Additional file 10: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Additional qPCR information. Targets and primers used for qPCR and comparison of results obtained with RNA-Seq and qPCR. (DOCX 22 kb

Additional file 17: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

AM and non-AM fungal structures of stained H. lanatus roots of (a, b) acid bog ecotype on acid bog soil; (c, d) limestone quarry ecotype on acid bog soil; (e, f) acid bog ecotype on limestone quarry soil; (g, h) limestone quarry ecotype on limestone quarry soil. (DOCX 93871 kb

Additional file 9: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Plant transcripts in fasta format. Transcript-ids in the fasta file correspond to those described in Additional file 8. Compressed .tar.gz text file. (GZ 8552 kb

Additional file 11: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Selected fungal annotated transcript results, including those discussed in the text. The table contains the following information for selected microbial assigned transcripts that are expressed in Holcus lanatus roots, many of which discussed in the text: 1) Transcript ID; 2) Best BLAST match (taxonomic division, genus and gene description); 3) KOG annotations (KOG ID, KOG group, KOG class, KOG definition); 4) possible role; 5) relevant reference (citations for relevant references are contained in Additional file 7); 6) two columns to indicate whether the transcript was significantly upregulated in acid or limestone soil, acid or limestone ecotype; 7) The full DESeq2 result for each root pairwise comparison: these columns contain the log2foldchange and adjusted P value (FDR) for root pairwise comparisons. Pairwise comparisons are coded as follows: soil (A = acid bog soil, L = limestone quarry soil), plant ecotype (a = acid bog plant ecotype, l = limestone quarry plant ecotype): Root Aa-v-La = Acid bog soil acid ecotype versus Limestone soil acid ecotype, Root Al-v-Ll = Acid bog soil limestone ecotype versus Limestone soil limestone ecotype, Root Aa-v-Al = Acid bog soil acid ecotype versus Acid bog soil limestone ecotype, Root La-v-Ll = Limestone soil acid ecotype versus Limestone soil limestone ecotype. (XLSX 35 kb

Additional file 16: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Colonization percentages of AM hyphae, non-AM hyphae, arbuscules and vesicles, in acid bog and limestone quarry ecotypes of H. lanatus, grown in a reciprocal soil transplantation design. (A = acid bog soil, L = limestone quarry soil), plant ecotype (a = acid bog plant ecotype, l = limestone quarry plant ecotype). (DOCX 18 kb

Additional file 15: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Microbial transcripts in fasta format. Transcript-ids in the fasta file correspond to those described in Additional file 12. Compressed .tar.gz text file. (GZ 2398 kb

Additional file 7: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Additional references cited in Additional file 6 and Additional file 11. (DOCX 32 kb

Additional file 14: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Significantly expressed and KOG annotated Glomeromycotina transcripts in root and shoot in each soil. The number of significantly expressed and KOG annotated Glomeromycotina transcripts (All) is defined as the number of transcripts that obtained ≥5 aligned reads in at least 3 samples from each of the following treatments: root acid bog soil (RA), root lime soil (RL), shoot acid bog soil (SA) and shoot lime soil (SL). Significant ecotype effects (absolute log2FC ≥ 1 or ≤ − 1, FDR <  0.05) as identified by DESeq2 analysis are reported in subsequent columns for each treatment group, under the heading plant effect. (DOCX 27 kb

Additional file 13: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Significantly expressed and KOG annotated Basidiomycete transcripts in roots and shoots in each soil. The number of significantly expressed and KOG annotated Basidiomycete transcripts (All) is defined as the number of transcripts that obtained ≥5 aligned reads in at least 3 samples from each of the following treatments: root acid bog soil (RA), root lime soil (RL), shoot acid bog soil (SA) and shoot lime soil (SL). Significant ecotype effects (absolute log2FC ≥ 1 or ≤ − 1, FDR < 0.05) as identified by DESeq2 analysis are reported in subsequent columns for each treatment group, under the heading plant effect. (DOCX 27 kb

Additional file 6: of Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing

Selected plant expressed gene results, for those genes discussed in the text. The table contains the following information for selected plant-assigned transcripts that are discussed in the text: 1) Plant root/shoot (for reported DESeq2 pairwise comparison); 2) Transcript ID; 3) gene description; 4) function; 5) possible role; 6) relevant reference (citations for relevant references are contained in Additional file 7); 7) DESeq2 result: Al-v-Ll = Acid bog soil limestone ecotype versus Limestone soil limestone ecotype, Aa-v-Al = Acid bog soil acid ecotype versus Acid bog soil limestone ecotype, La-v-Ll = Limestone soil acid ecotype versus Limestone soil limestone ecotype; 8) Two columns to indicate whether the transcript was significantly upregulated in acid or limestone soil and/or acid or limestone ecotype. (XLSX 23 kb