Table 2 Structural equation modeling results.

	Model 1: Sobs, Ratio FEV1		Model 2: Sobs, Inc FEV1		Model 3: Shannon, Ratio FEV1		Model 4: Shannon, Inc FEV1		Model 5: SimpsonR, Ratio FEV1		Model 6: SimpsonR, Inc FEV1
	Z score	p value	Z score	p value	Z score	p value	Z score	p value	Z score	p value	Z score	p value
Diversity
PK	2.20	0.028	2.20	0.028	0.41	0.682	0.41	0.682	− 0.70	0.482	− 0.70	0.482
BS/NS	− 1.49	0.136	− 1.49	0.136	− 0.08	0.939	− 0.08	0.939	0.11	0.910	0.11	0.910
Prevotella
PK	− 1.11	0.268	− 1.11	0.268	− 1.11	0.268	− 1.11	0.268	− 1.11	0.268	− 1.11	0.268
BS/NS	1.33	0.184	1.33	0.184	1.33	0.184	1.33	0.184	1.33	0.184	1.33	0.184
BL ARG
PK	− 0.69	0.488	− 0.69	0.488	− 0.69	0.488	− 0.69	0.488	− 0.69	0.488	− 0.69	0.488
BS/NS	0.92	0.356	0.92	0.356	0.92	0.356	0.92	0.356	0.92	0.356	0.92	0.356
PFTs
Diversity	1.24	0.216	− 0.41	0.683	− 0.70	0.486	− 1.25	0.211	− 0.88	0.378	− 1.39	0.165
Prevotella	0.14	0.887	0.90	0.366	0.44	0.663	1.32	0.188	0.50	0.620	1.36	0.175
BL ARG	− 1.44	0.150	− 1.18	0.237	− 1.74	0.083	− 1.71	0.088	− 1.83	0.068	− 1.75	0.080
PK	− 1.07	0.284	− 0.24	0.811	− 0.65	0.513	− 0.31	0.753	− 0.81	0.417	− 0.58	0.560
BS/NS	0.63	0.527	1.10	0.272	0.40	0.692	1.32	0.188	0.41	0.682	1.33	0.183
Cov
Div/Prev	0.23	0.822	0.23	0.822	1.07	0.283	1.07	0.283	1.12	0.265	1.12	0.265
Div/ARG	− 0.58	0.564	− 0.58	0.564	− 2.67	0.008	− 2.67	0.008	− 2.42	0.015	− 2.42	0.015
Prev/ARG	1.61	0.107	1.61	0.107	1.61	0.107	1.61	0.107	1.61	0.107	1.61	0.107

BL Beta-lactam; ARG Antibiotic resistance genes; PFTs Pulmonary function tests; Cov Covariance; PK Pharmacokinetics; BS/NS Broad spectrum versus narrow spectrum; Prev Prevotella sp.; Sobs Species observed; SimpsonR Inverse Simpson index; Ratio FEV1 Ratio of the percent predicted forced expiratory volume in one second (ppFEV1) at end of treatment compared to the best ppFEV1 in the prior 6 months; Inc FEV1, increase in ppFEV1 at the end of treatment compared to pulmonary exacerbation onset.
Significant values are in [bold].

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