Table 1. Summary of sequencing output, USEARCH and MEGAN analyses.

Environment	SampleID	Total reads	SSU hits		Assigned in MEGAN		Viridiplantaehits	Assigned in MEGAN(minus Viridiplantae)
			Number	% of Total reads	Number	% of SSU hits
Soil	B110	6821	3342	49	3321	99.4	20	3301
	B111	141 957	80184	56.5	79 750	99.5	439	79 311
	B53	249 373	144 346	57.9	140 350	97.2	483	139 867
	B54	12 1413	67 486	55.6	65 655	97.3	221	65 434
Wheat	W75	161 443	88 886	55.1	88 371	99.4	558	87 813
	W76	19 272	11 567	60	11 518	99.6	57	11 461
	W77	89 125	51 115	57.4	50 863	99.5	335	50 528
wt Oat	O41	8428	3855	45.7	3838	99.6	60	3778
	O42	66 227	30 807	46.5	30 664	99.5	1122	29 542
	O43	10 793	5359	49.7	5334	99.5	58	5276
	O45	11 2731	53 466	47.4	53 253	99.6	4118	49 135
sad1 Oat	S47	112 096	46608	41.6	45 172	96.9	786	44 386
	S48	72 452	33 655	46.5	33 548	99.7	1387	32 161
	S49	94 136	38 034	40.4	37 821	99.4	658	37 163
	S51	85 204	44 772	52.5	44 626	99.7	4405	40 221
	S52	11 8283	54 281	45.9	53 982	99.4	3180	50 802
Pea	P63	88 005	41 795	47.5	41 657	99.7	2556	39 101
	P64	56 072	27 888	49.7	27 805	99.7	2071	25 734
	P66	54 705	21 447	39.2	21 325	99.4	417	20 908

Abbreviation: SSU, small subunit rRNA.