Table 2 Summary of the 21 single-family genetic maps and the final integrated Genetic Map (iGLMap) by their genetic length (a) and number of markers (b)

From: A high-density, multi-parental SNP genetic map on apple validates a new mapping approach for outcrossing species

LG	12_B	12_E	12_F	12_I	12_J	12_K	12_N	12_P	DiPr	DLO.12	FuGa	FuPi	GaPi	I_BB	I_CC	I_J	I_M	I_W	JoPr	PiRe	TeBr	Pop Mean	iGLMap
(a)
LG1	61	56	55	65	56	74	46	73	58	79	59	50	64	67	64	84	65	68	64	64	81	64±9.8	63.1
LG2	91	75	93	70	86	86	70	71	94	93	74	68	64	80	66	92	80	81	82	78	78	80±9.5	78.4
LG3	88	69	70	80	66	70	66	66	73	80	69	70	58	82	87	70	81	103	87	57	79	75±11.1	74
LG4	84	62	69	74	55	67	55	63	73	72	60	67	77	60	70	69	62	77	77	65	74	68±7.7	65.5
LG5	84	84	90	85	81	90	77	78	108	87	82	95	53	77	80	101	99	89	80	69	87	85±11.6	77.8
LG6	77	73	78	81	93	96	70	63	69	88	67	68	65	77	76	71	78	—	62	59	64	74±10.2	75.3
LG6P1^a	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	32	—	—	—	—	—
LG6P2^a	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	66	—	—	—	—	—
LG7	91	77	48	88	90	93	75	80	91	88	78	68	69	60	—	100	77	71	95	79	84	80±12.8	82.4
LG7P1^b	—	—	—	—	—	—	—	—	—	—	—	—	—	—	60	—	—	—	—	—	—	—	—
LG8	70	78	55	68	68	63	53	58	77	98	65	56	66	65	65	68	63	66	84	72	67	68±10.2	68.5
LG9	64	68	72	76	76	95	68	68	90	68	66	57	61	76	72	62	89	72	73	56	67	71±10.1	67.1
LG10	90	82	93	78	95	105	80	77	90	94	77	76	57	86	74	100	78	102	76	72	87	84±11.7	81.3
LG11	80	79	77	68	89	155	79	83	91	96	72	89	67	64	85	85	88	100	83	62	85	85±19.1	80.9
LG12	92	61	90	59	75	82	76	62	69	77	63	61	54	69	64	77	57	82	68	56	62	69±11	65.4
LG13	85	57	62	77	111	121	70	57	70	78	63	68	78	54	81	79	71	61	66	54	65	73±17	71.4
LG14	62	54	67	61	62	62	70	67	73	79	57	55	49	53	70	67	87	74	78	52	64	65±9.9	64.4
LG15	145	103	131	114	143	128	111	103	108	140	112	111	105	135	110	116	101	124	115	106	122	118±13.8	112.2
LG16	68	72	85	74	87	71	79	53	61	69	70	79	68	74	64	74	82	47	69	84	76	72±10	67.5
LG16P1T^c	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	33	—	—	—	—	—
LG17	92	66	79	75	102	96	61	77	66	74	64	55	71	76	—	70	73	86	80	67	76	75±11.8	71.8
LG17P1^a	—	—	—	—	—	—	—	—	—	—	—	—	—	—	56	—	—	—	—	—	—	—	—
LG17P2^a	—	—	—	—	—	—	—	—	—	—	—	—	—	42	—	—	—	—	—	—	—	—
Total	1424	1216	1312	1290	1434	1551	1205	1197	1360	1460	1198	1195	1123	1256	1232	1384	1332	1418	1339	1153	1319	1305±113.3	1267
(b)
LG1	305	276	296	178	287	189	206	225	340	289	275	314	340	254	146	270	276	241	407	270	265	269±59.5	672
LG2	453	320	519	468	553	407	537	543	523	431	507	528	548	431	410	385	436	410	597	491	548	478±70.5	1 042
LG3	413	420	444	489	362	426	382	460	368	523	418	465	452	480	427	268	323	424	509	474	495	430±62.8	951
LG4	291	309	354	353	190	308	320	447	368	338	422	356	346	357	292	413	392	372	453	405	436	358±62.4	804
LG5	390	519	491	464	357	512	527	578	548	500	511	544	483	592	408	364	442	485	639	534	594	499±75.6	1 114
LG6	230	261	362	241	354	255	263	243	378	255	382	345	385	352	293	303	359	—	408	409	433	326±65.6	741
LG6P1^a	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	29	—	—	—	—	—
LG6P2^a	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	246	—	—	—	—	—
LG7	279	288	252	230	293	288	187	208	268	217	334	304	226	340	—	224	374	295	357	234	365	278±55.7	674
LG7P1^b	—	—	—	—	—	—	—	—	—	—	—	—	—	—	53	—	—	—	—	—	—	—	—
LG8	367	305	386	414	351	348	431	415	258	404	410	379	382	432	459	311	302	324	236	326	477	367±63.9	862
LG9	405	419	366	327	425	339	273	281	372	355	383	333	399	410	304	364	333	436	397	374	447	369±48.9	839
LG10	459	323	382	399	424	404	402	421	509	460	542	448	458	457	345	438	402	411	560	506	498	440±60.1	1 049
LG11	539	557	474	434	444	418	324	548	497	444	599	550	539	551	407	504	392	453	586	376	494	482±74.6	1 085
LG12	457	471	396	559	425	332	495	479	482	428	395	437	295	503	311	429	472	410	589	482	579	449±78.4	1 000
LG13	437	511	417	438	378	445	397	431	447	333	357	391	432	428	303	410	455	291	567	415	473	417±63.7	844
LG14	414	414	432	327	417	416	252	353	364	325	410	438	436	389	303	386	343	380	382	381	380	378±47.8	813
LG15	681	663	483	520	481	508	656	576	578	424	670	641	588	713	498	561	713	481	826	645	596	595±99.9	1 260
LG16	314	436	391	452	273	458	435	383	426	466	429	398	431	459	384	396	362	250	555	466	419	409±68.6	834
LG16P1T^c	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	94	—	—	—	—	—
LG17	314	324	307	310	337	251	150	247	370	301	379	367	163	352	—	354	312	318	386	360	419	316±69.0	833
LG17P1^a	—	—	—	—	—	—	—	—	—	—	—	—	—	—	55	—	—	—	—	—	—	—	—
LG17P2^a	—	—	—	—	—	—	—	—	—	—	—	—	—	—	172	—	—	—	—	—	—	—	—
Total	6748	6816	6752	6603	6351^d	6 304	6237	6838	7096	6493	7423	7238	6903	7500	5570	6380	6688	6350	8454	7148	7918	6848±634	15 417
Avg. dist. (cM)	0.21	0.18	0.19	0.2	0.23	0.25	0.19	0.18	0.19	0.22	0.16	0.17	0.16	0.17	0.22	0.22	0.2	0.22	0.16	0.16	0.17	0.19

The size of the genetic maps in cM (a) and the number of SNP markers mapped (b), are reported for each of the 21 full-sib families, together with average values (±s.d.) across families (Pop Mean) and the final integrated Genetic Linkage Map (iGLMap). The table includes some single-parent maps that could not be integrated due to the lack of bi-parental markers (LG6 and LG16 in I_W, and LG7 and LG17 in I_CC). Average marker distance (Avg. dist.), is estimated as total genetic length divided by the total number of markers, is reported at the bottom of the table.
^a The parental maps of LG6 and LG17, in family I_W and I_CC, respectively, could not be integrated due to the absence of bi-parental markers and had to be considered separately. Their total length is therefore an estimate, derived by the sum of the paternal maps (cM) to the non-overlapping region of the maternal map, obtained from the alignment of the single-parent maps to the iGLMap.
^b In family I_CC, the genetic maps of LG7 is given by the maternal parent data only, as the paternal parent did not show any polymorphic marker.
^c The top part of the LG16 maternal map in family I_W (LG16P1T) could not be integrated to the entire map due to homozygosity in the paternal LG16 for that region.
^d For family 12_J, only 2,969 of the 6,351 markers were used in the construction of the iGLMap as a set of 3382 identical markers sensu JoinMap had been overlooked due to an administrative error. The identity of these markers is given in Supplementary File 2, together with their genetic positions on the bi-parental map and their progeny genotypes for family 12_J.

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Table 2 Summary of the 21 single-family genetic maps and the final integrated Genetic Map (iGLMap) by their genetic length (a) and number of markers (b)

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