TABLE 3.
ORFs down-regulated during DMC cultivation
| ORF designation (description) | Replicon | Family | Cate- gorya | Signal peptide | Fold down- regulation |
|---|---|---|---|---|---|
| BBJ09 (outer surface protein D [ospD] [B. burgdorferi]) | lp38 | CE | + | −18.77 | |
| BBH16 (hypothetical protein) | lp28-3 | U | + | −12.81 | |
| BB102 (conserved hypothetical protein [B. burgdorferi]) | lp28-4 | 84 family | HX | − | −11.78 |
| BBA62 (lipoprotein [B. burgdorferi]) | lp54 | CE | + | −11.73 | |
| BBI39 (hypothetical protein) | lp28-4 | 54 family | U | + | −11.56 |
| BBD18 (hypothetical protein [B. burgdorferi]) | lp17 | U | − | −11.17 | |
| BBJ41 (antigen, P35, putative [B. burgdorferi]) | lp38 | 54 family | CE | + | −10.80 |
| BBI36 (antigen, P35, putative [B. burgdorferi]) | lp28-4 | 54 family | CE | + | −9.53 |
| BBA16 (outer surface protein B [ospB] [B. burgdorferi]) | lp54 | 53 family | CE | + | −8.66 |
| BBI38 (hypothetical protein) | lp28-4 | 54 family | U | + | −7.54 |
| BBA69 (hypothetical protein) | lp54 | 54 family | U | + | −6.65 |
| BBA68 (hypothetical protein) | lp54 | 54 family | U | + | −6.57 |
| BBH29 (conserved hypothetical protein [B. burgdorferi]) | lp28-3 | 49 family | HX | − | −5.90 |
| BBA15 (outer surface protein A [ospA] [B. burgdorferi]) | lp54 | 53 family | CE | + | −5.85 |
| BBA74 (outer membrane porin [oms28] [B. burgdorferi]) | lp54 | 171 family | CE | + | −5.79 |
| BBK45 (immunogenic protein P37, putative [B. burgdorferi]) | lp36 | 75 family | CE | + | −5.68 |
| BBA38 (hypothetical protein) | lp54 | 146 family | U | − | −5.40 |
| BBA61 (conserved hypothetical protein [Borrelia garinii]) | lp54 | HX | − | −5.18 | |
| BBA59 (lipoprotein [B. burgdorferi]) | lp54 | CE | + | −5.16 | |
| BB0152 (glucosamine-6-phosphate isomerase [nagB] [Haemophilus influenzae]) | Chromosome | IM | − | −4.68 | |
| BBA40 (hypothetical protein) | lp54 | 148 family | U | − | −4.54 |
| BBA39 (hypothetical protein) | lp54 | 147 family | U | − | −4.16 |
| BBQ15 (conserved hypothetical protein [B. burgdorferi]) | lp56 | 107 family | HX | − | −4.13 |
| BBR28 (lipoprotein [lp] [B. burgdorferi]) | cp32-4 | 113 family | HX | + | −3.90 |
| BBF06 (conserved hypothetical protein [B. burgdorferi]) | lp28-1 | 57 family | HX | − | −3.75 |
| BBJ19 (conserved hypothetical protein [B. burgdorferi]) | lp38 | 62 family | HX | − | −3.74 |
| BBL29 (conserved hypothetical protein [B. burgdorferi]) | cp32-8 | 161 family | HX | − | −3.72 |
| BBK13 (conserved hypothetical protein [Synechocystis sp. strain PCC6803]) | lp36 | 40 family | HX | + | −3.70 |
| BBP29 (conserved hypothetical protein [B. burgdorferi]) | cp32-1 | 161 family | HX | − | −3.68 |
| BBK39 (hypothetical protein) | lp36 | 59 family | U | − | −3.42 |
| BBP22 (conserved hypothetical protein [B. burgdorferi]) | cp32-1 | 142 family | HX | − | −3.26 |
| BBE19 (plasmid partition protein, putative [Bacillus subtilis]) | lp25 | 32 family | HX | − | −3.16 |
| BBN27 (conserved hypothetical protein [B. burgdorferi]) | cp32-9 | 80 family | HX | − | −3.12 |
| BBA56 (hypothetical protein) | lp54 | 160 family | U | − | −3.08 |
| BBH15 (hypothetical protein) | lp28-3 | U | − | −2.87 | |
| BBR27 (conserved hypothetical protein [B. burgdorferi]) | cp32-4 | 80 family | HX | − | −2.84 |
| BBA52 (outer membrane protein [B. burgdorferi]) | lp54 | CE | + | −2.78 | |
| BBN22 (conserved hypothetical protein, authentic frameshift [B. burgdorferi]) | cp32-9 | 142 family | HX | − | −2.72 |
| BBL28 (lipoprotein [B. burgdorferi]) | cp32-8 | 113 family | CE | + | −2.62 |
| BBR31 (conserved hypothetical protein [B. burgdorferi]) | cp32-4 | 57 family | HX | − | −2.60 |
| BBS31 (conserved hypothetical protein [B. burgdorferi]) | cp32-3 | 161 family | HX | − | −2.59 |
| BBO27 (conserved hypothetical protein [B. burgdorferi]) | cp32-7 | 80 family | HX | − | −2.54 |
| BBF09 (hypothetical protein, paralogous family 71, authentic frameshift) | lp28-1 | 71 family | U | − | −2.40 |
| BBK07 (hypothetical protein) | lp36 | 59 family | U | + | −2.40 |
| BBP30 (conserved hypothetical protein [B. burgdorferi]) | cp32-1 | 57 family | HX | − | −2.33 |
| BBJ31 (hypothetical protein) | lp38 | 59 family | U | − | −2.23 |
| BBA55 (hypothetical protein) | lp54 | 159 family | U | − | −2.18 |
| BBA73 (antigen, P35, putative [B. burgdorferi]) | lp54 | 54 family | CE | + | −2.14 |
| BBJ08 (hypothetical protein) | lp38 | 12 family | U | + | −2.09 |
| BB0248 (oligoendopeptidase F [pepF] [Lactococcus lactis]) | Chromosome | PD | − | −2.08 | |
| BBS25 (conserved hypothetical protein [B. burgdorferi]) | cp32-3 | 112 family | HX | − | −2.05 |
| BBE23.2 (hypothetical protein, authentic point mutation [B. burgdorferi]) | lp25 | 32 family | U | − | −2.05 |
| BBR34 (conserved hypothetical protein [B. burgdorferi]) | cp32-4 | 49 family | HX | − | −2.05 |
| BBN21 (hypothetical protein, paralogous family 141, authentic frameshift [B. burgdorferi]) | cp32-9 | 141 family | U | − | −2.04 |
| BBJ36 (hypothetical protein) | lp38 | 92 family | U | + | −1.99 |
| BBP28 (lipoprotein [B. burgdorferi]) | cp32-1 | 113 family | CE | + | −1.94 |
| BBL15 (hypothetical protein) | cp32-8 | 156 family | U | − | −1.91 |
| BBN29 (hypothetical protein, paralogous family 161, authentic point mutation [B. burgdorferi]) | cp32-9 | 161 family | U | − | −1.82 |
| BBF26.1 (conserved hypothetical protein, pseudogene [B. burgdorferi]) | lp28-1 | 101 family | HX | − | −1.81 |
| BB0757 (ATP-dependent Clp protease proteolytic component [clpP-2] [H. influenzae]) | Chromosome | 3 family | PD | − | −1.78 |
| BBN04 (hypothetical protein) | cp32-9 | 148 family | U | − | −1.78 |
| BBO25 (conserved hypothetical protein [B. burgdorferi]) | cp32-7 | 112 family | HX | − | −1.77 |
| BBR04 (hypothetical protein) | cp32-4 | 148 family | U | − | −1.77 |
| BBP13 (hypothetical protein) | cp32-1 | 154 family | U | − | −1.75 |
| BBR25 (conserved hypothetical protein [B. burgdorferi]) | cp32-4 | 112 family | HX | − | −1.61 |
| BBQ32 (conserved hypothetical protein [B. burgdorferi]) | lp56 | 112 family | HX | − | −1.55 |
| BBS09 (conserved hypothetical protein [B. burgdorferi]) | cp32-3 | 108 family | HX | − | −1.55 |
a
ARS, amino acid biosynthesis; B, biosynthesis; CE, cell envelope; CH, chemotaxis proteins; D, division; F, flagellar biosynthesis; FM, fatty acid metabolism; GM, growth and metabolism; HE, hemolytic proteins; HS, heat shock proteins; HX, hypothetical conserved proteins; IM, intermediary metabolism; NM, nucleotide metabolism; PD, protein degradation; PE, protein export; PM, protein metabolism; R, replication: RP, ribosomal proteins; TF, translation factors; TP, transporter proteins; TR, transcriptional regulation proteins; U, hypothetical proteins; X, other.