Millions of generations old: Once lost, diversity of gene pools cannot be restored
The present diversity of species is the result of a very long and slow process of genetic change and adaptation. The time necessary for the emergence of new species, and even for the accumulation of genetic variants at individual gene loci within species, greatly exceeds the time since the emergence of Homo sapiens. New techniques of molecular biology combined with recent theories in population genetics allow us to assess the time dimension of genetic change; these suggest that some genetic polymorphisms may have originated over a million generations ago. In other words, once lost, any particular genetic adaptation cannot be regained in any realistic time interval. We depend on biological systems for food, fiber, energy and medicinal needs. Continued advances in each of these areas may be compromised by losses of the biological resources — that is the genetic variants — that provide the raw material for innovation.
Nationwide, loss of wetlands has attracted scrutiny; 50% of animals and 33% of plants listed as endangered or threatened depend on wetland habitats. Above, the endangered California clapper rail.
Homo sapiens arose and became the dominant species on earth in the last 1/20,000 of the time elapsed since the origin of life. In this relatively short time, humans have altered both the physical and the biological worlds in profound ways. Our fossil fuel consumption and deforestation practices have substantially increased the concentration of carbon dioxide in the atmosphere, and our population growth is driving a major episode of biological extinction.
The changes that we are making in our environment are detrimental not only to biological diversity but also to ourselves. The biodiversity that surrounds us provides us with food, fiber, medicine and energy. The accumulation of this biodiversity has been a very slow process when measured in human timescales. Biodiversity is the product of a vast history of evolutionary change — about 3.5 billion years. The colonization of the terrestrial environment by lifeforms began approximately 500 to 600 million years ago, and during this most recent 10% of evolutionary history all of the diverse forms of terrestrial life that comprise our environment appeared. We can not repopulate our world with species that have been lost, nor can we expect to regain the use of lost genetic variants within the timescale of human existence.
To gain perspective on our biological resources and to formulate wise strategies for managing our world, we must consider the following questions: What do we know about the processes that have produced the biological diversity of our world? And how have we attempted to place a value on biological diversity through our conservation activities?
Timescales and diversity
How long does it take to acquire the unique genetic attributes that mark distinct species? The temporal thread that binds generations is the transmission of the hereditary information encoded in DNA (deoxyribonucleic acid). The preservation of form and function depends on a highly efficient system for the replication of DNA, so that the information transfer from one generation to the next is nearly errorfree. Paradoxically, some errors are essential to provide evolutionary flexibility. The ultimate source of biological diversity derives from mutational change in DNA molecules.
Owing to the powerful tools of molecular biology, our understanding of the genetic dimension of evolutionary change has advanced enormously over the past decade. These tools have provided us with a direct means of studying the pattern of mutational changes in DNA molecules among diverse life forms. Based on comparative studies, we now know that the error rate for DNA replication is very low (approximately 5 x 10-9 base substitutions per nucleotide per year) (Nei 1987). We have also learned that a number of mechanisms cause mutational change, including the insertion and deletion of DNA sequences and the transposition of DNA sequences (e.g., with respect to the chloroplast genome, see Clegg, et al. 1994).
How can we learn about evolutionary time scales from the analysis of DNA sequence differences either among species or among individuals within a species? If we can determine the number of mutations that separate different species and if the mutation rate is constant, we can calculate the time it took to accumulate the observed level of mutational divergence. This notion of a molecular clock has been widely employed in evolutionary biology. To cite but one example of a molecular clock argument, it is estimated from the accumulation of mutational change in molecules that the monocotyledonous class of flowering plants (e.g., grasses, palms, orchids) separated from within the dicotyledonous class (e.g., cotton, sunflowers, apple trees and so on) approximately 200 million years ago (Wolfe et al. 1989).
Let us move from these ancient events in terrestrial evolution to the accumulation of genetic diversity within species. A commonly accepted definition of species is a group of individuals that are able to breed with each other (Mayr 1963). As a consequence, the members of a species share a common gene pool. As the populations that compose a species diverge from one another through time, barriers to reproduction begin to emerge. These include chromosomal rearrangements, behavioral divergence and changes in flowering time. New daughter species are born. The essential characteristic of a species is that the members share a common evolutionary future.
How extensive is the genetic diversity contained within species' gene pools? What factors control diversity levels and how long does it take to reach a given degree of diversity within a species' gene pool? According to biochemical assays of genetic diversity conducted over the past 25 years, most of the 470-plus tested plant species have extensive levels of genetic diversity (Hamrick and Godt 1989) and essentially the same is true of animal species. Plant and animal breeders exploit genetic diversity to improve domesticated species. Similarly, natural selection depends absolutely on genetic diversity to produce adaptive responses to environmental changes.
Levels of genetic diversity within species are controlled by mutation rates, the size of the breeding population (effective population size), and the pattern and strength of natural selection. (Effective population size is calculated as the harmonic mean of population sizes taken over time.) While mutation rates are reasonably constant across most life forms, patterns of effective population size and selection are highly specific and depend on the unique history of the species in question. For example, species that have expanded from glacial refugia may have much larger current numbers but their effective population size is still dominated by the bottleneck imposed by the glacial era. (Refugia are areas of relatively unaltered climate inhabited by plants and animals during a period of continental climatic change.) Hence the time it took to achieve a given degree of genetic diversity depends on the species.
The age of genetic variants within a species can be estimated by coalescence theory (Hudson 1990). Coalescence theory is a recent development in population genetics that relates mutational diversity for a particular gene to past episodes of selection and to the effective population size of the species. The effective population size can, in turn, be related to the age of genetic variants. To apply coalescence theory, researchers obtain DNA from a sample of individuals. For each individual, DNA sequence data are determined for a specific gene. According to the theory, the present-day sequences all trace back to a common ancestral sequence called the coalescent. The age of the coalescent depends on mutation rate and effective population size. Gene genealogies can also be used to detect natural selection.
Coalescence theory has been used to estimate the coalescent and the effective population size in two major grain crops (maize and pearl millet) using DNA sequences of the gene encoding the enzyme alcohol dehydrogenase 1 (Adh1) from wide geographic samples (Gaut and Clegg 1993a, b). These analyses revealed that the time to the coalescent for maize was nearly 2 million years and that the historical effective population size in maize was surprisingly large (660,000). We might have expected the strong selection associated with the domestication of maize to have led to smaller effective population sizes. The coalescent for pearl millet was estimated to be about 500,000 years and the historical effective population size was about one quarter of that for maize. The interesting point is that in both maize and pearl millet, the stores of genetic diversity at the Adh1 locus have accumulated over long periods of time. For example, some of the common genetic variants of maize Adh1 were in existence during the era of Homo erectus (McHenry 1995) 1.6 million years ago, long before the appearance of modern humans.
Genetic diversity is useful to agriculture because crop improvement is based on the exploitation of useful genetic variants. It is also important to recall that species lacking present utility may still have value. They may contribute to ecosystem services such as photosynthesis, carbon recycling and so on, services that are essential for human life. They may also have direct but unanticipated future value (e.g., the Pacific yew, which is a source of taxol, the anticancer drug).
Much of the diversity in agricultural crops and their close relatives is being lost due to habitat destruction and the expansion of modern crop monocultures (the cultivation of one species or variety over large areas). To counteract this diversity loss, there has been a major international effort to collect and store the genetic resources crucial to continued agricultural improvement (Cohen et al., 1991).
In deciding to invest substantial resources in this international scheme for maintaining germplasm banks, we have essentially placed a value on the genetic diversity accumulated in crop species. This can also be calculated using what we have learned from coalescence theory (Clegg 1993). If we assume that it would take hundreds of thousands of years to restore genetic diversity once it was lost, we may approximate the future cost of genetic diversity loss in economically important species by applying a modest rate of interest to a crop's value (say 1% a year for several hundred thousand years).
Space needed for evolution
Species are composed of systems of populations called metapopulations (Levins; 1970) that are spread across an environment or landscape. A given environment is spatially heterogeneous (Risser, 1987), that is, local environments differ from each other. In each local environment, particular genetic variants of a species are more likely to survive and reproduce successfully, and natural selection favors those variants. Over time a given population adapts to its local environment. While genetically different, these locally adapted populations remain part of the same species because genetic migration among populations maintains a common evolutionary trajectory for the species as a whole.
Species cannot exist as dynamic evolutionary entities without sufficient habitat. (Imagine a forest of Douglas fir without habitat!) One of the most fundamental generalizations of ecology is the relation between the size of a habitat and the number of species that can live there (McArthur and Wilson 1967). Reducing the size of a habitat means reducing the number of species that live there. In addition, habitat loss can ultimately reduce the ecosystem services required to sustain human activities.
The enormous expansion of the global human population has engendered an unavoidable conflict between biological diversity and the activities necessary to accommodate population growth. The battle field is habitat. To expand our agricultural, urban, industrial and other needs, we must convert habitat that supported a variety of biological activities into space for human use. How do we manage the environment to sustain human life in the long term while still meeting the needs of present populations? The obvious answer is that we adopt societal rules to conserve habitat and thereby to conserve the biological heritage upon which we depend.
Conservation and the ESA
The United States has had a long tradition of conservation, perhaps beginning with the creation of the National Park system around the turn of the century. The bulk of federal funds for land conservation activities is provided by the Land and Water Conservation Fund. Since 1964, federal agencies have spent more than $3.6 billion to acquire land; in addition, the federal government has provided $3.2 billion in matching funds to states for land conservation activities (National Research Council 1993).
Federal agencies charged with promoting conservation are also responsible for regulating the uses of both public and private lands. The most potent legislation for biological conservation is the Endangered Species Act (ESA), first passed in 1973, and subject to 5-year reauthorization cycles. Section 2b of the ESA states, “The purposes of this Act are to provide a means whereby the ecosystems upon which endangered species and threatened species depend may be conserved.” The primary federal agencies charged with developing and enforcing the Act's regulations are the U.S. Fish and Wildlife Service and the National Marine Fisheries Service.
The ESA defines “species” broadly to include any subspecies of plant or animal, as well as any distinct population segment of any vertebrate species that interbreeds when mature (Section 3,15). Although the term “species” is used more restrictively for plants and invertebrates than for vertebrates, there is no biological basis for such a distinction (National Research Council, 1995).
The ESA provides a means for listing species as threatened or endangered. At the time of listing, Section 4 of the Act generally requires the designation of critical habitat by the Fish and Wildlife Service that is essential for conserving the species. Section 9 of the Act prohibits taking a listed species, which is interpreted to include both injuring or killing the species and significantly modifying or degrading its habitat. The prohibition against take is enforced by significant legal and civil penalties. Section 11 of the act defines criminal penalties with fines up to $50,000 or 1 year in prison.
To give the Act flexibility, Section 10(a) provides for incidental take associated with Habitat Conservation Plans (HCPs). While these plans require complex negotiations among private parties, local and state governments, HCPs are seen increasingly as a means of developing regional approaches to conservation in California.
The ESA's impact on both private and governmental land use has grown as conflicts between development and species conservation have become more frequent. The scheduled reauthorization of the Act was deferred in 1993. It seems likely that some, perhaps major, changes will occur in the law when it is reauthorized in 1996.
Saving our ultimate resource
The loss of species and valuable gene pools is proceeding at an accelerating pace. Once gone, this lost genetic diversity will not be regained for a long time — vastly longer than the total history of human existence. Man depends on the biological world for survival. Other species are the ultimate source of the energy, food, fiber and many of the medicines that we consume. While we have managed to convert the biological and physical resources of the earth to human use with increasing efficiency, we have simultaneously degraded the resource base for future human generations. This, coupled with a vastly expanding human population, threatens our ability to sustain our current standard of living into the future.
The United States has a long history of conservation policy aimed at preserving useful genetic variants for agriculture as well as ecosystems that are crucial to the quality of human life. Today, population pressures are intensifying the conflict between the need to preserve biological resources and the need of an expanding population to use land and raw materials. A major challenge for the 21st century will be to develop approaches to conservation that meet our obligations to both present and future generations.
The ultimate source of biological diversity derives from mutational change in DNA molecules.