.77 (0.37–1.57), and 0.17 (0.01–1.08). All-cause mortality HRs were 0.61 (0.47–0.80), 0.92 (0.63–1.35), and 1.58 (0.73–3.62), respectively. A test for differences among racial/ethnic groups in the effect of treatment assignment on all-cause mortality was not significant (Hommel-adjusted P value = 0.062) after adjustment for multiple comparisons. CONCLUSION: Targeting a SBP goal of ≤ 120 mm Hg compared to ≤ 140 mm Hg led to similar SBP control and was associated with similar benefits and risks among all racial ethnic groups, though NHBs required an average of ~0.3 more medications