Sequencing of 6.7 Mb of the melon genome using a BAC pooling strategy

González, Víctor M; Benjak, Andrej; Hénaff, Elizabeth Marie; Mir, Gisela; Casacuberta, Josep M; Garcia-Mas, Jordi; Puigdomènech, Pere

doi:10.1186/1471-2229-10-246

BMC Plant Biology

Table 1 Correspondence between sequenced BAC clones, genetic markers and assembled contigs/scaffolds.*

From: Sequencing of 6.7 Mb of the melon genome using a BAC pooling strategy

			Scaffold
Linkage group	Marker name^a	BAC name	Name	GenBank ID	Length (bp)	Stretches of Ns		BAC-ends Found^b
						No.	Length (bp)
I	MC216	Cm57_M11²	Contig311	HM854822	626	0	0	0
I	MC279	Cm31_J02¹	Scaffold00087	HM854819	126,619	3	1,334	2
I	EST1.16	Cm33_F23²	Scaffold00078	HM854813	113,787	11	9,016	2
I	EST5.27	Cm43_O21¹	Scaffold00052a	HM854797	131,697	10	3,452	2
II	MC313	Cm05_B01²	Scaffold0006	HM854766	126,054	4	4,978	2
II	52B5SP6	Cm52_B05¹	Scaffold52B05	HM854760	138,922	38	29,090	2
II	MC252	Cm46_G13¹	Scaffold0009	HM854768	151,031	2	529	2
III	MC127	Cm05_P10²	Scaffold05P10	HM854751	114,263	7	5,100	1
III	MC148	Cm45_K10²	Scaffold00035	HM854788	105,652	2	630	2
III	CmEXP2	Cm24_H21¹	Scaffold0003³	HM854763	86,310	3	1,125	2
III	MC054	Cm52_C09¹	Scaffold00024b	HM854780	61,053	2	666	1
III	MC032	Cm55_F19¹	Scaffold55F19	HM854755	110,853	11	9,792	2
IV	MC344	Cm33_M05²	Scaffold00077	HM854812	148,622	6	2,636	2
IV	CmelF4A-2	Cm59_B11¹	Scaffold59B11	HM854756	100,000	5	5,558	2
IV	MC275	Cm11_I12¹	Scaffold11I12	HM854757	110,000	9	6,210	2
IV	MC239	Cm06_A03¹	Scaffold00012a	HM854770	75,205	0	0	1
IV	MC060	Cm46_O06²	Scaffold00041³	HM854791	103,741	2	668	2
IV	CmEthInd	Cm14_C18¹	Scaffold0001	HM854762	108,322	1	478	2
V	MC007	Cm52_M23²	Scaffold00070	HM854810	112,968	2	567	2
V	MC233	Cm24_G05¹	Scaffold00017	HM854775	82,645	1	247	2
			Contig00219	HM854821	810	0	0	0
V	EST2.22	Cm46_I24¹	Scaffold00044	HM854793	12,974	4	4,832	1
			Scaffold00071	HM854811	20,426	7	9,835	1
V	MRGH63	Contig MRGH63:	ScaffoldMRGH63	HM854749	302,015	9	4,457
		Cm13_J04^1,4						2
		Cm14_M22¹						2
		Cm43_H20^1,2						2
V	MC276	Cm01_N3¹	Scaffold00015	HM854773	180,444	5	2,607	1
VI	MC268	Cm02_C04²	Scaffold00031	HM854785	105,693	4	1,877	2
VI	MC008	Cm31_G08²	Scaffold00033	HM854786	109,145	3	764	2
VI	MC251	Cm02_K14¹	Scaffold00058	HM854801	121,212	8	2,788	2
VI	CI_56-B01	Cm27_F03¹	Scaffold27F03	HM854758	96,265	1	506	2
VI	MC042	Cm20_H14¹	Scaffold00018	HM854776	96,294	3	891	2
VII	MC373	Cm55_C15¹	Scaffold00057	HM854800	98,578	1	316	2
VII	F271	Cm45_K01¹	Scaffold45K01	HM854759	100,000	11	7,803	2
VII	F149	Cm47_C02²	-	-	-	-	-	-
VII	EST5.15	Cm47_A05¹	Scaffold0004	HM854764	101,589	3	1,515	2
VIII	F080	Cm22_K19¹	Scaffold00081	HM854815	99,638	6	2,137	2
VIII	Cfd9	Cm06_D16¹	Scaffold00025	HM854781	102,876	13	10,731	1
VIII	MC208	Cm19_K17²	Scaffold00023	HM854779	125,428	1	242	2
IX	MC092	Cm24_H03²	Scaffold24H03	HM854823	106,131	3	1,282	2
IX	F036	Cm34_G20¹	Scaffold00069	HM854809	125,129	2	1,825	2
IX	MC203	Cm54_J04²	Scaffold54J04	HM854753	100,000	6	13,775	2
IX	CmERF1	Cm54_I13¹	Scaffold54I13	HM854824	94,153	3	1,036	2
IX	EST1.17	Cm10_D04¹	Scaffold10D04	HM854761	154,039	45	28,530	2
X	EST1.10	Cm03_A21¹	Scaffold00079	HM854814	126,557	2	482	2
X	CmXTH5	Cm41_H09¹	Scaffold0005	HM854765	136,275	2	696	2
X	EST5.29	Cm19_G01²	Scaffold00013	HM854771	100,283	14	8,175	2
X	CmEXP3	Cm54_E01²	Scaffold54E01	HM854754	100,000	18	13,832	2
XI	MC337	Cm12_F09²	Scaffold00028	HM854783	118,830	3	1,840	2
XI	MC375	Cm03_C12¹	Scaffold00014	HM854772	128,906	13	9,538	1
XI	EST6.79	Cm59_N09¹	Scaffold00085	HM854817	102,799	1	338	1
XI	A_08-D10	Cm24_I03²	Scaffold24I03	HM854752	121,276	16	8,734	1
XI	EST2.75	Cm33_O17¹	Scaffold00051	HM854796	123,309	3	1,296	2
XII	MC123	Cm59_C10²	Scaffold59C10	HM854750	10,343	3	1,861	0
XII	MC132	Cm03_I02¹	Scaffold00086	HM854818	79,495	4	3,249	1
XII	MC330	Cm09_A17¹	Scaffold00034	HM854787	96,336	1	271	2
XII	MC286	Cm05_O10²	Scaffold00020	HM854778	142,670	8	2,708	2
-	-	Cm21_I08²	Scaffold00061	HM854803	146,020	12	5,169	2
-	-	Cm12_I23²	Scaffold00010	HM854769	114,336	9	8,517	2

*Additional information regarding sequence and annotation characteristics of the assembled sequence can be found in the Additional file 3 Table S2
^aGenetic marker information can be found in the Additional file 2 Table S1
^bOne (1), both (2) or none (0) BAC-ends found on the scaffold/contig sequence
¹First pool of BACs
²Second pool of BACs
³Marker sequence not found. Scaffold assignment based on information derived from the C. melo physical map http://melonomics.upv.es/static/files/public/physical_map/ and BAC-end information
⁴Sequenced previously by Shotgun-Sanger [35], Acc. No. EF657230

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