Jonathan D. Ballou

Introduction to Conservation Genetics: Frontmatter

The biological diversity of the planet is being rapidly depleted due to the direct and indirect consequences of human activity. As the size of animal and plant populations decreases, loss of genetic diversity reduces their ability to adapt to changes in the environment, with inbreeding and reduced fitness inevitable consequences for most species. This textbook provides a clear and comprehensive introduction to genetic principles and practices involved in conservation. Topics covered include: • evolutionary genetics of natural populations • loss of genetic diversity in small populations • inbreeding and loss of fitness • population fragmentation • resolving taxonomic uncertainties • genetic management of threatened species • contributions of molecular genetics to conservation. The text is presented in an easy-to-follow format, with main points and terms clearly highlighted. Each chapter concludes with a concise summary, which, together with worked examples and problems and answers, illuminates the key principles covered. Text boxes containing interesting case studies and other additional information enrich the content throughout, and over 100 beautiful pen-and-ink drawings help bring the material to life.

Estimates of minimum viable population sizes for vertebrates and factors influencing those estimates

Population size is a major determinant of extinction risk. However, controversy remains as to how large populations need to be to ensure persistence. It is generally believed that minimum viable population sizes (MVPs) would be highly specific, depending on the environmental and life history characteristics of the species. We used population viability analysis to estimate MVPs for 102 species. We define a minimum viable population size as one with a 99% probability of persistence for 40 generations. The models are comprehensive and include age-structure, catastrophes, demographic stochasticity, environmental stochasticity, and inbreeding depression. The mean and median estimates of MVP were 7316 and 5816 adults, respectively. This is slightly larger than, but in general agreement with, previous estimates of MVP. MVPs did not differ significantly among major taxa, or with latitude or trophic level, but were negatively correlated with population growth rate and positively correlated with the length of the study used to parameterize the model. A doubling of study duration increased the estimated MVP by approximately 67%. The increase in extinction risk is associated with greater temporal variation in population size for models built from longer data sets. Short-term studies consistently underestimate the true variances for demographic parameters in populations. Thus, the lack of long-term studies for endangered species leads to widespread underestimation of extinction risk. The results of our simulations suggest that conservation programs, for wild populations, need to be designed to conserve habitat capable of supporting approximately 7000 adult vertebrates in order to ensure long-term persistence. # 2003 Elsevier Science Ltd. All rights reserved.

A Primer of Conservation Genetics by Richard Frankham

Preface Take home messages 1. Introduction 2. Genetic diversity 3. Evolutionary genetics of natural populations 4. Genetic consequences of small population size 5. Genetics and extinction 6. Resolving taxonomic uncertainties and defining management units 7. Genetic management of endangered species in the wild 8. Captive breeding and reintroduction 9. Molecular genetics in forensics and understanding species biology Final messages Glossary Sources and copyright acknowledgments Index.

A Primer of Conservation Genetics: Frontmatter

Preface Take home messages 1. Introduction 2. Genetic diversity 3. Evolutionary genetics of natural populations 4. Genetic consequences of small population size 5. Genetics and extinction 6. Resolving taxonomic uncertainties and defining management units 7. Genetic management of endangered species in the wild 8. Captive breeding and reintroduction 9. Molecular genetics in forensics and understanding species biology Final messages Glossary Sources and copyright acknowledgments Index.

Effects of Inbreeding on Infant Mortality in Captive Primates

Breeding records for 16 primate colonies representing six families and both suborders were obtained from 10 institutions breeding primates in captivity and from the international studbook on one endangered species. Inbreeding coefficients relative to the founding population were calculated for each individual born. Individuals with an inbreeding coefficient of zero were classified as “noninbred” those with inbreeding coefficients greater than zero, as “inbred.” Infant mortality was defined as all deaths prior to the age of 6 months. Infant mortality of inbred young was higher than that of noninbred young in 15 of the 16 colonies surveyed (P =0.0003, one-tailed sign test). The higher mortality rate of the inbred young was significant by a Fisher’s exact test with a probability less than or equal to 0.05 in five of the individual colonies: Lemur fulvus, Saguinus fuscicollis illigeri, Saguinus fuscicollis, Leontopithecus rosalia,and Mandrillus sphinx.

Captive breeding programs for populations with a small number of founders.

Small captive populations are likely to become extinct. Detailed breeding plans based on the principles of population genetics and demography can greatly increase their chances of long-term survival. Zoos have now begun to implement such plans but lack the resources to extend them to the many species that are likely to become extinct in the wild in the near future.

EFFECTIVENESS OF SELECTION IN REDUCING THE GENETIC LOAD IN POPULATIONS OF PEROMYSCUS POLIONOTUS DURING GENERATIONS OF INBREEDING

It has been hypothesized that natural selection reduces the “genetic load” of deleterious alleles from populations that inbreed during bottlenecks, thereby ameliorating impacts of future inbreeding. We tested the efficiency with which natural selection purges deleterious alleles from three subspecies of Peromyscus polionotus during 10 generations of laboratory inbreeding by monitoring pairing success, litter size, viability, and growth in 3604 litters produced from 3058 pairs. In P. p. subgriseus, there was no reduction across generations in inbreeding depression in any of the fitness components. Strongly deleterious recessive alleles may have been removed previously during episodes of local inbreeding in the wild, and the residual genetic load in this population was not further reduced by selection in the lab. In P. p. rhoadsi, four of seven fitness components did show a reduction of the genetic load with continued inbreeding. The average reduction in the genetic load was as expected if inbreeding depression in this population is caused by highly deleterious recessive alleles that are efficiently removed by selection. For P. p. leucocephalus a population that experiences periodic bottlenecks in the wild, the effect of further inbreeding in the laboratory was to exacerbate rather than reduce the genetic load. Recessive deleterious alleles may have been removed from this population during repeated bottlenecks in the wild; the population may be close to a threshold level of heterozygosity below which fitness declines rapidly. Thus, the effects of selection on inbreeding depression varied substantially among populations, perhaps due to different histories of inbreeding and selection.

Conservation Program for the Golden Lion Tamarin: Captive Research and Management, Ecological Studies, Educational Strategies, and Reintroduction

The future conservation of most threatened species will require not only the preservation and management of critical habitats but also scientifically managed propagation programs for captive animals by zoos. Zoos will undoubtedly have primary responsibility for the preservation and protection of genetic diversity through the maintenance of viable captive populations (or their deep-frozen equivalents). However, they should also have a role to play in supporting and contributing to the preservation of natural habitats through research and public education on environmental issues. Conservation programs by zoos, by international and national conservation organizations, and by governments should converge, as the size of critical habitats and refuges becomes smaller and the amount of land available to zoos and their involvement with endangered species becomes greater.

Minimizing kinship in captive breeding programs

Captive populations of endangered species are managed to preserve genetic diversity and retain reproductive fitness. Minimizing kinship (MK) has been predicted to maximize the retention of gene diversity in pedigreed populations with unequal founder representation. MK was compared with maximum avoidance of inbreeding (MAI) and random choice of parents (RAND) using Drosophila melanogaster. Forty replicate populations of each treatment were initiated with unequal founder representation and managed for four generations. MK retained significantly more gene diversity and allelic diversity based on six microsatellite loci and seven allozyme loci than MAI or RAND. Reproductive fitness under both benign and competitive conditions did not differ significantly among treatments. Of the methods considered, MK is currently the best available for the genetic management of captive populations. Zoo Biol 16:377–389, 1997.

The frequency and severity of catastrophic die-offs in vertebrates

Rare bouts of extreme environmental perturbations (catastrophes) have been predicted to have a major influence on the probability of extinction. Yet very little information is available on the frequency and severity of catastrophes. Improving the available information concerning catastrophe parameters would allow for an evaluation of their effect and a start towards understanding their causes. We used the Global Population Dynamics Database to determine the frequency and severity of die-offs in 88 species of vertebrates. We define a catastrophe as any 1-year decrease in population size of 50% or greater. The data yielded three findings. (1) The frequency of severe die-offs in vertebrate populations is strongly related to the generation length of the organism. (2) The probability of a severe die-off for a particular population is approximately 14% per generation. (3) The frequency of die-off severity can be modelled as a modified power function with the frequency of die-offs decreasing with increasing magnitude of effect. The distribution is not consistent with catastrophes stemming from environmental sources different than those responsible for smaller fluctuations, but seems to represent the tail of a continuous distribution of environmental perturbations.