Combining powers of linkage and association mapping for precise dissection of QTL controlling resistance to gray leaf spot disease in maize (Zea mays L.)

Mammadov, Jafar; Sun, Xiaochun; Gao, Yanxin; Ochsenfeld, Cherie; Bakker, Erica; Ren, Ruihua; Flora, Jonathan; Wang, Xiujuan; Kumpatla, Siva; Meyer, David; Thompson, Steve

doi:10.1186/s12864-015-2171-3

Table 6 Comparison of locations of GLS resistance QTL identified in this and previous studies

From: Combining powers of linkage and association mapping for precise dissection of QTL controlling resistance to gray leaf spot disease in maize (Zea mays L.)

Chr	Bin	Flanking markers (bi-parental approach)/a marker (GWAS)	Physical distance between flanking markers	Mapping method	Reference
1	1.01	SYN20881	11,914,709	GWAS	[52]
	1.02	PZB01957.1	22,892,866-28,421,841	NAM (joint linkage mapping)	[13]
	1.04	PHM5098.25	56,747,253–83,780,725	NAM (joint linkage mapping)	[13]
	1.04-1.06	asg30^a-bnl5.59^a	(60,090,292 – 60,678,227) - (183,804,477-183,817,286)	Bi-parental	[17]
	1.05	asg3^a-umc1515^a	(77,240,735-83,433,335) – (97,880,433-103,311,831)	Bi-parental	[16]
	1.05	PZE-101097594	90,945,315	GWAS	[52]
	1.05	PZE-101101408	97,337,186	GWAS	[52]
	1.05	bmc1811^b	82,574,898- 175,642,920	Bi-parental	[41]
	1.05-1.06	PZA01041.1^c-bnlg1057^a	129,815,592 - (189,086,513 - 191,089,856)	Bi-parental	[15]
	1.06	CSU3^a –CSU61^a	(82,574,898- 82,577,349) (180,716,274- 181,194,957)	Bi-parental	[39]
	1.06	CSU92^a -bnl5.59^a	(183,804,477 - 183,817,286) – (183,804,477 - 183,817,286)	Bi-parental	[10]
	1.06	PHM1968.22	161,027,952–208,733,347	NAM (joint linkage mapping)	[13]
	1.07	bmc1025^b	199,107,718-228,644,352	Bi-parental	[41]
	1.08	TIDP5276^c – Bz2-2^c	232,515,087 - 236,103,313	Bi-parental/GWAS	This study
	1.08-1.09	Bz2.2^d-PHM14475.7^c	241,373,004 - 257,186,738	Bi-parental	[15]
	1.10	umc147b	280,774,747-282,021,034	Bi-parental	[12]
	1.09-1.11	bnlg1720^a -umc1500^a	(274,709,266-283,188,769) - (283,188,067-287,148,444)	Bi-parental	[40]
6	6.00	PZE-106000325	702,334	GWAS	[52]
	6.02-6.04	PZA00214.1	86,257,528–113,885,960	NAM (joint linkage mapping)	[13]
	6.02-6.05	Npi1373^b-umc46^a	(71,014,931 – 97,108,931) - (143,466,865-144,383,248)	Bi-parental	[39]
	6.04-6.05	PZA02673.1	118,087,791–147,224,252	NAM (joint linkage mapping)	[13]
	6.04	Idp4869 d – umc1857^d	105,638,745 - 109,323,163	Bi-parental/GWAS	This study
	6.05	PZE-106073523	129,373,812	GWAS	[52]
	6.05	SYN26162	146,548,071
	6.06-6.07	Umc1423	153,804,114 – 169,184,492	Bi-parental	[12]
	6.06-6.07	Umc36^b
7	7.02	asg34^a – umc116^a	(14,027,268-14,618,739)-(127,094,683-130,251,052)	Bi-parental	[39]
	7.02	Umc1393	118,052,274 – 120,761,437	Bi-parental	[12]
	7.02	TIDP5499^d – crt2^d	14,308,967 - 24,692,177	Bi-parental/GWAS	This study
	7.02	bnlg398^a -bnlg657^a	(21,547,438-23,542,864)-(129,109,884-129,237,926)	Bi-parental	[16]
	7.02	PZE-107040293	67,970,430	GWAS	[52]
	7.02	PZE-107040370	68,121,109
	7.02	phm4818.15^c – pza00132.17^c	31,773,571-79,009,472	Bi-parental	[15]
	7.02-7.03	PZA00986.1	13,174,365–142,783,202	NAM (joint linkage mapping)	[13]
	7.02-7.03	bnlg1808	129,908,091	Bi-parental	[12]
	7.02-7.03	bnl15.21	132,550,575
	7.03	PZE-107086511	136,155,325	GWAS	[52]
	7.03	SYN38495	141,187,793
	7.03	SYN34849	152,695,327	GWAS	[52]
	7.03-7.04	umc111(psy3)^a -asg32^a	(143,407,361-147,088,644)-(157,471,090-158,238,561)	Bi-parental	[39]
	7.03	bmc1305^b	129,865,901 - 156,132,738	Bi-parental	[41]
8	8.01	SYN10053	1,816,317	GWAS	[52]
	8.01	GZ204^e-IDP5^e	8,616,802 - 10,074,106	Bi-parental	[40]
	8.02	Umc1974^d -TIDP8777^d	18,198,319 - 23,105,913	Bi-parental/GWAS	This study
	8.03	PZA01470.1	23,769,876–101,178,933	NAM (joint linkage mapping)	[13]
	8.03	PZE-108028005	28,557,135	GWAS	[52]
	8.03	IDP8925^d -TIDP2787^d	73,871,364 - 92,953,180	Bi-parental/GWAS	This study
	8.05	PZE-108075552	129,767,067	GWAS	[52]
	8.05	ufg80^a -bnlg666^a	(130,740,118-131,241,328)-(133,561,516-133,936,736)	Bi-parental	[16]
	8.05	umc89^a -csu31^a	(135,953,318-136,041,040)-(142,142,542-160,300,237)	Bi-parental	[39]
	8.06	PZA03651.1	135,091,499–156,907,035	NAM (joint linkage mapping)	[13]
	8.06	PZE-108108866	160,936,029	GWAS	[52]
	8.06	umc117^a -umc216(ald2)^a	(162,531,179-162,630,591)-(163,307,256-163,309,969)	Bi-parental	[10]
	8.08	Dupssr14^{e f}-phm14046.9^f	(171,763,860-171,763,964)-175,362,738	Bi-parental	[15]

^aPrecise physical position of a marker was not provided at IBM2 2008 Neighbors genetic map. Instead, MaizeGDB suggests chromosomal interval where this marker could be located (http://www.maizegdb.org/data_center/map)
^bPhysical position of the marker was impossible to identify as the sequence information of the marker used in the study was not provided by authors. Instead, the physical borders of a bin where marker was reported to be located were provided
^cPhysical position of the marker was precisely identified based on sequence information of the context sequence leveraged from http://www.panzea.org/#!data/cyci
^dPhysical boundaries of QTL identified in this study were shown by public markers whose positions were very close to proprietary markers used to map GLS resistance QTL in this study
^ePhysical position of the markers were determined by the aligning sequences of PCR primers of flanking markers provided in the paper
^fPhysical position of the marker was determined by the aligning its sequences of PCR primers provided at Maize GDB

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