Table 1.
Common genes differentially expressed in L. enzymogenes when interaction with P. aphanidermatum at three or two time points.
| Functional class | Gene ID | Predicted product | 24 ha | 48 ha | 96 ha |
|---|---|---|---|---|---|
| (Material transport and metabolism) | LysEGL001192 | 3-isopropylmalate dehydratase, large subunit [Stenotrophomonas maltophilia R551-3] | 2.1472 | 0.3341 | |
| LysEGL004694 | Homoserine dehydrogenase [Stenotrophomonas maltophilia R551-3] | 2.1263 | 30.2053 | ||
| LysEGL005055 | threonine dehydratase [Xanthomonas oryzae pv. oryzae MAFF 311018] | 2.5976 | 5.0192 | ||
| LysEGL005056 | 2-isopropylmalate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] | 2.5174 | 2.2174 | ||
| LysEGL005057 | glucose-methanol-choline oxidoreductase [Shewanella baltica OS185] | 3.1632 | 3.4588 | ||
| LysEGL005058 | probable 3-isopropylmalate dehydratase small subunit protein [Xanthomonas albilineans] | 3.305 | 2.3477 | ||
| LysEGL005060 | probable 3-isopropylmalate dehydrogenase protein [Xanthomonas albilineans] | 3.4322 | 3.2653 | ||
| LysEGL003463 | MprA [uncultured bacterium pTW2] | 0.4839 | 0.1612 | ||
| LysEGL003465 | MprA [uncultured bacterium pTW2] | 0.3175 | 0.2088 | ||
| LysEGL003920 | histidinol dehydrogenase [Xanthomonas campestris pv. campestris str. ATCC 33913] | 0.4333 | 14.0833 | ||
| LysEGL000904 | hypothetical glycosidase protein [Xanthomonas albilineans] | 2.0746 | 0.4041 | ||
| LysEGL003025 | Beta-N-acetylhexosaminidase [Flavobacterium johnsoniae UW101] | 2.5844 | 0.1912 | ||
| LysEGL003267 | beta-1,3-glucanase A [Lysobacter enzymogenes] | 2.17 | 0.192 | ||
| LysEGL004434 | beta-1,3-glucanase | 2.6574 | 0.4161 | ||
| LysEGL004595 | siroheme synthase [Bordetella petrii DSM 12804] | 0.4034 | 9.7748 | ||
| LysEGL002652 | sterol desaturase-like protein [Lysobacter enzymogenes] | 0.4566 | 0.3319 | ||
| LysEGL002649 (ox1) | Ox1 [Lysobacter enzymogenes] | 2.3545 | 0.1852 | ||
| LysEGL002651 (pks-nrps) | hybrid polyketide synthase and nonribosomal peptide synthetase [Lysobacter enzymogenes] | 3.1719 | 0.2333 | ||
| (Signal transduction) | LysEGL005226 | Universal stress protein family [Brevundimonas sp. BAL3] | 0.4774 | 0.4931 | 0.3729 |
| (General function predicted only) | LysEGL000447 | Putative secreted protein | 2.0648 | 2.0113 | 0.2671 |
| LysEGL001346 | R body protein RebB-like protein [Burkholderia sp. CCGE1003] | 2.1517 | 0.2081 | ||
| LysEGL001347 | R body protein RebB-like protein [Burkholderia sp. CCGE1003] | 2.2947 | 0.1672 | ||
| LysEGL002784 | lipase family protein [Cellvibrio japonicus Ueda107] | 2.2209 | 0.4031 | ||
| (Hypothetical protein) | LysEGL005221 | hypothetical protein Avin_19860 [Azotobacter vinelandii DJ] | 0.331 | 0.415 | 0.265 |
| LysEGL005222 | hypothetical protein Bpet0458 [Bordetella petrii DSM 12804] | 0.3243 | 0.4165 | 0.1208 | |
| LysEGL000784 | conserved hypothetical protein [Xanthomonas oryzae pv. oryzae KACC10331] | 0.3873 | 4.7785 | ||
| LysEGL003151 | hypothetical protein Swit_3175 [Sphingomonas wittichii RW1] | 0.2422 | 2.7647 | ||
| LysEGL003233 | hypothetical protein Bphyt_1886 [Burkholderia phytofirmans PsJN] | 5.7147 | 2.1411 | ||
| (Cell wall/membrane/envelope biogenesis) | LysEGL004924 | OmpW family outer membrane protein [Xanthomonas campestris pv. vesicatoria str. 85-10] | 2.2362 | 0.2816 | |
| (Defense mechanisms) | LysEGL003010 | polysaccharide biosynthesis protein [Prevotella melaninogenica ATCC 25845] | 2.4973 | 0.2803 | |
| (Function unknown and no hit) | LysEGL004918 | 0.3603 | 0.3502 | ||
| LysEGL005225 | 0.4782 | 0.385 | 0.0989 | ||
| LysEGL000217 | 2.3147 | 0.4931 | |||
| LysEGL002605 | 2.6681 | 0.3409 | |||
| LysEGL002606 | 2.3923 | 0.34 | |||
| (Energy production and conversion) | LysEGL005223 | Cytochrome d ubiquinol oxidase, subunit II [Rhodoferax ferrireducens T118] | 0.3095 | 0.3939 | 0.1493 |
| LysEGL005224 | Cytochrome D ubiquinol oxidase, subunit I [Legionella pneumophila str. Corby] | 0.3998 | 0.4066 | 0.1112 |
a
Red colors show up-regulated genes in L. enzymogenes caused by the presence of Pythium aphanidermatum, while green colors indicate down-regulated genes (Fold change ≥2 or ≤ 0.5).