Additional File Title: Primer sequences and blast hits of newly designed bsnp markers. Description

tarix	25.06.2016
ölçüsü	263.5 Kb.

Additional File 1. Title: Primer sequences and blast hits of newly designed BSNP markers.
Description: EST-based amplicons designed for single nucleotide polymorphism containing contigs from common bean reported by Ramirez et al. [10], their primer sequences and melting (Tm) and annealing (Ta) temperatures and whether polymorphism (P) by SSCP was detected in the DOR364 x G19833 mapping population as well as the best hit to the Uniref protein database.

Name	Contig ID	Forward primer	Tm (°C)	Reverse primer	Tm (°C)	Ta (°C)	uniref 100	P
BSNP38	2071	CAAATCCCAAACGGAACAAACC	55.2	TAGTGATTTTCTCCGGCGCTTC	57.4	52	50S ribosomal protein L12, chloroplast precursor [Nicotiana tabacum]	-
BSNP39	2071	GCGCCGGAGAAAATCACTAAGC	58.8	CAGGCTCGTCAACGCTCTTACA	59.2	65	ribosomal protein L12, chloroplast precursor [Nicotiana tabacum]	+
BSNP40	2079	GATCTGAACACTCTTGGAAGTTAAA	53	CGAGACCACCTTCATCCATA	53.7	60	ATP citrate lyase b-subunit [Lupinus albus]	-
BSNP41	2079	CACTTTTCTTGGATGGCTTGAA	53.8	GACTGGTATATGCAAAGAGGCAAT	55.2	53	ATP citrate lyase b-subunit [Lupinus albus]	+
BSNP42	2401	CATGGAAACTGGCATAGCAT	53.2	CCTGAAGCCAAAAGATGGAG	53.6	55	Sedoheptulose-1,7-bisphosphatase, chloroplast precursor [Arabidopsis thaliana]	-
BSNP43	2401	CATCTCTCCATCTTTTGGCTTC	53.6	AGTGAAGTACCCTTTGCCTTTG	55.3	53	Sedoheptulose-1,7-bisphosphatase, chloroplast precursor [Arabidopsis thaliana]	+
BSNP44	2401	CCTCACAAAAGCAACACCAGAT	55.8	CTCGTCCCCAAAAGAATTAACG	53.9	53	Sedoheptulose-1,7-bisphosphatase, chloroplast precursor [Arabidopsis thaliana]	-
BSNP45	2455	CCCTCTCTCTCATCAACCAGTA	55.3	GTGGCTCACTTCTCTTACATACAC	55.1	52	Putative 21kD protein precursor [Medicago sativa]	-
BSNP46	2468	CGTTCTCTTCTCTGCTCTCACG	57.1	GGGGGTAATGAGGGTGAACAT	56.8	60	Putative RNA binding protein [Nicotiana tabacum]	-
BSNP47	2517	CCAAAAGGCACCGTCAGATATT	55.4	GTTCACTCCATCACACCCAATC	55.9	64	Monooxygenase 2 [Arabidopsis thaliana]	-
BSNP48	2517	GGCCTCTTTTACTGGGAGACAT	56.6	GGAATAGCACCAGCTCGAATAC	55.4	55	Monooxygenase 2 [Arabidopsis thaliana]	-
BSNP49	2535	GCTATGAAGAAATGGTGGATGC	54.2	CTTTATCCGCTTCACACTCACA	55	55	14-3-3-like protein C [Glycine max]	-
BSNP50	2540	GAAAGGGTGTGAGAGGTTTTGT	55.3	GTGGCTCCTTGTAGTCCTTGTC	57.4	58	Putative aquaporin PIP1-3 [Vitis berlandieri x Vitis rupestris]	-
BSNP51	2540	GGCTTTGAGGGTAATGGTAGGT	56.7	ATGGGAAGTGGAGCCAAAATAG	55.1	60	Putative aquaporin PIP1-3 [Vitis berlandieri x Vitis rupestris]	-
BSNP52	2543	CCACACAGTCCCCATCTATGA	56.1	GCAACTCGTAGCTCTTCTCCAC	57.5	55	Actin 11 [Arabidopsis thaliana]	+
BSNP53	2546	CTTCTCACTCGCTGTCTCAATC	55.2	TTGTGTTGGCTTCCTTTGC	54.1	55	L-asparaginase [Glycine max]	+
BSNP54	2546	GGGGACTGATGAACAAAATGA	52.9	TTGAACCCACAAGCCACTTC	55.7	60	L-asparaginase [Glycine max]	+
BSNP55	2546	GAAGGAAAAGCTGGCCTCAT	55.4	GCACCACACACCAATTCAAA	54.2	60	L-asparaginase [Glycine max]	+
BSNP56	2558	CTGCTTTCACAAATGGCTGCT	56.6	TCTCCCTCGGTGCTGAAGAC	58.8	60	Ferredoxin--NADP reductase, leaf isozyme, chloroplast precursor [Pisum sativum]	+
BSNP57	2558	CATTGGTGACTTTGGTGATTCC	54.3	GGGTATTTCTCCTGCATCTTTTC	53.8	60	Ferredoxin--NADP reductase, leaf isozyme, chloroplast precursor [Pisum sativum]	-
BSNP58	2558	GCAGAGAACAAACAAATGAGCA	54.2	GCAGGAGGGGTGATAGACTTG	57.1	55	Ferredoxin--NADP reductase, leaf isozyme, chloroplast precursor [Pisum sativum]	-
BSNP59	2566	CGACGAAATCCAGAGCAAGAC	55.9	GCAGGCAAAGCAACAGCAT	57.2	60	Oxygen-evolving enhancer protein 1, chloroplast precursor [Pisum sativum]	+
BSNP60	2571	CTTCTCAAACCTTCTGCTGTTC	53.9	TCACATAGAACTCCTCCACCTG	55.8	55	PSI-D1 precursor [Nicotiana sylvestris]	+
BSNP61	2579	CATGGTTCCAGTTCGTGTTCA	55.4	CCAGTTCACTCGCTACAATGC	56.2	60	S-adenosylmethionine synthetase [Phaseolus lunatus]	+
BSNP62	2591	GGTTATCTTGATGGGTGCAG	53.4	GATAGTGCAACATTCCTTCCA	52.7	60	LHCII type I chlorophyll a/b-binding protein [Phaseolus aureus]	+
BSNP63	2593	GAGTTGGCCTTTGGTCCTTG	56.4	TGCATTGGCTGAAGAGTTGG	55.8	55	Photosystem I-N subunit [Phaseolus vulgaris]	+
BSNP64	2593	GAAAAGAGCAAGACCAACAAGG	54.4	CATGTAAACGAAAGAGGCGAGT	55.2	55	Photosystem I-N subunit [Phaseolus vulgaris]	-
BSNP65	2599	GCGAAGACTGTGGAGGTTGAG	57.8	GCCAGGTCAGCAAGAGCAATA	57.6	65	14-3-3-like protein A [Glycine max]	+
BSNP66	2606	TCTCAAAGCCACCGCCATC	58	GGTCCCACCAACACAAGCAT	58.2	60	Eukaryotic initiation factor 4A-9 [Nicotiana tabacum]	-
BSNP67	2623	CTCACACTTCACATCCACTCACACA	58.7	CTTGCTCTCAACCCATCCCATAAG	57.5	60	Chlorophyll a/b-binding protein CP24 [Phaseolus aureus]	+
BSNP68	2624	GGCTCTCTCTTCACCGTCAC	57.5	CAATGCGATAACCCTCCACT	54.8	65	LHCII type I chlorophyll a/b-binding protein [Phaseolus aureus]	+
BSNP69	2624	GCTTTTGCTGAGTTGAAGGTTA	53.7	GAGCCGATAAAATTCACAATTC	50.2	55	LHCII type I chlorophyll a/b-binding protein [Phaseolus aureus]	-
BSNP70	2624	GGTTATATTGATGGGTGCAGT	52.5	AGAGCCGATAAAATTCACAA	49.6	55	LHCII type I chlorophyll a/b-binding protein [Phaseolus aureus]	-
BSNP71	2627	GGTGCCTCCTTCGTCACAG	58.2	GCTGGTCACATGGCCTAATG	56.2	57	Triose phosphate/phosphate translocator, chloroplast precursor [Pisum sativum]	-
BSNP72	2627	CTTTGTGGCTGTCTCTGG	53.2	CAGTACGTTCCCAACTGC	53.4	60	Triose phosphate/phosphate translocator, chloroplast precursor [Pisum sativum]	-
BSNP73	2637	GCTTTGATCCTCTCGGTCTTTC	55.6	TCAACTCCTTGAGCTTCTCTGG	56.4	60	Chlorophyll a-b binding protein 7, chloroplast precursor [Lycopersicon esculentum]	-
BSNP74	2641	GGTGACTACGGATGGGACACAG	59.2	GGTCAAAGGAACCTCCAGGGTAG	59	55	LHCII type II chlorophyll a/b-binding protein [Phaseolus aureus]	-
BSNP75	2652	GAAGTCATGGCAGCAACATTGA	56.1	TGAAGGGGTTTGAGCTGAGAAG	57	65	LHCII type III chlorophyll a/b binding protein [Phaseolus aureus]	+
BSNP76	2652	GTAGGAGAGGGCAACAACCTTTA	56.5	TCTCATTGGAAAAAGAGGCTTAGTC	54.9	60	LHCII type III chlorophyll a/b binding protein [Phaseolus aureus]	-
BSNP77	2661	GGAGCCTTATCGGGGACTA	55.7	ACCTCTTTTCTGGGTCAAGC	55	60	Chlorophyll a/b binding protein CP29 [Phaseolus aureus]	+
BSNP78*	2661	CAGAGATCAAGCACGCACGTC	58.5	AACTAATCCCCTGCCCCTTACC	58.7	60	Chlorophyll a/b binding protein CP29 [Phaseolus aureus]	+
BSNP79	2663	CACACTCATCACCAATTCTCACA	55.1	CAAGGTAAGGGGGTCTAGGTTG	56.8	60	Photosystem I light-harvesting chlorophyll a/b-binding protein [Nicotiana tabacum]	-
BSNP80	2663	AGAGGCATTGGGGTTAGGAAAC	57.2	CAGCCAAGTGAGTAGCCAAGTTC	58	60	Photosystem I light-harvesting chlorophyll a/b-binding protein [Nicotiana tabacum]	+
BSNP81	2664	GAACCATCAAGCACCCTTCC	56.2	GCAAACACACCCTCACATCG	56.7	60	Cytosolic ascorbate peroxidase [Vigna unguiculata]	-
BSNP82	2668	TGCTGTAGGAGATAAGATTGTGC	54.6	GGTGGATTGGTAGAGAGTTTCC	54.9	60	Plastidic aldolase [Trifolium pratense]	+
BSNP83	2670	CCGCCGTTGATTGAAGATG	54.2	AGTGGAGGAGGTCACGAAGG	58.6	60	Nodulin-26 [Glycine max]	+
BSNP84	2670	GCTTTGGTGTTGGAGATCGTG	56.5	GTGGGTGTGGCTGATGAAGAC	58.2	60	Nodulin-26 [Glycine max]	-
BSNP85	2672	CAGGTGATTATGGTTGGGACA	54.7	CTGGGTAGATTGGGTCAGTCA	56.1	64	Photosystem II type I chlorophyll a/b-binding protein precursor [Glycine max]	+
BSNP86	2673	CTGCTTCACTTCTGCTCCACA	57.4	TGAGAGGCTTGTTTCACACCAC	57.5	60	Glyceraldehyde-3-phosphate dehydrogenase A, chloroplast precursor [Pisum sativum]	-
BSNP87	2681	CCGTGATGGTCGTATGGAGAAG	57.2	CCAAGAGCAGCCTCATTCAAGT	57.5	60	Ribulose bisphosphate carboxylase/oxygenase activase, chloroplast precursor [Phaseolus vulgaris]	-
BSNP88	2682	CTCCTTTCACTGGGCTGAAGTC	57.6	CAAAGTGGGGTGGCTAGAACTG	57.9	60	Ribulose bisphosphate carboxylase precursor [Phaseolus vulgaris]	+
BSNP89	2685	AGGAAATGGCTTCTTCAATG	50.7	GGTGACTTGTTGTGTTCACG	54.3	55	Ribulose bisphosphate carboxylase precursor [Phaseolus vulgaris]	+
BSNP90	2685	GTACCGTGAACACAACAAGTC	53.9	GAAGTCCGAAAACAGAAACC	51.6	55	Ribulose bisphosphate carboxylase precursor [Phaseolus vulgaris]	-
BSNP91	2513	GGTCCGGTTGAGAACTTAGC	55.5	GAGTTGGAACCCTCTCAGC	55.3	-	Type I (26 kD) CP29 polypeptide [Lycopersicon esculentum]	-
BSNP92	2583	GGCTCAAACCATGTTCCTCA	55.3	GCAACACGACCCACAAAGAG	56.7	55	Photosystem II 22 kDa protein, chloroplast precursor [Spinacia oleracea]	+
BSNP93	2583	GCTCTTTGTGGGTCGTGTTG	56.7	CTCTGAACCCTTTGCCTGAAG	55.8	60	Photosystem II 22 kDa protein, chloroplast precursor [Spinacia oleracea]	-

* this marker was evaluated by CEL I technique as reported by Galeano et al. [14].