An integrative paleolimnological approach for studying evolutionary processes

Cambronero, Maria Cuenca; Mustaphi, Colin J. Courtney; Greenway, Ryan; Heiri, Oliver; Hudson, Cameron M.; King, Leighton; Lemmen, Kimberley D.; Moosmann, Marvin; Muschick, Moritz; Ngoepe, Nare; Seehausen, Ole; Matthews, Blake

doi:10.1016/j.tree.2022.01.007

Cited by 11 publications

(10 citation statements)

References 79 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Tropical lake sediments have already provided a plethora of information on past climate conditions, changes in the composition of terrestrial vegetation and long‐term aquatic ecosystem dynamics, using a multitude of macroscopic, microscopic, isotopic and molecular proxies. The successful generation of genetic data from lake sediment‐embedded fish remains opens up many new possibilities to investigate evolutionary processes and tropical ecosystem dynamics (Cohen, 2012; Cuenca‐Cambronero et al., 2022).…”

Section: Discussionmentioning

confidence: 99%

“…The adaptive radiations of cichlid fishes in these lakes have been investigated for their stunning arrays of morphologies, behaviours, nuptial colourations and ecological adaptations, their large species richness and, in some cases, their exceptional rate of evolutionary diversification (Muschick et al., 2012; Ronco et al., 2021; Salzburger, 2018; Seehausen, 2006). Highly resolved time series of genetic and phenotypic community‐level data, alongside data on past environmental changes, are needed to better understand the dynamics of diversification in these adaptive radiations, including the role of extinctions and the effect of environmental changes (Cuenca‐Cambronero et al., 2022). Some skeletal elements, such as certain teeth or cranial bones, can be identified to genus or even species level in some clades, but neither may this be possible in other clades, nor can it be achieved with the large majority of postcranial bones.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Ancient DNA is preserved in fish fossils from tropical lake sediments

Muschick,

Jemmi,

Lengacher

et al. 2023

Molecular Ecology

View full text Add to dashboard Cite

Tropical freshwater lakes are well known for their high biodiversity, and particularly the East African Great Lakes are renowned for their adaptive radiation of cichlid fishes. While comparative phylogenetic analyses of extant species flocks have revealed patterns and processes of their diversification, little is known about evolutionary trajectories within lineages, the impacts of environmental drivers, or the scope and nature of now‐extinct diversity. Time‐structured palaeodata from geologically young fossil records, such as fossil counts and particularly ancient DNA (aDNA) data, would help fill this large knowledge gap. High ambient temperatures can be detrimental to the preservation of DNA, but refined methodology now allows data generation even from very poorly preserved samples. Here, we show for the first time that fish fossils from tropical lake sediments yield endogenous aDNA. Despite generally low endogenous content and high sample dropout, the application of high‐throughput sequencing and, in some cases, sequence capture allowed taxonomic assignment and phylogenetic placement of 17% of analysed fish fossils to family or tribe level, including remains which are up to 2700 years old or weigh less than 1 mg. The relationship between aDNA degradation and the thermal age of samples is similar to that described for terrestrial samples from cold environments when adjusted for elevated temperature. Success rates and aDNA preservation differed between the investigated lakes Chala, Kivu and Victoria, possibly caused by differences in bottom water oxygenation. Our study demonstrates that the sediment records of tropical lakes can preserve genetic information on rapidly diversifying fish taxa over time scales of millennia.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Ancient DNA is preserved in fish fossils from tropical lake sediments

Muschick,

Jemmi,

Lengacher

et al. 2023

Molecular Ecology

View full text Add to dashboard Cite

show abstract

“…Consequently, zooplankton communities are impacted by both top-down and bottom-up processes, and have been found to change across gradients in trophic status, temperature, and other lake variables (Paquette et al 2022). Zooplankton offer a unique opportunity for understanding past ecological and evolutionary dynamics because several species can produce dormant forms (resting eggs; Cuenca-Cambronero et al 2022), which can survive harsh conditions and remain preserved for long periods of time in aquatic sediments (Radzikowski 2013). A substantial diversity in zooplankton resting stages can be found in lake sediments; from cladocerans that generally preserve well (Vandekerhove et al 2004), to species of rotifers and copepods that are less-well preserved.…”

Section: A Zooplankton Population and Community Dynamicsmentioning

confidence: 99%

Tracking aquatic animals with sediment DNA records

Gregory‐Eaves¹,

Eaves

Monchamp

et al. 2023

Preprint

View full text Add to dashboard Cite

show abstract

“…(Ellis- Evans, 1996). As demonstrated elsewhere, such as in the Arctic, use of genomic techniques combined with conventional analyses have the potential to reconstruct currently unknown trophic interactions and evolutionary adaptation to changing environments and climates in the Antarctic region (Cuenca-Cambronero et al, 2022;Ellegaard et al, 2020).…”

Section: Ake S Ed Imentsmentioning

confidence: 99%

“…Genetic techniques have infrequently been applied to lake sediments in the Antarctic region (i.e., seda DNA) (Bissett et al, 2005 ; Coolen et al, 2004 ; Ellis‐Evans, 1996 ; Ficetola et al, 2018 ), (Table 1 ), despite their potential being recognized since at least the mid‐1990s (Ellis‐Evans, 1996 ). As demonstrated elsewhere, such as in the Arctic, use of genomic techniques combined with conventional analyses have the potential to reconstruct currently unknown trophic interactions and evolutionary adaptation to changing environments and climates in the Antarctic region (Cuenca‐Cambronero et al, 2022 ; Ellegaard et al, 2020 ).…”

Section: Lake Sedimentsmentioning

confidence: 99%

Emerging biological archives can reveal ecological and climatic change in Antarctica

Strugnell

McGregor

Wilson

et al. 2022

Global Change Biology

View full text Add to dashboard Cite

Anthropogenic climate change is causing observable changes in Antarctica and the Southern Ocean including increased air and ocean temperatures, glacial melt leading to sea-level rise and a reduction in salinity, and changes to freshwater water availability on land. These changes impact local Antarctic ecosystems and the Earth's climate system. The Antarctic has experienced significant past environmental change, including cycles of glaciation over the Quaternary Period (the past ~2.6 million years). Understanding Antarctica's paleoecosystems, and the corresponding paleoenvironments and climates that have shaped them, provides insight into present day ecosystem change, and importantly, helps constrain model projections of future change.Biological archives such as extant moss beds and peat profiles, biological proxies in lake and marine sediments, vertebrate animal colonies, and extant terrestrial and benthic marine invertebrates, complement other Antarctic paleoclimate archives by recording the nature and rate of past ecological change, the paleoenvironmental drivers of that change, and constrain current ecosystem and climate models. These archives provide invaluable information about terrestrial ice-free areas, a key location for Antarctic biodiversity, and the continental margin which is important for understanding ice sheet dynamics. Recent significant advances in analytical techniques (e.g., genomics, biogeochemical analyses) have led to new applications and greater

show abstract

An integrative paleolimnological approach for studying evolutionary processes

Cited by 11 publications

References 79 publications

Ancient DNA is preserved in fish fossils from tropical lake sediments

Ancient DNA is preserved in fish fossils from tropical lake sediments

Tracking aquatic animals with sediment DNA records

Emerging biological archives can reveal ecological and climatic change in Antarctica

Contact Info

Product

Resources

About