Definitions of diversity. Measuring species diversity. Choosing an index and interpreting diversity measures. Sampling problems. Structural diversity. Applications of diversity measures. Summary.

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Ecological Diversity and its Measurement

So far in this course we have dealt entirely with the evolution of characters that are controlled by simple Mendelian inheritance at a single locus. There are notes on the course website about gametic disequilibrium and how allele frequencies change at two loci simultaneously, but we didn’t discuss them. In every example we’ve considered we’ve imagined that we could understand something about evolution by examining the evolution of a single gene. That’s the domain of classical population genetics. For the next few weeks we’re going to be exploring a field that’s actually older than classical population genetics, although the approach we’ll be taking to it involves the use of population genetic machinery. If you know a little about the history of evolutionary biology, you may know that after the rediscovery of Mendel’s work in 1900 there was a heated debate between the “biometricians” (e.g., Galton and Pearson) and the “Mendelians” (e.g., de Vries, Correns, Bateson, and Morgan). Biometricians asserted that the really important variation in evolution didn’t follow Mendelian rules. Height, weight, skin color, and similar traits seemed to

Human biochemical genetics

Scenarios of changes in biodiversity for the year 2100 can now be developed based on scenarios of changes in atmospheric carbon dioxide, climate, vegetation, and land use and the known sensitivity of biodiversity to these changes. This study identified a ranking of the importance of drivers of change, a ranking of the biomes with respect to expected changes, and the major sources of uncertainties. For terrestrial ecosystems, land-use change probably will have the largest effect, followed by climate change, nitrogen deposition, biotic exchange, and elevated carbon dioxide concentration. For freshwater ecosystems, biotic exchange is much more important. Mediterranean climate and grassland ecosystems likely will experience the greatest proportional change in biodiversity because of the substantial influence of all drivers of biodiversity change. Northern temperate ecosystems are estimated to experience the least biodiversity change because major land-use change has already occurred. Plausible changes in biodiversity in other biomes depend on interactions among the causes of biodiversity change. These interactions represent one of the largest uncertainties in projections of future biodiversity change.

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Global biodiversity scenarios for the year 2100.

The planetary boundaries framework defines a safe operating space for humanity based on the intrinsic biophysical processes that regulate the stability of the Earth system. Here, we revise and update the planetary boundary framework, with a focus on the underpinning biophysical science, based on targeted input from expert research communities and on more general scientific advances over the past 5 years. Several of the boundaries now have a two-tier approach, reflecting the importance of cross-scale interactions and the regional-level heterogeneity of the processes that underpin the boundaries. Two core boundaries—climate change and biosphere integrity—have been identified, each of which has the potential on its own to drive the Earth system into a new state should they be substantially and persistently transgressed.

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Planetary boundaries: Guiding human development on a changing planet

Freshwater biodiversity is the over-riding conservation priority during the International Decade for Action - 'Water for Life' - 2005 to 2015. Fresh water makes up only 0.01% of the World's water and approximately 0.8% of the Earth's surface, yet this tiny fraction of global water supports at least 100000 species out of approximately 1.8 million - almost 6% of all described species. Inland waters and freshwater biodiversity constitute a valuable natural resource, in economic, cultural, aesthetic, scientific and educational terms. Their conservation and management are critical to the interests of all humans, nations and governments. Yet this precious heritage is in crisis. Fresh waters are experiencing declines in biodiversity far greater than those in the most affected terrestrial ecosystems, and if trends in human demands for water remain unaltered and species losses continue at current rates, the opportunity to conserve much of the remaining biodiversity in fresh water will vanish before the 'Water for Life' decade ends in 2015. Why is this so, and what is being done about it? This article explores the special features of freshwater habitats and the biodiversity they support that makes them especially vulnerable to human activities. We document threats to global freshwater biodiversity under five headings: overexploitation; water pollution; flow modification; destruction or degradation of habitat; and invasion by exotic species. Their combined and interacting influences have resulted in population declines and range reduction of freshwater biodiversity worldwide. Conservation of biodiversity is complicated by the landscape position of rivers and wetlands as 'receivers' of land-use effluents, and the problems posed by endemism and thus non-substitutability. In addition, in many parts of the world, fresh water is subject to severe competition among multiple human stakeholders. Protection of freshwater biodiversity is perhaps the ultimate conservation challenge because it is influenced by the upstream drainage network, the surrounding land, the riparian zone, and - in the case of migrating aquatic fauna - downstream reaches. Such prerequisites are hardly ever met. Immediate action is needed where opportunities exist to set aside intact lake and river ecosystems within large protected areas. For most of the global land surface, trade-offs between conservation of freshwater biodiversity and human use of ecosystem goods and services are necessary. We advocate continuing attempts to check species loss but, in many situations, urge adoption of a compromise position of management for biodiversity conservation, ecosystem functioning and resilience, and human livelihoods in order to provide a viable long-term basis for freshwater conservation. Recognition of this need will require adoption of a new paradigm for biodiversity protection and freshwater ecosystem management - one that has been appropriately termed 'reconciliation ecology'.

https://www.cambridge.org/core/services/aop-cambridge-core/content/view/96AA265E3D88C95FB802E7A73CCB4332/S1464793105006950a.pdf/div-class-title-freshwater-biodiversity-importance-threats-status-and-conservation-challenges-div.pdf

Freshwater biodiversity: importance, threats, status and conservation challenges

H umans have long been fascinated by the dynamism of free-flowing waters. Yet we have expended great effort to tame rivers for transportation, water supply, flood control, agriculture, and power generation. It is now recognized that harnessing of streams and rivers comes at great cost: Many rivers no longer support socially valued native species or sustain healthy ecosystems that provide important goods and services (Naiman et al. 1995, NRC 1992).

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The Natural Flow Regime

▪ Abstract Local habitat and biological diversity of streams and rivers are strongly influenced by landform and land use within the surrounding valley at multiple scales. However, empirical associations between land use and stream response only varyingly succeed in implicating pathways of influence. This is the case for a number of reasons, including (a) covariation of anthropogenic and natural gradients in the landscape; (b) the existence of multiple, scale-dependent mechanisms; (c) nonlinear responses; and (d) the difficulties of separating present-day from historical influences. Further research is needed that examines responses to land use under different management strategies and that employs response variables that have greater diagnostic value than many of the aggregated measures in current use. In every respect, the valley rules the stream.      H.B.N. Hynes (1975)

http://deq.idaho.gov/media/525804-Landscapes_Riverscapes_Influence_landuse_stream_ecosystems_Allan_2004.pdf

Landscapes and Riverscapes: The Influence of Land Use on Stream Ecosystems

1 An Introduction to Fluvial Ecosystems An overview of the diversity of rivers and streams, including some of the causes of this diversity, and some of the consequences. The intent is to provide a roadmap for the individual chapters that follow, rather than define terms and explain principles in any detail. 2 Streamflow Fluvial ecosystems exhibit tremendous variability in the quantity, timing and temporal patterns of river flow, and this profoundly influences their physical, chemical and biological condition. This chapter covers the essentials of hydrology, from the global water cycle to the myriad ways that humans alter water flowpaths and river flow. 3 Fluvial Geomorphology Fluvial geomorphology emphasizes the dynamic interplay between rivers and landscapes in the shaping of river channels and drainage networks. It includes study of the linkages among channel, floodplain, network and catchment and helps make sense of the enormous variety exhibited among fluvial systems, and thus the habitat and environmental conditions experienced by the biota. 4 Streamwater Chemistry The constituents of river water include suspended inorganic matter, dissolved major ions, dissolved nutrients, suspended and dissolved organic matter, gases, and trace metals. River chemistry changes temporally under the multiple influences of seasonal changes in discharge regime, precipitation inputs, and biological activity and usually is greatly altered owing to direct and indirect human influences. 5 The Abiotic Environment The abiotic environment includes all physical and chemical variables that influence the distribution and abundance of organisms. Current, substrate and temperature often are the most important variables in fluvial environments, and all organisms show adaptations that limit them to a subset of conditions. Species differ in the specific conditions under which they thrive, and whether those conditionsare narrow or comparatively broad. 6 Primary Producers Primary producers acquire their energy from sunlight and their materials from nonliving sources. The major autotrophs of running waters include the benthic algae and macrophytes in larger rivers, phytoplankton also can be important. Benthic algae occur in intimate association with heterotrophic microbes within an extracellular matrix, referred to as biofilm. Benthic algae are important in fluvial food webs, especially in headwater and midsized streams, and also influence the benthic habitat and nutrient cycling. 7 Detrital Energy Sources Particulate and dissolved organic matter originating both within the stream and in the surrounding landscape is an important basal resource to fluvial food webs. Detritus-based energy pathways can be particularly important, relative to pathways originating from living primary producers, in small streams shaded by a terrestrial canopy and in large, turbid rivers with extensive floodplains. Recent advances in microbial ecology have greatly expanded our understanding of the synergies between autotrophs and heterotrophs. 8 Trophic Relationships The network of consumers and resources that constitute fluvial food webs is supported by a diverse mix of energy supplies that originate within the stream and beyond its banks. These include the living resources of algae and macrophytes, and the non-living resources of particulate and dissolved organic matter. Microorganisms are important mediators of organic matter availability and there is increasing evidence of their importance as a resource to both small and large consumers. Additionally, energy subsidies in the form of falling terrestrial arthropods and the eggs and carcasses of migrating fish contribute to the support of many stream-dwellers. 9 Species interactions The basal resources of algae and detritus and associated microorganisms sustain higher consumers includin

Stream Ecology: Structure and Function of Running Waters

Stream fish assmemblage data for 34 sites in Wisconsin and Minnesota were obtained from archived sources and were used in conjunction with long—term hydrological data to test the hypothesis that functional organization of fish communities is related to hydrological variability. For each of the 106 species present in the data set, six categories of species traits were derived to describe habitat, trophic, morphologica, and tolerance characteristics. A hierarchical clustering routine was used to identify two functionally similar groups of assemblages defined in terms of species presence/absence. Hydrological factors describing streamflow variability and predictability, as well as frequency and predictability of high flow and low flow extremes, were derived for each of the 34 sites and employed to explain differences among the functionally defined groups. Canonical discriminant analysis revealed that the hydrological data could clearly separate the two ecologically defined groups of assemblages, which were associated with either hydrologically variable streams (high coefficient of variation of daily flows, moderate frequency of spates) or hydrologically stable streams (high predictability of daily flows, stable baseflow conditions). Discriminant functions based on hydrological information classified the 34 fish assemblages into the correct ecological group with 85% accuracy. Assemblages from hydrologically variable sites had generalized feeding strategies, were associated with silt and general substrata, were characterized by slow—velocity species with headwater affinities, and were tolerant to silt. Proportions of species traits present at the 34 sites were regressed against an index of hydrological stability derived from a principal components analysis to test the hypothesis that functional organization of assemblages varied across a gradient of hydrological stability. Results were complementary with the discriminant analysis. Findings were in general agreement with theoretical predictions that variable should support resource generalists while stable habitats should be characterized by a higher proportion of specialist species. Several species of fish were identified as indicative of the variable—stable hydrological gradient among stream sites. A taxonomic analysis showed strong geographic patterns in species composition of the 34 assemblages. However, zoogeographic constraints did not explain the observed relationship between stream hydrology and functional organization of fish assemblages. The strong hydrological—assemblage relations found in the 34 midwestern sites suggest that hydrological factors are significant environmental variables influencing fish assemblage structure, and that hydrological alterations induced by climate change (or other anthropogenic disturbances) could modify stream fish assemblages structure in this region.

https://www.jstor.org/stable/pdfplus/1941217.pdf

Functional Organization of Stream Fish Assemblages in Relation to Hydrological Variability

1. Despite wide recognition of the need for catchment-scale management to ensure the integrity of river ecosystems, the science and policy basis for joint management of land and water remains poorly understood. An interdisciplinary case study of a river basin in south-eastern Michigan is presented.

2. The River Raisin drains an area of 2776 km2, of which some 70% is agricultural land. The upper basin consists of till and outwash, and both topography and land use/cover are diverse. The lower basin consists of fine textured lake deposits, is of low relief, and land use is primarily agricultural.

3. The River Raisin basin historically was a region of oak-savannah and wetlands. It was deforested, drained and converted to farmland during the mid-nineteenth century. Human population reached a plateau at about 1880, and then underwent a second period of growth after 1950, mainly in small urban areas. More recently, the amount of agricultural land has declined and forested land has increased, in accord with a general decline in farming activity.

4. It could be suggested that the influence of land use on stream integrity is scale-dependent. Instream habitat structure and organic matter inputs are determined primarily by local conditions such as vegetative cover at a site, whereas nutrient supply, sediment delivery, hydrology and channel characteristics are influenced by regional conditions, including landscape features and land use/cover at some distance upstream and lateral to stream sites.

5. Sediment concentrations measured during low flows were higher in areas of greater agriculture. In a comparison of two subcatchments, sediment yields were up to ten times greater in the more agricultural location, in response to similar storm events. A distributed parameter model linked to a geographical information system predicted that an increase in forested land cover would result in dramatic declines in runoff and sediment and nutrient yields.

6. Habitat quality and biotic integrity varied widely among individual stream sites in accord with patterns in land use/cover. Extent of agricultural land at the subcatchment scale was the best single predictor of local stream conditions. Local riparian vegetation was uncorrelated with overall land use and was a weak secondary predictor of habitat quality and biotic integrity.

7. Investigation of the regulatory agencies involved in land and water management in the basin revealed a complex web of overlapping political jurisdictions. Most land-use decision-making occurs at the local level of township, city or village. Unfortunately, local decision-making bodies typically lack the information and jurisdictional authority to influence up- and downstream events.

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J. David Allan

Papers

The Natural Flow Regime

Landscapes and Riverscapes: The Influence of Land Use on Stream Ecosystems

Stream Ecology: Structure and Function of Running Waters

Functional Organization of Stream Fish Assemblages in Relation to Hydrological Variability

The influence of catchment land use on stream integrity across multiple spatial scales