| Literature DB >> 20122269 |
Donald Blomqvist1, Angela Pauliny, Mikael Larsson, Lars-Ake Flodin.
Abstract
BACKGROUND: Inbreeding and loss of genetic diversity are expected to increase the extinction risk of small populations, but detailed tests in natural populations are scarce. We combine long-term population and fitness data with those from two types of molecular markers to examine the role of genetic effects in a declining metapopulation of southern dunlins Calidris alpina schinzii, an endangered shorebird.Entities:
Mesh:
Year: 2010 PMID: 20122269 PMCID: PMC2824661 DOI: 10.1186/1471-2148-10-33
Source DB: PubMed Journal: BMC Evol Biol ISSN: 1471-2148 Impact factor: 3.260
Population data for southern dunlins and overview of samples used in the genetic analyses
| Year | Total no. of pairs* | No. of finger- printed pairs† | Total no. of hatchlings | No. of genotyped hatchlings‡ |
|---|---|---|---|---|
| 1993 | 35 | 2 | 47 | 1 |
| 1994 | 38 | 2 | 54 | 2 |
| 1995 | 37 | 0 | 62 | 8 |
| 1996 | 24 | 2 | 26 | 2 |
| 1997 | 30 | 7 | 42 | 10 |
| 1998 | 25 | 2 | 36 | 3 |
| 1999 | 32 | 2 | 34 | 3 |
| 2000 | 28 | 0 | 34 | 8 |
| 2001 | 26 | 6 | 56 | 2 |
| 2002 | 26 | 7 | 65 | 13 |
| 2003 | 22 | 10 | 42 | 2 |
| 2004 | 16 | 0 | 48 | 10 |
*Minimum number based on confirmed breeding attempts (all local populations combined).
† Each pair is only listed the first year it was recorded breeding (most pairs bred in more than one year). Total number of fingerprinted pairs n = 40.
‡ Total number of microsatellite genotyped hatchlings n = 64, representing one randomly selected hatchling of each of 64 parental combinations. All individuals were typed at 9 loci (see Table 2).
Characteristics of microsatellite loci used to assess individual heterozygosity in southern dunlins (n = 76 individuals)
| Locus* | No. of alleles | Allele size range (bp) | ||
|---|---|---|---|---|
| Calp2 | 8 | 127-147 | 0.684 | 0.711 |
| Calp4 | 5 | 118-128 | 0.173† | 0.451 |
| Calp5 | 4 | 112-118 | 0.500 | 0.590 |
| Ruff1 | 9 | 175-215 | 0.868 | 0.842 |
| Ruff6 | 7 | 123-147 | 0.763 | 0.779 |
| Ruff9 | 6 | 180-200 | 0.763 | 0.791 |
| Ruff10 | 6 | 252-280 | 0.421† | 0.649 |
| PGT83‡ | 8 | 155-171 | 0.697 | 0.754 |
| 4A11 | 2 | 143-145 | 0.167 | 0.359 |
For each locus, the name, the source species from which the locus was originally isolated and its reference are presented. Amplification results are shown as number of alleles, range of allele sizes in base pairs (bp), observed (HO) and expected heterozygosity (HE).
*Locus name (source species, reference): Calp2-5 (Calidris alpina, [54]); Ruff1-10 (Philomachus pugnax, [55]); PGT83 (Calidris canutus; D.M. Buehler, A.J. Baker, unpublished data; GenBank Accession number AY198173); 4A11 (Haematopus ostralegus, [56]).
†Significant deviation from Hardy-Weinberg Equilibrium (χ2 = 26.7, df = 1, p < 0.001, and χ2 = 9.5, df = 1, p < 0.01, respectively).
‡Primer sequence (5'-3'); F: AATCCGTTTCTGGGGACTGGG, R: TGCCTAATGCTGACTCACACC (A. Pauliny, unpublished data).
Figure 1Dead southern dunlin chick removed from its egg. Chicks that died during embryonic development were on average more homozygous than those that hatched. Photograph: Angela Pauliny.
Figure 2Population development and genetic similarity of mates 1993-2004 in southern dunlins breeding in SW Sweden. (A) Total population size (minimum number based on confirmed breeding attempts). (B) Relative frequency of close inbreeding, i.e. matings between first-order relatives (based on field observations of parentage). (C) Yearly mean genetic similarity between mates as assessed by band-sharing values derived from multi-locus DNA fingerprints. Each pair was only included the first year it was recorded breeding (2-10 pairs per year, see Table 1). The regression line is shown for descriptive purposes (slope = 0.66, SE = 0.28).
Figure 3Hatching success and genetic variation in southern dunlins. (A) Relationship between total hatching success (sum of hatchlings/sum of eggs, including clutches in which at least one egg hatched) and genetic similarity of mates (band-sharing values derived from multi-locus DNA fingerprints), n = 36 pairs; the regression line is shown for descriptive purposes (slope = -0.20, SE = 0.17). (B) Relationship between allelic heterozygosity of chicks (genotyped at 7 microsatellite loci) and genetic similarity of their parents (DNA fingerprinting), n = 37 chicks from 37 different pairs (one randomly selected chick per pair); the regression line is shown for descriptive purposes (slope = -0.38, SE = 0.16).
Figure 4Individual genetic diversity of southern dunlin chicks that hatched or died during embryonic development (unhatched). Genetic diversity was assessed as allelic heterozygosity at 7 microsatellite loci. Numbers above bars denote sample sizes (number of chicks).