Co-expression pan-network reveals genes involved in complex traits within maize pan-genome

Cagirici, H. Busra; Andorf, Carson M.; Sen, Taner Z.

doi:10.1186/s12870-022-03985-z

BMC Plant Biology

Table 2 Trait-specific co-expression network statistics for pan-network categories including pan-network, core-, near core- dispensable-, private- networks. Subcategory definitions can be found in the text and in the caption of Table 1. The pan category contains all pairs. “N” stands for nodes of a network, in this case genes, and “e” stands for edges of a network, in this case gene-pairs

From: Co-expression pan-network reveals genes involved in complex traits within maize pan-genome

	Core		Near-core		Dispensable		Private		Pan
Traits	n	e	n	e	n	e	n	e	n	e
100 Kernel weight	22	16	70	134	255	1343	361	1619	363	3112
Anthesis silking interval	18	22	72	149	234	1035	337	1258	339	2464
Average internode length (above ear)	22	25	95	236	306	2078	451	2754	451	5093
Average internode length (below ear)	48	64	122	331	397	2938	557	3634	561	6967
Average internode length (whole plant)	36	50	108	226	389	2464	542	3255	543	5995
Boxcox-transformed leaf angle	46	51	115	240	410	2555	566	3616	568	6462
Chlorophyll A	5	3	15	12	96	215	147	316	151	546
Chlorophyll B	22	21	36	58	111	355	169	453	171	887
Cob diameter	33	41	86	193	270	1667	340	1960	343	3861
Days to anthesis	55	97	145	332	469	4510	642	5218	644	10,157
Days to silk	34	29	107	203	350	2812	491	3256	491	6300
Ear height	54	71	144	374	501	4231	660	5142	661	9818
Ear row number	39	36	115	202	344	2189	482	2662	482	5089
Fructose	0	0	11	8	61	99	85	114	95	221
Fumarate	0	0	2	1	16	13	18	15	24	29
Glucose	0	0	22	14	102	256	139	338	146	608
Glutamate	0	0	15	13	74	174	100	187	108	374
Height above ear	35	28	94	170	312	1757	414	2087	418	4042
Height per day (until flowering)	33	29	118	222	351	2412	485	2861	486	5524
Leaf length	43	44	119	273	363	2049	493	2767	494	5133
Leaf width	45	79	112	246	380	2626	518	3161	522	6112
Malate	2	1	15	11	61	137	106	163	111	312
Nitrate	16	17	37	51	118	512	175	514	179	1094
Nodes above ear	19	15	86	143	297	1528	451	2297	452	3983
Nodes per plant	47	58	117	316	448	3722	604	4457	605	8553
Nodes to ear	41	45	114	241	386	3201	517	3753	519	7240
Northern Leaf Blight	23	19	81	134	260	1503	368	2046	369	3702
PCA of metabolites: PC1	4	2	13	10	58	133	92	174	96	319
PCA of metabolites: PC2	8	6	33	31	138	453	204	617	207	1107
Photoperiod growing-degree days to anthesis	21	26	54	113	174	714	248	763	253	1582
Photoperiod growing-degree days to silk	23	13	57	92	158	850	217	791	224	1780
Plant height	45	46	144	346	451	4157	615	5007	616	9556
Protein	0	0	10	5	32	47	65	71	70	123
Ratio of ear height to total height	47	61	124	342	403	3081	564	3642	564	7126
Southern leaf blight	40	42	118	279	343	2388	461	3002	461	5711
Stalk strength	33	33	76	151	222	1239	305	1338	309	2761
Starch	18	17	44	44	170	599	241	773	245	1433
Sucrose	2	1	11	7	53	78	76	129	83	215
Tassel branch number	60	74	145	436	501	4353	696	5855	697	10,718
Tassel length	44	42	130	283	424	3082	578	4075	578	7482
Total amino acids	10	6	53	79	190	763	289	1088	292	1936

*n: nodes and e: edges

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ISSN: 1471-2229

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