Additional file 4: Table S2. of The phenotypic signature of adaptation to thermal stress in Escherichia coli

The number of directional comparisons in each principal component, along with the percent variation explained by each component. (DOCX 114 kb

Additional file 5: Figure S3. of The phenotypic signature of adaptation to thermal stress in Escherichia coli

Q-Q plots for the results of association analyses. Each line represents one of the nine principal components. The diagonal represents the line for which there is no enrichment for tests with low p-values and therefore no evident biological signal. (PDF 157 kb

Additional file 1: Figure S1. of Considerations and complications of mapping small RNA high-throughput data to transposable elements

Gypsy TEs length analysis. Figure S2. Total number of sRNA species that mapped to different datasets of the three Copia families. Figure S3. Relationship between TE age and sRNA mapping for leaf, tassel and ear tissues. Figure S4. Mapping patterns of three leaf replicate mRNA libraries to individual elements using un-weighted data. (PDF 5159 kb

Additional file 2: Table S1. of Considerations and complications of mapping small RNA high-throughput data to transposable elements

Number of sRNA species mapping to different TE reference datasets. Table S2. Mapping of U_sRNA and M_sRNA species to exemplars and annotated TE populations for all families combined. Table S3. Size and mapping characteristics of mRNA libraries. (DOCX 102 kb

SNPdata_Aguirre_Liguori_etal_SNPdata

The SNPdata_Aguirre_Liguori_etal.txt file contains the genotypes exported from GenomeStudio. SNPs were genotyped using the Illumina MaizeSNP50 Genotyping BeadChip. Loci are in rows and individuals are in columns. Each column is named as the population and individual separated by “_”. For example “Mochitlan_Mochitlan_9” indicates that the individual comes from the site Mochitlan in the Mochitlan “Municipio” and corresponds to the 9th individual. Sample information (Population, coordinates and the subspecies) is found in the sample_information_Aguirre_Liguori_etal.txt file and in the manuscript. Genotypes downloaded from Pyhäjärvi et al. (2013) can be found in the following link http://datadryad.org/resource/doi:10.5061/dryad.8m648/

Sample information of teosintes

The sample_information_Aguirre_Liguori_etal.txt file contains the geographic coordinates and the subspecies information of each of the populations sampled