Table 3 Transcript-derived fragments (TDFs) from L. rhamnosus PR1019 over-expressed in CB compared to MRS
From: Transcriptomic clues to understand the growth of Lactobacillus rhamnosus in cheese
TDF no | Primer combination | Length (bp) | Biological functiona | Organism annotationb | Max identity - E-valuec | Accession no. | Pathway assignmentd | |
|---|---|---|---|---|---|---|---|---|
COGe | KEGG | |||||||
37 | AC/AT | 396 | Guanylate kinase (EC 2.7.4.8) | L. rhamnosus GG | 98% - 1e-84 | YP_003171760.1 | COG0194 [F] | ko00230: Purine metabolism |
40 | AC/AT | 302 | Putative phosphoketolase (EC 4.1.2.9) | L. rhamnosus GG | 99% - 3e-57 | YP_005864692.1 | COG3957 [G] | ko00030: Pentose phosphate pathway |
48 | AC/AT | 199 | Monooxygenase | L. rhamnosus Lc 705 | 95% - 6e-17 | YP_003174467.1 | COG2329: Conserved protein involved in polyketide biosynthesis related to monooxygenase [R] | _ |
54 | AC/AT | 137 | Hypothetical protein | L. rhamnosus | 77% - 2e-07 | WP_005689523.1 | _ | _ |
72 | AC/AT | 340 | Lipoteichoic acid synthase LtaS Type IIa (EC 3.1.6) | L. rhamnosus Lc 705 | 100% - 5e-43 | YP_003173514.1 | COG1368: Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [M] | _ |
76 | AC/AT | 433 | Conserved hypothetical protein | L. rhamnosus Lc 705 | 85% - 9e-27 | YP_003174890.1 | _ | _ |
86 | AC/AT | 109 | L-xylulose 5-phosphate 3-epimerase (EC 5.1.3.22) | L. rhamnosus GG | 94% - 9e-13 | YP_003172471.1 | COG3623 [G] | ko00040: Pentose and glucuronate interconversions |
93 | AC/AT | 305 | Pyruvate oxidase (EC 1.2.3.3) | L. rhamnosus GG | 93% - 5e-40 | YP_003171582.1 | COG3961: Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [G] | ko00620: Pyruvate metabolism |
95 | AC/AT | 229 | Plasmid pNCD0151 | L. casei | 98% - 4e-68 | Z50861.1 | _ | _ |
97 | AC/AT | 227 | Plasmid pNCD0151 | L. casei | 96% - 3e-64 | Z50861.1 | _ | _ |
106 | AC/AT | 170 | Plasmid pNCD0151 | L. casei | 97% - 9e-48 | Z50861.1 | _ | _ |
120 | AC/AT | 107 | Hypothetical protein | L. casei | 96% - 4e-10 | WP_003574536.1 | _ | _ |
121 | AC/AT | 105 | Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) | L. rhamnosus Lc 705 | 92% - 5e-08 | YP_003174148.1 | COG0131 [E] | ko00340: Hystidine metabolism |
122 | AC/AT | 102 | Plasmid pNCD0151 | L. casei | 96% - 5e-23 | Z50861.1 | _ | _ |
162 | AT/AC | 350 | Calcineurin-like phosphoesterase family protein | L. rhamnosus ATCC 8530 | 97% - 3e-70 | YP_005872999.1 | COG0737: 5′-nucleotidase/2′,3′-cyclic phosphodiesterase and related esterases [F] | _ |
168 | AT/AC | 238 | Plasmid pNCD0151 | L. casei | 98% - 1e-68 | Z50861.1 | _ | _ |
170 | AT/AC | 222 | Hypothetical protein | L. rhamnosus GG | 98% - 5e-34 | YP_003171844.1 | _ | _ |
211 | AT/AT | 240 | 5S ribosomal RNA | L. rhamnosus GG | 98% - 2e-11 | NR_103302.1 | _ | _ |
212 | AT/AT | 234 | 5S ribosomal RNA | L. rhamnosus GG | 98% - 4e-09 | NR_103302.1 | _ | _ |