In recent years, lake sedimentary DNA (sedDNA) has proven valuable in paleoecological research for reconstructing past biodiversity and tracking changes in terrestrial and aquatic biota over time. Combining shotgun sequencing with hybridization offers an innovative approach to sedDNA analysis. Here, we compare these techniques to the widely used metabarcoding method, within the framework of a PRIN project aimed at reconstructing the pre-human impact reference conditions of three Italian volcanic lakes: Monticchio (Basilicata), Nemi, and Martignano (Lazio). Biodiversity and community composition was investigated on 100 cm sediment cores. Custom DNA probes were designed based on ancestral sequences inferred with phylogenetic tools to target molecular markers (matK and rbcL from cpDNA, COI from mtDNA) of taxa indicative of water quality, including plants (Alismatales, Lamiales, Poales), algae (Charales), diatoms, and Diptera (Chironomidae). By comparing these approaches, we aim to refine tools for reconstructing past and present lake ecosystems, enhancing our understanding of biodiversity dynamics and the current ecological status of these lakes.
Fishing from the past: using hybridization capture for tracking long-term biodiversity in Italian volcanic lakes / Marconi, Marilena; Rondoni, Elisa; Vernesi, Cristiano; Girardi, Matteo; Lami, Andrea; Musazzi, Simona; Carabelli, Caterna; Fontaneto, Diego; Maria Eckert, Ester; Spicciarelli, Renato; Battaglia, Donatella; Marchetto, Aldo; Parducci, Laura. - (2025). ( 2nd sedaDNA Scientific Society Conference Tromso; Norway ).
Fishing from the past: using hybridization capture for tracking long-term biodiversity in Italian volcanic lakes
Marilena MarconiPrimo
;Elisa RondoniSecondo
;Laura ParducciUltimo
2025
Abstract
In recent years, lake sedimentary DNA (sedDNA) has proven valuable in paleoecological research for reconstructing past biodiversity and tracking changes in terrestrial and aquatic biota over time. Combining shotgun sequencing with hybridization offers an innovative approach to sedDNA analysis. Here, we compare these techniques to the widely used metabarcoding method, within the framework of a PRIN project aimed at reconstructing the pre-human impact reference conditions of three Italian volcanic lakes: Monticchio (Basilicata), Nemi, and Martignano (Lazio). Biodiversity and community composition was investigated on 100 cm sediment cores. Custom DNA probes were designed based on ancestral sequences inferred with phylogenetic tools to target molecular markers (matK and rbcL from cpDNA, COI from mtDNA) of taxa indicative of water quality, including plants (Alismatales, Lamiales, Poales), algae (Charales), diatoms, and Diptera (Chironomidae). By comparing these approaches, we aim to refine tools for reconstructing past and present lake ecosystems, enhancing our understanding of biodiversity dynamics and the current ecological status of these lakes.I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.
