Molecular characterization of vernalization and response genes in bread wheat from the Yellow and Huai Valley of China

Chen, Feng; Gao, Manxia; Zhang, Jianghua; Zuo, Aihui; Shang, Xiaoli; Cui, Dangqun

doi:10.1186/1471-2229-13-199

Table 1 PCR primers for detecting vernalization response and Ppd-D1 alleles in bread wheat

From: Molecular characterization of vernalization and response genes in bread wheat from the Yellow and Huai Valley of China

Name	Allele or haplotype	Forward primer	Reverse primer	Expected band size (bp)	Annealing temp. °C	Reference
Vrn_P1	vrn-A1/Vrn-A1a/Vrn-A1b/Vrn-A1c	GAAAGGAAAAATTCTGCTCG	TGCACCTTCCC(C/G)CGCCCCAT	950 + 876 or 714 or 734	50	[9]
Vrn_P2	Vrn-A1b	CCTGCCGGAATCCTCGTTTT	CTACGCCCCTACCCTCCAACA	147 or 167	63	In this paper
Vrn-P3	Vrn-A1c	AGCCTCCACGGTTTGAAAGTAA	AAGTAAGACAACACGAATGTGAGA	1170	65	[20]
Vrn-P4	vrn-A1	GCACTCCTAACCCACTAACC	TCATCCATCATCAAGGCAAA	1068	59	[20]
Vrn-P5	Vrn-B1a	CAAGTGGAACGGTTAGGACA	CTCATGCCAAAAATTGAAGATGA	709	63	[20]
Vrn-P6	vrn-B1	CAAGTGGAACGGTTAGGACA	CAAATGAAAAGGAATGAGAGCA	1149	58	[20]
Vrn-P7	Vrn-B1b	CCAATCTCACATGCCTCCAA	ATGCGCCATGAACAACAAAG	215 or 252	59	In this paper
Vrn-P8	Vrn-D1a	GTTGTCTGCCTCATCAAATCC	GGTCACTGGTGGTCTGTGC	1671	63	[20]
Vrn-P9	vrn-D1	GTTGTCTGCCTCATCAAATCC	AAATGAAAAGGAACGGAGCG	997	59	[20]
Vrn-P10	Vrn-D1b	GTTGTCTGCCTCATCAAATCC	AGGATGGCCAGGCCAAAACG	612 bp	60	[28]
Vrn-P11	Vrn-D1b	GTTGTCTGCCTCATCAAATCC	AGGATGGCCAGGCCAAAACT	612 bp	60	[28]
Vrn-P12	vrn-B3	ATGCTTTCGCTTGCCATCC	CTATCCCTACCGGCCATTAG	1140 or 2030	56	[9]
Vrn-P13	Vrn-B3a	CATAATGCCAAGCCGGTGAGTAC	ATGTCTGCCAATTAGCTAGC	1200	59	[9]
Vrn-P14	Vrn-B3c	GCTTTGAACTCCAAGGAGAA	ATAATCAGCAGGTGAACCAG	1401	52	In this paper
Vrn-P15	vrn-B3/Vrn-B3	ACTCATCATCACCACTTCCT	TAATGCTTAATTCGTGGCTG	1499	51	In this paper
Vrn-P16	Vrn-B3 promoter	GTCCATACAAATCATGCCAC	TTCTGACAGTTTTAGTTGCG	491	51	In this paper
Vrn-P17	Vrn-B3 promoter	GCTTTCGCTTGCCATCCCAT	GCGGGAACGCTAATCTCCTG	898	62	In this paper
Vrn-P18	Vrn-B3 promoter	TTTGAGACAGGAGATTAGCG	ACCATCATGAGGCACCATTA	1131	53	In this paper
Vrn-P19	Vrn-B3 promoter	GCTTTGAACTCCAAGGAGAA	ATAATCAGCAGGTGAACCAG	1425	52	In this paper
Vrn-P20	Vrn-B3 promoter	CCGTTCACCATCTATTGCTC	CACCCAAATCCTTCATCTCA	1259	55	In this paper
Vrn-P21	CNV of Vrn-A1	CATTGTTCCTTCCTGTCCCACCC	ATTACTCGTACAGCCATCTCAGCC	1431	63	[29]
Vrn-B3-RT	-	GGAGGTGATGTGCTACGAGA	TTGTAGAGCTCGGCGAAGTC	147	55	In this paper
β-actin	-	GTTCCAATCTATGAGGGATACACGC	GAACCTCCACTGAGAACAACATTACC	422	56	[30]
Ppd-P1	Ppd-D1a	ACGCCTCCCACTACACTG	CACTGGTGGTAGCTGAGATT	288 or 2377	54	[15]
Ppd-P2	Ppd-D1b	ACGCCTCCCACTACACTG	GTTGGTTCAAACAGAGAGC	414 or 453	54	[15]
Ppd-P3	16 bp insertion Exon 8	GATGAACATGAAACGGG	GTCTAAATAGTAGGTACTAGG	320 or 336	52	[15]
Ppd-P4	TE deletion	AGGTCCTTACTCATACTCAATCTCA	CTCCCATTGTTGGTGTTGTTA	2612	50	[23]
Ppd-P5	2 kb deletion or TE insertion	CCATTCGAGGAGACGATTCAT	CTGAGAAAGAACAGAGTCAA	1005	55	[23]
Ppd-P6	5 bp deletion Exon 7	GAATGGCTTCTCCTGGTC	GATGGGCGAAACCTTATT	1,032 or 1,027	50	[23]
Ppd-P7	5 bp deletion Exon 7	GTGTCCTTTGCGAATCCTT	TTGGAGCCTTGCTTCATCT	184 or 179	53	[23]
Ppd-P8	Truncated Ppd-B1 gene in the ‘Chinese Spring’ allele	TAACTGCTCCTCACAAGTGC	CCGGAACCTGAGGATCATC	425	56	[31]
Ppd-P9	Intact Ppd-B1 copies in the ‘Chinese Spring’ allele	AAAACATTATGCATATAGCTTGTGTC	CAGACATGGACTCGGAACAC	994	58	[31]
Ppd-P10	Intact Ppd-B1 copies in the ‘Sonora64’/‘Timstein’ allele	CCAGGCGAGTGATTTACACA	GGGCACGTTAACACACCTTT	223	58	[31]

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ISSN: 1471-2229

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