Figure S1: Ammonium, nitrite and nitrate concentrations in continuous cultures over time: Nitrosomonas sp. Is79 (A), Nitrosomonas sp. Is79 and N. winogradskyi (B and C) and the enrichment culture G5-7 (D and E).

0

1000

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5000

0 100 200 300 400 500 600

NH

4+ , NO

2- or N

O3- C

once

ntra

tion

[uM

]

Times (hours)

B

0

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5000

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NH

4+ , NO

2- or N

O3- C

once

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tion

[uM

]

Times (hours)

C

0

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3000

4000

5000

0 100 200 300 400 500 600

NH

4+ , NO

2- or N

O3- C

once

ntra

tion

[uM

]

Times (hours)

D

0

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2000

3000

4000

5000

0 100 200 300 400 500 600

NH

4+ , NO

2- or N

O3- C

once

ntra

tion

[uM

]

Times (hours)

E

0

1000

2000

3000

4000

5000

0 100 200 300 400 500 600

NH

4+ , NO

2- or N

O3- C

once

ntra

tion

[uM

]

Times (hours)

AAmmoniumNitriteNitrate

Figure S2: SDS-PAGE of whole cell extracts from the enrichment culture G5-7 (Lane 2 and 3), the co-culture Nitrosomonas sp. Is79 with N. winogradskyi (Lane 4 and 5) and the pure culture Nitrosomonas sp. Is79 (Lane 6) grown to steady state in continuous culture (Figure S1). Lane 1: molecular weight protein marker.

Method: Protein concentration of the whole cell extracts was quantified colorimetrically by Bradford reagent (Bradford, 1976) and by bicinchoninic acid assay reagent (Smith et al. 1985) according to the manufacturer’s guidelines. Normalized whole-cell protein extracts (15 µg) were prepared with 1X Laemmli buffer (Laemmli, 1970), heated (5 min, 95oC) and briefly centrifuged prior to sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). Samples and standards were run on a discontinuous 15% (Bis-Tris) SDS-PAGE gel (http://openwetware.org/wiki/Sauer:bis-Tris_SDS-PAGE%2C_the_very_best) in High-MW running buffer (50mM MOPS, 50mM Tris, 5mM EDTA, 0.5% SDS with 5mM sodium bisulfite at pH 8.0) at 100 V. The SDS-PAGE gel was rocked overnight in Coomassie blue stain and afterwards destained (Laemmli, 1970). The gel was imaged with a VersaDoc Imaging System and converted to gray scale with PDQuest (Bio-Rad Laboratories).

Bradford MM. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72:248–254. Laemmli UK. 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227:680–685. Smith PK, Krohn RI, Hermanson GT, Mallia AK, Gartner FH, Provenzano MD, Fujimoto EK, Goeke NM, Olson BJ, Klenk DC. 1985. Measurement of protein using bicinchoninic acid. Anal Biochem 150:76–85.

Table S1: Primers used for amplification and sequencing Primer Amplification (Weisburg et al., 1991) 27F: 5’-AGA GTT TGA TCC TGG CTC AG-3’ 1492R: 5’-GGT TAC CTT GTT ACG ACT T-3’ Sequencing (Muyzer et al., 1993) 357F: 5’-CCT ACG GGA GGC AGC AG-3’ 518R: 5’-ATT ACC GCG GCT GCT GG-3’

Weisburg WG, Barns SM, Pelletier DA, Lane DJ. 1991. 16S ribosomal DNA amplification

for phylogenetic study. J Bacteriol 173:697–703.

Muyzer G, de Waal EC, Uitterlinden AG. 1993. Profiling of complex microbial populations

by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified

genes coding for 16S rRNA. Appl Environ Microbiol 59:695–700.

Table S2: Phylogenetic affiliation of the heterotrophic bacteria present in the ammonia-oxidizing enrichment culture G5-7 determined by amplicon sequencing.

OTU # Phylogenetic affiliation Abundance [%] Corresponding isolate Alphaproteobacteria 1 Rhizobiales 4.45 G5-7 Is2; G5-7 Is28 2 Bradyrhizobiaceae 29.90 G5-7 Is42 3 Bradyrhizobium sp. 15.08 G5-7 Is42 4 Bosea sp. 4.10 5 Agrobacterium sp. 1.07 G5-7 Is17 6 Methylorhabdus sp. 8.74 G5-7 Is3 7 Hyphomicrobiaceae 3.82 8 Hyphomicrobium sp. 0.25 9 Rhodoplanes sp. 0.17 10 Phyllobacteriaceae 0.91 11 Phenylobacterium 1.31 G5-7 Is32 12 Sphingomonadales 0.51 G5-7 Is23 Betaproteobacteria 13 Beta-Proteobacteria 0.17 14 Pandoraea sp. 2.29 G5-7 Is22 Gammaproteobacteria 15 Pseudomonas sp. 23.93 G5-7 Is19 16 Moraxellaceae 0.05 17 Luteimonas 0.44 G5-7 Is39 Bacteroidetes 18 Sediminibacterium sp. 2.72 19 Flavobacterium sp. 0.10

Table S3: Steady state NH4+, NO2

- and NO3- concentrations in the continuous cultures:

Nitrosomonas sp. Is79 (Is79), Nitrosomonas sp. Is79 and N. winogradskyi (Is79+NOB) and the enrichment culture G5-7 (G5-7).

Is79 Is79+NOB G5-7 Run #1 Run #1 Run #2 Run #1 Run #2 NH4

+ [µM] 115.95 2.54 6.35 1.88 0.92 NO2

- [µM] 4652.77 7.71 14.20 1.98 1.79 NO3

- [µM] n.d. 4667.06 4625.15 4541.53 4639.41 n.d.: not determined

Table S4: Relative changes of the abundance of Nitrosomonas sp. Is79 proteins when co-cultured with N. winogradskyi (79+NOB). Nitrosomonas sp. Is79 proteins identified in the co-culture were compared to the Nitrosomonas sp. Is 79 proteins identified in the pure culture. Log fold change values were converted to fold change values with negative values symbolizing a decrease in protein abundance and positive values symbolizing an increase in protein abundance.

Accession#

LocusTag

Nit79A3Description

79+NOB

replicate1

p-valuereplicate

1

79+NOB

replicate2

p-valuereplicate

2ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338803769 104 Succinyl-CoAligase(ADP-forming)subunitbeta -1.08 0.3687 -1.20 0.0103 25 55.7gi|338803770 105 Succinyl-CoAsynthetase,alphasubunit -1.33 0.061 -1.23 0.0974 17 58gi|338803791 126 Phosphoenolpyruvatecarboxylase -1.04 0.6857 1.04 0.5123 19 23.1gi|338803807 142 6,7-dimethyl-8-ribityllumazinesynthase -1.11 0.43 -1.37 0.112 9 65gi|338803816 151 Isocitratedehydrogenase,NADP-dependent -1.11 0.0604 -1.15 0.0016 20 41.9gi|338803817 152 Cold-shockDNA-bindingdomainprotein -1.65 0.1147 -1.5 0.0333 7 55.2gi|338803826 161 Glycinehydroxymethyltransferase -1.20 0.021 -1.28 0.0131 25 40gi|338803841 176 Ribose-5-phosphateisomeraseA -1.03 0.7279 -1.24 0.0157 12 61.2gi|338803889 224 Peptidoglycan-associatedlipoprotein -1.18 0.0327 -1.29 0.0142 9 54.1gi|338803890 225 Tol-palsystemproteinYbgF 1.39 0.2006 1.99 0.0291 4 14.6gi|338803900 235 Phosphofructokinase -1.13 0.1187 -1.32 0.0195 36 79.2gi|338803966 317 Alkylhydroperoxidereductase/Thiolspecificantioxidant/Malallergen -1.42 0.0383 -1.50 0.003 8 30.5gi|338805151 336 ProteinofunknownfunctionDUF336 1.87 <0.0005 2.02 0.0005 12 64.2gi|338804009 363 Hypotheticalprotein 2.61 0.5997 3.44 0.0112 3 23.1gi|338804014 369 ATPsynthasesubunitb -1.43 0.2468 -1.46 0.0286 2 13.4gi|338804015 370 ATPsynthasesubunitdelta -1.5 0.0284 -1.73 0.0039 7 46.1gi|338804016 371 ATPsynthasesubunitalpha -2.55 <0.0005 -3.20 <0.0005 59 55.9gi|338804017 372 ATPsynthasegammachain -1.65 <0.0005 -1.91 <0.0005 20 53.1gi|338804018 373 ATPsynthasesubunitbeta -2.47 <0.0005 -2.84 <0.0005 78 80gi|338804019 374 ATPsynthaseepsilonchain -1.68 0.0424 -1.66 0.074 5 17.9gi|338804029 384 Cytochromecoxidase,subunitII -1.46 0.0013 -1.36 0.0012 7 35.2gi|338804049 407 ArgininebiosynthesisbifunctionalproteinArgJ -1.05 0.6532 -1.24 0.0305 11 30.6gi|338804077 436 Hemolysin-typecalcium-bindingregion 3.29 <0.0005 2.63 <0.0005 226 76.9gi|338804081 440 Integrationhostfactorsubunitbeta -1.83 0.0073 -1.25 0.2219 3 13.3gi|338804082 441 RibosomalproteinS1 -1.13 0.2613 -1.24 0.0843 10 23.2gi|338804096 455 Transketolase -1.20 0.005 -1.37 <0.0005 38 55.9gi|338804097 456 Glyceraldehyde-3-phosphatedehydrogenase,typeI -1.28 0.0038 1.52 <0.0005 27 66.3gi|338804098 457 Phosphoglyceratekinase -1.64 <0.0005 -1.78 <0.0005 40 78.6gi|338804100 459 Fructose-bisphosphatealdolase,classII,Calvincyclesubtype 1.35 0.0013 -1.43 0.0086 18 37.6gi|338804162 524 Hypotheticalprotein 3.26 0.0053 2.88 0.0045 7 44.5gi|338804197 560 Hypotheticalprotein 1.11 0.5194 1.36 0.0261 3 19.9

Accession#

LocusTag

Nit79A3Description

79+NOB

replicate1

p-valuereplicate

1

79+NOB

replicate2

p-valuereplicate

2ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338804209 572 Dihydroorotase,multifunctionalcomplextype -1.53 <0.0005 -1.23 0.0381 9 34gi|338804210 573 PeptidaseM3AandM3Bthimet/oligopeptidaseF -1.05 0.7011 -1.17 0.0645 23 34.7gi|338804216 579 PpiC-typepeptidyl-prolylcis-transisomerase 1.45 0.0891 1.67 0.0017 14 38.3gi|338804229 592 2-C-methyl-D-erythritol2,4-cyclodiphosphatesynthase -1.26 0.1051 -1.45 0.044 3 8.5gi|338804251 614 Phosphatebindingprotein 1.97 0.0247 1.30 0.1283 6 25gi|338804288 651 Short-chaindehydrogenase/reductaseSDR -1.23 0.1803 -1.37 0.0111 11 46gi|338804310 673 AminotransferaseclassV -1.69 <0.0005 -2.03 <0.0005 45 67.4gi|338804328 691 RibosomalproteinL13 -1.35 0.4749 1.02 0.9241 3 33.3gi|338804387 754 Di-hemecytochromecperoxidase 1.35 0.0062 1.89 0.0019 11 33.3gi|338804428 795 Di-hemecytochromecperoxidase 1.99 0.0006 2.99 0.000 22 52.4gi|338804431 798 HflKprotein -1.77 0.0212 -1.23 0.1091 5 15.6gi|338804452 819 50SribosomalproteinL7/L12 -1.93 0.0011 -1.79 <0.0005 16 84.1gi|338804466 833 Integrationhostfactorsubunitalpha -1.42 0.0667 -1.08 0.5607 6 46.1gi|338804471 838 Hypotheticalprotein 2.57 0.0394 3.81 0.0033 8 45.8gi|338804473 840 Homoserinedehydrogenase 1.29 0.1658 1.49 0.0272 14 41.2gi|338804474 841 Threoninesynthase -1.26 0.0229 -1.26 0.013 11 31.1gi|338804480 847 CitratesynthaseI 1.03 0.7097 -1.02 0.762 16 44.6gi|338804512 884 Glutamyl-tRNA(Gln)amidotransferasesubunitA -1.04 0.8212 -1.11 0.6293 5 16.8gi|338804597 974 Hypotheticalprotein -2.70 0.0005 -1.67 0.0082 14 36.9gi|338804618 997 SulfateABCtransporter,periplasmicsulfate-bindingprotein 1.50 0.0024 1.72 0.0079 7 28.3gi|338804625 1004 Phagetailsheathprotein,putative 1.42 0.0397 1.26 0.0874 10 25.3gi|338804637 1016 Hypotheticalprotein -1.22 0.0174 -1.22 0.0286 10 22.2gi|338804691 1073 Peptidyl-prolylcis-transisomerasecyclophilintype 2.34 0.0084 1.56 0.0289 5 16.8gi|338804754 1143 Uroporphyrinogendecarboxylase -1.18 0.0752 -1.38 0.0147 13 36.4gi|338804785 1174 Extracellularsolute-bindingproteinfamily1 2.28 0.0008 2.17 0.0015 18 43.3gi|338804826 1224 Glycinedehydrogenase(decarboxylating)subunit1 -1.30 0.0108 -1.40 0.0011 34 58.2gi|338804827 1225 Thiolperoxidase -1.75 0.0032 -1.52 0.0026 9 65.9gi|338804828 1226 Glycinedehydrogenase(decarboxylating)subunit2 -1.22 0.009 -1.41 0.0001 38 69.6gi|338804855 1255 Ribulosebisphosphatecarboxylaselargechain -1.11 0.7311 -1.48 0.0459 6 13.7gi|338804874 1275 Cytochromec-typebiogenesisproteinCcmI -1.20 0.1886 -1.10 0.1486 6 18gi|338804892 1299 Hypotheticalprotein -1.72 0.0683 -1.58 0.0088 3 45.8gi|338804896 1303 Phosphoribulokinase/uridinekinase -1.36 0.0159 -1.19 0.1338 10 51.6gi|338804901 1308 PeptidaseC1Apapain -1.26 0.0839 -1.44 0.0051 5 24gi|338804920 1327 amidohydrolase 1.51 0.0152 1.29 0.1056 5 13.6gi|338804952 1360 PeptidaseM28 1.31 0.3735 1.40 0.0163 9 14.7gi|338805124 1544 Glyoxalase/bleomycinresistanceprotein/dioxygenase -1.47 0.0402 -1.74 0.0038 10 55.1gi|338805145 1567 Aldose1-epimerase -1.14 0.4652 -1.23 0.0709 4 19.9gi|338805167 1591 Polyribonucleotidenucleotidyltransferase -1.32 0.0003 -1.64 <0.0005 29 45.2

Accession#

LocusTag

Nit79A3Description

79+NOB

replicate1

p-valuereplicate

1

79+NOB

replicate2

p-valuereplicate

2ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338805185 1609 Hypotheticalprotein -1.47 <0.0005 -1.31 <0.0005 56 79.9gi|338805200 1625 RibonucleaseT2 5.15 <0.0005 3.58 0.0003 17 48.4gi|338805203 1628 CytochromeP460 -1.48 0.0994 1.56 0.0046 20 60.4gi|338805211 1637 Esterase/lipase/thioesterasefamilyprotein -1.42 0.035 1.07 0.3533 1 5.4gi|338805260 1687 Succinyl-CoAligase(ADP-forming)subunitbeta -1.05 0.6457 -1.28 0.0068 13 43.2gi|338805269 1697 Ribulose-phosphate3-epimerase -1.52 0.0018 -1.77 0.0008 9 40.4gi|338805276 1704 Glutamate-1-semialdehyde2,1-aminomutase -1.12 0.208 -1.31 0.0108 22 64.3gi|338805325 1753 Adenylosuccinatelyase -1.33 0.028 -1.10 0.5519 2 7.4gi|338805327 1755 ChaperoneproteindnaK -1.06 0.4096 -1.04 0.3578 42 60.1gi|338805343 1774 UTP-glucose-1-phosphateuridylyltransferase -1.00 0.9827 -1.12 0.1341 13 44.8gi|338805421 1860 Di-hemecytochromecperoxidase 1.55 0.072 1.87 0.0127 8 28.6gi|338805427 1867 Hypotheticalprotein 1.75 0.0037 2.01 0.0006 10 37gi|338805428 1868 Hypotheticalprotein 1.64 0.0051 1.70 0.0072 3 24.1gi|338805431 1872 Hypotheticalprotein 1.08 0.9636 1.71 0.0383 1 6

gi|338805444 1888 Phosphoglucomutase/phosphomannomutasealpha/beta/alphadomainII 1.08 0.3297 -1.09 0.1493 24 43.2

gi|338805463 1907 2-oxo-aciddehydrogenaseE1subunit,homodimerictype 1.31 0.0074 1.17 0.1716 8 13.7gi|338805468 1912 S-adenosylmethioninesynthase -1.43 0.0024 -1.66 <0.0005 30 64.6gi|338805471 1915 TypeIphosphodiesterase/nucleotidepyrophosphatase 1.28 0.0016 1.06 0.3424 38 72.6gi|338805484 1928 ATP-dependentClpproteaseproteolyticsubunit -1.20 0.0181 -1.46 0.0009 16 45.1gi|338805487 1931 60kDachaperonin -1.42 <0.0005 -1.79 <0.0005 98 80.2gi|338805488 1932 10kDachaperonin -1.59 0.0083 -1.57 0.001 7 63.5

gi|338805494 1938 5-methyltetrahydropteroyltriglutamate--homocysteinemethyltransferase

-1.14 0.0202 1.01 0.6956 55 60.9

gi|338805505 1949 Dihydrolipoamidedehydrogenase -1.17 0.1656 -1.32 0.0289 13 38.7gi|338805516 1960 ProteaseDo -1.44 0.0742 -1.42 0.0083 8 18.3gi|338805517 1961 SigmaEregulatoryprotein,MucB/RseB 1.23 0.4818 1.26 0.1509 4 14.1gi|338805541 1988 Manganese/ironsuperoxidedismutase -1.74 0.0021 -1.73 0.0008 30 80.3gi|338805542 1989 ATPphosphoribosyltransferase -1.09 0.6051 -1.20 0.2444 10 55.6gi|338805570 2021 Cysteinedesulfurase,SufSsubfamily -1.49 0.0006 -1.80 0.0012 8 21.4gi|338805583 2034 Cytosolaminopeptidase -1.63 0.0382 -1.57 0.0076 4 10gi|338805623 2076 NusAantiterminationfactor -1.22 0.0363 -1.36 0.0035 13 40.6gi|338805641 2094 Enolase -1.16 0.1405 -1.20 0.0073 16 48.7gi|338805661 2114 FumaratehydrataseclassII -1.30 0.2717 -1.24 0.23 6 15.8gi|338805707 2165 4-hydroxy-3-methylbut-2-en-1-yldiphosphatesynthase 1.58 0.0642 1.20 0.2804 4 15.8

gi|338805743 2202 Deoxyribose-phosphatealdolase/phospho-2-dehydro-3-deoxyheptonatealdolase

-1.16 0.2108 -1.30 0.0085 16 46.7

gi|338805786 2245 Dihydroxy-aciddehydratase -1.19 0.0033 -1.25 0.0009 16 29.1

Accession#

LocusTag

Nit79A3Description

79+NOB

replicate1

p-valuereplicate

1

79+NOB

replicate2

p-valuereplicate

2ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338805805 2265 Hypotheticalprotein -1.03 0.7689 1.10 0.2978 19 48.9gi|338805859 2329 PASsensorprotein -1.19 0.2696 -1.18 0.3279 7 59.3gi|338805865 2335 Nitritereductase,copper-containing 2.40 0.0032 3.54 0.0001 51 55.6gi|338805889 2359 Hypotheticalprotein 1.85 0.0177 2.49 0.007 6 38.3gi|338805895 2365 Glutaminesynthetase,typeI -1.40 0.0018 -1.54 <0.0005 24 51gi|338805974 2444 Hypotheticalprotein 2.21 <0.0005 1.84 0.0002 32 47.7gi|338806003 2473 FimVN-terminaldomain-containingprotein -1.28 0.3506 -1.47 0.0178 5 7.8gi|338806009 2479 Rubrerythrin -1.80 0.0021 -1.51 0.0001 30 74.8gi|338806036 2508 6-phosphogluconatedehydrogenase,decarboxylating -2.36 0.001 -2.18 0.0019 8 30.3gi|338806043 2515 NitrogenregulatoryproteinP-II -2.38 0.0001 -2.11 <0.0005 4 33gi|338806059 2533 Succinatedehydrogenase,flavoproteinsubunit -1.59 0.0081 -1.48 0.0181 1 2.4gi|338806101 2576 Hypotheticalprotein -1.15 0.2516 -1.12 0.1478 14 47.3gi|338806102 2577 Hypotheticalprotein 1.06 0.7887 -1.02 0.7775 7 41.8gi|338806154 2629 OmpA/MotBdomainprotein -1.54 0.0074 -1.51 0.0026 17 58.5gi|338806237 2723 ProteinofunknownfunctionDUF1458 -1.33 0.0544 -1.45 0.0154 5 58.8gi|338806270 2758 Hypotheticalprotein 1.52 0.0401 1.10 0.5504 5 32.6gi|338806285 2776 Lipaseclass3 2.18 0.0002 2.13 <0.0005 19 58gi|338806299 2790 Delta-aminolevulinicaciddehydratase -1.19 0.2489 -1.22 0.0088 12 36.4gi|338806304 2795 DNA-directedRNApolymerasesubunitalpha -1.22 0.0766 -1.19 0.0258 16 49.1gi|338806311 2802 RibosomalproteinL15 1.32 0.025 1.02 0.7884 3 21gi|338806325 2816 RibosomalproteinL22 -1.01 0.9714 1.06 0.3411 4 21.7gi|338806329 2820 RibosomalproteinL4/L1e -1.03 0.7932 1.16 0.1291 15 62.1gi|338806332 2823 TranslationelongationfactorTu 1.04 0.5381 1.12 0.0036 46 77gi|338806340 2831 DNAgyrase,Asubunit 1.70 0.0239 1.08 0.7953 5 6.2gi|338806350 2841 Hypotheticalprotein -1.31 0.0339 -1.46 0.0046 14 69.7gi|338806367 2858 DomainofunknownfunctionDUF1993-containingprotein -1.37 0.0931 -1.16 0.3965 8 37.1gi|338806370 2861 TetratricopeptideTPR_2repeat-containingprotein 1.56 0.041 1.45 0.0032 4 6.9gi|338806391 2882 Hypotheticalprotein -1.91 0.0207 -2.04 0.005 8 42gi|338806393 2884 Ammoniamonooxygenase,subunitB 1.23 0.0063 1.42 <0.0005 63 63.6gi|338806394 2885 ammoniamonooxygenase,subunitA 1.20 0.2439 1.46 0.0434 6 15.3gi|338806404 2895 2,3,4,5-tetrahydropyridine-2,6-dicarboxylateN-succinyltransferase -1.18 0.1505 -1.20 0.0206 13 38.1gi|338806408 2899 Short-chaindehydrogenase/reductaseSDR -1.21 0.1356 -1.13 0.379 6 16.8gi|338806421 2912 Hypotheticalprotein -1.17 0.0483 -1.05 0.6657 11 67.1gi|338806437 2928 NADH-quinoneoxidoreductase,Fsubunit -1.09 0.409 -1.17 0.0363 10 27.8gi|338806444 2935 Triosephosphateisomerase -1.15 0.1569 -1.26 0.0353 15 55.4gi|338806449 2940 Cytochromec-554 -1.16 0.1467 4.92 0.0002 8 28.5gi|338806451 2942 Hydroxylaminedehydrogenase -1.43 <0.0005 1.11 0.0977 61 51.7gi|338806452 2943 Hypotheticalprotein -1.77 0.0219 -1.98 0.1759 3 12.5

Accession#

LocusTag

Nit79A3Description

79+NOB

replicate1

p-valuereplicate

1

79+NOB

replicate2

p-valuereplicate

2ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338806490 2984 Hypotheticalprotein 1.57 0.0078 1.44 0.065 4 26.4gi|338806500 2995 Glucosesorbosonedehydrogenase 1.43 0.0916 1.46 0.0791 10 35.6gi|338806518 3014 Alpha-glucanphosphorylase -1.18 0.2251 -1.24 0.002 16 25.3gi|338806520 3017 Hypotheticalprotein -1.18 0.0002 -1.32 <0.0005 54 47.8gi|338806539 3041 Glucose-1-phosphateadenylyltransferase -1.22 0.0113 -1.26 0.0207 11 27.6gi|338806549 3051 Redoxindomainprotein -1.17 0.2817 -1.01 0.8859 6 39.2gi|338806550 3052 FerritinDpsfamilyprotein 1.41 0.2682 1.63 0.0284 5 52.6gi|338806603 3107 Hypotheticalprotein 1.96 0.0001 1.53 0.0001 39 67.6gi|338806604 3108 Hypotheticalprotein 2.26 0.0004 1.38 0.0035 34 82.3gi|338806639 3143 Acylcarrierprotein -1.53 0.0111 -1.56 0.129 6 48.7gi|338806646 3150 Ankyrin 1.97 0.0024 1.75 0.0096 15 56.5gi|338806650 3154 Hypotheticalprotein -1.52 0.001 -1.65 <0.0005 34 62.8gi|338806662 3169 Bacterioferritin -1.25 0.4714 2.47 0.0088 2 23.4gi|338806665 3172 Single-strandbindingprotein -1.39 0.2088 -1.38 0.0163 5 32.9gi|338806671 3178 PorinGram-negativetype -1.24 0.023 1.05 0.5345 20 52.4gi|338806725 3233 Phosphoenolpyruvatesynthase 1.21 0.0345 1.07 0.5186 8 14.3gi|338806727 3235 Ribulosebisphosphatecarboxylaselargechain -1.19 0.0023 -1.23 <0.0005 90 66gi|338806728 3236 Ribulosebisphosphatecarboxylasesmallchain -1.28 0.0096 -1.27 <0.0005 44 95.8gi|338806799 3310 Alkalinephosphatase -1.23 0.0271 -1.23 0.094 6 14.9gi|338806806 3317 Glu/Leu/Phe/Valdehydrogenase 1.24 0.0011 1.08 0.1589 28 69.6gi|338806819 3332 ProteinofunknownfunctionDUF488 -3.74 0.1529 -3.79 0.0526 5 40gi|338806861 3379 Alaninedehydrogenase/PNTdomainprotein -1.35 0.001 -1.51 <0.0005 25 54.9gi|338806863 3381 FAD-dependentpyridinenucleotide-disulfideoxidoreductase 1.32 0.0015 1.18 0.0009 25 28.7gi|338806881 3399 Alkylhydroperoxidereductase/Thiolspecificantioxidant/Malallergen -1.42 0.0057 -1.33 0.0202 7 36.5gi|338806955 3475 1-deoxy-D-xylulose5-phosphatereductoisomerase -1.03 0.8915 -1.19 0.1053 2 10.6gi|338806966 3487 Hypotheticalprotein -1.84 0.0246 -1.74 0.0377 8 37.3gi|338806969 3490 PeptidaseM4thermolysin -1.42 <0.0005 -1.36 <0.0005 112 79.3gi|338807030 3552 CopperresistanceproteinCopC 2.10 0.0071 1.91 0.0442 5 43.3

Table S5: Relative changes of the abundance of Nitrosomonas sp. Is79 proteins when grown as part of the enrichment culture G5-7 (G5-7). Nitrosomonas sp. Is 79 proteins identified in the G5-7 were compared to the Nitrosomonas sp. Is 79 proteins identified in the pure culture. Log fold change values were converted to fold change values with negative values symbolizing a decrease in protein abundance and positive values symbolizing an increase in protein abundance.

Accession

#

LocusTag

Nit79A3Description

G5-7replicate

1

p-valuereplicate

1

G5-7replicate

2

p-valuereplicate

2

ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338803669 2 DNApolymeraseIII,betasubunit -1.62 <0.0005 -1.52 0.0003 11 32.1gi|338803768 103 HpcH/HpaIaldolase 1.44 0.0005 1.36 0.0007 13 46.2gi|338803769 104 Succinyl-CoAligase(ADP-forming)subunitbeta -1.66 <0.0005 -1.67 <0.0005 18 50.1gi|338803770 105 Succinyl-CoAsynthetase,alphasubunit -1.55 0.0104 -1.73 0.0222 11 42gi|338803816 151 Isocitratedehydrogenase,NADP-dependent -1.33 0.0015 -1.38 <0.0005 20 43.4gi|338803817 152 Cold-shockDNA-bindingdomainprotein -2.26 0.0442 -2.34 0.0122 5 55.2gi|338803826 161 Glycinehydroxymethyltransferase -1.60 <0.0005 -1.69 <0.0005 27 46.5gi|338803831 166 DAHPsynthetaseI/KDSA -1.40 0.0087 -1.27 0.094 6 25.8gi|338803841 176 Ribose-5-phosphateisomeraseA -1.46 0.047 -1.46 0.0405 11 42.9gi|338803889 224 Peptidoglycan-associatedlipoprotein -1.42 0.1694 -1.24 0.243 6 43gi|338803900 235 Phosphofructokinase -1.48 <0.0005 -1.7 <0.0005 34 61.8gi|338803966 317 Alkylhydroperoxidereductase/Thiolspecificantioxidant/Malallergen -1.37 0.0614 -1.55 0.026 5 23.5gi|338804015 370 ATPsynthasesubunitdelta -1.92 0.0272 -1.61 0.0238 6 35.4gi|338804016 371 ATPsynthasesubunitalpha -5.35 <0.0005 -5.01 <0.0005 47 56.1gi|338804017 372 ATPsynthasegammachain -2.05 <0.0005 -2.17 <0.0005 18 51.4gi|338804018 373 ATPsynthasesubunitbeta -4.12 <0.0005 -3.98 <0.0005 65 78.6gi|338804077 436 Hemolysin-typecalcium-bindingregion 1.43 0.0621 1.91 0.0066 182 71.5gi|338804081 440 Integrationhostfactorsubunitbeta 1.08 0.4539 -1.23 0.0706 3 20.4gi|338804082 441 RibosomalproteinS1 -1.05 0.668 1.00 0.9793 11 25.6gi|338804096 455 Transketolase -1.57 <0.0005 -1.83 <0.0005 31 46.7gi|338804097 456 Glyceraldehyde-3-phosphatedehydrogenase,typeI 1.46 0.0003 1.26 0.0068 32 72.3gi|338804098 457 Phosphoglyceratekinase -3.14 <0.0005 -2.89 <0.0005 38 79.3gi|338804099 458 Pyruvatekinase -1.40 0.0425 -1.33 0.0825 13 35.6gi|338804100 459 Fructose-bisphosphatealdolase,classII,Calvincyclesubtype 1.35 0.0283 -1.01 0.8968 17 35.6gi|338804106 466 Alkylhydroperoxidereductase/Thiolspecificantioxidant/Malallergen -1.53 0.0249 -1.58 0.068 2 5.9gi|338804162 524 Hypotheticalprotein 2.58 0.0409 1.52 0.1348 6 43.9gi|338804189 552 Acylneuraminatecytidylyltransferase -1.68 0.158 -1.40 0.0325 5 22.1gi|338804197 560 Hypotheticalprotein 1.44 0.0513 1.56 0.0395 2 15.8gi|338804199 562 50SribosomalproteinL19 -1.01 0.9245 1.16 0.0564 6 51.1gi|338804210 573 PeptidaseM3AandM3Bthimet/oligopeptidaseF -1.16 0.275 -1.26 0.0296 13 25.7gi|338804216 579 PpiC-typepeptidyl-prolylcis-transisomerase 1.72 0.0046 1.94 0.0011 13 37.5gi|338804249 612 Nicotinate-nucleotidepyrophosphorylase -1.19 0.6412 -1.12 0.7227 1 5.9

Accession#

LocusTag

Nit79A3Description

G5-7replicate

1

p-valuereplicate

1

G5-7replicate

2

p-valuereplicate

2

ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338804251 614 Phosphatebindingprotein 1.65 0.0228 1.48 0.0264 8 27.1gi|338804278 641 Carboxyl-terminalprotease 1.08 0.6116 1.06 0.7388 9 25gi|338804286 649 HistonefamilyproteinDNA-bindingprotein 3.96 0.0448 2.07 0.1322 7 43.3gi|338804287 650 PpiC-typepeptidyl-prolylcis-transisomerase -1.72 0.0366 -1.21 0.0397 4 10.8gi|338804288 651 Short-chaindehydrogenase/reductaseSDR -1.33 0.2167 -1.31 0.048 10 37.2gi|338804310 673 AminotransferaseclassV -2.57 <0.0005 -2.67 <0.0005 36 61gi|338804315 678 dTDP-4-dehydrorhamnose3,5-epimerase -2.14 0.0742 -1.69 0.0345 2 13.2gi|338804387 754 Di-hemecytochromecperoxidase 1.39 0.0907 1.43 0.077 10 38.5gi|338804419 786 Acetolactatesynthase,smallsubunit -1.17 0.0817 -1.28 0.0417 7 47.2gi|338804420 787 Ketol-acidreductoisomerase 1.41 0.0208 1.47 0.0008 14 43.2gi|338804428 795 Di-hemecytochromecperoxidase 3.28 0.0019 2.32 0.0144 36 57gi|338804452 819 50SribosomalproteinL7/L12 -2.32 0.0046 -1.86 0.0013 13 84.1gi|338804453 820 DNA-directedRNApolymerasesubunitbeta 1.39 0.0028 1.32 0.0022 24 24.2gi|338804454 821 DNA-directedRNApolymerasesubunitbeta' 1.20 0.035 1.22 0.009 19 19.7gi|338804466 833 Integrationhostfactorsubunitalpha 1.05 0.6327 -1.31 0.0666 7 46.1gi|338804471 838 Hypotheticalprotein 3.59 0.0513 2.96 0.0055 8 35.6gi|338804473 840 Homoserinedehydrogenase 1.37 0.116 1.26 0.2274 8 28.4gi|338804474 841 Threoninesynthase -1.65 0.0001 -1.48 0.0015 13 39.4gi|338804480 847 CitratesynthaseI 1.01 0.8638 -1.17 0.0045 17 43.2gi|338804597 974 Hypotheticalprotein -1.25 0.2411 -1.68 0.0019 10 36.9gi|338804618 997 SulfateABCtransporter,periplasmicsulfate-bindingprotein 2.09 0.0037 1.78 0.0025 11 32.8gi|338804625 1004 Phagetailsheathprotein,putative 2.07 <0.0005 1.56 0.0001 26 62.6gi|338804637 1016 Hypotheticalprotein 1.10 0.3601 -1.05 0.5604 14 31.3gi|338804639 1018 Hypotheticalprotein 1.72 <0.0005 1.61 0.0008 13 38.7gi|338804646 1025 Peptidoglycan-bindingdomain-containingprotein 2.79 0.0074 2.73 0.0013 7 35.7gi|338804649 1028 Hypotheticalprotein 1.64 0.0217 1.67 0.0154 8 23.9gi|338804691 1073 Peptidyl-prolylcis-transisomerasecyclophilintype 1.54 0.0369 1.66 0.0501 5 14.1gi|338804754 1143 Uroporphyrinogendecarboxylase -1.59 0.0182 -1.54 0.0205 10 35.6gi|338804785 1174 Extracellularsolute-bindingproteinfamily1 2.22 <0.0005 1.85 <0.0005 19 59gi|338804788 1177 Thioredoxin -1.16 0.3164 -1.20 0.0474 8 44.4gi|338804826 1224 Glycinedehydrogenase(decarboxylating)subunit1 -1.99 <0.0005 -2.26 <0.0005 25 58.2gi|338804827 1225 Thiolperoxidase -2.19 0.0041 -1.95 0.0001 9 70.1gi|338804828 1226 Glycinedehydrogenase(decarboxylating)subunit2 -1.75 <0.0005 -1.93 <0.0005 38 71.4gi|338804892 1299 Hypotheticalprotein -2.25 0.0006 -1.91 0.0001 5 34.2gi|338804896 1303 Phosphoribulokinase/uridinekinase 1.34 0.0271 1.14 0.1528 11 53.3gi|338804901 1308 PeptidaseC1Apapain -1.36 0.0547 -1.42 0.0099 4 15.5gi|338805124 1544 Glyoxalase/bleomycinresistanceprotein/dioxygenase -2.07 0.0286 -1.73 0.075 5 39.4gi|338805167 1591 Polyribonucleotidenucleotidyltransferase -1.52 <0.0005 -1.57 <0.0005 28 43.6gi|338805185 1609 Hypotheticalprotein -1.49 <0.0005 -1.89 <0.0005 52 79.1

Accession#

LocusTag

Nit79A3Description

G5-7replicate

1

p-valuereplicate

1

G5-7replicate

2

p-valuereplicate

2

ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338805200 1625 RibonucleaseT2 2.93 0.0008 2.83 0.002 11 38.2gi|338805203 1628 CytochromeP460 2.96 0.0011 2.46 0.0004 24 70.1gi|338805267 1695 AnthranilatesynthasecomponentI -1.60 0.0283 -1.48 0.0399 3 12.9gi|338805269 1697 Ribulose-phosphate3-epimerase -2.97 0.0005 -2.98 0.0003 9 40gi|338805276 1704 Glutamate-1-semialdehyde2,1-aminomutase -1.50 0.0029 -1.57 0.0012 18 64.6gi|338805327 1755 ChaperoneproteindnaK -1.05 0.6289 -1.13 0.2013 45 66.9gi|338805342 1773 Hypotheticalprotein -1.08 0.8515 1.48 0.1858 6 66.1gi|338805343 1774 UTP-glucose-1-phosphateuridylyltransferase -1.27 0.0317 -1.23 0.0405 11 50.8gi|338805351 1783 ProteinofunknownfunctionUPF0001 1.43 0.1033 1.20 0.1535 3 7.5gi|338805421 1860 Di-hemecytochromecperoxidase 1.98 0.0116 1.61 0.078 20 51.1gi|338805427 1867 Hypotheticalprotein 3.14 0.0004 2.13 0.0041 14 46.1gi|338805428 1868 Hypotheticalprotein 2.17 0.0033 1.54 0.0502 5 32.1gi|338805431 1872 Hypotheticalprotein 1.54 0.0292 1.48 0.0671 2 12.4gi|338805432 1873 Putativetransmembraneprotein 1.22 0.2989 1.56 0.034 3 21.3gi|338805442 1886 Branched-chainaminoacidaminotransferase -1.22 0.0598 -1.29 0.0299 9 39.2gi|338805444 1888 Phosphoglucomutase/phosphomannomutasealpha/beta/alphadomainII -1.27 0.0482 -1.19 0.1005 13 29.5gi|338805467 1911 Adenosylhomocysteinase 1.06 0.4107 -1.40 <0.0005 45 57.9gi|338805468 1912 S-adenosylmethioninesynthase -2.19 0.0001 -2.42 <0.0005 25 57.1gi|338805484 1928 ATP-dependentClpproteaseproteolyticsubunit -1.73 0.0148 -1.69 0.0116 11 37.6gi|338805487 1931 60kDachaperonin -1.82 <0.0005 -2.15 <0.0005 90 73.4gi|338805488 1932 10kDachaperonin -1.85 0.0149 -2.11 0.005 6 53.1gi|338805494 1938 5-methyltetrahydropteroyltriglutamate--homocysteinemethyltransferase 1.22 0.004 -1.15 0.0408 56 64.3gi|338805498 1942 Glutaredoxin-likeprotein -1.98 0.0633 -2.00 0.0214 6 57.8gi|338805504 1948 Hypotheticalprotein 1.70 0.0183 1.28 0.3132 5 35.4gi|338805505 1949 Dihydrolipoamidedehydrogenase -1.67 0.0213 -1.55 0.0298 12 35.4gi|338805517 1961 SigmaEregulatoryprotein,MucB/RseB 1.72 0.0075 1.85 0.0016 6 19.5gi|338805541 1988 Manganese/ironsuperoxidedismutase -2.29 0.0001 -2.73 0.0001 33 80.3gi|338805542 1989 ATPphosphoribosyltransferase -1.53 0.0142 -1.42 0.0078 12 59.4gi|338805543 1990 Histidinoldehydrogenase 1.26 0.0168 1.18 0.1182 6 16.8gi|338805570 2021 Cysteinedesulfurase,SufSsubfamily -2.21 0.0099 -2.18 0.0159 5 12.4gi|338805605 2056 Coproporphyrinogen-IIIoxidase,aerobic -1.35 <0.0005 -1.24 0.0096 13 53.7gi|338805623 2076 NusAantiterminationfactor -1.16 0.2063 -1.26 0.0314 11 26.7gi|338805641 2094 Enolase -1.39 0.012 -1.65 <0.0005 20 48.2gi|338805670 2124 Orn/DAP/Argdecarboxylase2 -1.68 0.0805 -1.37 0.0366 2 6.4gi|338805689 2147 Hypotheticalprotein -1.40 0.0165 -1.42 0.002 9 30.4gi|338805705 2163 Proteinofunknownfunction -1.74 0.031 -1.09 0.4484 1 6.1gi|338805750 2209 Phosphoribosylamine--glycineligase -1.51 0.0436 -1.18 0.1143 6 20.5gi|338805779 2238 AminotransferaseclassIV -1.59 0.0324 -1.56 0.0123 10 45.5gi|338805786 2245 Dihydroxy-aciddehydratase -1.48 0.1638 -1.45 <0.0005 13 24.6

Accession#

LocusTag

Nit79A3Description

G5-7replicate

1

p-valuereplicate

1

G5-7replicate

2

p-valuereplicate

2

ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338805805 2265 Hypotheticalprotein 1.79 <0.0005 1.41 0.0019 21 55.5gi|338805859 2329 PASsensorprotein -1.36 0.0155 -1.40 0.02 7 54.7gi|338805860 2330 Polyketidecyclase/dehydrase 1.28 0.1215 1.35 0.0388 6 28.9gi|338805865 2335 Nitritereductase,copper-containing 4.34 <0.0005 3.00 <0.0005 80 66gi|338805895 2365 Glutaminesynthetase,typeI -2.09 <0.0005 -2.21 <0.0005 23 43.1gi|338805974 2444 Hypotheticalprotein 2.10 <0.0005 1.59 0.001 31 51.3gi|338805991 2461 Peptidyl-prolylcis-transisomerasecyclophilintype 2.61 0.0408 1.78 0.1317 3 17.3gi|338805993 2463 O-succinylhomoserinesulfhydrylase -1.39 0.008 -1.47 0.0079 11 29.9gi|338806000 2470 Tryptophansynthasebetachain -1.03 0.8366 1.22 0.0861 5 10.5gi|338806009 2479 Rubrerythrin -2.00 0.0002 -2.33 <0.0005 30 80.6gi|338806010 2480 Hypotheticalprotein -1.01 0.9823 1.61 0.0776 4 9.7gi|338806028 2499 Hypotheticalprotein -1.08 0.5306 -1.02 0.873 15 32.7gi|338806036 2508 6-phosphogluconatedehydrogenase,decarboxylating -1.58 0.0378 -1.66 0.0273 7 33.2gi|338806037 2509 Hypotheticalprotein 1.54 0.0146 1.73 0.0698 3 22.5gi|338806043 2515 NitrogenregulatoryproteinP-II -1.52 0.0178 -1.52 0.0098 4 32gi|338806101 2576 Hypotheticalprotein -1.47 0.0011 -1.77 0.0047 9 42.6gi|338806154 2629 OmpA/MotBdomainprotein -1.64 0.0067 -1.63 0.0035 16 59gi|338806237 2723 Proteinofunknownfunction -1.16 0.5371 -1.31 0.2893 4 48.5gi|338806285 2776 Lipaseclass3 3.12 <0.0005 2.53 0.0001 22 65.6gi|338806315 2806 RibosomalproteinL6 1.22 0.2876 1.35 0.0415 8 42.5gi|338806325 2816 RibosomalproteinL22 -1.18 0.3137 -1.05 0.5848 6 35.6gi|338806328 2819 RibosomalproteinL25/L23 -1.31 0.0335 -1.03 0.781 2 21.6gi|338806332 2823 TranslationelongationfactorTu 2.14 <0.0005 1.63 <0.0005 65 78.5gi|338806333 2824 TranslationelongationfactorG 1.18 0.1849 1.18 0.0404 24 47gi|338806339 2830 Acetylornithine/succinyldiaminopimelateaminotransferase -1.30 0.0656 -1.22 0.0474 9 26.7gi|338806350 2841 Hypotheticalprotein -1.69 0.002 -1.79 0.0022 11 76.8gi|338806391 2882 Hypotheticalprotein -2.78 0.0027 -2.64 0.0051 5 42gi|338806393 2884 Ammoniamonooxygenase,subunitB 1.99 <0.0005 1.7 <0.0005 82 63.8gi|338806394 2885 Ammoniamonooxygenase,subunitA 2.04 0.0115 1.93 0.0235 5 12.8gi|338806404 2895 2,3,4,5-tetrahydropyridine-2,6-dicarboxylateN-succinyltransferase -1.10 0.4142 -1.55 0.005 16 42.1gi|338806412 2903 Hypotheticalprotein -1.56 0.0228 -1.38 0.2875 4 33.7gi|338806428 2919 ChaperoneproteinhtpG -1.55 0.0426 -1.21 0.597 2 4.9gi|338806438 2929 NADH-quinoneoxidoreductase,Esubunit -1.62 0.0271 -1.29 0.1682 2 17.7gi|338806440 2931 NAD(P)H-quinoneoxidoreductasesubunitJ -1.17 0.1852 -1.53 0.0117 5 36.9gi|338806444 2935 Triosephosphateisomerase -1.61 0.0037 -1.79 0.005 14 43.8gi|338806449 2940 Cytochromec-554 7.13 <0.0005 3.58 0.0008 8 28.5gi|338806451 2942 Hydroxylaminedehydrogenase 1.74 <0.0005 1.28 0.0009 83 57.9gi|338806500 2995 Glucosesorbosonedehydrogenase 1.34 0.0466 1.47 0.0114 7 28.1gi|338806518 3014 Alpha-glucanphosphorylase -2.03 0.0098 -1.79 0.0077 10 13.4

Accession#

LocusTag

Nit79A3Description

G5-7replicate

1

p-valuereplicate

1

G5-7replicate

2

p-valuereplicate

2

ConfidentPeptides

Sequencecovered(%)bypeptides

gi|338806540 3042 Glycosidehydrolasefamily57 2.76 0.0228 2.03 0.1196 3 9gi|338806520 3107 Hypotheticalprotein -1.17 0.003 -1.35 <0.0005 54 47.7gi|338806603 3107 Hypotheticalprotein 1.28 0.0281 1.44 0.0017 32 61.3gi|338806604 3108 Hypotheticalprotein 1.47 0.0411 1.04 0.7726 27 82.3gi|338806640 3144 3-oxoacyl-(acyl-carrier-protein)synthase2 -1.31 0.040 -1.36 0.0189 9 26.2gi|338806646 3150 Ankyrin 1.29 0.0135 1.34 0.0031 11 43gi|338806650 3154 Hypotheticalprotein -2.00 0.0015 -2.54 0.0001 24 56.6gi|338806662 3169 Bacterioferritin 2.66 0.0404 2.15 0.0922 10 29.2gi|338806665 3172 Single-strandbindingprotein -1.67 0.0565 -1.87 0.0064 4 20.1gi|338806671 3178 PorinGram-negativetype -1.38 0.0151 -1.31 0.0099 18 47.4gi|338806702 3210 Proteinofunknownfunction -1.35 0.2064 -1.38 0.0005 9 31gi|338806725 3233 Phosphoenolpyruvatesynthase 1.29 0.026 1.12 0.114 13 25.2gi|338806727 3235 Ribulosebisphosphatecarboxylaselargechain -1.15 0.0073 -1.58 <0.0005 94 67.4gi|338806728 3236 Ribulosebisphosphatecarboxylasesmallchain -1.17 0.0167 -1.54 <0.0005 47 95.8gi|338806797 3308 Hypotheticalprotein -1.09 0.6077 -1.19 0.1595 4 15.1gi|338806799 3310 Alkalinephosphatase -1.31 0.0374 -1.37 0.0414 4 8.2gi|338806806 3317 Glu/Leu/Phe/Valdehydrogenase -1.52 0.0002 -1.5 <0.0005 24 57.3gi|338806861 3379 Alaninedehydrogenase/PNTdomainprotein -2.15 <0.0005 -2.01 <0.0005 17 44.5gi|338806881 3399 Alkylhydroperoxidereductase/Thiolspecificantioxidant/Malallergen -1.28 0.0127 -1.24 0.0102 10 59.8gi|338806918 3437 HeatshockproteinHsp20 1.58 0.0449 -1.05 0.5554 9 50.3gi|338806965 3486 Di-hemecytochromecperoxidase 2.71 0.0519 3.12 0.0453 1 31.1gi|338806966 3487 Hypotheticalprotein -2.31 <0.0005 -2.69 0.0015 7 27.6gi|338806969 3490 PeptidaseM4thermolysin -1.29 0.0003 -1.73 <0.0005 118 79.6gi|338806981 3502 PeptidylprolylisomeraseFKBP-type 1.36 0.2482 1.42 0.1451 4 38.3