A comprehensive landscape genomics approach for seed sourcing strategies in landscapes under varying degrees of habitat disturbance

As most ecosystems around the world are threatened by anthropogenic degradation and climate change, there is an increasing urgency to implement restoration strategies aiming at ensuring ecosystem self‐sustainability and resilience. An initial step towards that goal relies on selecting the most suitable seed sources for a successful revegetation, which can be extremely challenging in highly degraded landscapes. The most common seed sourcing strategy is to select local seeds because it is assumed that plants experience strong adaptations to their natal sites. An alternative strategy is the selection of climate‐adapted genotypes to future conditions. While considering future climatic projections is important to account for spatial shifts in climate to inform assisted gene flow and translocations, to restore highly degraded landscapes we need a comprehensive approach that first accounts for species adaptations to current at‐site environmental conditions. In this issue of Molecular Ecology Resources, Carvalho et al. present a novel landscape genomics framework to identify the most appropriate seed sourcing strategy for moderately and highly degraded sites by integrating genotype, phenotype and environmental data in a spatially explicit context for two native plant species with potential to help restore iron‐rich Amazonian savannas. This framework is amenable to be applicable and adapted to a broad range of restoration initiatives, as the dichotomy between focusing on the current or future climatic conditions should depend on the goals and environmental circumstances of each restoration site.     

Testing the effect of restoration‐focused silviculture on oak regeneration and groundlayer plant communities in urban–exurban oak woodlands

Throughout their global range, oak‐dominated ecosystems have undergone state changes in stand structure and composition. Land managers face an especially acute challenge in restoring oak ecosystems and promoting oak regeneration in urban–exurban areas, where high‐intensity silvicultural treatments are often not feasible. To investigate low‐intensity management alternatives which could be widely applied in urban–exurban forests, a large‐scale adaptive management experiment was implemented in Lake County, IL, in 2012. Five canopy manipulation treatments of varying intensity, timing, and spatial aggregation were replicated across three study areas and oak seedlings were under‐planted into treatment units following management. Responses of understory light environment, shrub and groundlayer plant communities, and survival and growth of underplanted oak seedlings were evaluated. Understory light availability, canopy openness, total groundlayer plant cover, and groundlayer species diversity all differed among treatments. However, although understory light availability was significantly increased by canopy manipulation, groundlayer communities and oak seedling survival and growth did not differ among treatments. High overall seedling survival rates suggest current conditions are amenable to oak regeneration, but long‐term monitoring will be needed to assess the potential for seedlings to transition to the sapling and canopy layers. Early results demonstrate that canopy‐focused silvicultural treatments can affect the understory light environment and, to some degree, groundlayer plant communities. However, underplanting of oak seedlings paired with subcanopy thinning may be sufficient to restore an oak seedling layer, and (when necessary or preferred) canopy manipulation could potentially be deferred until later in the restoration timeline to promote oak recruitment.     

隐匿性胫骨平台骨折MRI、CT检查的影像学表现及其诊断价值对比的回顾性研究

目的:研究对比隐匿性胫骨平台骨折(TPOF)磁共振成像(MRI)、电子计算机断层扫描(CT)检查的影像学表现及其诊断价值。方法:回顾性分析我院自2016年1月至2019年12月拟诊断为TPOF且X线检查表现为阴性的89例患者的临床资料,分别对所有受试者进行MRI、CT检查,且以手术检查为金标准,比较上述两种影像学检查手段诊断TPOF的效能。此外,比较MRI、CT检查诊断TPOF的表观扩散系数以及节段各向异性值以及对TPOF类型的检出率。结果:MRI检查诊断TPOF的灵敏度、特异度及准确度分别为98.61%、94.12%、97.75%,均高于CT检查的79.17%、64.71%、76.40%(均P<0.05)。MRI检查诊断TPOF的表观扩散系数高于CT检查,而节段各向异性值低于CT检查(均P<0.05)。MRI检查对骨皮质骨折的检出率低于CT检查,而对骨小梁骨折的检出率高于CT检查(均P<0.05)。结论:MRI检查诊断TPOF的价值高于CT检查,且在骨小梁骨折的检出率方面优于CT检查,但CT检查应用于骨皮质骨折的诊断价值更高。临床工作中可能通过联合MRI以及CT检查,继而达到提高TPOF检出率的目的。     

蜻蜓目昆虫资源价值

从内禀价值、生态价值、经济价值和社会价值四个层次,总结和探讨了蜻蜓目昆虫资源价值。蜻蜓目昆虫是古老而进化成功的昆虫,遗传资源丰富,是生态系统中不可或缺的消费者,也是优良的生态环境指示生物,适用于对水陆环境的评价;作为食用昆虫优质原料、中医动物药原材料、天敌昆虫生防资源和未来科技仿生对象,可为人类创造较好的经济价值;还与人类的精神文化世界息息相关,逐渐形成了独具魅力的昆虫文化现象,具有现实的和潜在的资源价值。     

Science,Uncertainty, and Values in Ecological Restoration: A Case Study in Structured Decision‐Making and Adaptive Management

This article demonstrates a structured and collaborative approach to decision‐making in the context of adaptive management experiments, using a case study involving the restoration of a hydrological regime in a regulated river in western Canada. It provides a framework based on principles of decision analysis for structuring difficult multi‐attribute decisions and building the trust and technical capacity needed to implement them. Participants included ecologists and fisheries biologists, government regulators, electric utility employees, and representatives of aboriginal communities. The case study demonstrates a values‐based approach to implementing adaptive management that addresses some of the long‐standing difficulties associated with integrating adaptive management into restoration decisions. It highlights practical methods for incorporating participants' values concerned with learning, cultural quality, and stewardship as part of developing a decision‐making and monitoring framework for restoration initiatives. It also provides an example of how to implement principles of meaningful consultation in a restoration context, with emphasis on ensuring that all voices and concerns are heard and meaningfully incorporated. Participants have adopted the framework as a model to guide future collaborative decision‐making processes involving Aboriginal communities, regulatory agencies, and other parties.     

Quantifying the effects of migration and mutation on adaptation and demography in spatially heterogeneous environments

How do mutation and gene flow influence population persistence, niche expansion and local adaptation in spatially heterogeneous environments? In this article, we analyse a demographic and evolutionary model of adaptation to an environment containing two habitats in equal frequencies, and we bridge the gap between different theoretical frameworks. Qualitatively, our model yields four qualitative types of outcomes: (i) global extinction of the population, (ii) adaptation to one habitat only, but also adaptation to both habitats with, (iii) specialized phenotypes or (iv) with generalized phenotypes, and we determine the conditions under which each equilibrium is reached. We derive new analytical approximations for the local densities and the distributions of traits in each habitat under a migration–selection–mutation balance, compute the equilibrium values of the means, variances and asymmetries of the local distributions of phenotypes, and contrast the effects of migration and mutation on the evolutionary outcome. We then check our analytical results by solving our model numerically, and also assess their robustness in the presence of demographic stochasticity. Although increased migration results in a decrease in local adaptation, mutation in our model does not influence the values of the local mean traits. Yet, both migration and mutation can have dramatic effects on population size and even lead to metapopulation extinction when selection is strong. Niche expansion, the ability for the population to adapt to both habitats, can also be prevented by small migration rates and a reduced evolutionary potential characterized by rare mutation events of small effects; however, niche expansion is otherwise the most likely outcome. Although our results are derived under the assumption of clonal reproduction, we finally show and discuss the links between our model and previous quantitative genetics models.     

Influence of steam and dry heat pretreatment on fibre properties and cellulase degradation of cellulosic fibres

Cellulosic fabric samples of cotton, viscose, lyocell and modal were pretreated with steam and dry heat in the range of 100–190°C. The samples were then treated with a Trichoderma reesei cellulase preparation (total culture filtrate – TC), with mechanical agitation, at a high enzyme dosage of 75% by weight of fabric, for 8 hours. Generally, viscose proved to be easily degradable, followed by cotton and modal. The degree of hydrolysis was the least for Lyocell. Dry heat pretreatments exerted a lower influence on degradation rate than steam pretreatments which showed a distinct maximum at a steam temperature of 130°C. The hydrolysis rate varied strongly depending on treatment conditions and fibre type. Water retention values in treated substrates were changed by up to 20% of initial values.     

Anisotropic adaptive finite element method for modelling blood flow

In this study, we present an adaptive anisotropic finite element method (FEM) and demonstrate how computational efficiency can be increased when applying the method to the simulation of blood flow in the cardiovascular system. We use the SUPG formulation for the transient 3D incompressible Navier–Stokes equations which are discretised by linear finite elements for both the pressure and the velocity field.

Given the pulsatile nature of the flow in blood vessels we have pursued adaptivity based on the average flow over a cardiac cycle. Error indicators are derived to define an anisotropic mesh metric field. Mesh modification algorithms are used to anisotropically adapt the mesh according to the desired size field. We demonstrate the efficiency of the method by first applying it to pulsatile flow in a straight cylindrical vessel and then to a porcine aorta with a stenosis bypassed by a graft. We demonstrate that the use of an anisotropic adaptive FEM can result in an order of magnitude reduction in computing time with no loss of accuracy compared to analyses obtained with uniform meshes.     

Stress-Induced Mutagenesis in Bacteria

ABSTRACT

Bacteria spend their lives buffeted by changing environmental conditions. To adapt to and survive these stresses, bacteria have global response systems that result in sweeping changes in gene expression and cellular metabolism. These responses are controlled by master regulators, which include: alternative sigma factors, such as RpoS and RpoH; small molecule effectors, such as ppGpp; gene repressors such as LexA; and, inorganic molecules, such as polyphosphate. The response pathways extensively overlap and are induced to various extents by the same environmental stresses. These stresses include nutritional deprivation, DNA damage, temperature shift, and exposure to antibiotics. All of these global stress responses include functions that can increase genetic variability. In particular, up-regulation and activation of error-prone DNA polymerases, down-regulation of error-correcting enzymes, and movement of mobile genetic elements are common features of several stress responses. The result is that under a variety of stressful conditions, bacteria are induced for genetic change. This transient mutator state may be important for adaptive evolution.     

Cell division systems that account for the various arrangements and types of differentiated cells within the secondary phloem of conifers

There are two main types of arrangement of differentiated cells within the radial cell files of secondary phloem in conifer trees. In the C-type arrangement, characteristic of the Cupressaceae, fibre (F), parenchyma (P) and sieve (S) cells are arranged in recurrent groups, such as the “standard” cellular quartet (FSPS). In the P-type arrangement, characteristic of the Pinaceae, there are no fibres and one of the characteristic recurrent arrangements is the cellular sextet (PSSSSS). In addition, in both C-type and P-type arrangements, similar cell types are often organised into tangential bands. A simulation model, based on the theory of L-systems, was devised to account for the determination of these two types of regular and recurrent patterns of differentiated phloem cells. It was based on the supposition that, in the meristematic portion of the phloem domain, there are specific spatio-temporal patterns of periclinal cell division. When new cells are produced, those already present are displaced along the cell file, occupying a predictable number of cellular positions as a result of each round of cell division. Each cellular position is assumed to be associated with a specific value of a morphogen, such as the auxin, indole acetic acid, relevant for vascular differentiation. Using published quantitative data on the distribution auxin across the phloem, and assuming specific threshold values of auxin necessary for the determination of each cell type, it was found that sequences of F, S or P cells developed in accordance with the specific pattern of cell division and the related positional values of auxin experienced by the cells during their displacement through the immediately post-mitotic zone of cell determination. The model accounts not only for the typical C-type and P-type cellular arrangements, but also for certain variant arrangements. It provides a working example of the concepts of positional information and positional value for patterned differentiation within a developing plant tissue. There are similarities between the way groups of phloem cells develop and the differentiation of somites in the embryos of vertebrates.