Biodiversity data: The importance of access and the challenges regarding benefit sharing

Negotiations around the potential inclusion of biodiversity data within the scope of access and benefit sharing mechanisms of international treaties on genetic resources have been contentious. Uncertainty persists around which data might be included and the impacts of this important change on the ability to advance science. This special collection of research, review, and opinion articles provides a range of evidence and viewpoints contributing context to these negotiations and the underlying scientific issues involved. Emerging themes include the need for clarity on the scope of biodiversity data subject to access and benefit sharing; the recognition that open exchange of these data provides substantial societal benefits; the prognosis that substantial constraints on access to biodiversity data will negatively impact research; the consensus that multilateral systems of exchange are preferable to bilateral ones; and emphasis on further capacity building and other forms of benefit sharing to enable wider use and impact of these data

The use of extrafloral nectar in pest management: overcoming context dependence

Extrafloral nectar (EFN) provides plants with indirect defence against herbivores by attracting predatory insects, predominantly ants. Decades of research have supported the role of EFN as an effective plant defence, dating back to Thomas Belt\u27s description of ants on acacia in 1874. Despite this extensive body of literature, knowledge of the ecological role of EFN has rarely been applied in the field of pest management. We review the existing literature on the use of EFN in agriculture and consider the obstacles that have hindered this transition. Chief among these obstacles is the influence of ecological context on the outcome of EFN-mediated interactions. As such, we consider the options for various agricultural systems in the light of the growth habit of EFN-producing species, focusing first on orchard species and then on herbaceous crops. In each case, we highlight the benefits and difficulties of utilizing EFN as a pest management tool and of measuring its efficacy. Synthesis and applications. We argue that it is time for a shift in extrafloral nectar (EFN) research towards applied settings and seek to address the question: How can a context-dependent and often inducible plant trait be utilized as a reliable tool in agricultural pest management? Breeding crops for increased EFN production, and intercropping with EFN-producing plants, can enhance assemblages of beneficial insects in many agricultural settings. Orchard systems, in particular, provide an ecological context in which the attraction of ants can contribute to cost-effective and sustainable pest management programmes over a broad geographic range

Genomic Analysis of Differentiation between Soil Types Reveals Candidate Genes for Local Adaptation in Arabidopsis lyrata

Serpentine soil, which is naturally high in heavy metal content and has low calcium to magnesium ratios, comprises a difficult environment for most plants. An impressive number of species are endemic to serpentine, and a wide range of non-endemic plant taxa have been shown to be locally adapted to these soils. Locating genomic polymorphisms which are differentiated between serpentine and non-serpentine populations would provide candidate loci for serpentine adaptation. We have used the Arabidopsis thaliana tiling array, which has 2.85 million probes throughout the genome, to measure genetic differentiation between populations of Arabidopsis lyrata growing on granitic soils and those growing on serpentinic soils. The significant overrepresentation of genes involved in ion transport and other functions provides a starting point for investigating the molecular basis of adaptation to soil ion content, water retention, and other ecologically and economically important variables. One gene in particular, calcium-exchanger 7, appears to be an excellent candidate gene for adaptation to low Ca∶Mg ratio in A. lyrata

How anthocyanin mutants respond to stress: the need to distinguish between stress tolerance and maximal vigour

Background: Anthocyanins are produced by plants in response to diverse stresses. Mutants that block the anthocyanin biosynthetic pathway (ABP) at various steps can easily be compared across numerous abiotic stresses. Hypothesis: Anthocyanins or their precursors are required for stress tolerance. Thus, ABP loss-of-function mutants should have proportionately lower fitness than wildtype plants under stress, compared with benign conditions. In contrast, a decrease in maximal vigour - the general capacity for growth and fecundity - should be most pronounced under benign conditions that allow luxuriant growth by the most vigorous genotypes. Tests: Determine whether, under stressful conditions, ABP loss-of-function mutants have relatively lower fitness than wildtype plants. Also, test for reduced maximal vigour by determining whether ABP mutants have comparatively decreased fitness under optimal (\u27benign\u27) growing conditions. Organism: Arabidopsis thaliana loss-of-function mutants (representing all steps in the ABP), as well as wildtype plants, in two genetic backgrounds. Methods: We grew plants under near-optimal conditions and five stress treatments (UV-B, drought, cold, low Ca:Mg, high Ni). We estimated relative fitness as an individual\u27s lifetime fertility, relative to the mean wildtype fertility in a given treatment. Results: Stress treatments significantly reduced lifetime fertility of wildtype and mutant lines. Wildtypes outperformed anthocyanin-deficient mutants under benign conditions, but as the stress increased, the difference between wildtype and mutant fitness diminished. Fitness did not increase with a mutation\u27s sequential position in the ABP, nor was there an effect of the ability to produce flavonols on fertility. Conclusions: Mutations in the ABP did not reduce stress tolerance. Rather, the loss of ABP function reduced maximal vigour, most evidently in near-optimal growth conditions. © 2010 Eric J. von Wettberg

Nutrient enrichment enhances hidden differences in phenotype to drive a cryptic plant invasion

Many mechanisms of invasive species success have been elucidated, but those driving cryptic invasions of non-native genotypes remain least understood. In one of the most successful cryptic plant invasions in North America, we investigate the mechanisms underlying the displacement of native Phragmites australis by its Eurasian counterpart. Since invasive Phragmites\u27 populations have been especially prolific along eutrophic shorelines, we conducted a two-year field experiment involving native and invasive genotypes that manipulated nutrient level and competitor identity (inter- and intra-genotypic competition) to assess their relative importance in driving the loss of native Phragmites. Inter-genotypic competition suppressed aboveground biomass of both native and invasive plants regardless of nutrient treatment (~ 27%), while nutrient addition disproportionately enhanced the aboveground biomass (by 67%) and lateral expansion (by \u3e 3 × farther) of invasive Phragmites. Excavation of experimental plots indicated that nutrient addition generates these differences in aboveground growth by differentially affecting rhizome production in invasive vs native plants; invasive rhizome biomass and rhizome length increased by 595% and 32% with nutrient addition, respectively, while natives increased by only 278% and 15%. Regardless of nutrient level, native rhizomes produced twice as many roots compared to invasives, which field surveys revealed are heavily infected with mycorrhizal symbionts. These results suggest that native Phragmites competes well under nutrient-limited conditions because its rhizomes are laden with nutrient-harvesting roots and mycorrhizae. Invasive Phragmites\u27 vigorous aboveground response to nutrients and scarcity of lateral roots, in contrast, may reflect its historic distribution in eutrophic Eurasian wetlands and correspond to its prevalence in New England marshes characterized by elevated nutrient availability and relaxed nutrient competition. These findings reveal that discrete differences in phenotype can interact with anthropogenic modification of environmental conditions to help explain the success of cryptic invaders. © 2010 The Authors

The impact of genetic changes during crop domestication on healthy food development

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The impact of genetic changes during crop domestication

Humans have domesticated hundreds of plant and animal species as sources of food, fiber, forage, and tools over the past 12,000 years, with manifold effects on both human society and the genetic structure of the domesticated species. The outcomes of crop domestication were shaped by selection driven by human preferences, cultivation practices, and agricultural environments, as well as other population genetic processes flowing from the ensuing reduction in effective population size. It is obvious that any selection imposes a reduction of diversity, favoring preferred genotypes, such as nonshattering seeds or increased palatability. Furthermore, agricultural practices greatly reduced effective population sizes of crops, allowing genetic drift to alter genotype frequencies. Current advances in molecular technologies, particularly of genome sequencing, provide evidence of human selection acting on numerous loci during and after crop domestication. Population-level molecular analyses also enable us to clarify the demographic histories of the domestication process itself, which, together with expanded archaeological studies, can illuminate the origins of crops. Domesticated plant species are found in 160 taxonomic families. Approximately 2500 species have undergone some degree of domestication, and 250 species are considered to be fully domesticated. The evolutionary trajectory from wild to crop species is a complex process. Archaeological records suggest that there was a period of predomestication cultivation while humans first began the deliberate planting of wild stands that had favorable traits. Later, crops likely diversified as they were grown in new areas, sometimes beyond the climatic niche of their wild relatives. However, the speed and level of human intentionality during domestication remains a topic of active discussion. These processes led to the so-called domestication syndrome, that is, a group of traits that can arise through human preferences for ease of harvest and growth advantages under human propagation. These traits included reduced dispersal ability of seeds and fruits, changes to plant structure, and changes to plant defensive characteristics and palatability. Domestication implies the action of selective sweeps on standing genetic variation, as well as new genetic variation introduced via mutation or introgression. Furthermore, genetic bottlenecks during domestication or during founding events as crops moved away from their centers of origin may have further altered gene pools. To date, a few hundred genes and loci have been identified by classical genetic and association mapping as targets of domestication and postdomestication divergence. However, only a few of these have been characterized, and for even fewer is the role of the wild-type allele in natural populations understood. After domestication, only favorable haplotypes are retained around selected genes, which creates a genetic valley with extremely low genetic diversity. These “selective sweeps” can allow mildly deleterious alleles to come to fixation and may create a genetic load in the cultivated gene pool. Although the population-wide genomic consequences of domestication offer several predictions for levels of the genetic diversity in crops, our understanding of how this diversity corresponds to nutritional aspects of crops is not well understood. Many studies have found that modern cultivars have lower levels of key micronutrients and vitamins. We suspect that selection for palatability and increased yield at domestication and during postdomestication divergence exacerbated the low nutrient levels of many crops, although relatively little work has examined this question. Lack of diversity in modern germplasm may further limit our capacity to breed for higher nutrient levels, although little effort has gone into this beyond a handful of staple crops. This is an area where an understanding of domestication across many crop taxa may provide the necessary insight for breeding more nutritious crops in a rapidly changing world