Differential Gene Expression in Sugarcane in Response to Challenge by Fungal Pathogen Ustilago scitaminea Revealed by cDNA-AFLP

Table 1

Primers used in RT-PCR analysis.

Clone no.	Primer name	Sequence	Anneal temperature (%)
SUC01	C418-F	5′-TGAAAGCCTCCACATCCT-3′	55°C
	C418-R	5′-CAACGAGCAGAAGACACG-3′	55°C
SUC02	C165-F	5′-TATGGCCGTGTGTGTTATGG-3′	60°C
	C165-R	5′-AACGGCTCTTTTTGCAGCTA-3′	60°C
SUC03	C220-F	5′-CAGGAACCTTCTGGCATCAT-3′	60°C
	C220-R	5′-ATGGGCATCAACAGACTTCC-3′	60°C
SUC04	C203-F	5′-TGTTTTCACCGTTCAGTTCCT-3′	59°C
	C203-R	5′-ATCAGTCGCACCCTGAAGAT-3′	59°C
SUC05	C149-F	5′-CGATTACGGATTACTAGGTATTAGGA-3′	58°C
	C149-R	5′-CGATTCATTTCAATATGAGGACA-3′	58°C
SUC06	C312-F	5′-TGGCTTAGGGCTGATACTGG-3′	58°C
	C312-R	5′-TCAAACGCTGACCCGAGA-3′	58°C
SUC07	C362-F	5′-TGGGATGACGATACACCG-3′	56°C
	C362-R	5′-AGGCTCCTTCAAATGTAGATAG-3′	56°C
SUC08	C217-F	5′-TCCTTTGGTTCCATTTGCTC-3′	58°C
	C217-R	5′-CGTGCAAATTAGGACTGTCG-3′	58°C
SUC09	C308-F	5′-TGTCTCCAAACCACGAAC-3′	55°C
	C308-R	5′-TACAGAAGCCACAAGGGA-3′	55°C
SUC10	C243-F	5′-TGGTTATTGGGCAGTCAA-3′	55°C
	C243-R	5′-ACGGCAGTAAGCAGAGGT-3′	55°C
SUC11	C266-F	5′-AAAGCAACCCGAGATTTTCC-3′	60°C
	C266-R	5′-TAGGCGGAGAGGATGTAGGA-3′	60°C
SUC12	C363-F	5′-AGTTTGCACCCGGTAGTGAC-3′	59°C
	C363-R	5′-ATGATGCCACCCTACCACTC-3′	59°C
SUC13	C141-F	5′-GACCCAAGGGTCAATGTCTG-3′	57°C
	C141-R	5′-GCCCATCATACAATCCCTTC-3′	57°C
SUC14	C275-F	5′-ACCAGTGCCACTTCATCCTC-3′	60°C
	C275-R	5′-TGCTGGCTATTGTTGGACAG-3′	60°C
SUC15	C217-F	5′-TATGGCCATGGTGTTTATGG-3′	56°C
	C217-R	5′-AACGGTCCTTTTTGCACCTA-3′	56°C
SUC16	C214-F	5′-GGCCATTGAGCACCTAACAT-3′	56°C
	C214-R	5′-CATGGGTCAGCATCATCAAC-3′	56°C
SUC17	C404-F	5′-TAGTGGTGCGACCACACAAT-3′	60°C
	C404-R	5′-CGAACAGGGCCACTATGTCT-3′	60°C
SUC18	C190-F	5′-CCGTGACCCTTCAATGTTTT-3′	58°C
	C190-R	5′-CCAACTTCCAAAGGGCTACA-3′	58°C
SUC19	C211-F	5′-TTAGACCTTGCCCCCTTTTT-3′	57°C
	C211-R	5′-CCTGAGTAACATGATGGGTCCT-3′	57°C
SUC20	C288-F	5′-GCATAGCCTTTCAGGTGG-3′	56°C
	C288-R	5′-TCGGGTGAACGATGAGGT-3′	56°C
SUC21	C274-F	5′-AAACACTGGCTTAGGGCTGA-3′	58°C
	C274-R	5′-CAGCTCAGATCAAACGCTGA-3′	58°C
SUC22	C256-F	5′-CTGATTCTTACTATTGGTGGTG-3′	55°C
	C256-R	5′-TGGATGCTCTGCTGCTAT-3′	55°C
SUC23	C363-F	5′-AGTTTGCACCCGGTAGTGAC-3′	58°C
	C363-R	5′-ATGATGCCACCCTACCACTC-3′	58°C
SUC24	C244-F	5′-GACCTCTCCACCCCTAGACC-3′	57°C
	C244-R	5′-GGAGAAGCATGGTTCCAAAA-3′	57°C
SUC25	C169-F	5′-GTTGGTGATCCTGAGGGAAC-3′	56°C
	C169-R	5′-AGTCGAGTGCAGCCCTACAT-3′	56°C
SUC26	C436-F	5′-TCCAAAGGCATGAAGGAAAC-3′	58°C
	C436-R	5′-CGTCGTCATCTACCTGCTCA-3′	58°C
SUC27	C436-F	5′-TCCAAAGGCATGAAGGAAAC-3′	57°C
	C436-R	5′-CGTCGTCTACCTGCTCATCA-3′	57°C
SUC28	C315-F	5′-CTCCACCAGCTGATGTTCCT-3′	60°C
	C315-R	5′-ACCACAACATCACGGAATGA-3′	60°C
SUC29	C364-F	5′-AGTTTGCACCCGGTAGTGAC-3′	60°C
	C364-R	5′-GACGATGAGCCTCGTTTAGG-3′	60°C
SUC30	C217-F	5′-TATCCGGGGTGTTGTTATGG-3′	58°C
	C217-R	5′-AACGTCGCTTTTCGTAGCTA-3′	58°C
SUC31	C427-F	5′-CCCGTCCTAGAGAGGAGGTC-3′	58°C
	C427-R	5′-AGGTCTTTCAGGCAACATCG-3′	58°C
SUC32	C255-F	5′-TAAAGGCGACACCTCTAGGC-3′	57°C
	C255-R	5′-AACTTCAGGCTTTGGTGCTC-3′	57°C
SUC33	C291-F	5′-CACACAATGACCATGCAACA-3′	58°C
	C291-R	5′-AATGGCGAAGCAATGTTTTT-3′	58°C
SUC34	C312-F	5′-GGGTCACCGTCAGCCTACT-3′	56°C
	C312-R	5′-GGAGCCAGCACTCCATTT-3′	56°C
SUC35	C312-F	5′-TCCTTATGCCAGAGGGTCAC-3′	59°C
	C312-R	5′-GGAGCCAGCACTCCATTTTA-3′	59°C
SUC36	C270-F	5′-AAGGATCTTTGCAAGCATGG-3′	57°C
	C270-R	5′-AGGTCTTTCAGGCAACATCG-3′	57°C
SUC37	C206-F	5′-TCCTATGATGACTGCCAAGC-3′	58°C
	C206-R	5′-CAAACTTCCATGTTTCCTCCA-3′	58°C
SUC38	C217-F	5′-TATGGCCTGTGTGGTTATGG-3′	60°C
	C217-R	5′-AACGTCTCGTTTTGCAGCTA-3′	60°C
SUC39	C121-F	5′-TGAGGGAACCTGTTCGAG-3′	55°C
	C121-R	5′-GAGTGCAGCCCTACATTG-3′	55°C
SUC40	C142-F	5′-TTAGGAGATGTTGCTCCAAGC-3′	57°C
	C142-R	5′-GCCTCTTTCTTTCTTCCATGC-3′	57°C
25S rRNA	25S rRNA-F	5′-GCAGCCAAGCGTTCATAG-3′	56°C
	25S rRNA-R	5′-CGGCACGGTCATCAGTAG-3′	56°C