Dataset for describing the diversity of household farming systems and the degree of crop-livestock diversification and integration in the Western part of Nile valley (Egypt).

The CLIMED household farm dataset comes from a data collection conducted from 2013 to 2014 in five zones of the New Reclaimed Lands in the western part of the Nile Delta (Egypt). The main objective was to describe the diversity of household farms' assets and activities, the degree of crop and livestock integration at the farm level to assess the link between integration, diversification, efficiency, and livelihoods. This data set permitted to compare the diversity of farming systems of 175 household farms and to assess the economic and technical performances of crop-livestock systems along a geographical transect of reclaimed desert lands in Egypt. This dataset was the primary material in the research paper on "Multi-criteria assessment of the sustainability of farming systems in the reclaimed desert lands of Egypt" (See the related research article.). Data described the three main components of the family farm system, i.e., the land, livestock, and household systems, respectively. The description of each activity (mainly crop, animal, or off-farm) by detailing all the incoming and outgoing flows of inputs and outputs allowed investigating the economic and financial contribution of each activity and the degree of dependence or complementarity between them. The dataset provided two tables of analyzed data related to, respectively, 'diversification and integration' and 'efficiency and wellbeing.' Moreover, this dataset constitutes an original material regarding the living conditions and farm functioning in the new lands reclaimed over the last 50 years in Egypt. The survey data were entered into an Access database, checked with statistical cross-checking variables, and completed by field return for missed or non-coherent data.

A genomic map of climate adaptation in Mediterranean cattle breeds.

Domestic species such as cattle (Bos taurus taurus and B. t. indicus) represent attractive biological models to characterize the genetic basis of short-term evolutionary response to climate pressure induced by their post-domestication history. Here, using newly generated dense SNP genotyping data, we assessed the structuring of genetic diversity of 21 autochtonous cattle breeds from the whole Mediterranean basin and performed genome-wide association analyses with covariables discriminating the different Mediterranean climate subtypes. This provided insights into both the demographic and adaptive histories of Mediterranean cattle. In particular, a detailed functional annotation of genes surrounding variants associated with climate variations highlighted several biological functions involved in Mediterranean climate adaptation such as thermotolerance, UV protection, pathogen resistance or metabolism with strong candidate genes identified (e.g., NDUFB3, FBN1, METTL3, LEF1, ANTXR2 and TCF7). Accordingly, our results suggest that main selective pressures affecting cattle in Mediterranean area may have been related to variation in heat and UV exposure, in food resources availability and in exposure to pathogens, such as anthrax bacteria (Bacillus anthracis). Furthermore, the observed contribution of the three main bovine ancestries (indicine, European and African taurine) in these different populations suggested that adaptation to local climate conditions may have either relied on standing genomic variation of taurine origin, or adaptive introgression from indicine origin, depending on the local breed origins. Taken together, our results highlight the genetic uniqueness of local Mediterranean cattle breeds and strongly support conservation of these populations.