Ancient plant DNA in lake sediments

Recent advances in sequencing technologies now permit the analyses of plant DNA from fossil samples (ancient plant DNA, plant aDNA), and thus enable the molecular reconstruction of palaeofloras.Hitherto, ancient frozen soils have proved excellent in preservingDNAmolecules, and have thus been the mos...

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Published in:The New phytologist Vol. 214; no. 3; pp. 924 - 942
Main Authors: Parducci, Laura, Bennett, Keith D., Ficetola, Gentile Francesco, Alsos, Inger Greve, Suyama, Yoshihisa, Wood, Jamie R., Pedersen, Mikkel Winther
Format: Journal Article
Language:English
Published: England New Phytologist Trust 01.05.2017
Wiley Subscription Services, Inc
Subjects:
ancient plant DNA (aDNA)
bioinformatics
Catchment areas
Deoxyribonucleic acid
DNA
DNA sequencing
DNA, Ancient - chemistry
DNA, Plant - metabolism
environmental DNA (eDNA)
Fossils
Freshwater
Frozen ground
frozen soils
Geologic Sediments - chemistry
guidelines
high-throughput DNA sequencing
Historic artifacts
Lake deposits
Lake sediments
Lakes
Lakes - chemistry
metabarcoding
Molecular chains
Plant population
Plant populations
pollen
Pollen - metabolism
Population studies
Reconstruction
Sediment
Sediments
shotgun sequencing
Soil
Tansley review
taphonomy
Watersheds
taphonomy
lake sediments
metabarcoding
pollen
ancient plant DNA (aDNA)
bioinformatics
shotgun sequencing
high-throughput DNA sequencing
environmental DNA (eDNA)
ISSN:0028-646X, 1469-8137, 1469-8137
Online Access:Get full text
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Summary:Recent advances in sequencing technologies now permit the analyses of plant DNA from fossil samples (ancient plant DNA, plant aDNA), and thus enable the molecular reconstruction of palaeofloras.Hitherto, ancient frozen soils have proved excellent in preservingDNAmolecules, and have thus been the most commonly used source of plant aDNA. However, DNA from soil mainly represents taxa growing a fewmetres fromthe sampling point. Lakes have larger catchment areas and recent studies have suggested that plant aDNAfromlake sediments is a more powerful tool for palaeofloristic reconstruction. Furthermore, lakes can be found globally in nearly all environments, and are therefore not limited to perennially frozen areas. Here,we review the latest approaches and methods for the study of plant aDNA from lake sediments and discuss the progressmade up to the present.Weargue that aDNAanalyses add newand additional perspectives for the study of ancient plant populations and, in time, will provide higher taxonomic resolution and more precise estimation of abundance. Despite this, key questions and challenges remain for such plant aDNA studies. Finally, we provide guidelines on technical issues, including lake selection, and we suggest directions for future research on plant aDNA studies in lake sediments.
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ISSN:0028-646X
1469-8137
1469-8137
DOI:10.1111/nph.14470