Phenomics--technologies to relieve the phenotyping bottleneck

Global agriculture is facing major challenges to ensure global food security, such as the need to breed high-yielding crops adapted to future climates and the identification of dedicated feedstock crops for biofuel production (biofuel feedstocks). Plant phenomics offers a suite of new technologies to accelerate progress in understanding gene function and environmental responses. This will enable breeders to develop new agricultural germplasm to support future agricultural production. In this review we present plant physiology in an 'omics' perspective, review some of the new high-throughput and high-resolution phenotyping tools and discuss their application to plant biology, functional genomics and crop breeding.     

四碳有机酸生物合成的代谢工程研究进展

四碳有机酸作为重要的平台化学品,广泛应用于食品、化工、农业、医药和生物材料等领域。与传统的石化法相比,利用微生物发酵生产四碳有机酸具有反应条件温和、过程绿色环保等优势,具有广泛的应用前景。文中总结了四碳有机酸的生物合成途径和代谢机制,着重讨论了天然菌株生产四碳有机酸以及基于菌种选育和代谢工程改造策略提高四碳有机酸合成能力的研究进展及挑战,为四碳有机酸的高效生物合成提供广阔的参考方向。     

Plant genetics, sustainable agriculture and global food security

The United States and the world face serious societal challenges in the areas of food, environment, energy, and health. Historically, advances in plant genetics have provided new knowledge and technologies needed to address these challenges. Plant genetics remains a key component of global food security, peace, and prosperity for the foreseeable future. Millions of lives depend upon the extent to which crop genetic improvement can keep pace with the growing global population, changing climate, and shrinking environmental resources. While there is still much to be learned about the biology of plant-environment interactions, the fundamental technologies of plant genetic improvement, including crop genetic engineering, are in place, and are expected to play crucial roles in meeting the chronic demands of global food security. However, genetically improved seed is only part of the solution. Such seed must be integrated into ecologically based farming systems and evaluated in light of their environmental, economic, and social impacts-the three pillars of sustainable agriculture. In this review, I describe some lessons learned, over the last decade, of how genetically engineered crops have been integrated into agricultural practices around the world and discuss their current and future contribution to sustainable agricultural systems.     

The Role of Latin America’s Land and Water Resources for Global Food Security: Environmental Trade-Offs of Future Food Production Pathways

One of humanity’s major challenges of the 21st century will be meeting future food demands on an increasingly resource constrained-planet. Global food production will have to rise by 70 percent between 2000 and 2050 to meet effective demand which poses major challenges to food production systems. Doing so without compromising environmental integrity is an even greater challenge. This study looks at the interdependencies between land and water resources, agricultural production and environmental outcomes in Latin America and the Caribbean (LAC), an area of growing importance in international agricultural markets. Special emphasis is given to the role of LAC’s agriculture for (a) global food security and (b) environmental sustainability. We use the International Model for Policy Analysis of Agricultural Commodities and Trade (IMPACT)—a global dynamic partial equilibrium model of the agricultural sector—to run different future production scenarios, and agricultural trade regimes out to 2050, and assess changes in related environmental indicators. Results indicate that further trade liberalization is crucial for improving food security globally, but that it would also lead to more environmental pressures in some regions across Latin America. Contrasting land expansion versus more intensified agriculture shows that productivity improvements are generally superior to agricultural land expansion, from an economic and environmental point of view. Finally, our analysis shows that there are trade-offs between environmental and food security goals for all agricultural development paths.     

Exploring natural selection to guide breeding for agriculture

Climate change threatens reduced crop production and poses major challenges to food security. The breeding of climate‐resilient crop varieties is increasingly urgent. Wild plant populations evolve to cope with changes in their environment due to the forces of natural selection. This adaptation may be followed over time in populations at the same site or explored by examining differences between populations growing in different environments or across an environmental gradient. Survival in the wild has important differences to the objective of agriculture to maximize crop yields. However, understanding the nature of adaptation in wild populations at the whole genome level may suggest strategies for crop breeding to deliver agricultural production with more resilience to climate variability.     

Plastid biotechnology for crop production: present status and future perspectives

The world population is expected to reach an estimated 9.2 billion by 2050. Therefore, food production globally has to increase by 70% in order to feed the world, while total arable land, which has reached its maximal utilization, may even decrease. Moreover, climate change adds yet another challenge to global food security. In order to feed the world in 2050, biotechnological advances in modern agriculture are essential. Plant genetic engineering, which has created a new wave of global crop production after the first green revolution, will continue to play an important role in modern agriculture to meet these challenges. Plastid genetic engineering, with several unique advantages including transgene containment, has made significant progress in the last two decades in various biotechnology applications including development of crops with high levels of resistance to insects, bacterial, fungal and viral diseases, different types of herbicides, drought, salt and cold tolerance, cytoplasmic male sterility, metabolic engineering, phytoremediation of toxic metals and production of many vaccine antigens, biopharmaceuticals and biofuels. However, useful traits should be engineered via chloroplast genomes of several major crops. This review provides insight into the current state of the art of plastid engineering in relation to agricultural production, especially for engineering agronomic traits. Understanding the bottleneck of this technology and challenges for improvement of major crops in a changing climate are discussed.     

Insect pest management in African agriculture: Challenges in the current millenium

Pest management on a global scale experienced a total revolution after World War II when synthetic organic compounds were in agriculture and public health. However, it soon became apparent that there were many limitations in the use of chemicals for pest management. In agriculture, problems of pest resurgence, secondary pest outbreaks, pest resistance and adverse effects of pesticides on the environment, including human poisoning and toxicity to other non-target organisms, led to the search for alternative approaches to the pest outbreak problem. The 1960s produced new ideas on integrated pest management (IPM) strategies, followed by intensification of the search for biological control agents, which could be incorporated into IPM programmes. New application technologies were developed in the 1970s and 1980s and ecological approaches to the pest problem were spearheaded in the developed world in the 1990s, with extensive studies focused on the whole ecosystem. Important advances in crop production have also taken place in Africa in this century, involving adoption of high yielding varieties, fertilizer application, intensification of crop protection approaches, less shifting cultivation and more mono-cropping systems. However, these advances have led to increasing pest problems which unless tackled imaginatively and intelligently, they could become the most important constraint in crop production in the present millennium. Africa has entered the current millennium with relatively underdeveloped agriculture on a global scale and little investment in research on new pest management technologies that could be used to reduce crop losses. We are still highly dependent on pesticides for pest management. Therefore, the greatest challenges in agriculture in Africa will be the switch from a pesticide based mode of reducing losses due to pests to one that is ecosystem based, making use of insect management techniques which are ecologically and economically sound. Specifically, some of the major challenges in pest management in agriculture in Africa include; (i) reducing the dependence on pesticides, thus avoiding the limitations observed in the past 50 years; (ii) overcoming ignorance of the pest species and their associated community of parasites and predators which has dire consequences on the whole ecosystem; (iii) keeping out exotic pests, which in this millennium have had a devastating blow on the production of some crops and (iv) developing indigenous technologies for pest management (IPM, biocontrol, etc.) and making available to farmers materials for pest management which are affordable, safe, effective and environmentally friendly (e.g. microbial, botanicals, pheromones, genetically engineered products etc.). Both legislative and quarantine measures will have a significant role to play in pest management in the next millennium, but only when practised on a wider geographical area. Information technology (IT) will affect the way we acquire and make use of pest management strategies. Africa is therefore faced with the challenge of building up and improving its infrastructure and expertise on IT if it is to benefit pest management on the continent.     

Toxicity testing: creating a revolution based on new technologies

Biotechnology is evolving at a tremendous rate. Although drug discovery is now heavily focused on high throughput and miniaturized screening, the application of these advances to the toxicological assessment of chemicals and chemical products has been slow. Nevertheless, the impending surge in demands for the regulatory toxicity testing of chemicals provides the impetus for the incorporation of novel methodologies into hazard identification and risk assessment. Here, we review the current and likely future value of these new technologies in relation to toxicological evaluation and the protection of human health.     

Trichoderma/pathogen/plant interaction in pre-harvest food security

Large losses before crop harvesting are caused by plant pathogens, such as viruses, bacteria, oomycetes, fungi, and nematodes. Among these, fungi are the major cause of losses in agriculture worldwide. Plant pathogens are still controlled through application of agrochemicals, causing human disease and impacting environmental and food security. Biological control provides a safe alternative for the control of fungal plant pathogens, because of the ability of biocontrol agents to establish in the ecosystem. Some Trichoderma spp. are considered potential agents in the control of fungal plant diseases. They can interact directly with roots, increasing plant growth, resistance to diseases, and tolerance to abiotic stress. Furthermore, Trichoderma can directly kill fungal plant pathogens by antibiosis, as well as via mycoparasitism strategies. In this review, we will discuss the interactions between Trichoderma/fungal pathogens/plants during the pre-harvest of crops. In addition, we will highlight how these interactions can influence crop production and food security. Finally, we will describe the future of crop production using antimicrobial peptides, plants carrying pathogen-derived resistance, and plantibodies.     

Precision agriculture: a challenge for crop nutrition management

Precision agriculture was initiated in the mid 1980s, using newly available technologies, to improve the application of fertilizers by varying rates and blends as needed within fields. Presently, the concept has been adapted to a variety of practices, crops, and countries. Its adoption varies significantly by cropping system, regions, and countries but it is progressively introduced or evaluated around the world. Several types of challenges limit a broader adoption: socio-economical, agronomical, and technological. Socio-economical barriers are principally costs and lack of skills. Agronomical challenges are lack of basic information, inadequate sampling and scouting procedures, absence of site-specific fertilizer recommendations, misuse of information, and lack of qualified agronomic services. There are multiple technological barriers that relate to machinery, sensor, GPS, software, and remote sensing. However, these barriers will be progressively lifted and precision agriculture will be a significant component of the agricultural system of the future. It offers a variety of potential benefits in profitability, productivity, sustainability, crop quality, food safety, environmental protection, on-farm quality of life, and rural economic development.     

生物多样性控制作物病害研究进展

自然资源的合理利用和生态环境保护是人类实现可持续发展的基础, 生物多样性的研究和保护已成为世界各国普遍关注的重大问题。农作物病害是农业生产上重要的生物灾害, 是制约农业可持续发展的主要因素之一, 抗病品种大面积单一化种植导致了农业生物多样性水平严重降低, 因而农业生物多样性的过度丧失已成为可持续农业所面临的主要难题。利用生物多样性持续控制作物病害能减轻作物病害发生和作物产量损失, 达到保护作物多样性, 减少农药过量施用给农业生态环境造成破坏的最终目的, 而揭示生物多样性控制作物病害的机制能有效地指导生产上对不同作物进行合理布局和轮换, 建立作物不同组合的优化搭配和种植模式。文章从分子、生理和生态水平研究农业生物多样性控制作物病害的机制、以及影响作物多样性控制病害的因素、覆盖作物等几方面对生物多样性控制作物病害的研究进展进行概述, 同时对今后生物多样性控制作物病害机制还需加强的研究部分进行了展望。     

Engineering precision into variable biological systems

Technology change stimulates the expectations of society and seeks to satisfy its demands. Continuing advances in electronics and information technology over the last 20 years have responded to the challenge posed by the environmental impacts of agricultural production systems. Future agriculture will require precision techniques to assemble information and achieve increasingly precise and responsive management practices in order to reduce wasteful inputs, and meet the social and economic pressures for safe high quality food at lower cost. Biosystems engineering, an interdisciplinary science linking biology, physics, engineering and mathematics, can provide understanding and then innovative precision solutions for agriculture. Public and industry investment will be needed to achieve the necessary goals of lower environmental impact, and precision techniques will make a signi. cant contribution. Worldwide, the availability of tools that allow accurate control of inputs and traceable management of food production will contribute to sustainable food production for all. The vision is of systems that utilise sensing methods and mathematical models of the biological process, and link them through to control algorithms that realise practical benefits. Tools to measure spatial variation in crop yield will draw on statistical models to interpret complex variation and provide robust information to justify variable input management. Machine vision will interpret complex natural scenes, leading to real‐time control, and biosensors will be incorporated into automated systems for sensing animal fertility status, leading to automatic monitoring of animal health and welfare.     

Evolving challenges and strategies for fungal control in the food supply chain

Fungi that spoil foods or infect crops can have major socioeconomic impacts, posing threats to food security. The strategies needed to manage these fungi are evolving, given the growing incidence of fungicide resistance, tightening regulations of chemicals use and market trends imposing new food-preservation challenges. For example, alternative methods for crop protection such as RNA-based fungicides, biocontrol, or stimulation of natural plant defences may lessen concerns like environmental toxicity of chemical fungicides. There is renewed focus on natural product preservatives and fungicides, which can bypass regulations for ‘clean label’ food products. These require investment to find effective, safe activities within complex mixtures such as plant extracts. Alternatively, physical measures may be one key for fungal control, such as polymer materials which passively resist attachment and colonization by fungi. Reducing or replacing traditional chlorine treatments (e.g. of post-harvest produce) is desirable to limit formation of disinfection by-products. In addition, the current growth in lower sugar food products can alter metabolic routing of carbon utilization in spoilage yeasts, with implications for efficacy of food preservatives acting via metabolism. The use of preservative or fungicide combinations, while involving more than one chemical, can reduce total chemicals usage where these act synergistically. Such approaches might also help target different subpopulations within heteroresistant fungal populations. These approaches are discussed in the context of current challenges for food preservation, focussing on pre-harvest fungal control, fresh produce and stored food preservation. Several strategies show growing potential for mitigating or reversing the risks posed by fungi in the food supply chain.     

New roots for agriculture: exploiting the root phenome

Recent advances in root biology are making it possible to genetically design root systems with enhanced soil exploration and resource capture. These cultivars would have substantial value for improving food security in developing nations, where yields are limited by drought and low soil fertility, and would enhance the sustainability of intensive agriculture. Many of the phenes controlling soil resource capture are related to root architecture. We propose that a better understanding of the root phenome is needed to effectively translate genetic advances into improved crop cultivars. Elementary, unique root phenes need to be identified. We need to understand the 'fitness landscape' for these phenes: how they affect crop performance in an array of environments and phenotypes. Finally, we need to develop methods to measure phene expression rapidly and economically without artefacts. These challenges, especially mapping the fitness landscape, are non-trivial, and may warrant new research and training modalities.     

Chemicals from biotechnology: molecular plant genetics will challenge the chemical and the fermentation industry

 Industrial biotechnology has evolved as a significant manufacturing tool for products like fuel-grade ethanol, organic acids and bulk amino acids, but most items are still speciality products for food and pharmaceutical applications. Current development projects within the chemical industry, including lactic acid and 1,3-propanediol based polymers and plastics, indicate that new biotechnological processes and products may soon approach the market place, clearly targeted at the leading petrochemical bulk outlets. This is flanked by a strategic shift by the major chemical companies in to “life sciences”–pharmaceuticals, agrochemicals and the seed business as well as biotech fine chemicals. The recent tremendous achievements in molecular plant genetics and transgenic crop breeding will boost agro-biotechnology, agriculture and renewable raw materials as compelling projects for chemistry and biotechnology. New plant-based production routes may challenge established chemical and biochemical domains, but at the same time open new horizons to valuable feedstocks, intermediates and end-products. Received: 16 October 1998 / Received revision: 3 December 1998 / Accepted: 5 December 1998     

产油微生物利用餐厨垃圾生产油脂的研究进展

餐厨垃圾中含有丰富的营养物质,经生物转化过程可以合成对人类有用的化学品.某些产油微生物可以处理餐厨垃圾生产油脂,同时合成高附加值代谢产物如多不饱和脂肪酸、角鲨烯和类胡萝卜素等.这不仅能够降低生产成本,而且提高了产物的经济价值,具有极大的工业化应用潜力.文中主要概括了目前餐厨垃圾的处理研究现状,综述了产油微生物发酵餐厨垃...     

How agro-ecological research helps to address food security issues under new IPM and pesticide reduction policies for global crop production systems

Drivers behind food security and crop protection issues are discussed in relation to food losses caused by pests. Pests globally consume food estimated to feed an additional one billion people. Key drivers include rapid human population increase, climate change, loss of beneficial on-farm biodiversity, reduction in per capita cropped land, water shortages, and EU pesticide withdrawals under policies relating to 91/414 EEC. IPM (Integrated Pest Management) will be compulsory for all EU agriculture by 2014 and is also being widely adopted globally. IPM offers a 'toolbox' of complementary crop- and region-specific crop protection solutions to address these rising pressures. IPM aims for more sustainable solutions by using complementary technologies. The applied research challenge now is to reduce selection pressure on single solution strategies, by creating additive/synergistic interactions between IPM components. IPM is compatible with organic, conventional, and GM cropping systems and is flexible, allowing regional fine-tuning. It reduces pests below economic thresholds utilizing key 'ecological services', particularly biocontrol. A recent global review demonstrates that IPM can reduce pesticide use and increase yields of most of the major crops studied. Landscape scale 'ecological engineering', together with genetic improvement of new crop varieties, will enhance the durability of pest-resistant cultivars (conventional and GM). IPM will also promote compatibility with semiochemicals, biopesticides, precision pest monitoring tools, and rapid diagnostics. These combined strategies are urgently needed and are best achieved via multi-disciplinary research, including complex spatio-temporal modelling at farm and landscape scales. Integrative and synergistic use of existing and new IPM technologies will help meet future food production needs more sustainably in developed and developing countries, in an era of reduced pesticide availability. Current IPM research gaps are identified and discussed.     

Improving crop productivity and resource use efficiency to ensure food security and environmental quality in China

In recent years, agricultural growth in China has accelerated remarkably, but most of this growth has been driven by increased yield per unit area rather than by expansion of the cultivated area. Looking towards 2030, to meet the demand for grain and to feed a growing population on the available arable land, it is suggested that annual crop production should be increased to around 580 Mt and that yield should increase by at least 2% annually. Crop production will become more difficult with climate change, resource scarcity (e.g. land, water, energy, and nutrients) and environmental degradation (e.g. declining soil quality, increased greenhouse gas emissions, and surface water eutrophication). To pursue the fastest and most practical route to improved yield, the near-term strategy is application and extension of existing agricultural technologies. This would lead to substantial improvement in crop and soil management practices, which are currently suboptimal. Two pivotal components are required if we are to follow new trajectories. First, the disciplines of soil management and agronomy need to be given increased emphasis in research and teaching, as part of a grand food security challenge. Second, continued genetic improvement in crop varieties will be vital. However, our view is that the biggest gains from improved technology will come most immediately from combinations of improved crops and improved agronomical practices. The objectives of this paper are to summarize the historical trend of crop production in China and to examine the main constraints to the further increase of crop productivity. The paper provides a perspective on the challenge faced by science and technology in agriculture which must be met both in terms of increased crop productivity but also in increased resource use efficiency and the protection of environmental quality.     

Metabolomics in pesticide research and development: review and future perspectives

The emerge of metabolomics within functional genomics has provided a new dimension in the study of biological systems. In regards to the study of agroecosystems, metabolomics enables monitoring of metabolic changes in association with biotic or abiotic agents such as agrochemicals. Focusing on crop protection chemicals, a great effort has been given towards the development of crop protection agents safer for consumers and the environment and more efficient than the existing ones. Within this framework, metabolomics has so far been a valuable tool for high-throughput screening of bioactive substances in order to discover those with high selectivity, unique modes-of-action, and acceptable eco-toxicological/toxicological profiles. Here, applications of metabolomics in the investigation of the modes-of-action and ecotoxicological–toxicological risk assessment of bioactive compounds, mining of biological systems for the discovery of bioactive metabolites, and the risk assessment of genetic modified crops are discussed.