9 Works

Population genomics of a forest fungus reveals high gene flow and climate adaptation signatures

Jørn Henrik Sønstebø, Emiliano Trucchi, Jenni Nordén, Inger Skrede, Otto Miettinen, Sajeet Haridas, Jasmyn Pangilinan, Igor V. Grigoriev, Francis Martin, Håvard Kauserud & Sundy Maurice
Genome sequencing of spatially distributed individuals sheds light on how evolution structures genetic variation. Populations of Phellopilus nigrolimitatus, a red-listed wood-inhabiting fungus associated with old-growth coniferous forests, have decreased in size over the last century due to a loss of suitable habitats. We assessed the population genetic structure and investigated local adaptation in P. nigrolimitatus, by establishing a reference genome and genotyping 327 individuals sampled from 24 locations in Northern Europe by RAD sequencing. We...

Data from: Biodiversity-ecosystem functioning relationships in long-term time series and palaeoecological records: deep sea as a test bed

Moriaki Yasuhara, Hideyuki Doi, Chih-Lin Wei, Roberto Danovaro & Sarah E. Myhre
The link between biodiversity and ecosystem functioning (BEF) over long temporal scales is poorly understood. Here, we investigate biological monitoring and palaeoecological records on decadal, centennial and millennial time scales from a BEF framework, by using deep-sea, soft-sediment environments as a test bed. Results generally show positive BEF relationships, in agreement with BEF studies based on present-day spatial analyses and short-term manipulative experiments. However, the deep-sea BEF relationship is much noisier across longer time scales...

Data from: The Pillars of Hercules as a bathymetric barrier to gene-flow promoting isolation in a global deep-sea shark (Centroscymnus coelolepis)

Diana Catarino, Halvor Knutsen, Ana Veríssimo, Esben Moland Olsen, Per Erik Jorde, Gui Menezes, Hanne Sannæs, David Stanković, Joan Batista Company, Francis Neat, Roberto Danovaro, Antonio Dell'Anno, Bastien Rochowski, Sergio Stefanni, Joan Baptista Company & Hanne Sannaes
Knowledge of the mechanisms limiting connectivity and gene-flow in deep-sea ecosystems is limited, especially for deep-sea sharks. The Portuguese dogfish (Centroscymnus coelolepis) is a globally distributed and Near Threatened deep-sea shark. C. coelolepis population structure was studied using 11 nuclear microsatellite markers and a 497 bp fragment from the mtDNA Control Region. High levels of genetic homogeneity across the Atlantic (ΦST=-0.0091, FST= 0.0024, P > 0.05) were found suggesting one large population unit at this...

Data from: Biocomplexity in populations of European anchovy in the Adriatic Sea

Paolo Ruggeri, Andrea Splendiani, Giulia Occhipinti, Tatiana Fioravanti, Alberto Santojanni, Iole Leonori, Andrea De Felice, Enrico Arneri, Gabriele Procaccini, Gaetano Catanese, Vjekoslav Tičina, Angelo Bonanno, Paola Nisi Cerioni, Massimo Giovannotti, William Stewart Grant, Vincenzo Maputo Barucchi & Vincenzo Caputo Barucchi
The sustained exploitation of marine populations requires an understanding of a species' adaptive seascape so that populations can track environmental changes from short- and long-term climate cycles and from human development. The analysis of the distributions of genetic markers among populations, together with correlates of life-history and environmental variability, can provide insights into the extent of adaptive variation. Here, we examined genetic variability among populations of mature European anchovies (n = 531) in the Adriatic...

Data from: Coupling demographic and genetic variability from archived collections of European anchovy (Engraulis encrasicolus).

Paolo Ruggeri, Andrea Splendiani, Cristina Di Muri, Tatiana Fioravanti, Alberto Santojanni, Iole Leonori, Andrea De Felice, Ilaria Biagiotti, Piera Carpi, Enrico Arneri, Paola Nisi Cerioni, Massimo Giovannotti & Vincenzo Caputo Barucchi
It is well known that temporal fluctuations in small populations deeply influence evolutionary potential. Less well known is whether fluctuations can influence the evolutionary potentials of species with large census sizes. Here, we estimated genetic population parameters from as survey of polymorphic microsatellite DNA loci in archived otoliths from Adriatic European anchovy (Engraulis encrasicolus), a fish with large census sizes that supports numerous local fisheries. Stocks have fluctuated greatly over the past few decades, and...

Data from: Genome-wide diversity and global migration patterns in dromedaries follow ancient caravan routes

Sara Lado, Jean-Pierre Elbers, Naruya Saitou, Faisal Almathen, Angela Doskocil, Davide Scaglione, Emiliano Trucchi, Mohammad Hossein Banabazi, Elena Ciani & Pamela Anna Burger
Dromedaries have been essential for the prosperity of civilizations in arid environments and the dispersal of humans, goods and cultures along ancient, cross-continental trading routes. With increasing desertification their importance as livestock species is rising rapidly, but little is known about their genome-wide diversity and demographic history. As previous studies using a limited amount of nuclear markers have shown weak phylogeographic structure, here, we adopted a genome-wide approach and detected fine-scale population differentiation in dromedaries...

Data from: Introgression from modern hybrid varieties into landrace populations of maize (Zea mays ssp. mays L.) in central Italy

Elena Bitocchi, Laura Nanni, Monica Rossi, Domenico Rau, Elisa Bellucci, Alessandro Giardini, Anna Buonamici, Giovanni G Vendramin & Roberto Papa
Landraces are domesticated local plant varieties that did not experienced a deliberate and intensive selection during a formal breeding programme. In Europe, maize landraces are still cultivated, particularly in marginal areas where traditional farming is often practised. Here, we have studied the evolution of flint maize landraces from central Italy over 50 years of on-farm cultivation, when dent hybrid varieties were introduced and their use was widespread. We have compared an 'old' collection, obtained during...

Data from: Wildfire activity and land use drove 20th-century changes in forest cover in the Colorado front range

Kyle C. Rodman, Thomas T. Veblen, Sara Saraceni & Teresa B. Chapman
Recent shifts in global forest area highlight the importance of understanding the causes and consequences of forest change. To examine the influence of several potential drivers of forest cover change, we used supervised classifications of historical (1938–1940) and contemporary (2015) aerial imagery covering a 2932‐km2 study area in the northern Front Range (NFR) of Colorado and we linked observed changes in forest cover with abiotic factors, land use, and fire history. Forest cover in the...

Data from: Introgression from modern hybrid varieties into landrace populations of maize (Zea mays ssp. mays L.) in central Italy

Elena Bitocchi, Laura Nanni, Monica Rossi, Domenico Rau, Elisa Bellucci, Alessandro Giardini, Anna Buonamici, Giovanni G Vendramin & Roberto Papa
Landraces are domesticated local plant varieties that did not experienced a deliberate and intensive selection during a formal breeding programme. In Europe, maize landraces are still cultivated, particularly in marginal areas where traditional farming is often practised. Here, we have studied the evolution of flint maize landraces from central Italy over 50 years of on-farm cultivation, when dent hybrid varieties were introduced and their use was widespread. We have compared an 'old' collection, obtained during...

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Affiliations

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