No Evidence‐Based Restoration Without a Sound Evidence Base: A Reply to Guldemond et al.

Evidence‐based practice is not possible without an evidence base. Guldemond et al. confuse our attempt at assessing the status of the evidence base of restoration programs in South Africa with attempting to assess whether restoration is evidence‐based. While we fully agree with them that there is a need to assess whether practitioners use evidence in their decision‐making, we assert that use of evidence is the last step in the evidence‐based approach. It is preceded by the generation (and documentation) of evidence through baseline condition assessment, proper goal setting, sound monitoring of the impacts of the chosen intervention as well as effective dissemination of resulting evidence. To answer the question whether restoration is evidence‐based would require the assessment of all stages from generation to use. We chose to start at the beginning, a logical place to start.     

Carbon stocks in above‐ground biomass of monoculture plantations,mixed species plantations and environmental restoration plantings in north‐east Australia

Summary The emergence of carbon markets has provided a potential source of funding for reforestation projects. However, there is concern amongst ecologists that these markets will promote the establishment of monoculture plantations rather than more diverse restoration plantings, on the assumption that fast‐growing monocultures are likely to store more carbon than restoration plantings. We examined the validity of this assumption for three predominantly rainforest plantation types established in the moist tropical uplands of north‐east Australia: monoculture plantations of native rainforest conifers (n = 5, mean age 13 years); mixed species plantations of rainforest cabinet timber species, rainforest conifers and eucalypts (n = 5, mean age 13 years); and, environmental restoration plantings comprised mostly of a diverse range of rainforest trees (n = 10, mean age 14 years). We found that restoration plantings stored significantly more carbon in above‐ground biomass than monoculture plantations of native conifers (on average, 106 t vs 62 t carbon per ha); and tended to store more carbon than mixed species timber plantations which were intermediate in value (86 t carbon per ha). Carbon stocks were higher in restoration plantings than in monoculture and mixed species plantations for three reasons. First, and most importantly, restoration plantings were more densely stocked than monoculture and mixed species plantations. Second, there were more large diameter trees in restoration plantings than monoculture plantations. Third, the trees used in restoration plantings had a higher average wood density than the conifers used in monoculture plantations. While, on average, wood density was higher in mixed species plantations than restoration plantings, the much higher stocking rate of restoration plantings meant they stored more carbon than mixed species plantations. We conclude that restoration plantings in the moist tropics of north‐east Australia can accumulate relatively high amounts of carbon within two decades of establishment. Comparison with reference rainforest sites suggests that restoration plantings could maintain their high stocking rates (and therefore high biomass) as they develop in future decades. However, because restoration plantings are currently much more expensive to establish than monoculture plantations, restoration plantings are unlikely to be favoured by carbon markets. Novel reforestation techniques and designs are required if restoration plantings are to both provide habitat for rainforest biota and store carbon in biomass at a cost comparable to monoculture plantations.     

Are gardens effective in butterfly conservation? A case study with the pipevine swallowtail, <Emphasis Type="Italic">Battus philenor</Emphasis>

Gardens with nectar sources and larval host plants have been proposed to stem the decline in butterfly abundance caused by habitat loss. However, no study has provided evidence that gardens benefit butterflies. We examined the use of natural sites and gardens in the San Francisco bay area by the butterfly, Battus philenor. We found that natural sites were more likely to attract adult B. philenor, received more oviposition, and had higher juvenile survival than gardens sites. Butterflies were more likely to be present in gardens with established populations of the host plant, Aristolochia californica, growing in the sun. Battus philenor are unlikely to visit gardens with host plants planted within the past 7 years. Gardens between the ages of 8–40 years received oviposition, but did not always support completion of larval development of B. philenor. In gardens with host plants over 40 years of age, B. philenor consistently survived from egg to the adult stage. Natural enemy induced mortality of eggs did not differ between garden and natural sites, but overall egg survival was lower in gardens than at natural sites. It is unlikely that gardens serve as 'refugia' for B. philenor in years when populations in natural sites experience low survival or low fecundity. Even in gardens capable of supporting larvae to maturity, the density of eggs and survival rates were lower than in natural populations of the host plant suggesting that gardens were not optimal habitats. Therefore, without evidence that juvenile abundance and survival rates in gardens matches or exceeds that in natural sites, it is most likely that gardens act as population sinks for B. philenor.     

Evaluating Basking-Habitat Deficiency in the Threatened Eastern Massasauga Rattlesnake

ABSTRACT Woody plant succession is hypothesized to threaten many reptile populations by reducing the amount of solar energy available for thermoregulation. Mitigation via vegetation management is often recommended; however, the need for such management practices rarely has been evaluated. We examined the need for basking-site enhancement for the eastern massasauga rattlesnake (Sistrurus c. catenatus; hereafter EMR) in New York, USA, where only 2 populations remain: one at an open-canopy site and another at a closed-canopy site. Microhabitat temperatures were substantially lower at the closed-canopy site, where EMRs selected the warmest available basking sites. Eastern massasauga rattlesnakes in the open-canopy population selected basking sites that afforded greater cryptic cover. We recommend experimental reduction of shrub cover to improve EMR basking habitat at the closed-canopy site. More generally, we caution that management efforts to reduce shrub cover for basking EMRs should maintain adequate cryptic cover.     

人脑和人血清胆碱酯酶三维结构的计算机模拟研究

本文以同源的电鳐胆碱酯酶（Ｔ．ＡＣｈＥ）的三维结构为模板,模拟预测了人脑和血清胆碱酯酶（Ｈ。ＡＣｈＥ和Ｈ．ＢｕＣｈＥ）的三维结构和活力中心的组成。指Ｔ．ＡＣｈＥ,Ｈ．ＡＣｈＥ和Ｈ．ＢｕＣｈＥ宁间结构差异,并讨论了ＡＣｈ和Ｈ。ＡＣｈＥ的对接（ｄｏｃｋｉｎｇ）。Ｈ。ＡＣｈＥ和Ｈ．ＢｕＣｈＥ三维结构的确定将为进一步深入研究它的中毒机理和合理药物设计提供靶子。     

Deploying microbes as drivers and indicators in ecological restoration

Ecosystem degradation is a major environmental threat. Beyond conservation, restoration of degraded ecosystems is a prerequisite to reinstate their ability to provide essential services and benefits. Most of the restoration efforts focus on aboveground restoration, that is, plants, under the assumption that establishment of plant species will reestablish the faunal and microbial species. While this may be true for some cases, it is not a general rule. Reestablishment of microbial communities by dedicated efforts is also necessary for successful restoration, as cycling of essential nutrients for plant growth and decomposition of organic matter is dependent on them. The role of microbial fertilizers and efficient organisms used in agriculture needs to be explored in restoration. Testing of symbiotic interactions between potential plant growth-promoting Rhizobacteria and plants native to a degraded ecosystem can be conducted and utilized for successful establishment of plant species. However, utmost care must be taken while introducing new microbial species or non-native plant species to an area, as they can adversely affect the resident microbial community. Techniques like phospholipid fatty-acid analysis can be used for taxonomic identification of large microbial groups in non-degraded reference ecosystems before introducing microbial species into a degraded ecosystem. For use of microbes in restoration, more studies on microbe-plant interactions need to be conducted. For use of Soil Microbial Community (SMC) as indicators of restoration, their role and function in the ecology of the area need to be elucidated by employing all the available techniques.     

Community participation and ecological criteria for selecting species and restoring natural capital with native species in the Sahel

Combining community needs and preferences with dryland plant expertise in order to select suitable native species for large‐scale natural capital restoration is the approach that has been successful in the Sahel as part of Africa's Great Green Wall program. In order to increase plant diversity and restore degraded land, we investigated four cross‐border regions of Mali, Burkina Faso, and Niger, all located in dryland ecosystems of the Sahel. In 120 beneficiary village communities, with a total population of over 50,000 farmers, including 51% women, participatory diagnostic meetings were conducted, leading to the selection of 193 plant species, most of which were mainly used for food, medicine, fodder, and fuel. Of these, 170 were native and considered suitable for enriching and restoring those village lands. The most environmentally well‐adapted and economically relevant species were prioritized, quality seeds were collected, and nursery seedlings produced under technical supervision of villages. From 2013 to 2015, 55 woody and herbaceous species were planted to initiate restoration of 2,235 ha of degraded land. On average, 60% of seedlings survived and grew well in the field after three rainy seasons. Due to its multiple uses, including gum arabic production, Acacia senegal was preferred by local people in most cases, accounting for 30% of seedlings planted. Such promising results, in an effort to restore degraded land for and with the help of thousands of farmers, could not have been achieved without the combination of scientific plant expertise and efficient rural capacity development, underpinned by high levels of community engagement.     

抗原抗体复合物型治疗性疫苗(乙克)临床研究中患者血清乙型肝炎病毒表面抗原下降的分析与启示

近年来全球慢性乙型肝炎(chronic hepatitis B,CHB)防治指南提出了“功能性治愈”(functional cure)的概念,即患者经过治疗达到血清乙型肝炎病毒表面抗原(hepatitis B virus surface antigen,HBsAg)消失,但现有抗病毒治疗很难实现这一目标。本研究对既往临床试验中经抗原抗体复合物型治疗性疫苗(乙克)治疗后的CHB患者HBsAg下降情况进行了归纳分析,结果显示,经乙克治疗随访后达到乙型肝炎e抗原(hepatitis B e antigen,HBeAg)血清学转换者的HBsAg下降高达0.95log₁₀IU/mL,显著高于未达到HBeAg血清学转换者的0.32log₁₀IU/mL(P<0.01),而经氢氧化铝佐剂治疗随访后发生HBeAg血清学转换(0.49log₁₀IU/mL)者与未发生HBeAg血清学转换者(0.36log₁₀IU/mL)之间HBsAg下降无统计学差异。乙克组治疗过程中,丙氨酸氨基转移酶(alanine aminotransferase,ALT)骤升(ALT flare)在HBsAg下降>1.0log₁₀IU/mL者中较多见,氢氧化铝组未观察到此现象。回归分析显示,乙克治疗后HBsAg下降的影响因素有患者出现HBeAg血清学转换、感染的HBV为B基因型、治疗过程中ALT出现10倍增高,以及基线血清HBsAg为高水平。结果提示,乙克诱导的特异性免疫对降低CHB患者血清HBsAg水平有一定效果,采用“抗病毒药物治疗＋针对HBsAg的中和性抗体被动免疫＋乙克主动免疫”的“三明治”治疗策略可能会提高“功能性治愈”率。     

Active and machine learning-based approaches to rapidly enhance microbial chemical production

In order to make renewable fuels and chemicals from microbes, new methods are required to engineer microbes more intelligently. Computational approaches, to engineer strains for enhanced chemical production typically rely on detailed mechanistic models (e.g., kinetic/stoichiometric models of metabolism)—requiring many experimental datasets for their parameterization—while experimental methods may require screening large mutant libraries to explore the design space for the few mutants with desired behaviors. To address these limitations, we developed an active and machine learning approach (ActiveOpt) to intelligently guide experiments to arrive at an optimal phenotype with minimal measured datasets. ActiveOpt was applied to two separate case studies to evaluate its potential to increase valine yields and neurosporene productivity in Escherichia coli. In both the cases, ActiveOpt identified the best performing strain in fewer experiments than the case studies used. This work demonstrates that machine and active learning approaches have the potential to greatly facilitate metabolic engineering efforts to rapidly achieve its objectives.