Table 3 Permanova analyses for the effect of genotype for each year/compartment/growth stage combinations for 16 S rRNA gene, ITS region and cpn60 gene amplicon datasets generated from bulk soil, wheat rhizosphere soil and wheat roots collected from 2013 to 2016 at the stem elongation and dough development stages.

Year		16 S rRNA gene		ITS region		cpn60 gene
Compartment	Growth stage	F	P	F	P	F	P
2013
Bulk	SE	0.99	0.46	0.89	0.77	0.93	0.68
	DD	1.04	0.32	0.86	0.90	1.00	0.47
Rhizosphere	SE	0.78	0.96	0.92	0.77	1.05	0.32
	DD	1.05	0.35	1.25	0.06.	1.03	0.36
Roots	SE	1.17	0.09^.	1.26	0.03*	1.13	0.03*
	DD	1.16	0.09^.	1.41	0.03*	1.12	0.08.
2014
Bulk	SE	0.87	0.96	0.99	0.5	1.02	0.47
	DD	0.94	0.76	0.87	0.94	0.97	0.57
Rhizosphere	SE	0.90	0.83	1.06	0.22	1.04	0.41
	DD	0.98	0.52	1.06	0.29	0.98	0.53
Roots	SE	1.24	0.05^.	0.97	0.58	1.04	0.25
	DD	1.24	0.01*	0.94	0.72	1.18	0.01*
2015
Bulk	SE	0.99	0.44	0.71	0.88	na	na
	DD	0.86	0.80	0.71	0.82	na	na
Rhizosphere	SE	1.24	0.05^.	0.62	0.97	1.45	0.26
	DD	1.04	0.34	0.52	0.99	na	na
Roots	SE	0.93	0.63	0.60	0.96	1.28	0.09^.
	DD	1.33	0.05^.	0.85	0.76	na	na
2016
Bulk	SE	na	na	0.66	0.76	na	na
	DD	1.01	0.44	0.44	0.99	1.08	0.25
Rhizosphere	SE	na	na	0.58	0.97	1.41	0.06^.
	DD	0.93	0.62	0.56	0.98	1.16	0.15
Roots	SE	1.34	0.06^.	0.92	0.61	1.07	0.27
	DD	1.15	0.14	na	na	1.15	0.09^.

SE stem elongation, DD dough development. Bold: significant values at P<0.10. na: not available because of missing samples.
‘*’P < 0.05 ‘.’P < 0.1.

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