Table 2.

Assessment of the assemblies using Benchmarking Universal Single-Copy Orthologs (BUSCO) and read mapping.

Attributes	Ergot Susceptible DH372							Ergot Moderate Resistant Helltop
	Control			Claviceps purpurea inoculated				Control			Claviceps purpurea inoculated
	ID_1A	ID_2A	ID_3A	ID_4A	ID_5A	ID_6A	Combined DH372	ID_10	ID_11	ID_12	ID_13	ID_14	ID-15	Combined Helltop
BUSCO (%)
Gene Representation	60	44.8	49.07	49.3	41.4	43.34	91.16	53.49	39.07	48.14	57.91	46.05	49.23	91.86
Complete single copy	53.95	40.7	45.81	43.26	36.98	38.12	71	46.74	34.88	44.42	52.79	38.84	43.78	72
Duplicated	6.05	4.19	3.26	6.05	4.42	5.22	20.16	6.74	4.19	3.72	5.12	7.21	5.54	19.86
Fragmented	28.84	30.93	31.16	34.65	35.35	37.45	7.21	30.7	38.84	33.49	28.37	27.21	32.12	7.44
Missing	11.16	24.19	19.77	16.05	23.26	19.21	1.63	15.81	22.09	18.37	13.72	26.74	18.65	0.7
pRNAseq-2-OTA
% mapped	84.1	86.2	82.6	81.6	89.1	84.5	91.9	86.9	88.3	82.8	83.6	86.9	84.2	92.3
% properly paired	77.9	78.5	77.6	75.9	80.1	78.5	82.9	78.2	81.4	74.2	77.3	78.1	76.7	81.3
% singletons	3.9	3.3	3.4	3.7	4.3	3.8	3.3	3.2	3.4	3.5	3.1	3.5	3.2	2.2
pRNAseq-2-CTA
% mapped	95.5	96.3	96.0	95.4	96.2	94.5	96.1	93.8	95.1	94.6	94.2	94.1	94.2	96.3
% properly paired	86.2	85.3	88.2	87.2	88.4	87.5	89.1	86.9	88.1	87.3	86.9	86	87.1	89.3
% singletons	1.6	1.7	1.0	1.2	1.3	1.4	1.0	1.3	1.3	1.4	1.3	1.1	1.6	1.0

pRNAseq-2-OTA: the processed RNAseq reads were mapped to own transcriptome assembly.

pRNAseq-2-CTA: the processed RNAseq reads were mapped to combined transcriptome assembly.