Transforming ecology and conservation biology through genome editing

As the conservation challenges increase, new approaches are needed to help combat losses in biodiversity and slow or reverse the decline of threatened species. Genome-editing technology is changing the face of modern biology, facilitating applications that were unimaginable only a decade ago. The technology has the potential to make significant contributions to the fields of evolutionary biology, ecology, and conservation, yet the fear of unintended consequences from designer ecosystems containing engineered organisms has stifled innovation. To overcome this gap in the understanding of what genome editing is and what its capabilities are, more research is needed to translate genome-editing discoveries into tools for ecological research. Emerging and future genome-editing technologies include new clustered regularly interspaced short palindromic repeats (CRISPR) targeted sequencing and nucleic acid detection approaches as well as species genetic barcoding and somatic genome-editing technologies. These genome-editing tools have the potential to transform the environmental sciences by providing new noninvasive methods for monitoring threatened species or for enhancing critical adaptive traits. A pioneering effort by the conservation community is required to apply these technologies to real-world conservation problems.     

试论生态学的一门分支学科:环境耐性生态学

针对目前对生态学的学科分支情况,及生态学的发展趋势和环境灾害的启示,提出了"环境耐性生态学"这一生态学的分支学科.初步明确了这一分支学科的概念,提出了它的3个研究层次的研究框架,即耐性特征、耐性规律及提高耐性的方法与途径,指出了它的核心思想是:把自然环境看成是具有"生命"的系统,有一定的耐性能力和自我恢复能力,也具有自然免疫的特征和能力.同时,指出了当前急需确定的3个生态环境耐性指标,即容许侵蚀量、容许施肥量和容许承载量.     

Relationship between conservation biology and ecology shown through machine reading of 32,000 articles

Conservation biology was founded on the idea that efforts to save nature depend on a scientific understanding of how it works. It sought to apply ecological principles to conservation problems. We investigated whether the relationship between these fields has changed over time through machine reading the full texts of 32,000 research articles published in 16 ecology and conservation biology journals. We examined changes in research topics in both fields and how the fields have evolved from 2000 to 2014. As conservation biology matured, its focus shifted from ecology to social and political aspects of conservation. The 2 fields diverged and now occupy distinct niches in modern science. We hypothesize this pattern resulted from increasing recognition that social, economic, and political factors are critical for successful conservation and possibly from rising skepticism about the relevance of contemporary ecological theory to practical conservation.     

Historical survey and the cultivation of a new culture regarding the ecology in China's Western Provinces

The Chinese leadership in recent years has clearly indicated that priority will be given to the development of the western provinces. In view of its under-developed economy, the relative poor education of the population and the extensive mode of development, environmental pollution and ecological damage in western China are more serious than in the east. In China's industrialization process in the modern era, the blind imitation of the initial stage of industrialization in the advanced countries and the total rejection of traditional Chinese cultural values have been particularly striking. Hence, the western provinces should adopt a mode of sustainable development based on establishment of an ecological culture. Environmentalists in China would like to concentrate on reforming the modes of production and the people's lifestyles through changing their views and values. They perceive this as the major commitment for building an ecological culture and promoting sustainable development. But large-scale and concentrated damage to the environment are very often the result of neglect and mistakes by government authorities and corporations. Pessimists worry that this millennium will signal the terminal stage for natural values; but there may be an alternative: a millennium of coordinated development, respecting the environment and based on adoption of a new ecological culture.     

Reproductive biology and ecology of a deep-demersal fish, alfonsino Beryx splendens, over the seamounts off New Caledonia

The reproductive biology of the alfonsino Beryx splendens was studied by histological examinations, gonadosomatic index and macroscopic scales of maturation of a large sample of gonads. Alfonsino is a gonochoric species. The size-frequency distribution of the sex ratio was bimodal and considered to be due to size dimorphism. In New Caledonia, the breeding period of this species occurs during the southern summer, with a peak in December to January. The spawning stage is attained at a minimum fork length of 28 cm for females and 33 cm for males. The size at which 50% of the population attain sexual maturity (FL₅₀) is 33.2 cm for females and 34.5 cm for males. Maximum potential fecundity is estimated to lie between 270 000 to 675 000 eggs for fish between 34 and 40 cm in fork length. It was possible to differentiate vegetative zones, in which juvenile alfonsino grow until they reach maturity, from reproductive zones (fishing grounds) which are inhabited by mature individuals. The larvae and juveniles could be carried from the reproductive zone to the vegetative zone by currents in an oceanic eddy system. Received: 26 April 1996 / Accepted: 20 September 1996     

Specific features and origin of the Caspian Sea diatom flora

The systematic composition of the diatom flora of the Caspian Sea is original, but poor, especially in marine species. At present, 286 species, varieties and forms, belonging to 46 genera and 4 orders are known to exist in the Caspian Sea. Of this number, 77 species and varieties (27%) are planktonic and 209 (63%) benthonic. The phytoplankton of the Caspian Sea is wholly neritic. In regard to salinity, a characteristic of the Caspian diatom flora is that it is composed of three different groups: marine, brackish, and fresh-water species. The brackish water group is of great interest, as it includes many diatoms which are known only from this water body (endemisms). The poor species-composition of the diatom flora is accounted for by variations in the hydrogical conditions of the Caspian Sea in the geological past. The formation of the flora is based on such sources as the ancient flora remains of the Upper-Tertiary Caspian-Black Sea, the younger elements of the Pliocene Sea during its isolation period, and the immigrants entering the Caspian Sea during the short period of its communication with the Black Sea.     

A review of the chemical ecology of the Cerambycidae (Coleoptera)

Summary. This review summarizes the literature related to the chemical ecology of the Cerambycidae and provides a brief overview of cerambycid biology, ecology, economic significance, and management. Beetles in the family Cerambycidae have assumed increasing prominence as pests of forest and shade trees, shrubs, and raw wood products, and as vectors of tree diseases. Exotic species associated with solid wood packing materials have been notable tree killers in North American urban and peri-urban forests. In forested ecosystems native species respond to disturbances such as fires and windstorms, and initiate the biodeterioration of woody tissue. Eggs are laid by females, on or through the bark surface of stem and branch tissue of moribund, recently killed or decomposing woody plants; larval cerambycids (roundheaded woodborers) typically feed in the phloem and later in the xylem. Females will also, in some cases, select living hosts, e.g. adult conifer and angiosperm trees, for oviposition. Research on the chemical ecology of over 70 species has revealed many examples of attractive kairomones (such as floral volatiles, smoke volatiles, trunk and leaf volatiles, and bark beetle pheromones), repellents and deterrents, oviposition stimulants, short- and long-range sex pheromones, and defensive substances. Emerging generalities are that attractants tend to be monoterpenoids and phenolic esters; oviposition stimulants are monoterpenoids and flavanoids; short-range sex pheromones are female-produced, methyl-branched cuticular hydrocarbons; and long-range sex pheromones are male-produced -hydroxy ketones and (,)-diols ranging in length from 6 to 10 carbons. The latter compounds appear to originate from glands in the male thorax; putative defensive substances originate from metasternal secretory pores or mandibular glands. In one unusual case, a flightless, subterranean female that attacks sugar cane produces a sex pheromone that is derived from the amino acid isoleucine. With significantly more than 35,000 species of Cerambycidae worldwide, these generalities will be subject to change as more species are examined. Addendum The authors would like to point out that the electronic version is more accurate than the printed version.     

A review of arsenicals in biology

The most toxic form of arsenic is arsine gas. Arsenite is also highly toxic and arsenate is moderately toxic. Arsine gas will lyse red blood cells, arsenite inactivates particular enzymes and arsenate uncouples oxidative phosphorylation. Arsenic does not appear to be a significant mutagen. Epidemiological studies have implicated arsenic as a cause of lung cancer and skin cancer, but arsenic generally does not induce cancer in laboratory animals. Arsenic may bioaccumulate in some plants and marine organisms. Bacteria can be resistant to arsenic by preventing arsenate from entering the cell (chromosomal resistance) or pumping arsenic out of the cell (plasmid resistance). Many different organisms, including mammals, have the ability to methylate inorganic arsenic. Biomethylation seems to be a mechanism of arsenic detoxification.     

A review of chemical ecology in poison frogs

Herein we review what is known about the chemical ecology of poison frogs with a focus on dendrobatid poison frogs. While five anuran families are known to have an alkaloid-derived chemical defense, the dendrobatids have been studied in greatest detail and provides chemical ecologists with a complex model system for understanding how chemical defenses operate in real time and may have evolved through evolutionary time. We describe the diversity of alkaloid defenses known from frogs, alkaloid sequestration, biosynthesis and modification, and we review what is known concerning arthropod sources for alkaloids. There is variation in nearly every attribute of the system and we try to describe some of the challenges associated with unraveling the complexities of this model system.     

A survey of the shrimp resources of Nigeria

Previous planned resources surveys of the Nigerian coastal waters were performed with research vessels, gear and personnel not specialised for shrimp fishing. The results have, therefore, only indicated relative abundance of shrimps in the areas fished, rather than showing the absolute catches which a commercial fishing vessel in the area may expect to make. The present survey used two commercial shrimp trawlers together with their crews, who already had long experience of shrimp trawling both in the Nigerian shrimp grounds and elsewhere. Four shrimp species were caught: Penaeus duorarum, P. kerathurus, Parapeneopsis atlantica and Parapenaeus longirostris. Of these, P. duorarum, P. atlantica and P. longirostris are of commercial importance, P. duorarum being the most important. The distributions and concentrations of these 3 species are shown, together with the size distribution of P. duorarum, and the fish by-catch at each station. With the exception of the transect off the Nun Entrance, all transects sampled showed areas of high concentrations of P. duorarum, that is, 54 to 113 lbs (24 to 51 kg) of head-on shrimps per hour of trawling. The oceanographic conditions prevailing at the time of the survey were normal for the area. Records of previous shrimp landings from the area show a regular seasonal variation and the period of the survey to be one of lowest catches. The catch rates obtained in this survey are, therefore, the minimum which might be expected for the year. From a consideration of the operating costs of the type of shrimp trawler considered adequate for use in the area, it is found that the break-even shrimp catch is about 41 lbs (19 kg) of head-on per hour.     

A fungal perspective on conservation biology

Hitherto fungi have rarely been considered in conservation biology, but this is changing as the field moves from addressing single species issues to an integrative ecosystem‐based approach. The current emphasis on biodiversity as a provider of ecosystem services throws the spotlight on the vast diversity of fungi, their crucial roles in terrestrial ecosystems, and the benefits of considering fungi in concert with animals and plants. We reviewed the role of fungi in ecosystems and composed an overview of the current state of conservation of fungi. There are 5 areas in which fungi can be readily integrated into conservation: as providers of habitats and processes important for other organisms; as indicators of desired or undesired trends in ecosystem functioning; as indicators of habitats of conservation value; as providers of powerful links between human societies and the natural world because of their value as food, medicine, and biotechnological tools; and as sources of novel tools and approaches for conservation of megadiverse organism groups. We hope conservation professionals will value the potential of fungi, engage mycologists in their work, and appreciate the crucial role of fungi in nature. Una Perspectiva Micótica de la Biología de la Conservación     

A frontier model for landscape ecology: the tapir in Honduras

We borrow a frontier specification from the econometrics literature to make inferences about the tolerance of the tapir to human settlements. We estimate the width of an invisible band surrounding human settlements which would act as a frontier or exclusion zone to the tapir to be around 290 metres.     

A linked model of animal ecology and human behavior for the management of wildlife tourism

Wildlife tourism attractions are characterized as having intricately coupled human-wildlife interactions. Accordingly, the ability to mitigate negative impacts of tourism on wildlife necessitates research into the ecology of the system and of the human dimensions, since plans aimed at optimizing wildlife fitness must also be acceptable to tourists. We developed an integrated systems dynamics model for the management of tourist-stingray interactions at ‘Stingray City Sandbar’ (SCS), Cayman Islands. The model predicts the state of the tourism attraction over time in relation to stingray population size, stingray life expectancy, and tourist visitation under various management scenarios. Stingray population data in the model comprised growth rates and survival estimates (from mark-and-recapture data) and mortality estimates. Inputted changes in their respective rates under different management scenarios were informed by previous research. Original research on the demand of heterogeneous tourist segments for management regulations via a stated choice model was used to calculate changes in the tourist population growth rate from data supplied by the Caymanian government. The management attributes to which tourists were responsive also have anticipated effects on stingray ecology (migration and mortality), and vice versa, thus linking the two components. We found that the model's predictions over a 25-year time span were sensitive to the stingray population growth rate and alternate management options. Under certain management scenarios, it was possible to maximize both the tourist segment in favor of no management and stingray numbers while reducing stingray health. However, the most effective relative strategy included a reduction in visitor density, restricted stingray interactions, and an imposition of a small fee. Over time, although fewer stingrays were predicted to remain at SCS, they would live longer and experience fewer stochastic disease events, and the desirable tourist segment was predicted to predominate. By understanding how management will affect tourist activities and their subsequent impacts on both wildlife health and visitor satisfaction, one can explore the management alternatives that would optimize both.     

Submarine daylight and ecology

The different parameters acting upon daylight before it reaches underwater organisms are discussed. Methods for measuring these parameters are reviewed, and lightsensing units equipped with hemispherical collectors and possessing a narrow spectral sensitivity band are recommended for use in marine biology. A new formula relating Secchi-disk readings to attenuation coefficients is proposed. A method is suggested which makes it possible to calculate the yearly amount of radiant energy reaching an underwater station. Possible sources of error are surveyed.     

Prediction of the Transport and Dispersal of Oil in the South Caspian Sea Resulting from Blowouts

A 3-D hybrid flow/transport model is developed to predict the dispersal of oil pollution in coastal waters. The transport module of the model takes predetermined current and turbulent diffusivities and uses Lagrangian tracking to predict the motion of individual particles (droplets), the sum of which constitutes a hypothetical oil spill. Currents and turbulent diffusivities used in the model are generated by a numerical ocean circulation model (POM) implemented for the Caspian Sea. The basic processes affecting the fate of the oil spill are taken into account and parameterised in the transport model. The process of evaporation is modeled with the pseudo-component approach. The model is implemented for a simulated continuous release in the coastal waters of the south part of the Caspian Sea. Numerical experiments simulate 5- and 10-day blowout scenarios resulting from sources situated in areas were intensive and extensive development of oil deposits is expected soon. Oil slick movement and risk of coastline contamination by beaching of offshore oil spills are illustrated for different wind conditions.     

Landscape ecology of the Dutch coast

This paper is a summary and elaboration of an earlier publication in Dutch on the compilation of a landscape-ecological map, scale 1 : 50 000, of the Dutch coast. It is argued that such an integrated map is the best basis for the conservation and management of the coastal dunes and salt marshes. It may be combined with local more detailed vegetation maps, some examples of which are mentioned in the context of management. The Dutch North Sea coast is a ca. 350 km long chain of sandy beaches and sand dunes, from only 100 m to more than 10 km wide. On sheltered stretches of dune coasts along estuaries in the Southwest and on the Wadden Sea islands, salt marshes have developed. The small-scale gradient structure of the beach-dune-salt marsh complex is emphasized.     

Coastal erosion and shore protection: A brief historical analysis

Since the Neolithic, humans have gathered along coastal plains, where they had to face sea level rise and subsidence without the technology to oppose these processes. When sea level stabilized, approx. 6.000 yr. B.P., coastal colonization was allowed, but where mountain deforestation was carried out river sediment input increased tremendously: settlements were disconnected from the shore and harbour siltation occurred. Shore erosion was a limited process at the time and local solutions were adopted: clay dikes, wood piles, fascinates and rock revetments. Along the Mediterranean, in China and Japan the construction of more complex structures has been documented since the Middle Ages. Further human development, with river bed quarrying, wetland reclamation, dam construction and mountain re-afforestation, favoured a coastal erosion that nowadays threatens most world coasts. From the Venetian “Murazzi” to the recent 114-km-long concrete element defence at the Yellow river delta, shore protection structures evolved following the different needs (protect coastal communication routes, urban and industrial settlements, tourist resorts). Beach nourishment, previously performed with inland quarried materials, is now intensively carried out with marine aggregates. The vernacular solution, left to undeveloped countries, has been recently revaluated by “green engineering”. However, with Sea Level Rise, the debate of whether to defend, accommodate or retreat is open.