King penguin demography since the last glaciation inferred from genome-wide data

Trucchi, Emiliano; Gratton, Paolo; Whittington, Jason D.; Cristofari, Robin; Maho, Yvon Le; Stenseth, Nils Chr.; Bohec, Céline Le

doi:10.1098/rspb.2014.0528

Cited by 60 publications

(92 citation statements)

References 50 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…). Thus, contrary to a hypothesis that emperor penguins would benefit from glaciation as a result of reduced competition with other predators (Thatje et al ., ), it seems that they, like other Antarctic and sub‐Antarctic penguin species (Ritchie et al ., ; Clucas et al ., ; Trucchi et al ., ), were adversely affected by the LGM.…”

Section: Discussionmentioning

confidence: 99%

Too much of a good thing: sea ice extent may have forced emperor penguins into refugia during the last glacial maximum

Younger

Clucas

Kooyman

et al. 2015

Global Change Biology

View full text Add to dashboard Cite

The relationship between population structure and demographic history is critical to understanding microevolution and for predicting the resilience of species to environmental change. Using mitochondrial DNA from extant colonies and radiocarbon-dated subfossils, we present the first microevolutionary analysis of emperor penguins (Aptenodytes forsteri) and show their population trends throughout the last glacial maximum (LGM, 19.5-16 kya) and during the subsequent period of warming and sea ice retreat. We found evidence for three mitochondrial clades within emperor penguins, suggesting that they were isolated within three glacial refugia during the LGM. One of these clades has remained largely isolated within the Ross Sea, while the two other clades have intermixed around the coast of Antarctica from Adélie Land to the Weddell Sea. The differentiation of the Ross Sea population has been preserved despite rapid population growth and opportunities for migration. Low effective population sizes during the LGM, followed by a rapid expansion around the beginning of the Holocene, suggest that an optimum set of sea ice conditions exist for emperor penguins, corresponding to available foraging area.

show abstract

Section: Discussionmentioning

confidence: 99%

Too much of a good thing: sea ice extent may have forced emperor penguins into refugia during the last glacial maximum

Younger

Clucas

Kooyman

et al. 2015

Global Change Biology

View full text Add to dashboard Cite

show abstract

“…We followed the protocol of Trucchi et al. () to avoid overparameterization when analyzing RADseq datasets. For each population, this analysis was performed on three independent subsamples of 50 loci with four SNPs in the forward read (using loci defined by Stacks).…”

Section: Methodsmentioning

confidence: 99%

“…We followed the protocol of Trucchi et al (2014) (Figure 1). In the absence of any rapidly evolving markers with a known mutation rate to calibrate this analysis, it was not possible to date demographic events.…”

Section: Demographymentioning

confidence: 99%

Contrasting geographic structure in evolutionarily divergent Lake Tanganyika catfishes

Peart

Dasmahapatra

Day

2018

Ecology and Evolution

View full text Add to dashboard Cite

Geographic isolation is suggested to be among the most important processes in the generation of cichlid fish diversity in East Africa's Great Lakes, both through isolation by distance and fluctuating connectivity caused by changing lake levels. However, even broad scale phylogeographic patterns are currently unknown in many non‐cichlid littoral taxa from these systems. To begin to address this, we generated restriction‐site‐associated DNA sequence (RADseq) data to investigate phylogeographic structure throughout Lake Tanganyika (LT) in two broadly sympatric rocky shore catfish species from independent evolutionary radiations with differing behaviors: the mouthbrooding claroteine, Lophiobagrus cyclurus, and the brood‐parasite mochokid, Synodontis multipunctatus. Our results indicated contrasting patterns between these species, with strong lake‐wide phylogeographic signal in L. cyclurus including a deep divergence between the northern and southern lake basins. Further structuring of these populations was observed across a heterogeneous habitat over much smaller distances. Strong population growth was observed in L. cyclurus sampled from shallow shorelines, suggesting population growth associated with the colonization of new habitats following lake‐level rises. Conversely, S. multipunctatus, which occupies a broader depth range, showed little phylogeographic structure and lower rates of population growth. Our findings suggest that isolation by distance and/or habitat barriers may play a role in the divergence of non‐cichlid fishes in LT, but this effect varies by species.

show abstract

“…Contemporary effective population size for each population was estimated by Neestimator version 2.0 (Do et al, 2014) with LD model based on SNPs and microsatellites, respectively. Extended Bayesian Skyline Plot (EBSP) (Heled & Drummond, 2008; Trucchi et al, 2014) analysis was performed with BEAST2, which investigated effective population size changes through time using SNP data sets. Bottlenecks for each population were tested using bottleneck version 1.2.02 (Piry, Luikart, & Cornuet, 1999) based on microsatellites with a two‐phase model (TPM) and a stepwise mutation model (SMM).…”

Section: Methodsmentioning

confidence: 99%

Rapid and strong population genetic differentiation and genomic signatures of climatic adaptation in an invasive mealybug

Cao

Hoffmann

et al. 2020

Diversity and Distributions

View full text Add to dashboard Cite

Aim A growing number of studies suggest that adaptation of invasive species plays key roles in their successful establishment in novel environments. However, adaptation of invasive species to climatic conditions remains poorly characterized. This study aimed to understand the population genetic structure produced by the cotton mealybug Phenacoccus solenopsis invasion and to identify preliminary signals of selection during its range expansion. Location China. Methods We examined genetic structure of 11 populations across China using SNPs, microsatellites and a segment of mitochondrial cox1 gene. ADMIXTURE, STRUCTURE and DAPC were used to infer population genetic structure; the dispersal routes were reconstructed by the DIYABC; SNPs potentially related to climate adaptation were identified by using four populations differentiation methods and three environmental association methods. Results Strong genetic differentiation was found among populations with FST values ranging from 0.097 to 0.640 based on SNPs. Populations located at the northern expansion edge exhibited the highest genetic differentiation and the lowest genetic diversity. Demographic analyses indicated that all populations were introduced from a single source population with small effective size and low recent gene flow. RDA analysis showed that climatic variables explained a higher proportion of genetic variance (43%) compared to population structure variables (15%). The top climatic variables associated with genetic differentiation were precipitation of the mean temperature of warmest quarter, mean temperature of driest quarter and isothermality. Genes related to climate candidate SNPs were mainly enriched to pathways of development, energy and xenobiotic metabolisms. Main conclusions We found that extremely rapid and strong population genetic differentiation among populations appears to have developed after introduction in the cotton mealybug. Our study points to rapid neutral evolution and suggests possible climatic adaptation despite low genetic diversity in this invasive species.

show abstract

King penguin demography since the last glaciation inferred from genome-wide data

Cited by 60 publications

References 50 publications

Too much of a good thing: sea ice extent may have forced emperor penguins into refugia during the last glacial maximum

Too much of a good thing: sea ice extent may have forced emperor penguins into refugia during the last glacial maximum

Contrasting geographic structure in evolutionarily divergent Lake Tanganyika catfishes

Rapid and strong population genetic differentiation and genomic signatures of climatic adaptation in an invasive mealybug

Contact Info

Product

Resources

About