ERX1892489 E-MTAB-5473:A17 Mock 7 dpi Rep1_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556002 SAMEA88415668 A17 Mock 7 dpi Rep1_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: normal disease Experimental Factor: 7 sampling time point ERX1892490 E-MTAB-5473:A17 Mock 7 dpi Rep2_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556003 SAMEA88416418 A17 Mock 7 dpi Rep2_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: normal disease Experimental Factor: 7 sampling time point ERX1892491 E-MTAB-5473:A17 Mock 7 dpi Rep3_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556004 SAMEA88417168 A17 Mock 7 dpi Rep3_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: normal disease Experimental Factor: 7 sampling time point ERX1892492 E-MTAB-5473:A17 Mock 2 dpi Rep1_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556005 SAMEA88417918 A17 Mock 2 dpi Rep1_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: normal disease Experimental Factor: 2 sampling time point ERX1892493 E-MTAB-5473:A17 Mock 2 dpi Rep2_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556006 SAMEA88418668 A17 Mock 2 dpi Rep2_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: normal disease Experimental Factor: 2 sampling time point ERX1892494 E-MTAB-5473:A17 Mock 2 dpi Rep3_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556007 SAMEA88419418 A17 Mock 2 dpi Rep3_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: normal disease Experimental Factor: 2 sampling time point ERX1892495 E-MTAB-5473:A17 R. solani inoculated 2 dpi Rep1_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556008 SAMEA88420168 A17 R. solani inoculated 2 dpi Rep1_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 2 sampling time point ERX1892496 E-MTAB-5473:A17 R. solani inoculated 2 dpi Rep2_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556009 SAMEA88420918 A17 R. solani inoculated 2 dpi Rep2_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 2 sampling time point ERX1892497 E-MTAB-5473:A17 R. solani inoculated 2 dpi Rep3_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556010 SAMEA88421668 A17 R. solani inoculated 2 dpi Rep3_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 2 sampling time point ERX1892498 E-MTAB-5473:A17 R. solani inoculated 7 dpi Rep1_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556011 SAMEA88422418 A17 R. solani inoculated 7 dpi Rep1_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 7 sampling time point ERX1892499 E-MTAB-5473:A17 R. solani inoculated 7 dpi Rep2_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556012 SAMEA88423168 A17 R. solani inoculated 7 dpi Rep2_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 7 sampling time point ERX1892500 E-MTAB-5473:A17 R. solani inoculated 7 dpi Rep3_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556013 SAMEA88423918 A17 R. solani inoculated 7 dpi Rep3_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: A17 ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 7 sampling time point ERX1892501 E-MTAB-5473:skl Mock 2 dpi Rep1_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556014 SAMEA88424668 skl Mock 2 dpi Rep1_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: normal disease Experimental Factor: 2 sampling time point ERX1892502 E-MTAB-5473:skl Mock 2 dpi Rep2_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556015 SAMEA88425418 skl Mock 2 dpi Rep2_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: normal disease Experimental Factor: 2 sampling time point ERX1892503 E-MTAB-5473:skl Mock 2 dpi Rep3_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556016 SAMEA88426168 skl Mock 2 dpi Rep3_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: normal disease Experimental Factor: 2 sampling time point ERX1892504 E-MTAB-5473:skl Mock 7 dpi Rep1_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556017 SAMEA88426918 skl Mock 7 dpi Rep1_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: normal disease Experimental Factor: 7 sampling time point ERX1892505 E-MTAB-5473:skl Mock 7 dpi Rep2_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556018 SAMEA88427668 skl Mock 7 dpi Rep2_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: normal disease Experimental Factor: 7 sampling time point ERX1892506 E-MTAB-5473:skl Mock 7 dpi Rep3_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556019 SAMEA88428418 skl Mock 7 dpi Rep3_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: normal disease Experimental Factor: 7 sampling time point ERX1892507 E-MTAB-5473:skl R. solani inoculated 2 dpi Rep1_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556020 SAMEA88429168 skl R. solani inoculated 2 dpi Rep1_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 2 sampling time point ERX1892508 E-MTAB-5473:skl R. solani inoculated 2 dpi Rep2_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556021 SAMEA88429918 skl R. solani inoculated 2 dpi Rep2_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 2 sampling time point ERX1892509 E-MTAB-5473:skl R. solani inoculated 2 dpi Rep3_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556022 SAMEA88430668 skl R. solani inoculated 2 dpi Rep3_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 2 sampling time point ERX1892510 E-MTAB-5473:skl R. solani inoculated 7 dpi Rep1_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556023 SAMEA88431418 skl R. solani inoculated 7 dpi Rep1_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 300 0 F Application Read Forward 1 1 R Application Read Reverse 151 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 7 sampling time point ERX1892511 E-MTAB-5473:skl R. solani inoculated 7 dpi Rep2_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556024 SAMEA88432168 skl R. solani inoculated 7 dpi Rep2_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 7 sampling time point ERX1892512 E-MTAB-5473:skl R. solani inoculated 7 dpi Rep3_p ERP021455 RNA-seq of Medicago truncatula A17 and the ethylene insensitive sickle mutant interacting with the fungal root pathogen, Rhizoctonia solani AG8. ERS1556025 SAMEA88432918 skl R. solani inoculated 7 dpi Rep3_p RNA-Seq TRANSCRIPTOMIC RANDOM M. truncatula lines A17 and skl were treated, grown and inoculated according to (Anderson et al., 2010). R. solani AG8 (isolate WAC10335) was prepared according to (Lichtenzveig et al., 2006). Briefly, surface sterilised M. truncatula seeds were germinated on moist filter paper in the dark at 4 °C for two days, then one day at 24 °C. Seedlings were added to pots half filled with vermiculite also containing 5 ml of 2.2mg/ml dry weight equivalent suspension of homogenised fungal mycelium. The seedlings were covered with fine vermiculite and transferred to growth rooms at a constant temperature of 24 °C with 16/8 light/dark photoperiod at a light intensity of 200 mmol m-2 s-1. Mock treated plants were treated the same with the addition of 5 ml sterile water rather than the 5 ml of R. solani suspension. Inoculated plants were harvested at two and seven days after planting into pre-inoculated pots with corresponding mock samples taken at the same time. Root and above ground tissue was collected separately, immediately frozen in liquid nitrogen and stored at -80 °C until RNA extraction. The remaining plants were scored for survival and harvested at 21 days after inoculation to confirm the infection had progressed as previously described (Anderson et al., 2013). Frozen root tissue was ground in the presence of liquid nitrogen and total RNA extracted using Trizol reagent (Sigma) according to manufacturer’s instructions. Libraries were prepared using the illumina TruSeq Stranded mRNA Library Prep Kit according to manufacturer’s instructions. 200 0 F Application Read Forward 1 1 R Application Read Reverse 101 Illumina HiSeq 2000 Experimental Factor: sickle mutant ecotype Experimental Factor: Rhizoctonia solani AG8 inoculated disease Experimental Factor: 7 sampling time point