Brian E. Robinson

Identification of a gene causing human cytochrome c oxidase deficiency by integrative genomics

Identifying the genes responsible for human diseases requires combining information about gene position with clues about biological function. The recent availability of whole-genome data sets of RNA and protein expression provides powerful new sources of functional insight. Here we illustrate how such data sets can expedite disease-gene discovery, by using them to identify the gene causing Leigh syndrome, French-Canadian type (LSFC, Online Mendelian Inheritance in Man no. 220111), a human cytochrome c oxidase deficiency that maps to chromosome 2p16-21. Using four public RNA expression data sets, we assigned to all human genes a “score” reflecting their similarity in RNA-expression profiles to known mitochondrial genes. Using a large survey of organellar proteomics, we similarly classified human genes according to the likelihood of their protein product being associated with the mitochondrion. By intersecting this information with the relevant genomic region, we identified a single clear candidate gene, LRPPRC. Resequencing identified two mutations on two independent haplotypes, providing definitive genetic proof that LRPPRC indeed causes LSFC. LRPPRC encodes an mRNA-binding protein likely involved with mtDNA transcript processing, suggesting an additional mechanism of mitochondrial pathophysiology. Similar strategies to integrate diverse genomic information can be applied likewise to other disease pathways and will become increasingly powerful with the growing wealth of diverse, functional genomics data.

Benefits, costs, and livelihood implications of a regional payment for ecosystem service program

Despite broad interest in using payment for ecosystem services to promote changes in the use of natural capital, there are few expost assessments of impacts of payment for ecosystem services programs on ecosystem service provision, program cost, and changes in livelihoods resulting from program participation. In this paper, we evaluate the Paddy Land-to-Dry Land (PLDL) program in Beijing, China, and associated changes in service providers’ livelihood activities. The PLDL is a land use conversion program that aims to protect water quality and quantity for the only surface water reservoir that serves Beijing, China’s capital city with nearly 20 million residents. Our analysis integrates hydrologic data with household survey data and shows that the PLDL generates benefits of improved water quantity and quality that exceed the costs of reduced agricultural output. The PLDL has an overall benefit–cost ratio of 1.5, and both downstream beneficiaries and upstream providers gain from the program. Household data show that changes in livelihood activities may offset some of the desired effects of the program through increased expenditures on agricultural fertilizers. Overall, however, reductions in fertilizer leaching from land use change dominate so that the program still has a positive net impact on water quality. This program is a successful example of water users paying upstream landholders to improve water quantity and quality through land use change. Program evaluation also highlights the importance of considering behavioral changes by program participants.

Are There Spatial Spillovers in the Adoption of Clean Technology?: The Case of Organic Dairy Farming

This paper examines spatial spillovers associated with the adoption of organic dairy farming. We hypothesize that neighboring farmers can help to reduce the uncertainty of organic conversion by lowering the fixed costs of learning about the organic system. A spatially explicit 10-year panel dataset of more than 1,900 dairy farms in southwestern Wisconsin is used as input into a reduced-form econometric model of the decision to convert to organic production. Using an identification strategy that exploits the panel aspect of the micro dataset, we find evidence that the presence of neighboring organic dairy farms affects the conversion decision. (JEL Q15, Q24)

Cultivating a Demand for Clean Cookstoves

In their policy forum “a major environmental cause of death” (14 October, p. [180][1]), W. J. Martin II and colleagues highlight the need to stimulate market demand for clean cookstoves because “a stove purchased by the consumer is inherently more valued than one that is received without

Meta-studies in land use science: Current coverage and prospects

Land use science has traditionally used case-study approaches for in-depth investigation of land use change processes and impacts. Meta-studies synthesize findings across case-study evidence to identify general patterns. In this paper, we provide a review of meta-studies in land use science. Various meta-studies have been conducted, which synthesize deforestation and agricultural land use change processes, while other important changes, such as urbanization, wetland conversion, and grassland dynamics have hardly been addressed. Meta-studies of land use change impacts focus mostly on biodiversity and biogeochemical cycles, while meta-studies of socioeconomic consequences are rare. Land use change processes and land use change impacts are generally addressed in isolation, while only few studies considered trajectories of drivers through changes to their impacts and their potential feedbacks. We provide a conceptual framework for linking meta-studies of land use change processes and impacts for the analysis of coupled human–environmental systems. Moreover, we provide suggestions for combining meta-studies of different land use change processes to develop a more integrated theory of land use change, and for combining meta-studies of land use change impacts to identify tradeoffs between different impacts. Land use science can benefit from an improved conceptualization of land use change processes and their impacts, and from new methods that combine meta-study findings to advance our understanding of human–environmental systems.

When, Where, and How Nature Matters for Ecosystem Services: Challenges for the Next Generation of Ecosystem Service Models

&NA; Many decision‐makers are looking to science to clarify how nature supports human well‐being. Scientists’ responses have typically focused on empirical models of the provision of ecosystem services (ES) and resulting decision‐support tools. Although such tools have captured some of the complexities of ES, they can be difficult to adapt to new situations. Globally useful tools that predict the provision of multiple ES under different decision scenarios have proven challenging to develop. Questions from decision‐makers and limitations of existing decision‐support tools indicate three crucial research frontiers for incorporating cutting‐edge ES science into decision‐support tools: (1) understanding the complex dynamics of ES in space and time, (2) linking ES provision to human well‐being, and (3) determining the potential for technology to substitute for or enhance ES. We explore these frontiers in‐depth, explaining why each is important and how existing knowledge at their cutting edges can be incorporated to improve ES decision‐making tools.

Understanding the Challenges and Rewards of Social-Ecological Research in China

Interest in collaborative research on Chinese social and ecological systems has grown dramatically in recent decades. While international researchers are giving increased attention to China, foreign scholars, especially those new to China, are often unsure of the best way to find collaborators, garner sponsorship, and pursue research goals. Understanding research incentives for Chinese scientists, the culture of relationships, research topic sensitivity, and data access limitations are some of the challenges commonly experienced by foreign scholars in China. In this article we identify potential hurdles and offer remedies when possible so that foreign scholars can more readily adapt to Chinas scholarly environment and improve the prospect for mutually beneficial collaboration.

Conservation vs. livelihoods: spatial management of non‐timber forest product harvests in a two‐dimensional model

Areas of high biodiversity often coincide with communities living in extreme poverty. As a livelihood support, these communities often harvest wild products from the environment. But harvest activities can have negative impacts on fragile and globally important ecosystems. This paper examines trade-offs in ecological protection and community welfare from the harvest of wild products. With a novel model and empirical evidence, I show that management of harvest activity does not always resolve these trade-offs. In a model of continuous harvests in a two-dimensional landscape, managed harvest activity improves welfare, but is uniformly bad for other ecosystem services that are sensitive to the presence (as opposed to the intensity) of human activity. Empirical results from a unique dataset of mushroom harvesters in Yunnan, China suggest more experienced, poorer, and more vulnerable individuals tend to rely on more distant harvests. Thus, policies that limit the extent of forest travel, such as protected areas, may protect fragile ecosystems but can have a disproportionately negative effect on those most vulnerable.

Community land titles alone will not protect forests

Blackman et al. (1) assess the forest cover impacts of providing indigenous Peruvian communities with formal title to land they have long inhabited. We applaud the authors’ use of high-quality forest change data and rigorous causal methods; both are critical gaps in the land tenure and forest change literature (2). Their findings are encouraging, especially given Peru’s globally important biodiverse forests and the pressing need to secure the rights of indigenous people. Beyond these notable strengths, we caution against generalizing the results of this study for several reasons. First, titling did not cede full land rights. To obtain title, communities in the study were … [↵][1]1To whom correspondence should be addressed. Email: brian.e.robinson{at}mcgill.ca. [1]: #xref-corresp-1-1

Nitrogen balance dynamics during 2000-2010 in the Yangtze River Basin croplands, with special reference to the relative contributions of cropland area and synthetic fertilizer N application rate changes

With the increases of cropland area and fertilizer nitrogen (N) application rate, general N balance characteristics in regional agroecosystems have been widely documented. However, few studies have quantitatively analyzed the drivers of spatial changes in the N budget. We constructed a mass balance model of the N budget at the soil surface using a database of county-level agricultural statistics to analyze N input, output, and proportional contribution of various factors to the overall N input changes in croplands during 2000–2010 in the Yangtze River Basin, the largest basin and the main agricultural production region in China. Over the period investigated, N input increased by 9%. Of this 87% was from fertilizer N input. In the upper and middle reaches of the basin, the increased synthetic fertilizer N application rate accounted for 84% and 76% of the N input increase, respectively, mainly due to increased N input in the cropland that previously had low synthetic fertilizer N application rate. In lower reaches of the basin, mainly due to urbanization, the decrease in cropland area and synthetic fertilizer N application rate nearly equally contributed to decreases in N input. Quantifying spatial N inputs can provide critical managerial information needed to optimize synthetic fertilizer N application rate and monitor the impacts of urbanization on agricultural production, helping to decrease agricultural environment risk and maintain sustainable agricultural production in different areas.