Genomic erosion in a demographically recovered bird species during conservation rescue

The pink pigeon (Nesoenas mayeri) is an endemic species of Mauritius that has made a remarkable recovery after a severe population bottleneck in the 1970s to early 1990s. Prior to this bottleneck, an ex situ population was established from which captive-bred individuals were released into free-living subpopulations to increase population size and genetic variation. This conservation rescue led to rapid population recovery to 400–480 individuals, and the species was twice downlisted on the International Union for the Conservation of Nature (IUCN) Red List. We analyzed the impacts of the bottleneck and genetic rescue on neutral genetic variation during and after population recovery (1993–2008) with restriction site-associated sequencing, microsatellite analyses, and quantitative genetic analysis of studbook data of 1112 birds from zoos in Europe and the United States. We used computer simulations to study the predicted changes in genetic variation and population viability from the past into the future. Genetic variation declined rapidly, despite the population rebound, and the effective population size was approximately an order of magnitude smaller than census size. The species carried a high genetic load of circa 15 lethal equivalents for longevity. Our computer simulations predicted continued inbreeding will likely result in increased expression of deleterious mutations (i.e., a high realized load) and severe inbreeding depression. Without continued conservation actions, it is likely that the pink pigeon will go extinct in the wild within 100 years. Conservation rescue of the pink pigeon has been instrumental in the recovery of the free-living population. However, further genetic rescue with captive-bred birds from zoos is required to recover lost variation, reduce expression of harmful deleterious variation, and prevent extinction. The use of genomics and modeling data can inform IUCN assessments of the viability and extinction risk of species, and it helps in assessments of the conservation dependency of populations.     

松毛虫遗传多样性研究中AFLP反应体系的建立

以油松毛虫为材料,对T4 DNA连接酶不同用量、预扩增中的Mg~(2+)浓度、dNTP浓度、引物浓度以及选择性扩增巾的预扩增产物稀释倍数、Mg2~(2+) 浓度、dNTP浓度、引物浓度和Taq酶浓度进行了比较分析.最终建立了适合松毛虫的AFLP反应体系.用优化的AFLP反应体系,以油松毛虫、赤松毛虫和马尾松毛虫为材料筛选引物,从81对引物组合中筛选出10对多态性高的引物组合.图9参17     

Assessment of GM Crops in Commercial Agriculture

The caliber of recent discourse regarding geneticallymodified organisms (GMOs) has suffered from a lack of consensuson terminology, from the scarcity of evidence upon which toassess risk to health and to the environment, and from valuedifferences between proponents and opponents of GMOs. Towardsaddressing these issues, we present the thesis that GM should bedefined as the forcible insertion of DNA into a host genome,irrespective of the source of the DNA, and exclusive ofconventional or mutation breeding.Some defenders of the commercial use of GMOs have referred to thescientific work of GMO critics as ``junk science.' Such a claim isfalse and misleading, given that many papers critical of both theutility and safety of GMOs have been published in peer reviewedjournals by respected scientists. In contrast, there is a dearthof peer reviewed work to substantiate the frequently heardassertions of either safety or utility in GMOs. The polarity,which now characterizes much of the public discourse on GMOs,reflects not simply scientific disagreement, but alsodisagreement in underlying value assumptions. Value differencesstrongly affect the assessment of both benefit and harm fromGMOs.The concept of substantial equivalence occupies a pivotalposition in the GMO risk assessment process that is used in bothCanada and the US. A GMO judged to be substantially equivalent toa conventional product – as have all submissions to date – ispresumed to be safe enough for commercialization. The conclusionof safety – from both human health and environmental perspectives– should be based on scientific evidence, corroborated by actualexperimentation. However, regulators infer safety largely fromassumptions-based reasoning, with little or no experimentalvalidation. The judgement of safety because of substantialequivalence is a dubious argument by analogy.     

OPTIMIZATION OF INTERMITTENT PUMPING SCHEDULES FOR AQUIFER REMEDIATION USING A GENETIC ALGORITHM1

ABSTRACT: Using a genetic algorithm (GA), optimal intermittent pumping schedules were established to simulate pump‐and‐treat remediation of a contaminated aquifer with known hydraulic limitations and a water miscible contaminant, located within the Duke Forest in Durham, North Carolina. The objectives of the optimization model were to minimize total costs, minimize health risks, and maximize the amount of contaminant removed from the aquifer. Stochastic ground water and contaminant transport models were required to provide estimates of contaminant concentrations at pumping wells. Optimization model simulations defined a tradeoff curve between the pumping cost and the amount of contaminant extracted from the aquifer. For this specific aquifer/miscible contaminant combination, the model simulations indicated that pump‐and‐treat remediation using intermittent pumping schedules for each pumping well produced significant reductions in predicted contaminant concentrations and associated health risks at a reasonable cost, after a remediation time of two years.     

Two concepts of dignity for humans and non-human organisms in the context of genetic engineering

The 1992 incorporation of an article by referendum in the Swiss Constitution mandating that the federal government issue regulations on the use of genetic material that take into account the dignity of nonhuman organism raises philosophical questions about how we should understand what is meant by “the dignity of nonhuman animals,” and about what sort of moral demands arise from recognizing this dignity with respect to their genetic engineering. The first step in determining what is meant is to clarify the difference between dignity when applied to humans and when applied to nonhumans. Several conceptions of human dignity should be rejected in favor of a fourth conception: the right not to be degraded. This right implies that those who have it have the cognitive capacities that are prerequisite for self-respect. In the case of nonhuman organisms that lack this capacity, respecting their dignity requires the recognition that their inherent value, which is tied to their abilities to pursue their own good, be respected. This value is not absolute, as it is in the case of humans, so it does not prohibit breeding manipulations that make organisms more useful to humans. But it does restrict morally how sentient animals can be used. In regard to genetic engineering, this conception requires that animals be allowed the uninhibited development of species specific functions, a position shared by Holland and Attfield, as opposed to the Original Purpose conception proposed by Fox and the Integrity of the Genetic Make-up position proposed by Rolston. The inherent value conception of dignity, as here defended, is what is meant in the Swiss Constitution article. This paper is a slightly revised version of a paper that had been published in German in 1998 (“Menschenwürde vs. Würde der Kreatur,” Freiburg i.Br.).     

Genetic Engineering in Agriculture: Who Stands to Benefit?

The use of genetic engineering inagriculture has been the source of much debate. Todate, arguments have focused most strongly on thepotential human health risks, the flow of geneticmaterial to related species, and ecologicalconsequences. Little attention appears to have beengiven to a more fundamental concern, namely, who willbe the beneficiaries of this technology? Given the prevalence of chronic hunger and thestark economics of farming, it is arguable thatfarmers and the hungry should be the mainbeneficiaries of agricultural research. However, theapplication of genetic engineering appears unlikely tobenefit either of these two groups. This technology islargely controlled by the private sector, and itscontinued development hinges on its profitability.Thus, the only likely beneficiaries of the applicationof genetic engineering in agriculture are companieswith the capacity to use it.     

基于遗传算法优化的大气质量评价的污染危害指数公式

基于污染危害率概念,提出了大气环境质量评价的污染危害指数计算公式和新的因子赋权法．指出用污染物的浓度相对值代替其监测值,公式中的参数可认为不随污染物种类和数目而改变．采用遗传算法对公式中的参数进行优化,得到了适用于多种污染物的大气质量评价的污染危害指数计算公式应用该公式对实例评价的结果与用其他多种方法评价结果进行了比较结果表明,该公式用于大气环境质量评价的物理意义明确、普适性强、计算简单、使用方便．     

Interspecific Patterns of Genetic Diversity in Birds: Correlations with Extinction Risk

Abstract:  Birds are frequently used as indicators of ecosystem health and are the most comprehensively studied class in the animal kingdom. Nevertheless, a comprehensive, interspecific assessment of the correlates of avian genetic diversity is lacking, even though indices of genetic diversity are of considerable interest in the conservation of threatened species. We used published data on variation at microsatellite loci from 194 bird species to examine correlates of diversity, particularly with respect to conservation status and population size. We found a significant decline in mean heterozygosity with increasing extinction risk, and showed, by excluding species whose heterozygosity values were calculated with heterospecific primers, that this relationship was not dependent on ascertainment bias. Results of subsequent regression analyses suggested that smaller population sizes of threatened species were largely responsible for this relationship. Thus, bird species at risk of extinction are relatively depauperate in terms of neutral genetic diversity, which is expected to make population recovery more difficult if it reflects adaptive genetic variation. Conservation policy will need to minimize further loss of diversity if the chances of saving threatened species are to be maximized.     

基因枪介导获得转植酸酶基因水稻研究

植酸酶是一类能促进植酸及其盐类水解成肌醇和磷酸的酶的总称.它能提高饲料和食品中磷的利用率,减轻粪便中磷排放所造成的环境污染,清除植酸与金属离子的螯合作用,改善微量元素的吸收和利用.本研究将马铃薯的胞外分泌信号肽(Psec)和大肠杆菌的植酸酶基因(appA2)结合组成融合基因导入粳稻台北309中.PCR检测和Southern杂交表明,植酸酶基因和分泌信号肽序列已经整合到水稻的基因组中.无机磷含量分析表明,含目的基因的转基因水稻种子及茎叶中的无机磷含量均较未转化植株有显著的提高.图6表1参14     

Song dialects do not restrict gene flow in an urban population of the orange-tufted sunbird, <Emphasis Type="Italic">Nectarinia osea</Emphasis>

Geographic variation in vocalizations is widespread in passerine birds, but its origins and maintenance remain unclear. In this study, we test the hypothesis that song dialect, a culturally transmitted trait, is related to the population genetic structure of the orange-tufted sunbird, Nectarinia osea. To address this, we compared mitochondrial DNA (mtDNA) sequence variation together with allele frequencies at five microsatellite loci from an urban population of sunbirds exhibiting two distinct song dialects on a microgeographic scale. Our findings reveal no association between dialect membership and genetic composition. All genetic measures, from both mitochondrial and nuclear DNA, indicate high levels of gene flow between both dialect populations. The low F _ST values obtained from mtDNA and microsatellite analysis imply that the variation among dialects does not account for more than 2%, at best, of the overall genetic variation found in the entire population. These measures fall well within the range of similar measures obtained in other studies of species exhibiting vocal dialects, most of which fail to detect any dialect-based genetic differentiation. The persistence of dialects in the orange-tufted sunbird may thus best be explained by dispersal of individuals across dialect boundaries and possibly from surrounding areas, followed by postdispersal vocal matching. Because genetic structuring appears weaker than cultural structure in this species, we discuss the behavioral mechanisms underlying dialect maintenance in the presence of apparent gene flow.