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Biology subjects

Franceschi, P.

Publications and source records attributed to Franceschi, P..

2 recordsLinked to original sources

Multidimensional natal isotopic niches reflect migratory patterns in birds

Naturally occurring stable isotope ratios in animal tissues allow estimation of species trophic position and ecological niche. Measuring multiple isotopes of migratory species along flyway bottlenecks offers the opportunity to sample multiple populations and species whose tissues carry information at continental scales. We measured{delta} 2H,{delta} 18O,{delta} 13C,{delta} 15N in juvenile feathers of 21 bird species captured at a migratory bottleneck in the Italian Alps. We examined if trends in individual isotopes reflected known migratory strategies and whether dietary ({delta}13C-{delta}15N) and spatially-explicit breeding origin ({delta}2H-{delta}18O) niche breadth (NB) differed among long-distance trans-Saharan (TS), short-distance (IP) and irruptive (IR) intra-Palearctic migrants, and whether they correlated with reported populations long-term trends. In both TS and IP groups, species{delta} 2H declined with capture date, indicating that northern populations reached the stopover site later in the season, following a Type-I migration strategy. Values of{delta} 2H indicated that breeding range of TS migrants extended farther north than IP and IR migrants. The breeding season was longer for IP migrants whose{delta} 13C and{delta} 15N values declined and increased, respectively, with time of capture. Average species dietary NB did not differ among migratory groups, but TS migrants displayed wider breeding origin niches, suggesting that long-distant migration is linked to broader ecological niches. Isotope origin NB well reflected species geographic range extent, while dietary NB did not correlate with literature accounts of species diet. We found no relationship between species breeding NB and population trends in Europe, implying that conditions in the wintering grounds could be more important for the long-term persistence of species. We demonstrate that isotopic measurements of passerines migrating through a bottleneck represents a unique opportunity to investigate large-scale life-history phenomena relevant to conservation.

ecology↗

A practical tool for Maximal Information Coefficient analysis

BackgroundThe ability of finding complex associations in large omics datasets, assessing their significance, and prioritizing them according to their strength can be of great help in the data exploration phase. Mutual Information based measures of association are particularly promising, in particular after the recent introduction of the TICe and MICe estimators, which combine computational efficiency with good bias/variance properties. Despite that, a complete software implementation of these two measures and of a statistical procedure to test the significance of each association is still missing.\n\nFindingsIn this paper we present MICtools, a comprehensive and effective pipeline which combines TICe and MICe into a multi-step procedure that allows the identification of relationships of various degrees of complexity. MICtools calculates their strength assessing statistical significance using a permutation-based strategy. The performances of the proposed approach are assessed by an extensive investigation in synthetic datasets and an example of a potential application on a metagenomic dataset is also illustrated.\n\nConclusionsWe show that MICtools, combining TICe and MICe, is able to highlight associations that would not be captured by conventional strategies. MICtools is implemented in Python, and is available for download at https://github.com/minepy/mictools.

bioinformatics↗