Comparative analysis of mitochondrial genomes between a wheat K-type cytoplasmic male sterility (CMS) line and its maintainer line

Liu, Huitao; Cui, Peng; Zhan, Kehui; Lin, Qiang; Zhuo, Guoyin; Guo, Xiaoli; Ding, Feng; Yang, Wenlong; Liu, Dongcheng; Hu, Songnian; Yu, Jun; Zhang, Aimin

doi:10.1186/1471-2164-12-163

Table 1 Repeats (> 100 bp) found in Ks3 mtDNA.

From: Comparative analysis of mitochondrial genomes between a wheat K-type cytoplasmic male sterility (CMS) line and its maintainer line

No.	Type^a	Size (bp)	MC coordinates^b Copy-1	Copy-2	Copy-3	Copy-4	Difference between copies	[%IDY]^e
R1	IR	98977	63707-162682	520734-421758			copy-1 1 bp del. ^c; 3 bp mismatch^d	99.99
R2	DR	64991	285968-350958	357152-422142			identical	100
R3	IR/DR	33605	596378-629979	497569-463965	86872-120476		copy-1 4 bp del.; 20 bp mismatch	99.93
R4	DR	28476	563639-592113	514143-542618			copy-1 1 bp del.; 3 bp mismatch	99.99
R5	IR	8853	217390-226242	521779-512927			2 bp mismatch	99.98
R6	DR/IR	7808	218435-226242	63707-71514	520734-512927		3 bp mismatch	99.96
R7	IR/DR	7637	563639-571274	225026-217390	514143-521779		copy-1 1 bp del.; 3 bp mismatch	99.97
R8	IR/DR	6592	563639-570299	70298-63707	514143-520734	225026-218435	copy-1 1 bp del.; 4 bp mismatch	99.92
R9	DR	4645	233766-238410	592108-596752			3 bp mismatch	99.94
R10	DR	442	238110-238550	389430-389871	318246-318687		copy-1 1 bp del.; 7 bp mismatch	98.19
R11	IR	409	178030-178438	532798-532390	582293-581885		identical	100
R12	IR	385	162298-162682	350958-350574	422142-421758		identical	100
R13	DR/IR	391	15949-16326	570623-571013	218041-217651	521128-521518	copy-1 13 bp del.; 26 bp mismatch	90.03
R14	IR/DR	378	238036-238410	497569-497192	86872-87249	596378-596752	copy-1 4 bp del.; 20 bp mismatch	93.4
R15	DR/IR	352	86898-87249	318195-318546	389379-389730	497543-497192	copy-1 1 bp del.; copy-5 4 bp del.;	93.1
			238062-238410	596404-596752			20 bp mismatch
			R15 Copy-5	R15 Copy-6
R16	IR/DR	295	42766-43060	126790-126496	457651-457945		identical	100
R17	DR/IR	275	67932-68206	114585-114859	624088-624362	469856-469582	identical	100
			222660-222934	566004-565730	516509-516235
			R17 Copy-5	R17 Copy-6	R17 Copy-7
R18	IR	246	2411-2646	416690-416445	345506-345261		copy-1 10 bp del.; 5 bp mismatch	94.31
R19	DR/IR	201	546169-546367	435151-435351	149290-149090		copy-1 2 bp del.; 2 bp mismatch	98.01
R20	DR	197	182981-183177	543334-543530			1 bp mismatch	99.49
R21	IR/DR	193	265694-265885	610987-610795	482957-483149	101484-101292	copy-1 1 bp del.; 1 bp mismatch	98.96
R22	IR	190	13994-14183	63634-63445			4 bp mismatch	97.89
R23	IR	189	271802-271990	420288-420100	349104-348916		identical	100
R24	DR	185	13588-13772	358007-358191	286823-287007		identical	100
R25	DR/IR	179	301013-301190	643373-643195	372197-372374		copy-1,3 1 bp del.; 9 bp mismatch	94.41
R26	DR	154	260325-260478	642452-642605			4 bp mismatch	97.4
R27	DR/IR	154	91917-92070	170372-170525	492524-492371	601420-601573	8 bp mismatch	94.81
R28	DR	145	37571-37703	543007-543151			copy-1 12 bp del.; 2 bp mismatch	90.34
R29	IR/DR	119	529005-529122	349116-348998	420300-420182	578500-578617	copy-1,4 1 bp del.; 2 bp mismatch	97.48

^aDR and IR: direct and reverse repeats, respectively; IR/DR: both direct repeat and reverse repeat among multiple copies.
^b Boldface: IR copy, compared with copy-1 as control.
^c Number of deleted (del.) bases compared to other copies.
^d Number of bases without match among the copies.
^e IDY: identity.

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ISSN: 1471-2164

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