TABLE 3.

Primers used in this work

Primer	Sequence	Localization in genome	Restriction sitea
A1-hopW1-1	5′CCCTATAGTGAGTCGAATTCCACTGGAGTCAAGCTTACG3′	6121-6139c	EcoRI
A2-hopW1-1	5′GAATTCGACTCACTATAGGGTCTCAGCGGTGTAGCTTTCC3′	6711-6730	EcoRI
B1-hopW1-1	5′GTTCTGCTAATGTGGACC3′	5607-5624	NA
B2-hopW1-1	5′TAGGATGGGATTGCTGGG3′	7232-7249c	NA
A1-hopW1-2	5′CCCTATAGTGAGTCGGATCCGCCTCTATTTGCAACAGC3′	63160-63177c	BamHI
A2-hopW1-2	5′GGATCCGACTCACTATAGGGCTATTCCTTCTCTCAGCG3′	63471-63488	BamHI
B1-hopW1-2	5′TCCAGGTCGATCATTTGC3′	62568-62585	NA
B2-hopW1-2	5′CCGTGATTTCTCTTAGCC3′	64178-64195c	NA
A1-avrB4-1	5′CCCTATAGTGAGTCGAATTCGAGCCTTAGTGGTAGTAACC3′	3515337-3515356c	EcoRI
A2-avrB4-1	5′GAATTCGACTCACTATAGGGACTAGGTTCATGCATAGGC3′	3516388-3516406	EcoRI
B1-avrB4-1	5′CGTGACGAGTGATCATCTGC3′	3514781-3514800	NA
B2-avrB4-1	5′ATCCTTTTGCACACCGATCC3′	3516888-3516907c	NA
A1-avrB4-2	5′CCCTATAGTGAGTCGGATCCAGAAGCCCGCAGAATTCG3′	927554-927571c	BamHI
A2-avrB4-2	5′GGATCCGACTCACTATAGGGTAGATGACGAGCCTTAGG3′	928565-928582	BamHI
B1-avrB4-2	5′TTCCAGCACGAAGTATCC3′	926946-926963	NA
B2-avrB4-2	5′AAGCGCGAAGAACACGCTG3′	929015-929033c	NA
A1-hopAB1	5′CCCTATAGTGAGTCGAATTCAGACAAAGGCTTGATGCC3′	107146-107163c	EcoRI
A2-hopAB1	5′GAATTCGACTCACTATAGGGTCCTGATCTCATGGTTGC3′	108740-108757	EcoRI
B1-hopAB1	5′TCCATCACCTGTTGAAGC3′	106559-106576	NA
B2-hopAB1	5′ATCCGCAACCTCATAGAG3′	109299-109316c	NA
A1-hopAE1	5′CCCTATAGTGAGTCGAATTCTCTTGCCTGGCTTACCAC3′	4943896-4943913c	EcoRI
A2-hopAE1	5′GAATTCGACTCACTATAGGGTACTGTCGGTGGATATGG3′	4946706-4946723	EcoRI
B1-hopAE1	5′AAGCCATGCAGATCCTCG3′	4943302-4943319	NA
B2-hopAE1	5′TAATCAGCGCCGAACAGC3′	4947287-4947304c	NA
A1-avrB2	5′CCCTATAGTGAGTCGAATTCCGTTCTTACGATCGCGTAGC3′	102383-102402c	EcoRI
A2-avrB2	5′GAATTCGACTCACTATAGGGATTCTAGGTGGCATTGCAGG3′	103535-103554	EcoRI
B1-avrB2	5′GCCGATAACCTGATCTACG3′	101280-101298	NA
B2-avrB2	5′CTTAACTGAGACATCAACGGC3′	104481-104501c	NA
A1-avrD1	5′CCCTATAGTGAGTCGGATCCAAACAGCTGCTGATTCCC3′	96818-96835c	BamHI
A2-avrD1	5′GGATCCGACTCACTATAGGGTGCTGAAGCTATACAGCC3′	97836-97853	BamHI
B1-avrD1	5′TCCGGATGGGGTATACTC3′	96266-96283	NA
B2-avrD1	5′TGGCGGCTTTGATCTGTG3′	98300-98317c	NA
A1-hopD1	5′CCCTATAGTGAGTCGAATTCCAATGTGTGGTCGCAAGG3′	7093-7110c	EcoRI
A2-hopD1	5′GAATTCGACTCACTATAGGGATCATAGTCGACGCGACCT3′	9280-9298	EcoRI
B1-hopD1	5′GCATTCAGTTCACCAGACG3′	6554-6572	NA
B2-hopD1	5′CGTATAGTGACAAAGGAGG3′	9859-9877c	NA
A1-hopF3	5′CCCTATAGTGAGTCGAATTCAGCTTGATGCTGTGCTCC3′	4039619-4039636c	EcoRI
A2-hopF3	5′GAATTCGACTCACTATAGGGATGCCCATGGAAGATTCC3′	4040252-4040269	EcoRI
B1-hopF3	5′TGCAACTGAACCAGCACC3′	4038961-4038978	NA
B2-hopF3	5′ATCTGGCGAGCATTCTCG3′	4040823-4040840c	NA
A1-hopG1	5′CCCTATAGTGAGTCGAATTCAGGCAGCATGCGTATTTGC3′	897388-897406c	EcoRI
A2-hopG1	5′GAATTCGACTCACTATAGGGTACGTGGTCATCACAAAGC3′	899013-899031	EcoRI
B1-hopG1	5′CCTTCATGCCTTGATGACTG3′	896841-896860	NA
B2-hopG1	5′ACAGACCGTTGTTAGCCAG3′	899582-899600c	NA
A1-hopI1	5′CCCTATAGTGAGTCGAATTCTTTTCGGCGTGAGGAGAC3′	4988642-4988659c	EcoRI
A2-hopI1	5′GAATTCGACTCACTATAGGGATGCTTCTCCGGGAACTC3′	4989672-4989689	EcoRI
B1-hopI1	5′AGATCACCGGATACATCG3′	4988059-4988076	NA
B2-hopI1	5′TTCTGTAGAGCAACACGG3′	4990274-4990291c	NA
A1-hopQ1	5′CCCTATAGTGAGTCGAATTCATCTGCGCTTGTCCAGTC3′	9414-9431c	EcoRI
A2-hopQ1	5′GAATTCGACTCACTATAGGGCTGGATAGATGAACCTGC3′	10751-10768	EcoRI
B1-hopQ1	5′TGTCGGAACAGATACTGC3′	8876-8893	NA
B2-hopQ1	5′CGAGACATGGATGTGTGG3′	11381-11398c	NA
A1-hopR1	5′CCCTATAGTGAGTCGAATTCAACAAAGGAAGCGACCTG3′	198648-198665c	EcoRI
A2-hopR1	5′GAATTCGACTCACTATAGGGGCATCATGCCGAATAGG3′	204628-204644	EcoRI
B1-hopR1	5′GCATTCTCAGGTTGTAGATGG3′	198090-198110	NA
B2-hopR1	5′CGTCGAGTATCTGTATCGTTGG3′	205178-205199c	NA
A1-hopX1	5′CCCTATAGTGAGTCGAATTCTGTTCCTCACTGATTGCG3′	1508676-1508693c	EcoRI
A2-hopX1	5′GAATTCGACTCACTATAGGGACAGGTCATAGAGTTCGG3′	1509903-1509920	EcoRI
B1-hopX1	5′TGAGCGTGAGAGTTACACG3′	1508038-1508056	NA
B2-hopX1	5′GGTCTGACATAATCTGCG3′	1510496-1510513c	NA
A1-hopAJ1	5′CCCTATAGTGAGTCGGATCCCTTCATAGGTTTAGCTCGC3′	892773-892791c	BamHI
A2-hopAJ1	5′GGATCCGACTCACTATAGGGTGTGAAGTGAAAGTGGCC3′	894080-894097	BamHI
B1-hopAJ1	5′TGACAAGCATGCCAAAGC3′	892244-892261	NA
B2-hopAJ1	5′CAATCACGGAAGAAGCAC3′	894731-894748c	NA
A1-hopAK1	5′CCCTATAGTGAGTCGAATTCAAAAGGGCGACCGAAGTC3′	1652010-1652027c	EcoRI
A2-hopAK1	5′GAATTCGACTCACTATAGGGTGAACGATTCGTGATCCG3′	1653668-1653685	EcoRI
B1-hopAK1	5′TTGCGTGAAGAGCAACAG3′	1651461-1651478	NA
B2-hopAK1	5′CGCCAGCTATAGCAAGAC3′	1654216-1654233c	NA
A1-hopAS1	5′CCCTATAGTGAGTCGAATTCGATCAATACAGGTGGTGG3′	5376014-5376031c	EcoRI
A2-hopAS1	5′GAATTCGACTCACTATAGGGACGCTGGTCATTCAACTG3′	5380168-5380185	EcoRI
B1-hopAS1	5′TGGACGCGTCTTGAATGG3′	5375449-5375466	NA
B2-hopAS1	5′TGTCGGATTAGTTCAGGG3′	5380661-5380678c	NA
A1-hopAT1	5′CCCTATAGTGAGTCGGATCCACGCTTCTGGATCTTCGG3′	894814-894831c	BamHI
A2-hopAT1	5′GGATCCGACTCACTATAGGGTTGAGGATCACAAAGCGC3′	895177-895194	BamHI
B1-hopAT1	5′TACATATCCTGTGCGCTG3′	894188-894205	NA
B2-hopAT1	5′GGATCTGAATTCCATCGC3′	895766-895783c	NA
A1-hopAU1	5′CCCTATAGTGAGTCCTCGAGGGAGGGTTCCAAAGACAG3′	26320-26339c	XhoI
A2-hopAU1	5′CTCGAGGACTCACTATAGGGAGCCTGGAGACATTCATGC3′	28431-28449	XhoI
B1-hopAU1	5′AGTACCGCAGTCCTTCAC3′	25800-25817	NA
B2-hopAU1	5′CTCTGGTGATGTTTTCCG3′	28993-29010c	NA
A1-hopAV1	5′CCCTATAGTGAGTCGGATCCCTGCTCCAACTATTAGCC3′	45681-45698c	BamHI
A2-hopAV1	5′GGATCCGACTCACTATAGGGATCTCGTCGATGAAGGAC3′	48004-48021	BamHI
B1-hopAV1	5′TGTTCAACTACGACCGTC3′	45126-45143	NA
B2-hopAV1	5′AACATCCGGCTACTTCAG3′	48631-48648c	NA
A1-hopAW1	5′CCCTATAGTGAGTCGAATTCTATGCGTAGTGAACAGGG3′	104780-104797c	EcoRI
A2-hopAW1	5′GAATTCGACTCACTATAGGGAGAAACACTGAGTGGTCG3′	105491-105508	EcoRI
B1-hopAW1	5′TTCACGTACCTCATCTGC3′	104148-104165	NA
B2-hopAW1	5′ATCCAACTGCACATCAGC3′	106029-106046c	NA
A1-hopAF1	5′CCCTATAGTGAGTCGGATCCCCGTTGGTTATGTGATGC3′	1685066-1685083c	BamHI
A2-hopAF1	5′GGATCCGACTCACTATAGGGCAGCGCTTCGATTTTGCC3′	1686077-1686094	BamHI
B1-hopAF1	5′CACTCAAGCCGATCTACC3′	1684461-1684478	NA
B2-hopAF1	5′GCTTCATCCCCGATATCC3′	1686634-1686651c	NA
A1-avrE1	5′CCCTATAGTGAGTCGAATTCCTGTAGAAATGCGCGAGC3′	1477655-1477672c	EcoRI
A2-avrE1	5′GAATTCGACTCACTATAGGGATGTGCCACTGATGGCAG3′	1482889-1482906	EcoRI
B1-avrE1	5′GAAGCTCGCGTGTCCGTC3′	1477068-1477085	NA
B2-avrE1	5′CGATCATTGGCAACAGC3′	1483518-1483534c	NA
A1-avrRps4	5′CCCTATAGTGAGTCGGATCCAACACATCATAGCCCCTG3′	75967-75984c	BamHI
A2-avrRps4	5′GGATCCGACTCACTATAGCCTAATGCGCATGAGCAGGC3′	76681-76698	BamHI
B1-avrRps4	5′TTTGCCTTCGCCGTACAG3′	74923-74940	NA
B2-avrRps4	5′CGTCAAGACGACGGTCAG3′	77748-77765c	NA
A1-hopAY1	5′CCCTATAGTGAGTCGAATTCTCTCCGCTTACTGGCTTGC3′	110642-110660c	EcoRI
A2-hopAY1	5′GAATTCGACTCACTATAGGGCACCTGCAATTGGAGAGC3′	111601-111618	EcoRI
B1-hopAY1	5′CGGTAATAATTGGCATGG3′	110198-110215	NA
B2-hopAY1	5′TGCGCAACATCAACGAGG3′	112117-112134c	NA
P1-EcoRI	5′TCAGAATTCGTGTAGGCTGGAGCTGCTTC3′		EcoRI
P2-EcoRI	5′TCAGAATTCCATATGAATATCCTCCTTAG3′		EcoRI
P1-BamHI	5′TCAGGATCCGTGTAGGCTGGAGCTGCTTC3′		BamHI
P2-BamHI	5′TCAGGATCCCATATGAATATCCTCCTTAG3′		BamHI
P1-XhoI	5′TCACTCGAGGTGTAGGCTGGAGCTGCTTC3′		XhoI
P2-XhoI	5′TCACTCGAGCATATGAATATCCTCCTTAG3′		XhoI
qRT-avrB4-1/2 F	5′GGCGATGTTCAATGGCTAAT3′	3515731-3515732; 928198-928217
qRT-avrB4-1/2 R	5′TTTTGCAAGCTCCCATCAG3′	3515842-3515860c; 928070-928088c
qRT-hopW1-1/2 F	5′AATCGTCGCAGCAGGTTC3′	63361-63378c; 6591-6608c
qRT-hopW1-1/2 R	5′CTCTCCAACTCATGCTGAAGG3′	63246-63266; 6476-6496
qRT-hopAY1 F	5′CGCTAGACCCTCGAACAGTC3′	110760-110779
qRT-hopAY1 R	5′CCCTGACCTGACCCTTGTT3′	110937-110955c
qRT-hopAH2 F	5′TTGCTTGCCAGTCAACAGAC3′	3525934-3525953
qRT-hopAH2 R	5′GCGATGTCATCAGGATTGG3′	3526118-3526136c
qRT-hrpA F	5′AGGGTATCAACAGCGTCAAG3′	1487676-1487695
qRT-hrpA R	5′TCAGAACTGGACGACCGAGT3′	1487916-1487935c
qRT-16S F	5′CAATGGGCGAAAGCCTGAT3′	804368-804386
qRT-16S R	5′TGCTGGCACAGAGTTAGC3′	804502-804519c
hopW1-1/2 F	5′GTCAAGCTTTTATGGAAAGCTACACCGC3′	6716-6734c; 63486-63504c	HindIII
hopW1-1/2 R	5′GTCGAATTCCGATTCATTTTGCTGTTGC3′	6379-6397; 63149-63167	EcoRI
avrB4-1 F	5′GTCCTCGAGGAGCGGAACCGAATAAGAGG3′	3515319-3515338	XhoI
avrB4-2 F	5′GTCCTCGAGAGTGCTGAGGACTCGGTAGC3′	928612-928631c	XhoI
avrB4-1/2 R	5′GTCTCTAGATTTGTTACGAATTCTGCGGG3′	3516364-3516383c; 927547-927566	XbaI

^aNA, not applicable.