<p> Table S8. Oligonucleotides, primers and RNA adaptors used in this work</p><p>Oligonucleotides or primers Sequence (5’ to 3’) source For cDNA library construction Biotin-CAUCGAUCCUGCAGGCUAGAGAC Takara, Dalian, China 3’ Sse8387 I-Adaptor (RNA) AAAGAUCCUGCAGGUGCGUCA Takara, Dalian, China 5’ Sse8387 I-Adaptor (RNA) GTCTCTAGCCTGCAGGATCGATG Takara, Dalian, China Sse8387-I specific reverse primer </p><p>(also used as RT-Primer)</p><p>Sse8387-I specific forward primer AAAGATCCTGCAGGTGCGTCA Takara, Dalian, China</p><p>For cDNA clone screening</p><p>M13 f/ M13 erv GTTTTCCCAGTCACGAC/AACAGCTATGACCATG Sangon, Shanghai, China</p><p>For sequencing</p><p>M13 erv AACAGCTATGACCATG Sangon, Shanghai, China For northern blottingZ</p><p>Probe-1(for sRNA-C1) Biotin- This work</p><p>GGCGGCCGGGTGCTTGAACACGGTCGTAGGGCCGCCCGCAG Probe-2 (for sRNA-C2) TTTTCCCCTTTCGGGTAT This work Probe-3 for sRNA-C3) Biotin- TTGCATTCTCCGCCATGAC This work Probe-4(for sRNA-C4) Biotin- TCGATGCCGTTGCTGCCTTCCGGCCCT This work Probe-5(for sRNA-C5) This work Biotin- CCCCTGGCGATGACCTACTCTCGCATGGCTTGAGC Probe-6(for sRNA-C6) This work Biotin- CCAGGGGATGGGAGAGATCT Probe-7(for sRNA-C7) This work Biotin- TGGTCAAGCCGCACGGATCATTAG</p><p>Biotin- For 5’-Race mappingZ GGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTCC Abridged Anchor Primer (AAP) Invitrogen, Carlsbad, USA AUAP GACTCCACCCCAGT Invitrogen, Carlsbad, USA 1GSP5-1(sRNA-Xcc1 specific) This work 1GSP5-2(sRNA-Xcc1 specific) GGCCACGCGTCGACTAGTACGGGIIGGGIIGGGIIG (I:deoxyinosine) This work 1GSP5-3(sRNA-Xcc1 specific) GGCCACGCGTCGACTAGTAC This work 2GSP5-1(sRNA-Xcc2 specific) GCGGCCGGGTGCTTG This work 2GSP5-2(sRNA-Xcc2 specific) TGCTTGAACACGGTCGTAGGGCG This work 2GSP5-3(sRNA-Xcc2 specific) AGGGCGCTCGCAGTTTTCCCCTTT This work 3GSP5-1(sRNA-Xcc3 specific) TTGCATTCTCCGCCATGA This work 3GSP5-2(sRNA-Xcc3 specific) CCGCCATGACGATGTGTGCGA 3GSP5-3(sRNA-Xcc3 specific) GGACGTTGTTAGGCCGTCGGGC This work</p><p>4GSP5-1(sRNA-Xcc4 specific) GGTGTCCCCGCCGGTT This work</p><p>4GSP5-2(sRNA-Xcc4 specific) TCCCCGCCGGTTGACCTCG This work</p><p>4GSP5-3(sRNA-Xcc4 specific) TGACCTCGGCGCCCGCATC This work</p><p>For 3’-Race mappingZ GCCCCTGGCGATGAC This work</p><p>3’- Adaptor (RNA) GGCGATGACCTACTCTCGCATG</p><p>3’Adaptor specific reverse primer GACCTACTCTCGCATGGCTTGAG Takara, Dalian, China</p><p>(also used as RT-Primer) Takara, Dalian, China</p><p>1GSP3-1(sRNA-Xcc1 specific) Biotin-CAUCGAUCCUGCAGGCUAGAGAC 1GSP3-2(sRNA-Xcc1 specific) GTCTCTAGCCTGCAGGATCGATG This work 2GSP3-1(sRNA-Xcc2 specific) This work</p><p>2GSP3-1(sRNA-Xcc2 specific) This work GGCCGGGTGGAAGGGCAGCTAT 3GSP3-1(sRNA-Xcc3 specific) This work GCAATACCCGAAAGGGGAAAACTGCG 3GSP3-2(sRNA-Xcc3 specific) This work GCGTTCTCTGCTGTGAACGACGGTGTG 4GSP3-1(sRNA-Xcc4 specific) This work CGGTGTGCAAAACATTCGCCTTGT 4GSP3-2(sRNA-Xcc4 specific) This work CCGCCAGGGCCGGAAGGCA This work AGGCAGCAACGGTATCGATTGATG</p><p>CTCAAGCCATGCGAGAGTAGGTCAT</p><p>ATGCGAGAGTAGGTCATCGCCAGG z These primers were designed according to the genomic sequence of X. campestris</p><p> pv. campestris strain 8004 [S1], and were synthesized and 5’-biotin labeled by Sangon</p><p>Biological Engineering Technology & Services Co., Ltd (Shanghai, China).</p><p>S1. Qian W, Jia Y, Ren SX, He YQ, Feng JX, Lu LF, Sun Q, Ying G, Tang DJ, Tang</p><p>H, Wu W, Hao P, Wang L, Jiang BL, Zeng S, Gu WY, Lu G, Rong L, Tian Y, Yao Z,</p><p>Fu G, Chen B, Fang R, Qiang B, Chen Z, Zhao GP, Tang JL, He C: Comparative</p><p> and functional genomic analyses of the pathogenicity of phytopathogen</p><p>Xanthomonas campestris pv. campestris. Genome Res 2005, 15:757-767.</p>