DgcA, a diguanylate cyclase from Xanthomonas oryzae pv. oryzae regulates bacterial
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- Άρχέλαος Μνάσων Κανακάρης-Ρούφος
- 6 χρόνια πριν
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1 DgcA, a diguanylate cyclase from Xanthomonas oryzae pv. oryzae regulates bacterial pathogenicity on rice Jianmei Su 1, Xia Zou 1, Liangbo Huang 1, Tenglong Bai 1, Shu Liu 1, Meng Yuan 2, Shan-Ho Chou 3, Ya-Wen He 4, Haihong Wang 5, Jin He 1 *. 1 State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei , China. 2 National Key Laboratory of Crop Genetic Improvement, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei , China. 3 Institute of Biochemistry, and NCHU Agricultural Biotechnology Center, National Chung Hsing University, Taichung 40227, Taiwan. 4 State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai , China. 5 College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong , China. *Corresponding author: hejin@mail.hzau.edu.cn (JH) 1
2 Section A: supplementary figures Figure S1. Multidomain architectures of DGCs and sequence alignment of DgcA with XCC3486. (a) Architectures of GGDEF domain-containing proteins with a GGDEF or GGEEF motifs in the Xoo genome. Predicted TM regions are shown as orange rectangles. (b) The amino acid sequence alignment of DgcA (XOO3988) in this study with XCC3486 from Xcc. 2
3 Figure S2. Purified tdgca is active as a DGC in vitro. (a) SDS-PAGE analysis of purified tdgca. Lane M: molecular markers; Lane 1: purified tdgca. (b), (c) and (d) were the HPLC chromatograms of the in vitro reaction products of tdgca, the GTP standard and c-di-gmp standard, respectively. 3
4 Figure S3. Construction and verification of the WT, ΔdgcA, OdgcA and CdgcA strains. (a) Schematic diagram of the gene deletion construct. Allelic homologous recombination strategy was applied with the suicide vector pk18mobsacb by replacing dgca with Gm gene. (b) PCR analyses of the ΔdgcA and CdgcA strains. Products were amplified using primer pair Gm-F and dgca-down-r from ΔdgcA (lanes 1-2) and CdgcA strains (lanes 3-4) because both strains contained a replaced Gm gene; M: DL2000 DNA ladder. (c) PCR confirmation of the WT, ΔdgcA, OdgcA and CdgcA strains. Products were amplified using primer pair Gm-F and Gm-R from WT (lanes 1-2), ΔdgcA (lanes 3-4), CdgcA (lanes 5-6) and OdgcA (lanes 7-8) strains, respectively. Meanwhile, since OdgcA and CdgcA strains harbored a kan gene from pbbr1mcs-dgca plasmid, another primer pair Kan-F and Kan-R was also used to amplify products from WT (lanes 9-10), ΔdgcA (lanes 11-12), CdgcA (lanes 13-14) and OdgcA (lanes 15-16) strains, respectively. M: DL2000 DNA ladder. (d) Verification of the DgcA protein in the CdgcA and OdgcA strains by Western blotting assay with the anti-his mouse monoclonal antibody. M: protein marker; Lane 1: supernatant of CdgcA; Line 2: supernatant of OdgcA; Line 3: supernatant sample of WT. 4
5 Figure S4. In Planta virulence test of the WT, ΔdgcA, OdgcA, CdgcA and Xoo-pBBR strains. (a) Leaf segments of rice cultivar Zhonghua 11 (ZH11) showing rice blight symptoms. Typical leaves were photographed after infection for 12 days with the four different strains. (b) Measurement of the mean lesion lengths 12 days post inoculation. Leaf without bacterial inoculation were served as a control. (c) Determination of bacterial population in rice leaves at four specific time points (3, 6, 9, 12 days after inoculation). The values were means ± standard deviations for triplicate assays. Significances of differences by Student s t-test are indicated (**P<0.01; *P<0.05; NS, P>0.05). 5
6 Figure S5. GO tree displays enrich genes associated with certain biological process. (a) GO enrichment of up-regulated DGEs. (b) GO enrichment of down-regulated DGEs. The color of the nodes indicates their significance according to the p value. 6
7 Figure S6. Mapping information of dgca (XOO3988) and its downstream gene pepn (XOO3989). The clean reads of WT and ΔdgcA were well mapped to the genome by Artemis software. 7
8 Section B: supplementary tables Sample Raw_reads Before clean After clean Kept_reads WT Xoo-wt-F.fq % Xoo-wt-R.fq % dgca Xoo dgca-f.fq % Xoo dgca-r.fq % Table S1. Statistics of reads that cleaned up. 8
9 gene locus_tag function length ΔdgcA WT ΔdgcA/WT ΔdgcA/WT GeneID protein_id product gi reads RPKM reads RPKM log2 (Fold_ change) normalized q-value result gi ref YP_ XOO0006 hypothetical protein E-16 down YP_ gi ref YP_ XOO0029 TonB-dependent receptor E-17 down YP_ iron gi ref YP_ XOO0032 transposase E-149 up YP_ gi ref YP_ XOO0111 hypothetical protein E-60 down YP_ gi ref YP_ XOO0119 methylamine utilization protein E-22 up YP_ maug gi ref YP_ XOO0122 transposase E-168 up YP_ gi ref YP_ XOO0131 VirK protein down YP_ virk gi ref YP_ XOO0136 transposase E-54 up YP_ gi ref YP_ XOO0161 transposase E-138 up YP_ gi ref YP_ XOO0166 ATP-dependent RNA helicase E-61 up YP_ gi ref YP_ XOO0167 hypothetical protein E-12 up YP_ gi ref YP_ XOO0168 avirulence protein E-33 down YP_ avrbs gi ref YP_ XOO0181 IS30 family transposase E-08 down YP_ gi ref YP_ XOO0182 transposase E-208 up YP_ gi ref YP_ XOO0200 transposase E-68 up YP_ gi ref YP_ XOO0201 transposase E-27 up YP_ gi ref YP_ XOO0282 cellulase E-144 down YP_ egl gi ref YP_ XOO0283 cellulase E-250 down YP_ egl gi ref YP_ XOO0297 transposase E-47 up YP_ gi ref YP_ XOO0300 transposase E-251 up YP_ gi ref YP_ XOO0312 acetyltransferase E-20 up YP_ gi ref YP_ XOO0313 transposase E-219 up YP_ gi ref YP_ XOO0342 transposase E-142 up YP_ gi ref YP_ XOO0414 transposase E-111 up YP_ gi ref YP_ XOO0415 transposase up YP_ gi ref YP_ XOO0416 membrane-fusion protein E-20 up YP_ gi ref YP_ XOO0417 catalase down YP_ catb gi ref YP_ XOO0418 ankyrin-like protein E-21 down YP_ ankb gi ref YP_ XOO0419 hypothetical protein E-98 down YP_ gi ref YP_ XOO0545 transposase up YP_ gi ref YP_ XOO0546 transposase E-101 up YP_ gi ref YP_ XOO0561 C-type cytochrome biogenesis protein (copper tolerance) E-28 up YP_ dsbd gi ref YP_ XOO0563 transposase E-187 up YP_ gi ref YP_ XOO0611 hypothetical protein E-44 up YP_
10 gi ref YP_ XOO0620 transposase E-165 up YP_ gi ref YP_ XOO0669 hypothetical protein E-51 up YP_ gi ref YP_ gi ref YP_ gi ref YP_ XOO0670 XOO0687 XOO0688 DNA polymerase related protein E-38 up YP_ flagellar motor protein MotB E-84 down YP_ motb flagellar motor protein MotA E-67 down YP_ mota gi ref YP_ XOO0690 methionine sulfoxide reductase B up YP_ gi ref YP_ XOO0716 hypothetical protein up YP_ gi ref YP_ XOO0737 histidine kinaseresponse regulator hybrid protein up YP_ stys gi ref YP_ XOO0739 transposase E-138 up YP_ gi ref YP_ XOO0747 hypothetical protein E-88 down YP_ gi ref YP_ XOO0748 hypothetical protein down YP_ gi ref YP_ XOO0786 IS1478 transposase down YP_ gi ref YP_ gi ref YP_ gi ref YP_ XOO0793 XOO0794 XOO0795 glucose-1-phosphate thymidylyltransferas e E-27 up YP_ rmla dtdp-4- dehydrorhamnose 3,5-epimerase E-31 up YP_ rmlc dtdp-4- dehydrorhamnose reductase E-26 up YP_ rmld gi ref YP_ XOO0812 gi ref YP_ XOO0853 ribosomal-proteinalanine acetyltransferase down YP_ rimi general secretion pathway protein K E-16 down YP_ xpsk gi ref YP_ XOO0874 transposase E-118 up YP_ gi ref YP_ XOO0875 transposase up YP_ gi ref YP_ XOO0879 hypothetical protein down YP_ gi ref YP_ XOO0917 IS1595 transposase E-104 up YP_ gi ref YP_ XOO0932 transposase E-95 up YP_ gi ref YP_ XOO0956 transposase E-206 up YP_ gi ref YP_ XOO0957 H+ translocating pyrophosphate synthase E-77 down YP_ gi ref YP_ XOO0960 transposase E-152 up YP_ gi ref YP_ XOO0979 disulfide bond formation protein B E-11 down YP_ dsbb gi ref YP_ XOO0980 IS1478 transposase up YP_ gi ref YP_ XOO0989 transposase E-87 up YP_ gi ref YP_ XOO1003 transposase E-135 up YP_ gi ref YP_ XOO1023 transposase E-185 up YP_ gi ref YP_ XOO1053 transposase E-141 up YP_ gi ref YP_ XOO1062 molybdopterinconverting factor subunit down YP_ moad
11 gi ref YP_ XOO1089 ISXo8 transposase E-06 down YP_ gi ref YP_ gi ref YP_ gi ref YP_ gi ref YP_ XOO1158 XOO1159 XOO1160 XOO1161 fimbrial assembly membrane protein E-177 down YP_ piln fimbrial assembly membrane protein E-88 down YP_ pilo fimbrial assembly protein E-91 down YP_ pilp fimbrial assembly protein down YP_ pilq gi ref YP_ XOO1206 transposase E-126 up YP_ gi ref YP_ XOO1217 hypothetical protein down YP_ gi ref YP_ XOO1273 gi ref YP_ XOO1274 quinol oxidase subunit I E-91 down YP_ quinol oxidase subunit II E-72 down YP_ qxtb gi ref YP_ XOO1315 transposase E-168 up YP_ gi ref YP_ XOO1320 transposase E-161 up YP_ gi ref YP_ XOO1356 transporter up YP_ ycee gi ref YP_ XOO1380 HrpX protein E-76 down YP_ hrpxct gi ref YP_ XOO1392 IS1404 transposase E-07 up YP_ gi ref YP_ XOO1393 transposase E-133 up YP_ gi ref YP_ XOO1399 IS1479 transposase E-08 down YP_ gi ref YP_ XOO1413 peptidase up YP_ gi ref YP_ XOO1444 transposase E-132 up YP_ gi ref YP_ XOO1459 endonuclease V E-09 up YP_ nfi gi ref YP_ XOO1465 gi ref YP_ XOO1466 chemotaxis-specific methylesterase E-104 down YP_ cheb response regulator for chemotaxis E-82 down YP_ cher gi ref YP_ XOO1467 response regulator E-149 down YP_ viea gi ref YP_ XOO1468 chemotaxis protein down YP_ chew gi ref YP_ XOO1469 chemotaxis protein down YP_ mcp gi ref YP_ XOO1470 chemotaxis histidine protein kinase down YP_ chea gi ref YP_ XOO1471 hypothetical protein E-55 down YP_ gi ref YP_ XOO1481 hypothetical protein up YP_ cred gi ref YP_ XOO1487 cysteine protease E-150 down YP_ gi ref YP_ XOO1515 hypothetical protein up YP_ gi ref YP_ XOO1551 hypothetical protein E-37 down YP_ gi ref YP_ XOO1586 pilin E-276 down YP_ pile gi ref YP_ XOO1680 phage-related integrase up YP_ int gi ref YP_ XOO1681 hypothetical protein E-305 up YP_ gi ref YP_ XOO1682 hypothetical protein up YP_ gi ref YP_ XOO1683 hypothetical protein up YP_ gi ref YP_ XOO1684 hypothetical protein E-102 up YP_
12 gi ref YP_ XOO1685 hypothetical protein up YP_ gi ref YP_ XOO1686 hypothetical protein up YP_ gi ref YP_ XOO1687 hypothetical protein up YP_ gi ref YP_ XOO1688 hypothetical protein E-28 up YP_ gi ref YP_ gi ref YP_ gi ref YP_ XOO1689 XOO1690 XOO1691 phage-related tail protein up YP_ phage-related tail protein E-183 up YP_ phage-related tail protein up YP_ gi ref YP_ XOO1692 hypothetical protein E-179 up YP_ gi ref YP_ gi ref YP_ gi ref YP_ gi ref YP_ gi ref YP_ XOO1693 XOO1694 XOO1695 XOO1696 XOO1697 phage-related tail protein up YP_ phage-related tail protein up YP_ phage-related tail protein up YP_ phage-related baseplate protein up YP_ phage-related baseplate protein up YP_ gi ref YP_ XOO1698 hypothetical protein up YP_ gi ref YP_ gi ref YP_ XOO1699 XOO1700 phage-related tail protein up YP_ phage-related baseplate assembly protein up YP_ gi ref YP_ XOO1701 hypothetical protein up YP_ gi ref YP_ gi ref YP_ XOO1702 XOO1703 phage-related tail protein up YP_ phage-related tail protein up YP_ gi ref YP_ XOO1704 hypothetical protein up YP_ gi ref YP_ XOO1705 phage-related lytic enzyme up YP_ lys gi ref YP_ XOO1706 hypothetical protein up YP_ gi ref YP_ XOO1707 hypothetical protein up YP_ gi ref YP_ XOO1708 phage-related tail protein E-144 up YP_ gi ref YP_ gi ref YP_ gi ref YP_ XOO1709 XOO1710 XOO1712 phage-related capsid completion protein up YP_ phage-related terminase up YP_ phage-related major capsid protein up YP_ gi ref YP_ gi ref YP_ XOO1713 XOO1714 phage-related capsid scaffold protein up YP_ phage-related terminase up YP_ gi ref YP_ XOO1715 gi ref YP_ XOO1717 phage-related capsid packaging protein up YP_ site-specific DNAmethyltransferase up YP_ gi ref YP_ XOO1718 hypothetical protein E-67 up YP_ gi ref YP_ XOO1726 transposase E-199 up YP_ gi ref YP_ XOO1742 hypothetical protein E-08 up YP_
13 gi ref YP_ XOO1746 pilus protein down YP_ pilg gi ref YP_ XOO1747 PilH protein E-50 down YP_ pilh gi ref YP_ gi ref YP_ XOO1748 XOO1749 pilus biogenesis protein E-101 down YP_ pili pilus biogenesis protein E-176 down YP_ pilj gi ref YP_ gi ref YP_ XOO1754 XOO1784 ribosomal protein alanine acetyltransferase E-09 down YP_ rimj TonB-dependent receptor down YP_ iron gi ref YP_ XOO1864 polyketide synthase up YP_ frne gi ref YP_ XOO1887 hypothetical protein down YP_ gi ref YP_ XOO1949 transposase E-38 up YP_ gi ref YP_ gi ref YP_ XOO1978 XOO1981 pili assembly chaperone E-28 down YP_ pili assembly chaperone E-58 down YP_ ecpd gi ref YP_ XOO1982 protein U E-51 down YP_ pru gi ref YP_ XOO1998 MarR family transcriptional regulator E-09 up YP_ yyba gi ref YP_ XOO2010 transposase up YP_ gi ref YP_ XOO2011 transposase E-117 up YP_ gi ref YP_ XOO2087 transposase E-33 up YP_ gi ref YP_ XOO2088 transposase E-124 up YP_ gi ref YP_ XOO2100 transposase E-109 up YP_ gi ref YP_ XOO2102 ISXo8 transposase down YP_ gi ref YP_ XOO2107 transposase E-112 up YP_ gi ref YP_ XOO2158 transposase E-160 up YP_ gi ref YP_ XOO2203 hypothetical protein down YP_ gi ref YP_ gi ref YP_ XOO2204 XOO2227 methyl-accepting chemotaxis protein down YP_ tlpc two-component system regulatory protein E-24 down YP_ regr gi ref YP_ XOO2235 hypothetical protein up YP_ gi ref YP_ XOO2285 transposase E-129 up YP_ gi ref YP_ XOO2301 transposase E-127 up YP_ gi ref YP_ XOO2302 hypothetical protein E-15 up YP_ gi ref YP_ XOO2348 hypothetical protein E-69 down YP_ gi ref YP_ XOO2354 hypothetical protein E-236 down YP_ gi ref YP_ gi ref YP_ XOO2377 XOO2479 cation efflux system protein up YP_ czca site-specific recombinase up YP_ gi ref YP_ XOO2516 transposase E-194 up YP_ gi ref YP_ XOO2558 chemotaxis protein down YP_ mcp gi ref YP_ XOO2559 hypothetical protein E-21 down YP_
14 gi ref YP_ XOO2561 hypothetical protein E-101 down YP_ gi ref YP_ XOO2565 hypothetical protein E-285 down YP_ gi ref YP_ XOO2566 flagellar protein down YP_ flgm gi ref YP_ XOO2567 flagellar basal body P-ring biosynthesis protein FlgA E-149 down YP_ flga gi ref YP_ XOO2568 chemotaxis protein E-159 down YP_ chev gi ref YP_ gi ref YP_ gi ref YP_ gi ref YP_ XOO2569 XOO2570 XOO2571 XOO2572 gi ref YP_ XOO2574 gi ref YP_ XOO2575 gi ref YP_ XOO2576 flagellar basal-body rod protein FlgB E-90 down YP_ flgb flagellar basal body rod protein FlgC E-101 down YP_ flgc flagellar basal body rod modification protein E-221 down YP_ flgd flagellar hook protein FlgE down YP_ flge flagellar basal body rod protein FlgF E-140 down YP_ flgf flagellar basal body rod protein FlgG E-264 down YP_ flgg flagellar basal body L-ring protein E-233 down YP_ flgh gi ref YP_ gi ref YP_ gi ref YP_ XOO2577 XOO2578 XOO2579 flagellar basal body P-ring biosynthesis protein FlgA E-163 down YP_ flgi flagellar rod assembly protein/muramidase FlgJ E-113 down YP_ flgj flagellar hookassociated protein FlgK E-115 down YP_ flgk gi ref YP_ XOO2580 flagellar hookassociated protein FlgL E-121 down YP_ flgl gi ref YP_ XOO2581 flagellin down YP_ flic gi ref YP_ XOO2582 flagellar protein down YP_ flid gi ref YP_ XOO2583 flagellar protein E-113 down YP_ flis gi ref YP_ XOO2584 hypothetical protein E-130 down YP_ gi ref YP_ XOO2585 hypothetical protein E-31 down YP_ gi ref YP_ XOO2587 RNA polymerase sigma-54 factor E-267 down YP_ rpon gi ref YP_ XOO2588 response regulator E-43 down YP_ gi ref YP_ XOO2591 acyl carrier protein E-17 down YP_ acp gi ref YP_ gi ref YP_ XOO2592 XOO oxoacyl-ACP synthase E-56 down YP_ fabh oxoacyl-ACP reductase E-17 down YP_ fabg gi ref YP_ XOO2594 dehydrogenase E-29 down YP_ gi ref YP_ XOO2596 ring hydroxylating dioxygenase subunit alpha E-39 down YP_ gi ref YP_ XOO2598 hypothetical protein E-38 down YP_ gi ref YP_ XOO2600 flagellar protein E-30 down YP_ flie gi ref YP_ XOO2601 flagellar MS-ring protein E-242 down YP_ flif gi ref YP_ XOO2602 flagellar protein E-96 down YP_ flig
15 gi ref YP_ XOO2604 flagellar protein E-34 down YP_ flii gi ref YP_ XOO2607 flagellar protein E-62 down YP_ flil gi ref YP_ XOO2608 flagellar motor switch protein FliM E-34 down YP_ flim gi ref YP_ XOO2609 flagellar protein E-13 down YP_ flin gi ref YP_ XOO2610 flagellar protein E-19 down YP_ flio gi ref YP_ gi ref YP_ gi ref YP_ XOO2611 XOO2612 XOO2613 flagellar biosynthesis protein FliP E-19 down YP_ flip flagellar biosynthesis E-22 down YP_ fliq flagellar biosynthetic protein E-15 down YP_ flir gi ref YP_ XOO2614 diguanylate cyclase E-43 down YP_ gi ref YP_ XOO2616 diguanylate cyclase E-11 down YP_ gi ref YP_ XOO2617 flagellar biosynthesis protein FlhB E-65 down YP_ flhb gi ref YP_ XOO2618 flagellar biosynthesis protein FlhA E-69 down YP_ flha gi ref YP_ XOO2619 gi ref YP_ gi ref YP_ XOO2620 XOO2621 flagellar biosynthesis regulator FlhF E-157 down YP_ flhf flagellar biosynthesis switch protein E-108 down YP_ flen RNA polymerase sigma factor FliA down YP_ flia gi ref YP_ XOO2622 chemotaxis protein E-216 down YP_ chey gi ref YP_ gi ref YP_ XOO2623 XOO2624 chemotaxis related protein E-155 down YP_ chez chemotaxis related protein down YP_ chea gi ref YP_ XOO2642 transporter E-07 up YP_ acrd gi ref YP_ XOO2648 transposase E-140 up YP_ gi ref YP_ XOO2661 cytochrome D ubiquinol oxidase subunit II up YP_ cydb gi ref YP_ XOO2738 virulence protein E-11 down YP_ acvb gi ref YP_ XOO2749 transposase E-202 up YP_ gi ref YP_ XOO2782 glutamine synthetase E-34 down YP_ glna gi ref YP_ XOO2787 transcriptional regulator E-238 down YP_ rrpx gi ref YP_ XOO2807 transposase E-137 up YP_ gi ref YP_ gi ref YP_ gi ref YP_ XOO2830 XOO2831 XOO2832 flagellar motor protein E-189 down YP_ motc flagellar motor protein MotD E-91 down YP_ motb chromosome partioning protein E-144 down YP_ para gi ref YP_ XOO2833 chemotaxis protein down YP_ chew gi ref YP_ XOO2834 hypothetical protein E-197 down YP_ gi ref YP_ XOO2835 chemotaxis response regulator E-140 down YP_ chey gi ref YP_ XOO2836 chemotaxis protein down YP_ chea
16 gi ref YP_ XOO2840 chemotaxis protein E-115 down YP_ tsr gi ref YP_ XOO2841 transposase E-156 up YP_ gi ref YP_ XOO2842 chemotaxis protein down YP_ tsr gi ref YP_ XOO2844 chemotaxis protein down YP_ tsr gi ref YP_ XOO2847 chemotaxis protein down YP_ tsr gi ref YP_ XOO2848 chemotaxis protein down YP_ tsr gi ref YP_ XOO2849 hypothetical protein E-52 down YP_ gi ref YP_ XOO2850 chemotaxis protein E-136 down YP_ chew gi ref YP_ XOO2857 chemotaxis protein methyltransferase E-202 down YP_ cher gi ref YP_ XOO2883 transposase E-134 up YP_ gi ref YP_ XOO2940 recombination regulator RecX E-100 up YP_ recx gi ref YP_ XOO2941 recombinase A up YP_ reca gi ref YP_ XOO2981 ABC transporter ATP-binding protein E-06 up YP_ gi ref YP_ XOO3000 cytochrome C up YP_ gi ref YP_ XOO3012 hypothetical protein up YP_ gi ref YP_ XOO3095 transposase E-53 up YP_ gi ref YP_ XOO3097 transposase E-121 up YP_ gi ref YP_ XOO3109 transposase E-164 up YP_ gi ref YP_ XOO3125 peptidase E-12 up YP_ gi ref YP_ XOO3126 hypothetical protein E-12 down YP_ gi ref YP_ XOO3195 type IV pilin E-30 up YP_ pile gi ref YP_ XOO3196 protein PilY up YP_ pily gi ref YP_ XOO3197 transposase E-299 up YP_ gi ref YP_ XOO3199 protein PilX E-73 down YP_ pilx gi ref YP_ XOO3200 hypothetical protein down YP_ gi ref YP_ gi ref YP_ XOO3201 XOO3202 pre-pilin leader sequence E-95 down YP_ pilv pre-pilin like leader sequence E-131 down YP_ fimt gi ref YP_ XOO3207 hypothetical protein down YP_ gi ref YP_ XOO3246 phosphodiesterase E-69 down YP_ gi ref YP_ XOO3247 hypothetical protein E-104 down YP_ gi ref YP_ XOO3268 hypothetical protein down YP_ gi ref YP_ XOO3284 IS1595 transposase E-45 up YP_ gi ref YP_ XOO3300 extracellular protease up YP_ gi ref YP_ XOO3345 hypothetical protein E-43 down YP_ gi ref YP_ XOO3346 transposase E-106 up YP_ gi ref YP_ XOO3353 transposase E-10 up YP_
17 gi ref YP_ XOO3354 transposase E-25 up YP_ gi ref YP_ XOO3364 hypothetical protein E-29 down YP_ gi ref YP_ XOO3375 hypothetical protein E-15 down YP_ gi ref YP_ XOO3380 gi ref YP_ gi ref YP_ XOO3381 XOO3388 fumarylacetoacetate hydrolase E-49 up YP_ large-conductance mechanosensitive channel E-220 up YP_ mscl trna/rrna methyltransferase E-50 up YP_ gi ref YP_ XOO3391 transposase E-198 up YP_ gi ref YP_ XOO3392 hypothetical protein E-08 up YP_ gi ref YP_ XOO3393 aminopeptidase E-50 up YP_ pepn gi ref YP_ XOO3394 acriflavin resistance protein E-63 up YP_ acrf gi ref YP_ XOO3395 RND efflux membrane fusion protein E-30 up YP_ gi ref YP_ XOO3396 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase E-86 up YP_ nodq gi ref YP_ XOO3397 gi ref YP_ XOO3400 gi ref YP_ XOO3401 sulfate adenylyltransferase subunit E-57 up YP_ raxp sulfite reductase subunit beta E-21 up YP_ cysi phosphoadenosine phosphosulfate reductase E-10 up YP_ cysh gi ref YP_ XOO3612 hypothetical protein E-111 down YP_ gi ref YP_ gi ref YP_ XOO3646 XOO3647 alkyl hydroperoxide reductase E-78 down YP_ ahpf oxidative stress transcriptional regulator E-66 down YP_ oxyr gi ref YP_ XOO3725 hypothetical protein E-22 up YP_ gi ref YP_ XOO3737 transposase E-143 up YP_ gi ref YP_ gi ref YP_ XOO3751 XOO3846 dihydrofolate reductase type III E-21 up YP_ fola potassiumtransporting ATPase subunit A up YP_ kdpa gi ref YP_ XOO3910 transposase E-194 up YP_ gi ref YP_ XOO3935 two-component system regulatory protein E-28 down YP_ gi ref YP_ XOO3988 response regulator E-142 down YP_ gi ref YP_ XOO3989 aminopeptidase up YP_ pepn gi ref YP_ XOO4003 hypothetical protein E-28 up YP_ gi ref YP_ XOO4008 two-component system regulatory protein E-48 down YP_ algr gi ref YP_ XOO4021 histidine kinaseresponse regulator hybrid protein E-121 down YP_ gi ref YP_ XOO4030 trehalase E-47 down YP_ trea
18 gi ref YP_ XOO4048 threonine aldolase up YP_ gi ref YP_ XOO4076 nuclease E-08 up YP_ nuch gi ref YP_ XOO4077 Pyruvate dehydrogenase e1 component subunit alpha up YP_ pdha gi ref YP_ XOO4079 transposase E-160 up YP_ gi ref YP_ XOO4081 Pyruvate dehydrogenase E1 component subunit beta E-30 up YP_ pdhb gi ref YP_ XOO4082 hypothetical protein up YP_ gi ref YP_ XOO4097 hypothetical protein down YP_ gi ref YP_ XOO4105 transposase E-234 up YP_ gi ref YP_ XOO4112 hypothetical protein up YP_ gi ref YP_ XOO4117 transposase E-237 up YP_ gi ref YP_ XOO4118 transposase E-13 up YP_ gi ref YP_ XOO4121 transposase E-210 up YP_ gi ref YP_ XOO4147 transposase E-118 up YP_ gi ref YP_ XOO4150 bacterioferritinassociated ferredoxin down YP_ gi ref YP_ XOO4193 transposase E-150 up YP_ gi ref YP_ XOO4204 hypothetical protein E-08 up YP_ gi ref YP_ XOO4217 hypothetical protein up YP_ gi ref YP_ XOO4220 hypothetical protein E-65 down YP_ gi ref YP_ XOO4223 transposase up YP_ gi ref YP_ XOO4224 transposase E-133 up YP_ gi ref YP_ XOO4275 hypothetical protein up YP_ gi ref YP_ XOO4281 transposase E-25 up YP_ gi ref YP_ XOO4287 hypothetical protein E-30 down YP_ gi ref YP_ XOO methyltetrahydropte royltriglutamate/ho mocysteine S- methyltransferase down YP_ mete gi ref YP_ XOO4334 hypothetical protein down YP_ gi ref YP_ XOO4335 NADH-dependent FMN reductase E-102 down YP_ sfla gi ref YP_ XOO4356 alpha/beta hydrolase E-09 up YP_ gi ref YP_ XOO4357 transposase E-121 up YP_ gi ref YP_ XOO4431 TonB-dependent receptor E-15 down YP_ cira gi ref YP_ XOO4440 transposase E-134 up YP_ gi ref YP_ XOO4441 transposase E-21 up YP_ gi ref YP_ XOO4442 hypothetical protein up YP_
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