Development of twenty-five polymorphic microsatellite markers for the endangered red-cockaded woodpecker (Picoides borealis)

Fike, Jennifer A.; Athrey, Giri; Bowman, Reed; Leberg, Paul L.; Rhodes, Olin E.

doi:10.1007/s10592-008-9677-z

Cited by 4 publications

(4 citation statements)

References 10 publications

(11 reference statements)

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“…Samples were screened with fifteen microsatellite primer sets isolated from other woodpecker species (Dlu1, Dlu5, Ellegren et al (1999); DMA2, DMD7, DMD9, DMC111, DMD112, DMC115, DMC118, DMB119, DMA120, Vila et al (2008); Ptri 3, Välimäki et al (2008); and RCW05, RCW20, Fike et al (2009)). All polymerase chain reactions (PCR) were conducted in 10 μl reactions using Goflexi clear buffer (Promega), 0.2 mM dNTP, 2.5 mM MgCl 2 , 1 μM of each forward, reverse and M13 fluorescently labeled primers and 0.5 U of Crimson Taq (New England BioLabs).…”

Section: Methodsmentioning

confidence: 99%

Molecular markers provide insights into contemporary and historic gene flow for a non‐migratory species

Graham

Burg

2012

Journal of Avian Biology

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Hairy woodpeckers Picoides villosus are a common, year round resident with distinct plumage and morphological variation across North America. We genotyped 335 individuals at six variable microsatellite loci and analyzed 322 mtDNA control region sequences in order to examine the role of contemporary and historical barriers to gene fl ow. In addition we combined genetic analyses with ecological niche modelling to test if hairy woodpeckers were isolated in northern refugia (Alaska, Newfoundland and the Queen Charlotte Islands) during the last glacial maximum. Genetic analyses revealed that gene fl ow among North American hairy woodpecker populations is restricted, but not to the extent predicted for a sedentary species. Populations clustered into two main genetic groups, east and west of the Great Plains in the south and the Rocky Mountains in the north. Contact zones between the two main genetic groups exist in central British Columbia and Washington, but are narrow. Within each group we found additional population structure with genetic breaks between subgroups in the geographic west corresponding to breaks in forested habitat and physical barriers like open expanses of water. Population genetic patterns for hairy woodpeckers have resulted from isolation in multiple southern refugia with the current distribution of genetic groups resulting from post-glacial expansion and subsequent reduction in gene fl ow. While populations in Alaska, Newfoundland and the Queen Charlotte Islands are genetically distinct from other populations, we found no evidence of these areas acting as refugia throughout the Pleistocene. Atlantic Canada populations contained unique haplotypes raising the possibility of a separate colonization from the rest of eastern Canada. Th e endemic subspecies on the island of Newfoundland is not genetically distinct from their closest mainland population unlike the Queen Charlotte Island subspecies.

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Section: Methodsmentioning

confidence: 99%

Molecular markers provide insights into contemporary and historic gene flow for a non‐migratory species

Graham

Burg

2012

Journal of Avian Biology

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“…Nine microsatellite markers developed for RCW (Fike et al, ; primers RCW01, RCW03, RCW06, RCW12, RCW20, RCW22, RCW28, RCW40, and RCW42) were genotyped for the blood and buccal swab samples that encompass the 1992–1995 and 2010–2014 time periods. Historical samples derived from museum toe pads did not amplify reliably.…”

Section: Methodsmentioning

confidence: 99%

“…These studies applied allozyme, DNA fingerprints, and randomly amplified polymorphic DNA (RAPD) markers and found low genetic diversity, especially in smaller populations. However, intensive management efforts have been applied to this species for over two decades since then (Baker, 1999;Ferraro, McIntosh, & Ospina, 2007;Leonard 2008a), and mitochondrial and microsatellite markers developed for RCWs are now available (Alstad 2010;Fike, Athrey, Bowman, Leberg, & Rhodes, 2009). Thus, an updated assessment of genetic structure and diversity in RCWs may illustrate if genetic patterns have changed over time and provide insight into F I G U R E 1 Maps highlighting the spatial distribution of Red-cockaded Woodpecker sampling locations throughout the southeastern United States.…”

Section: Introductionmentioning

confidence: 99%

“…Blank controls were included with every PCR to monitor for contamination.Primer extension and bidirectional sequencing of the PCR products was performed using the amplification primers and ABI Big Dye sequencing chemistry on an ABI 3700 automated DNA sequencer.Sequences from each individual were assembled and aligned inGeneious v.8.0.2 (Kearse et al, 2012) and visually inspected before trimming to a final sequence length of 605 bp. Final mtDNA data sets contained 50 individuals from 16 locations for the historical data set, 123 individuals from 20 locations for the 1992-1995 data set, and 513 individuals from 53 locations for the 2010-2014 data set(Figure 1and Supporting Information Appendix S1).Nine microsatellite markers developed for RCW(Fike et al, 2009; primers RCW01, RCW03, RCW06, RCW12, RCW20, RCW22, RCW28, RCW40, and RCW42) were genotyped for the blood and buccal swab samples that encompass the 1992-1995 and 2010-2014 time periods. Historical samples derived from museum toe pads did not amplify reliably.…”

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Changes in genetic diversity and differentiation in Red‐cockaded woodpeckers (Dryobates borealis) over the past century

Miller

Vilstrup

Mullins

et al. 2019

Ecology and Evolution

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Red‐cockaded woodpeckers (RCW; Dryobates borealis ) declined after human activities reduced their fire‐maintained pine ecosystem to <3% of its historical range in the southeastern United States and degraded remaining habitat. An estimated 1.6 million RCW cooperative breeding groups declined to about 3,500 groups with no more than 10,000 birds by 1978. Management has increased RCW population abundances since they were at their lowest in the 1990s. However, no range‐wide study has been undertaken since then to investigate the impacts of this massive bottleneck or infer the effects of conservation management and recent demographic recoveries. We used mitochondrial DNA sequences (mtDNA) and nine nuclear microsatellite loci to determine if range‐wide demographic declines resulted in changes to genetic structure and diversity in RCW by comparing samples collected before 1970 (mtDNA data only), between 1992 and 1995 (mtDNA and microsatellites), and between 2010 and 2014 (mtDNA and microsatellites). We show that genetic diversity has been lost as detected by a reduction in the number of mitochondrial haplotypes. This reduction was apparent in comparisons of pre‐1970 mtDNA data with data from the 1992–1995 and 2010–2014 time points, with no change between the latter two time points in mtDNA and microsatellite analyses. The mtDNA data also revealed increases in range‐wide genetic differentiation, with a genetically panmictic population present throughout the southeastern United States in the pre‐1970s data and subsequent development of genetic structure that has remained unchanged since the 1990s. Genetic structure was also uncovered with the microsatellite data, which like the mtDNA data showed little change between the 1992–1995 and 2010–2014 data sets. Temporal haplotype networks revealed a consistent, star‐like phylogeny, suggesting that despite the overall loss of haplotypes, no phylogenetically distinct mtDNA lineages were lost when the population declined. Our results may suggest that management during the last two decades has prevented additional losses of genetic diversity.

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Conservation Genetics and Wildlife Forensics of Birds

Johnson¹

2011

Wildlife Forensics

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Development of twenty-five polymorphic microsatellite markers for the endangered red-cockaded woodpecker (Picoides borealis)

Cited by 4 publications

References 10 publications

Molecular markers provide insights into contemporary and historic gene flow for a non‐migratory species

Molecular markers provide insights into contemporary and historic gene flow for a non‐migratory species

Changes in genetic diversity and differentiation in Red‐cockaded woodpeckers (Dryobates borealis) over the past century

Conservation Genetics and Wildlife Forensics of Birds

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