-
1
-
-
0004147167
-
The Prolongation of Life: Optimistic Studies
-
[1] Metchnikoff, E., Metchnikoff, I.I., The Prolongation of Life: Optimistic Studies. http://books.google.com/books?hl=en&lr=&id=U8bgKGvZJV0C&pgis=1, 1908.
-
(1908)
-
-
Metchnikoff, E.1
Metchnikoff, I.I.2
-
2
-
-
0031612156
-
The effect of oral feeding of Lactobacillus casei strain Shirota on immunoglobulin E production in mice
-
[2] Matsuzaki, T., Yamazaki, R., Hashimoto, S., Yokokura, T., The effect of oral feeding of Lactobacillus casei strain Shirota on immunoglobulin E production in mice. J. Dairy Sci. 81 (1998), 48–53, 10.3168/jds.S0022-0302(98)75549-3.
-
(1998)
J. Dairy Sci.
, vol.81
, pp. 48-53
-
-
Matsuzaki, T.1
Yamazaki, R.2
Hashimoto, S.3
Yokokura, T.4
-
3
-
-
0001937506
-
A Lactobacillus preparation for use with antibiotics
-
[3] Gordon, D., Macrae, J., Wheater, D., A Lactobacillus preparation for use with antibiotics. Lancet 269 (1957), 899–901, 10.1016/S0140-6736(57)91222-9.
-
(1957)
Lancet
, vol.269
, pp. 899-901
-
-
Gordon, D.1
Macrae, J.2
Wheater, D.3
-
4
-
-
0035150737
-
Probiotics, prebiotics, and synbiotics—approaching a definition
-
[4] Schrezenmeir, J., de Vrese, M., Probiotics, prebiotics, and synbiotics—approaching a definition. Am. J. Clin. Nutr. 73 (2001), 361S–3364, 10.1007/10_2008_097.
-
(2001)
Am. J. Clin. Nutr.
, vol.73
, pp. 361S-3364
-
-
Schrezenmeir, J.1
de Vrese, M.2
-
5
-
-
84991018440
-
Probiotics in food
-
[5] Fao, Probiotics in food. Food Nutr. Pap., 85, 2001, 71, 10.1201/9781420009613.ch16.
-
(2001)
Food Nutr. Pap.
, vol.85
, pp. 71
-
-
Fao1
-
6
-
-
84905675648
-
Expert consensus document: the International Scientific Association for probiotics and prebiotics consensus statement on the scope and appropriate use of the term probiotic
-
[6] Hill, C., Guarner, F., Reid, G., Gibson, G.R., Merenstein, D.J., Pot, B., et al. Expert consensus document: the International Scientific Association for probiotics and prebiotics consensus statement on the scope and appropriate use of the term probiotic. Nat. Rev. Gastroenterol. Hepatol., 11, 2014, 9, 10.1038/nrgastro.2014.66.
-
(2014)
Nat. Rev. Gastroenterol. Hepatol.
, vol.11
, pp. 9
-
-
Hill, C.1
Guarner, F.2
Reid, G.3
Gibson, G.R.4
Merenstein, D.J.5
Pot, B.6
-
7
-
-
84866175125
-
Accessing the inaccessible: molecular tools for bifidobacteria
-
[7] Sun, Z., Baur, A., Zhurina, D., Yuan, J., Riedel, C.U., Accessing the inaccessible: molecular tools for bifidobacteria. Appl. Environ. Microbiol. 78 (2012), 5035–5042, 10.1128/AEM.00551-12.
-
(2012)
Appl. Environ. Microbiol.
, vol.78
, pp. 5035-5042
-
-
Sun, Z.1
Baur, A.2
Zhurina, D.3
Yuan, J.4
Riedel, C.U.5
-
8
-
-
15544369658
-
Host-bacterial mutualism in the human intestine
-
[8] Bäckhed, F., Ley, R.E., Sonnenburg, J.L., Peterson, D.A., Gordon, J.I., Host-bacterial mutualism in the human intestine. Science 307 (2005), 1915–1920, 10.1126/science.1104816.
-
(2005)
Science
, vol.307
, pp. 1915-1920
-
-
Bäckhed, F.1
Ley, R.E.2
Sonnenburg, J.L.3
Peterson, D.A.4
Gordon, J.I.5
-
9
-
-
77950251400
-
A human gut microbial gene catalogue established by metagenomic sequencing: article: nature
-
[9] Qin, J., Li, R., Raes, J., Arumugam, M., Burgdorf, K.S., Manichanh, C., et al. A human gut microbial gene catalogue established by metagenomic sequencing: article: nature. Nature 464 (2010), 59–65, 10.1038/nature08821.
-
(2010)
Nature
, vol.464
, pp. 59-65
-
-
Qin, J.1
Li, R.2
Raes, J.3
Arumugam, M.4
Burgdorf, K.S.5
Manichanh, C.6
-
10
-
-
84861978076
-
Host-gut microbiota metabolic interactions
-
[10] Nicholson, J.K., Holmes, E., Kinross, J., Burcelin, R., Gibson, G., Jia, W., et al. Host-gut microbiota metabolic interactions. Science 80-:336 (2012), 1262–1267, 10.1126/science.1223813.
-
(2012)
Science
, vol.80
, Issue.336
, pp. 1262-1267
-
-
Nicholson, J.K.1
Holmes, E.2
Kinross, J.3
Burcelin, R.4
Gibson, G.5
Jia, W.6
-
11
-
-
84867225799
-
The role of the gut microbiota in nutrition and health
-
[11] Flint, H.J., Scott, K.P., Louis, P., Duncan, S.H., The role of the gut microbiota in nutrition and health. Nat. Rev. Gastroenterol. Hepatol. 9 (2012), 577–589, 10.1038/nrgastro.2012.156.
-
(2012)
Nat. Rev. Gastroenterol. Hepatol.
, vol.9
, pp. 577-589
-
-
Flint, H.J.1
Scott, K.P.2
Louis, P.3
Duncan, S.H.4
-
12
-
-
84867208167
-
The gut microbiota in IBD
-
[12] Manichanh, C., Borruel, N., Casellas, F., Guarner, F., The gut microbiota in IBD. Nat. Rev. Gastroenterol. Hepatol. 9 (2012), 599–608, 10.1038/nrgastro.2012.152.
-
(2012)
Nat. Rev. Gastroenterol. Hepatol.
, vol.9
, pp. 599-608
-
-
Manichanh, C.1
Borruel, N.2
Casellas, F.3
Guarner, F.4
-
13
-
-
84908425997
-
Intestinal dysbiosis associated with systemic lupus erythematosus
-
e01548-14
-
[13] Hevia, A., Milani, C., López, P., Cuervo, A., Arboleya, S., Duranti, S., et al. Intestinal dysbiosis associated with systemic lupus erythematosus. MBio., 5, 2014, e01548-14, 10.1128/mBio.01548-14.
-
(2014)
MBio.
, vol.5
-
-
Hevia, A.1
Milani, C.2
López, P.3
Cuervo, A.4
Arboleya, S.5
Duranti, S.6
-
14
-
-
77950250064
-
Metabolic syndrome and altered gut microbiota in mice lacking Toll-like receptor 5
-
[14] Vijay-Kumar, M., Aitken, J.D., Carvalho, F.A., Cullender, T.C., Mwangi, S., Srinivasan, S., et al. Metabolic syndrome and altered gut microbiota in mice lacking Toll-like receptor 5. Science 80-:328 (2010), 228–231, 10.1126/science.1179721.
-
(2010)
Science
, vol.80
, Issue.328
, pp. 228-231
-
-
Vijay-Kumar, M.1
Aitken, J.D.2
Carvalho, F.A.3
Cullender, T.C.4
Mwangi, S.5
Srinivasan, S.6
-
15
-
-
84860389063
-
The microbiome and rheumatoid arthritis
-
[15] Scher, J.U., Abramson, S.B., The microbiome and rheumatoid arthritis. Nat. Rev. Rheumatol. 7 (2011), 569–578, 10.1038/nrrheum.2011.121.
-
(2011)
Nat. Rev. Rheumatol.
, vol.7
, pp. 569-578
-
-
Scher, J.U.1
Abramson, S.B.2
-
16
-
-
54549122338
-
Innate immunity and intestinal microbiota in the development of Type 1 diabetes
-
[16] Wen, L., Ley, R.E., Volchkov, P.Y., Stranges, P.B., Avanesyan, L., Stonebraker, A.C., et al. Innate immunity and intestinal microbiota in the development of Type 1 diabetes. Nature 455 (2008), 1109–1113, 10.1038/nature07336.
-
(2008)
Nature
, vol.455
, pp. 1109-1113
-
-
Wen, L.1
Ley, R.E.2
Volchkov, P.Y.3
Stranges, P.B.4
Avanesyan, L.5
Stonebraker, A.C.6
-
17
-
-
33845874101
-
An obesity-associated gut microbiome with increased capacity for energy harvest
-
[17] Turnbaugh, P.J., Ley, R.E., Mahowald, M.A., Magrini, V., Mardis, E.R., Gordon, J.I., An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 444 (2006), 1027–1031, 10.1038/nature05414.
-
(2006)
Nature
, vol.444
, pp. 1027-1031
-
-
Turnbaugh, P.J.1
Ley, R.E.2
Mahowald, M.A.3
Magrini, V.4
Mardis, E.R.5
Gordon, J.I.6
-
18
-
-
84944321524
-
Brain, meet gut
-
[18] Smith, P.A., Brain, meet gut. Nature 526 (2015), 312–314, 10.1038/526312a.
-
(2015)
Nature
, vol.526
, pp. 312-314
-
-
Smith, P.A.1
-
19
-
-
84951568821
-
Gut biogeography of the bacterial microbiota
-
[19] Donaldson, G.P., Lee, S.M., Mazmanian, S.K., Gut biogeography of the bacterial microbiota. Nat. Rev. Microbiol. 14 (2015), 20–32, 10.1038/nrmicro3552.
-
(2015)
Nat. Rev. Microbiol.
, vol.14
, pp. 20-32
-
-
Donaldson, G.P.1
Lee, S.M.2
Mazmanian, S.K.3
-
20
-
-
79952749405
-
Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins
-
[20] Hansen, E.E., Lozupone, C.A., Rey, F.E., Wu, M., Guruge, J.L., Narra, A., et al. Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins. Proc. Natl. Acad. Sci. U. S. A. 108:Suppl. (2011), 4599–4606, 10.1073/pnas.1000071108.
-
(2011)
Proc. Natl. Acad. Sci. U. S. A.
, vol.108
, pp. 4599-4606
-
-
Hansen, E.E.1
Lozupone, C.A.2
Rey, F.E.3
Wu, M.4
Guruge, J.L.5
Narra, A.6
-
21
-
-
85027927719
-
Enterotypes of the human gut microbiome
-
[21] Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D.R., et al. Enterotypes of the human gut microbiome. Nature 473 (2011), 174–180, 10.1038/nature10187.
-
(2011)
Nature
, vol.473
, pp. 174-180
-
-
Arumugam, M.1
Raes, J.2
Pelletier, E.3
Le Paslier, D.4
Yamada, T.5
Mende, D.R.6
-
22
-
-
84915818563
-
Surface proteins of Propionibacterium freudenreichii are involved in its anti-inflammatory properties
-
[22] Le Maréchal, C., Peton, V., Plé, C., Vroland, C., Jardin, J., Briard-Bion, V., et al. Surface proteins of Propionibacterium freudenreichii are involved in its anti-inflammatory properties. J. Proteome 113 (2014), 447–461, 10.1016/j.jprot.2014.07.018.
-
(2014)
J. Proteome
, vol.113
, pp. 447-461
-
-
Le Maréchal, C.1
Peton, V.2
Plé, C.3
Vroland, C.4
Jardin, J.5
Briard-Bion, V.6
-
23
-
-
52049107593
-
Proteomics of stress response in Bifidobacterium
-
[23] Sanchez, B., et al. Proteomics of stress response in Bifidobacterium. Front. Biosci. Volume, 6905, 2008, 10.2741/3198.
-
(2008)
Front. Biosci. Volume
, vol.6905
-
-
Sanchez, B.1
-
24
-
-
84886242828
-
Omics for the study of probiotic microorganisms
-
[24] Sánchez, B., Ruiz, L., Gueimonde, M., Margolles, A., Omics for the study of probiotic microorganisms. Food Res. Int. 54 (2013), 1061–1071, 10.1016/j.foodres.2013.01.029.
-
(2013)
Food Res. Int.
, vol.54
, pp. 1061-1071
-
-
Sánchez, B.1
Ruiz, L.2
Gueimonde, M.3
Margolles, A.4
-
25
-
-
78650609691
-
Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging
-
[25] Turroni, F., Bottacini, F., Foroni, E., Mulder, I., Kim, J.-H., Zomer, A., et al. Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging. Proc. Natl. Acad. Sci. U. S. A. 107 (2010), 19514–19519, 10.1073/pnas.1011100107.
-
(2010)
Proc. Natl. Acad. Sci. U. S. A.
, vol.107
, pp. 19514-19519
-
-
Turroni, F.1
Bottacini, F.2
Foroni, E.3
Mulder, I.4
Kim, J.-H.5
Zomer, A.6
-
26
-
-
84922597279
-
Uncovering surface-exposed antigens of Lactobacillus rhamnosus by cell shaving proteomics and two-dimensional immunoblotting
-
[26] Espino, E., Koskenniemi, K., Mato-Rodriguez, L., Nyman, T.A., Reunanen, J., Koponen, J., et al. Uncovering surface-exposed antigens of Lactobacillus rhamnosus by cell shaving proteomics and two-dimensional immunoblotting. J. Proteome Res. 14 (2015), 1010–1024, 10.1021/pr501041a.
-
(2015)
J. Proteome Res.
, vol.14
, pp. 1010-1024
-
-
Espino, E.1
Koskenniemi, K.2
Mato-Rodriguez, L.3
Nyman, T.A.4
Reunanen, J.5
Koponen, J.6
-
27
-
-
84859963423
-
Lactocepin secreted by Lactobacillus exerts anti-inflammatory effects by selectively degrading proinflammatory chemokines
-
[27] von Schillde, M.-A., Hörmannsperger, G., Weiher, M., Alpert, C.-A., Hahne, H., Bäuerl, C., et al. Lactocepin secreted by Lactobacillus exerts anti-inflammatory effects by selectively degrading proinflammatory chemokines. Cell Host Microbe 11 (2012), 387–396, 10.1016/j.chom.2012.02.006.
-
(2012)
Cell Host Microbe
, vol.11
, pp. 387-396
-
-
von Schillde, M.-A.1
Hörmannsperger, G.2
Weiher, M.3
Alpert, C.-A.4
Hahne, H.5
Bäuerl, C.6
-
28
-
-
0031837579
-
Two-dimensional electrophoresis of proteins in an immobilized pH 4–12 gradient
-
[28] Gorg, A., Boguth, G., Obermaier, C., Weiss, W., Two-dimensional electrophoresis of proteins in an immobilized pH 4–12 gradient. Electrophoresis 19 (1998), 1516–1519, 10.1002/elps.1150190850.
-
(1998)
Electrophoresis
, vol.19
, pp. 1516-1519
-
-
Gorg, A.1
Boguth, G.2
Obermaier, C.3
Weiss, W.4
-
29
-
-
13844312665
-
Differential proteomics: an overview of gel and non-gel based approaches
-
[29] Monteoliva, L., Albar, J.P., Differential proteomics: an overview of gel and non-gel based approaches. Brief. Funct. Genomic. Proteomic. 3 (2004), 220–239, 10.1093/bfgp/3.3.220.
-
(2004)
Brief. Funct. Genomic. Proteomic.
, vol.3
, pp. 220-239
-
-
Monteoliva, L.1
Albar, J.P.2
-
30
-
-
84871364597
-
Gel-based and gel-free quantitative proteomics approaches at a glance
-
[30] Abdallah, C., Dumas-Gaudot, E., Renaut, J., Sergeant, K., Gel-based and gel-free quantitative proteomics approaches at a glance. Int. J. Plant Genomics., 1–17, 2012, 10.1155/2012/494572.
-
(2012)
Int. J. Plant Genomics.
, vol.1-17
-
-
Abdallah, C.1
Dumas-Gaudot, E.2
Renaut, J.3
Sergeant, K.4
-
31
-
-
84864074492
-
Molecular mechanisms of probiotic action: a proteomic perspective
-
[31] Siciliano, R.A., Mazzeo, M.F., Molecular mechanisms of probiotic action: a proteomic perspective. Curr. Opin. Microbiol. 15 (2012), 390–396, 10.1016/j.mib.2012.03.006.
-
(2012)
Curr. Opin. Microbiol.
, vol.15
, pp. 390-396
-
-
Siciliano, R.A.1
Mazzeo, M.F.2
-
32
-
-
79955053218
-
Proteomics, human gut microbiota and probiotics
-
[32] Aires, J., Butel, M.-J., Proteomics, human gut microbiota and probiotics. Expert Rev. Proteomics. 8 (2011), 279–288, 10.1586/epr.11.5.
-
(2011)
Expert Rev. Proteomics.
, vol.8
, pp. 279-288
-
-
Aires, J.1
Butel, M.-J.2
-
33
-
-
83055176451
-
Mapping intact protein isoforms in discovery mode using top-down proteomics
-
[33] Tran, J.C., Zamdborg, L., Ahlf, D.R., Lee, J.E., Catherman, A.D., Durbin, K.R., et al. Mapping intact protein isoforms in discovery mode using top-down proteomics. Nature 480 (2011), 254–258, 10.1038/nature10575.
-
(2011)
Nature
, vol.480
, pp. 254-258
-
-
Tran, J.C.1
Zamdborg, L.2
Ahlf, D.R.3
Lee, J.E.4
Catherman, A.D.5
Durbin, K.R.6
-
34
-
-
0016711037
-
High resolution two-dimensional electrophoresis of proteins
-
[34] O'Farrell, P.H., High resolution two-dimensional electrophoresis of proteins. J. Biol. Chem. 250 (1975), 4007–4021, 10.1016/j.bbi.2008.05.010.
-
(1975)
J. Biol. Chem.
, vol.250
, pp. 4007-4021
-
-
O'Farrell, P.H.1
-
35
-
-
21744455549
-
Effect of heat-shock and bile salts on protein synthesis of Bifidobacterium longum revealed by [35S]methionine labelling and two-dimensional gel electrophoresis
-
[35] Savijoki, K., Suokko, A., Palva, A., Valmu, L., Kalkkinen, N., Varmanen, P., Effect of heat-shock and bile salts on protein synthesis of Bifidobacterium longum revealed by [35S]methionine labelling and two-dimensional gel electrophoresis. FEMS Microbiol. Lett. 248 (2005), 207–215, 10.1016/j.femsle.2005.05.032.
-
(2005)
FEMS Microbiol. Lett.
, vol.248
, pp. 207-215
-
-
Savijoki, K.1
Suokko, A.2
Palva, A.3
Valmu, L.4
Kalkkinen, N.5
Varmanen, P.6
-
36
-
-
34047165349
-
Two-dimensional electrophoresis in proteome expression analysis
-
[36] Lopez, J.L., Two-dimensional electrophoresis in proteome expression analysis. J. Chromatogr. B Anal. Technol. Biomed. Life Sci. 849 (2007), 190–202, 10.1016/j.jchromb.2006.11.049.
-
(2007)
J. Chromatogr. B Anal. Technol. Biomed. Life Sci.
, vol.849
, pp. 190-202
-
-
Lopez, J.L.1
-
37
-
-
69249222678
-
Membrane proteins and proteomics: love is possible, but so difficult
-
[37] Rabilloud, T., Membrane proteins and proteomics: love is possible, but so difficult. Electrophoresis, 30, 2009, 10.1002/elps.200900050.
-
(2009)
Electrophoresis
, vol.30
-
-
Rabilloud, T.1
-
38
-
-
34249826612
-
Combined cup loading, bis(2-hydroxyethyl) disulfide, and protein precipitation protocols to improve the alkaline proteome of Lactobacillus hilgardii
-
[38] Lamberti, C., Pessione, E., Giuffrida, M.G., Mazzoli, R., Barello, C., Conti, A., et al. Combined cup loading, bis(2-hydroxyethyl) disulfide, and protein precipitation protocols to improve the alkaline proteome of Lactobacillus hilgardii. Electrophoresis 28 (2007), 1633–1638, 10.1002/elps.200600496.
-
(2007)
Electrophoresis
, vol.28
, pp. 1633-1638
-
-
Lamberti, C.1
Pessione, E.2
Giuffrida, M.G.3
Mazzoli, R.4
Barello, C.5
Conti, A.6
-
39
-
-
0343376097
-
Difference gel electrophoresis: a single gel method for detecting changes in protein extracts
-
[39] Unlü, M., Morgan, M.E., Minden, J.S., Difference gel electrophoresis: a single gel method for detecting changes in protein extracts. Electrophoresis 18 (1997), 2071–2077, 10.1002/elps.1150181133.
-
(1997)
Electrophoresis
, vol.18
, pp. 2071-2077
-
-
Unlü, M.1
Morgan, M.E.2
Minden, J.S.3
-
40
-
-
84860523938
-
Proteomic and transcriptomic analysis of the response to bile stress of Lactobacillus casei BL23
-
[40] Alcántara, C., Zúñiga, M., Proteomic and transcriptomic analysis of the response to bile stress of Lactobacillus casei BL23. Microbiology 158 (2012), 1206–1218, 10.1099/mic.0.055657-0.
-
(2012)
Microbiology
, vol.158
, pp. 1206-1218
-
-
Alcántara, C.1
Zúñiga, M.2
-
41
-
-
84855524935
-
Investigation of biomarkers of bile tolerance in Lactobacillus casei using comparative proteomics
-
[41] Hamon, E., Horvatovich, P., Bisch, M., Bringel, F., Marchioni, E., Aoudé-Werner, D., et al. Investigation of biomarkers of bile tolerance in Lactobacillus casei using comparative proteomics. J. Proteome Res. 11 (2012), 109–118, 10.1021/pr200828t.
-
(2012)
J. Proteome Res.
, vol.11
, pp. 109-118
-
-
Hamon, E.1
Horvatovich, P.2
Bisch, M.3
Bringel, F.4
Marchioni, E.5
Aoudé-Werner, D.6
-
42
-
-
67649095219
-
Coculture of Bifidobacterium longum and Bifidobacterium breve alters their protein expression profiles and enzymatic activities
-
[42] Ruiz, L., Sánchez, B., de los Reyes-Gavilán, C.G., Gueimonde, M., Margolles, A., Coculture of Bifidobacterium longum and Bifidobacterium breve alters their protein expression profiles and enzymatic activities. Int. J. Food Microbiol. 133 (2009), 148–153, 10.1016/j.ijfoodmicro.2009.05.014.
-
(2009)
Int. J. Food Microbiol.
, vol.133
, pp. 148-153
-
-
Ruiz, L.1
Sánchez, B.2
de los Reyes-Gavilán, C.G.3
Gueimonde, M.4
Margolles, A.5
-
43
-
-
84929376957
-
The differential proteome of the probiotic Lactobacillus acidophilus NCFM grown on the potential prebiotic cellobiose shows upregulation of two β-glycoside hydrolases
-
[43] van Zanten, G.C., Sparding, N., Majumder, A., Lahtinen, S.J., Svensson, B., Jacobsen, S., The differential proteome of the probiotic Lactobacillus acidophilus NCFM grown on the potential prebiotic cellobiose shows upregulation of two β-glycoside hydrolases. Biomed Res. Int., 2015, 2015, 347216, 10.1155/2015/347216.
-
(2015)
Biomed Res. Int.
, vol.2015
, pp. 347216
-
-
van Zanten, G.C.1
Sparding, N.2
Majumder, A.3
Lahtinen, S.J.4
Svensson, B.5
Jacobsen, S.6
-
44
-
-
65949115304
-
2-DE and MS analysis of key proteins in the adhesion of Lactobacillus plantarum, a first step toward early selection of probiotics based on bacterial biomarkers
-
[44] Izquierdo, E., Horvatovich, P., Marchioni, E., Aoude-Werner, D., Sanz, Y., Ennahar, S., 2-DE and MS analysis of key proteins in the adhesion of Lactobacillus plantarum, a first step toward early selection of probiotics based on bacterial biomarkers. Electrophoresis 30 (2009), 949–956, 10.1002/elps.200800399.
-
(2009)
Electrophoresis
, vol.30
, pp. 949-956
-
-
Izquierdo, E.1
Horvatovich, P.2
Marchioni, E.3
Aoude-Werner, D.4
Sanz, Y.5
Ennahar, S.6
-
45
-
-
77249161191
-
Proteomic comparison of the cytosolic proteins of three Bifidobacterium longum human isolates and B. longum NCC2705
-
[45] Aires, J., Anglade, P., Baraige, F., Zagorec, M., Champomier-Vergès, M.-C., Butel, M.-J., Proteomic comparison of the cytosolic proteins of three Bifidobacterium longum human isolates and B. longum NCC2705. BMC Microbiol., 10, 2010, 29, 10.1186/1471-2180-10-29.
-
(2010)
BMC Microbiol.
, vol.10
, pp. 29
-
-
Aires, J.1
Anglade, P.2
Baraige, F.3
Zagorec, M.4
Champomier-Vergès, M.-C.5
Butel, M.-J.6
-
46
-
-
84878560872
-
Insights into the ropy phenotype of the exopolysaccharide-producing strain Bifidobacterium animalis subsp. lactis A1dOxR
-
[46] Hidalgo-Cantabrana, C., Sánchez, B., Moine, D., Berger, B., de Los Reyes-Gavilán, C.G., Gueimonde, M., et al. Insights into the ropy phenotype of the exopolysaccharide-producing strain Bifidobacterium animalis subsp. lactis A1dOxR. Appl. Environ. Microbiol. 79 (2013), 3870–3874, 10.1128/AEM.00633-13.
-
(2013)
Appl. Environ. Microbiol.
, vol.79
, pp. 3870-3874
-
-
Hidalgo-Cantabrana, C.1
Sánchez, B.2
Moine, D.3
Berger, B.4
de Los Reyes-Gavilán, C.G.5
Gueimonde, M.6
-
47
-
-
35948983402
-
Adaptation and response of Bifidobacterium animalis subsp. lactis to bile: a proteomic and physiological approach
-
[47] Sánchez, B., Champomier-Vergès, M.-C., Stuer-Lauridsen, B., Ruas-Madiedo, P., Anglade, P., Baraige, F., et al. Adaptation and response of Bifidobacterium animalis subsp. lactis to bile: a proteomic and physiological approach. Appl. Environ. Microbiol. 73 (2007), 6757–6767, 10.1128/AEM.00637-07.
-
(2007)
Appl. Environ. Microbiol.
, vol.73
, pp. 6757-6767
-
-
Sánchez, B.1
Champomier-Vergès, M.-C.2
Stuer-Lauridsen, B.3
Ruas-Madiedo, P.4
Anglade, P.5
Baraige, F.6
-
48
-
-
35448990451
-
Low-pH adaptation and the acid tolerance response of Bifidobacterium longum biotype longum
-
[48] Sánchez, B., Champomier-Vergès, M.-C., del C. Collado, M., Anglade, P., Baraige, F., Sanz, Y., et al. Low-pH adaptation and the acid tolerance response of Bifidobacterium longum biotype longum. Appl. Environ. Microbiol. 73 (2007), 6450–6459, 10.1128/AEM.00886-07.
-
(2007)
Appl. Environ. Microbiol.
, vol.73
, pp. 6450-6459
-
-
Sánchez, B.1
Champomier-Vergès, M.-C.2
del C. Collado, M.3
Anglade, P.4
Baraige, F.5
Sanz, Y.6
-
49
-
-
23644445359
-
Proteomic analysis of global changes in protein expression during bile salt exposure of Bifidobacterium longum NCIMB 8809
-
[49] Sánchez, B., Champomier-Vergès, M.-C., Anglade, P., Baraige, F., de Los Reyes-Gavilán, C.G., Margolles, A., et al. Proteomic analysis of global changes in protein expression during bile salt exposure of Bifidobacterium longum NCIMB 8809. J. Bacteriol. 187 (2005), 5799–5808, 10.1128/JB.187.16.5799-5808.2005.
-
(2005)
J. Bacteriol.
, vol.187
, pp. 5799-5808
-
-
Sánchez, B.1
Champomier-Vergès, M.-C.2
Anglade, P.3
Baraige, F.4
de Los Reyes-Gavilán, C.G.5
Margolles, A.6
-
50
-
-
33846105280
-
Proteolytic 18O-labeling strategies for quantitative proteomics
-
[50] Miyagi, M., Rao, K.C.S., Proteolytic 18O-labeling strategies for quantitative proteomics. Mass Spectrom. Rev. 26 (2007), 121–136, 10.1002/mas.
-
(2007)
Mass Spectrom. Rev.
, vol.26
, pp. 121-136
-
-
Miyagi, M.1
Rao, K.C.S.2
-
51
-
-
0942265386
-
In vivo uniform 15N-isotope labelling of plants: using the greenhouse for structural proteomics
-
[51] Ippel, J.H., Pouvreau, L., Kroef, T., Gruppen, H., Versteeg, G., Van Den Putten, P., et al. In vivo uniform 15N-isotope labelling of plants: using the greenhouse for structural proteomics. Proteomics 4 (2004), 226–234, 10.1002/pmic.200300506.
-
(2004)
Proteomics
, vol.4
, pp. 226-234
-
-
Ippel, J.H.1
Pouvreau, L.2
Kroef, T.3
Gruppen, H.4
Versteeg, G.5
Van Den Putten, P.6
-
52
-
-
84941637169
-
Quantitative Proteomics Using SILAC: Principles, Applications and Developments
-
[52] Chen, X., Wei, S., Ji, Y., Guo, X., Yang, F., Quantitative Proteomics Using SILAC: Principles, Applications and Developments. 2015, 10.1002/pmic.201500108.
-
(2015)
-
-
Chen, X.1
Wei, S.2
Ji, Y.3
Guo, X.4
Yang, F.5
-
53
-
-
0032875697
-
Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
-
[53] Gygi, S.P., Rist, B., Gerber, S.A., Turecek, F., Gelb, M.H., Aebersold, R., Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat. Biotechnol. 17 (1999), 994–999, 10.1038/13690.
-
(1999)
Nat. Biotechnol.
, vol.17
, pp. 994-999
-
-
Gygi, S.P.1
Rist, B.2
Gerber, S.A.3
Turecek, F.4
Gelb, M.H.5
Aebersold, R.6
-
54
-
-
33748535101
-
Shotgun proteomics using the iTRAQ isobaric tags
-
[54] Aggarwal, K., Choe, L.H., Lee, K.H., Shotgun proteomics using the iTRAQ isobaric tags. Brief. Funct. Genomic. Proteomic. 5 (2006), 112–120, 10.1093/bfgp/ell018.
-
(2006)
Brief. Funct. Genomic. Proteomic.
, vol.5
, pp. 112-120
-
-
Aggarwal, K.1
Choe, L.H.2
Lee, K.H.3
-
55
-
-
84863758944
-
Profiling thiol redox proteome using isotope tagging mass spectrometry
-
[55] Parker, J., Zhu, N., Zhu, M., Chen, S., Profiling thiol redox proteome using isotope tagging mass spectrometry. J. Vis. Exp., 2–7, 2012, 10.3791/3766.
-
(2012)
J. Vis. Exp.
, vol.2-7
-
-
Parker, J.1
Zhu, N.2
Zhu, M.3
Chen, S.4
-
56
-
-
67649511917
-
Isotope dilution strategies for absolute quantitative proteomics
-
[56] Brun, V., Masselon, C., Garin, J., Dupuis, A., Isotope dilution strategies for absolute quantitative proteomics. J. Proteome 72 (2009), 740–749, 10.1016/j.jprot.2009.03.007.
-
(2009)
J. Proteome
, vol.72
, pp. 740-749
-
-
Brun, V.1
Masselon, C.2
Garin, J.3
Dupuis, A.4
-
57
-
-
48849111382
-
Affinity separation and enrichment methods in proteomic analysis
-
doi: 10.1016/j.jprot.2008.06.011
-
[57] Fang, X., Zhang, W.W., Affinity separation and enrichment methods in proteomic analysis. J. Proteome 71 (2008), 284–303 doi: 10.1016/j.jprot.2008.06.011.
-
(2008)
J. Proteome
, vol.71
, pp. 284-303
-
-
Fang, X.1
Zhang, W.W.2
-
58
-
-
33847179916
-
Multiplexed absolute quantification for proteomics using concatenated signature peptides encoded by QconCAT genes
-
[58] Pratt, J.M., Simpson, D.M., Doherty, M.K., Rivers, J., Gaskell, S.J., Beynon, R.J., Multiplexed absolute quantification for proteomics using concatenated signature peptides encoded by QconCAT genes. Nat. Protoc. 1 (2006), 1029–1043, 10.1038/nprot.2006.129.
-
(2006)
Nat. Protoc.
, vol.1
, pp. 1029-1043
-
-
Pratt, J.M.1
Simpson, D.M.2
Doherty, M.K.3
Rivers, J.4
Gaskell, S.J.5
Beynon, R.J.6
-
59
-
-
10244256354
-
Isotope dilution-mass spectrometric quantification of specific proteins: model application with apolipoprotein A-I
-
[59] Barr, J.R., Maggio, V.L., Patterson, D.G., Cooper, G.R., Henderson, L.O., Turner, W.E., et al. Isotope dilution-mass spectrometric quantification of specific proteins: model application with apolipoprotein A-I. Clin. Chem. 42 (1996), 1676–1682.
-
(1996)
Clin. Chem.
, vol.42
, pp. 1676-1682
-
-
Barr, J.R.1
Maggio, V.L.2
Patterson, D.G.3
Cooper, G.R.4
Henderson, L.O.5
Turner, W.E.6
-
60
-
-
57849139691
-
Playing tag with quantitative proteomics
-
[60] Iliuk, A., Galan, J., Tao, W.A., Playing tag with quantitative proteomics. Anal. Bioanal. Chem. 393 (2009), 503–513, 10.1007/s00216-008-2386-0.
-
(2009)
Anal. Bioanal. Chem.
, vol.393
, pp. 503-513
-
-
Iliuk, A.1
Galan, J.2
Tao, W.A.3
-
61
-
-
84914161376
-
Proteomic profiling of the acid stress response in Lactobacillus plantarum 423
-
[61] Heunis, T., Deane, S., Smit, S., Dicks, L.M.T., Proteomic profiling of the acid stress response in Lactobacillus plantarum 423. J. Proteome Res. 13 (2014), 4028–4039, 10.1021/pr500353x.
-
(2014)
J. Proteome Res.
, vol.13
, pp. 4028-4039
-
-
Heunis, T.1
Deane, S.2
Smit, S.3
Dicks, L.M.T.4
-
62
-
-
84978012576
-
Cytosolic proteomes of Lactobacillus rhamnosus ATCC27773 cells grown in pH 5.5 and 6.5
-
(accessed January 14, 2016)
-
[62] A.O. Hussain, M.A., Wu, X., Natt, N., Cytosolic proteomes of Lactobacillus rhamnosus ATCC27773 cells grown in pH 5.5 and 6.5. J. Proteomics Comput. Biol., 2(1), 2015, 7 http://www.avensonline.org/fulltextarticles/JPCB-02-0004.html (accessed January 14, 2016).
-
(2015)
J. Proteomics Comput. Biol.
, vol.2
, Issue.1
, pp. 7
-
-
A.O. Hussain, M.A.1
Wu, X.2
Natt, N.3
-
63
-
-
67649503203
-
Label-free quantitative proteomics of two Bifidobacterium longum strains
-
[63] Guillaume, E., Berger, B., Affolter, M., Kussmann, M., Label-free quantitative proteomics of two Bifidobacterium longum strains. J. Proteome 72 (2009), 771–784, 10.1016/j.jprot.2009.03.004.
-
(2009)
J. Proteome
, vol.72
, pp. 771-784
-
-
Guillaume, E.1
Berger, B.2
Affolter, M.3
Kussmann, M.4
-
64
-
-
84890600756
-
Surface proteome analysis of a natural isolate of Lactococcus lactis reveals the presence of pili able to bind human intestinal epithelial cells
-
[64] Meyrand, M., Guillot, A., Goin, M., Furlan, S., Armalyte, J., Kulakauskas, S., et al. Surface proteome analysis of a natural isolate of Lactococcus lactis reveals the presence of pili able to bind human intestinal epithelial cells. Mol. Cell. Proteomics 12 (2013), 3935–3947, 10.1074/mcp.M113.029066.
-
(2013)
Mol. Cell. Proteomics
, vol.12
, pp. 3935-3947
-
-
Meyrand, M.1
Guillot, A.2
Goin, M.3
Furlan, S.4
Armalyte, J.5
Kulakauskas, S.6
-
65
-
-
84856455884
-
Different protein expression profiles in cheese and clinical isolates of Enterococcus faecalis revealed by proteomic analysis
-
[65] Pessione, A., Lamberti, C., Cocolin, L., Campolongo, S., Grunau, A., Giubergia, S., et al. Different protein expression profiles in cheese and clinical isolates of Enterococcus faecalis revealed by proteomic analysis. Proteomics 12 (2012), 431–447, 10.1002/pmic.201100468.
-
(2012)
Proteomics
, vol.12
, pp. 431-447
-
-
Pessione, A.1
Lamberti, C.2
Cocolin, L.3
Campolongo, S.4
Grunau, A.5
Giubergia, S.6
-
66
-
-
84879201623
-
Proteomics as a quality control tool of pharmaceutical probiotic bacterial lysate products
-
e66682
-
[66] Klein, G., Schanstra, J.P., Hoffmann, J., Mischak, H., Siwy, J., Zimmermann, K., Proteomics as a quality control tool of pharmaceutical probiotic bacterial lysate products. PLoS ONE, 8, 2013, e66682, 10.1371/journal.pone.0066682.
-
(2013)
PLoS ONE
, vol.8
-
-
Klein, G.1
Schanstra, J.P.2
Hoffmann, J.3
Mischak, H.4
Siwy, J.5
Zimmermann, K.6
-
67
-
-
33746295997
-
Gel-free and gel-based proteomics in Bacillus subtilis: a comparative study
-
[67] Wolff, S., Otto, A., Albrecht, D., Zeng, J.S., Büttner, K., Glückmann, M., et al. Gel-free and gel-based proteomics in Bacillus subtilis: a comparative study. Mol. Cell. Proteomics 5 (2006), 1183–1192, 10.1074/mcp.M600069-MCP200.
-
(2006)
Mol. Cell. Proteomics
, vol.5
, pp. 1183-1192
-
-
Wolff, S.1
Otto, A.2
Albrecht, D.3
Zeng, J.S.4
Büttner, K.5
Glückmann, M.6
-
68
-
-
85037661306
-
Proteomics and Food Analysis: Principles, Techniques, and Applications, Handb. Food Anal.
-
third ed. (accessed January 14, 2016)
-
[68] Carmen Piñeiro, I.M., Carrera, Mónica, Cañas, Benito, Lekube, Xabier, Proteomics and Food Analysis: Principles, Techniques, and Applications, Handb. Food Anal. third ed., 2015, 369–391. http://www.crcnetbase.com/doi/abs/10.1201/b18668-22 (accessed January 14, 2016).
-
(2015)
, pp. 369-391.
-
-
Carmen Piñeiro, I.M.1
Carrera, M.2
Cañas, B.3
Lekube, X.4
-
69
-
-
84944153504
-
Ten years of subproteome investigations in lactic acid bacteria: a key for food starter and probiotic typing
-
[69] Mangiapane, E., Mazzoli, R., Pessione, A., Svensson, B., Riedel, K., Pessione, E., Ten years of subproteome investigations in lactic acid bacteria: a key for food starter and probiotic typing. J. Proteome 127 (2015), 332–339, 10.1016/j.jprot.2015.04.028.
-
(2015)
J. Proteome
, vol.127
, pp. 332-339
-
-
Mangiapane, E.1
Mazzoli, R.2
Pessione, A.3
Svensson, B.4
Riedel, K.5
Pessione, E.6
-
70
-
-
84855901086
-
Effect of acid stress on protein expression and phosphorylation in Lactobacillus rhamnosus GG
-
[70] Koponen, J., Laakso, K., Koskenniemi, K., Kankainen, M., Savijoki, K., Nyman, T.A., et al. Effect of acid stress on protein expression and phosphorylation in Lactobacillus rhamnosus GG. J. Proteome 75 (2012), 1357–1374, 10.1016/j.jprot.2011.11.009.
-
(2012)
J. Proteome
, vol.75
, pp. 1357-1374
-
-
Koponen, J.1
Laakso, K.2
Koskenniemi, K.3
Kankainen, M.4
Savijoki, K.5
Nyman, T.A.6
-
71
-
-
85028169223
-
Proteomic characterization of the acid tolerance response in Lactobacillus delbrueckii subsp. bulgaricus CAUH1 and functional identification of a novel acid stress-related transcriptional regulator Ldb0677
-
[71] Zhai, Z., Douillard, F.P., An, H., Wang, G., Guo, X., Luo, Y., et al. Proteomic characterization of the acid tolerance response in Lactobacillus delbrueckii subsp. bulgaricus CAUH1 and functional identification of a novel acid stress-related transcriptional regulator Ldb0677. Environ. Microbiol. 16 (2014), 1524–1537, 10.1111/1462-2920.12280.
-
(2014)
Environ. Microbiol.
, vol.16
, pp. 1524-1537
-
-
Zhai, Z.1
Douillard, F.P.2
An, H.3
Wang, G.4
Guo, X.5
Luo, Y.6
-
72
-
-
42549161072
-
The effect of low pH on protein expression by the probiotic bacterium Lactobacillus reuteri
-
[72] Lee, K., Lee, H.G., Pi, K., Choi, Y.J., The effect of low pH on protein expression by the probiotic bacterium Lactobacillus reuteri. Proteomics 8 (2008), 1624–1630, 10.1002/pmic.200700663.
-
(2008)
Proteomics
, vol.8
, pp. 1624-1630
-
-
Lee, K.1
Lee, H.G.2
Pi, K.3
Choi, Y.J.4
-
73
-
-
84921681342
-
Physiological and proteomic analysis of Lactobacillus casei in response to acid adaptation
-
[73] Wu, C., He, G., Zhang, J., Physiological and proteomic analysis of Lactobacillus casei in response to acid adaptation. J. Ind. Microbiol. Biotechnol. 41 (2014), 1533–1540, 10.1007/s10295-014-1487-3.
-
(2014)
J. Ind. Microbiol. Biotechnol.
, vol.41
, pp. 1533-1540
-
-
Wu, C.1
He, G.2
Zhang, J.3
-
74
-
-
49749129245
-
Rerouting of pyruvate metabolism during acid adaptation in Lactobacillus bulgaricus
-
[74] Fernandez, A., Ogawa, J., Penaud, S., Boudebbouze, S., Ehrlich, D., van de Guchte, M., et al. Rerouting of pyruvate metabolism during acid adaptation in Lactobacillus bulgaricus. Proteomics 8 (2008), 3154–3163, 10.1002/pmic.200700974.
-
(2008)
Proteomics
, vol.8
, pp. 3154-3163
-
-
Fernandez, A.1
Ogawa, J.2
Penaud, S.3
Boudebbouze, S.4
Ehrlich, D.5
van de Guchte, M.6
-
75
-
-
84928901956
-
Effect of pre-stressing on the acid-stress response in Bifidobacterium revealed using proteomic and physiological approaches
-
e0117702
-
[75] Jin, J., Qin, Q., Guo, H., Liu, S., Ge, S., Zhang, H., et al. Effect of pre-stressing on the acid-stress response in Bifidobacterium revealed using proteomic and physiological approaches. PLoS ONE, 10, 2015, e0117702, 10.1371/journal.pone.0117702.
-
(2015)
PLoS ONE
, vol.10
-
-
Jin, J.1
Qin, Q.2
Guo, H.3
Liu, S.4
Ge, S.5
Zhang, H.6
-
76
-
-
77949354052
-
Understanding the acid tolerance response of bifidobacteria
-
[76] Waddington, L., Cyr, T., Hefford, M., Hansen, L.T., Kalmokoff, M., Understanding the acid tolerance response of bifidobacteria. J. Appl. Microbiol. 108 (2010), 1408–1420, 10.1111/j.1365-2672.2009.04540.x.
-
(2010)
J. Appl. Microbiol.
, vol.108
, pp. 1408-1420
-
-
Waddington, L.1
Cyr, T.2
Hefford, M.3
Hansen, L.T.4
Kalmokoff, M.5
-
77
-
-
1542373514
-
Mass spectrometry proteomic analysis of stress adaptation reveals both common and distinct response pathways in Propionibacterium freudenreichii
-
[77] Leverrier, P., Vissers, J.P.C., Rouault, A., Boyaval, P., Jan, G., Mass spectrometry proteomic analysis of stress adaptation reveals both common and distinct response pathways in Propionibacterium freudenreichii. Arch. Microbiol. 181 (2004), 215–230, 10.1007/s00203-003-0646-0.
-
(2004)
Arch. Microbiol.
, vol.181
, pp. 215-230
-
-
Leverrier, P.1
Vissers, J.P.C.2
Rouault, A.3
Boyaval, P.4
Jan, G.5
-
78
-
-
84859503113
-
A two component system is involved in acid adaptation of Lactobacillus delbrueckii subsp. bulgaricus
-
[78] Cui, Y., Liu, W., Qu, X., Chen, Z., Zhang, X., Liu, T., et al. A two component system is involved in acid adaptation of Lactobacillus delbrueckii subsp. bulgaricus. Microbiol. Res. 167 (2012), 253–261, 10.1016/j.micres.2011.11.003.
-
(2012)
Microbiol. Res.
, vol.167
, pp. 253-261
-
-
Cui, Y.1
Liu, W.2
Qu, X.3
Chen, Z.4
Zhang, X.5
Liu, T.6
-
79
-
-
84891281531
-
Fermentation and proteome profiles of Lactobacillus plantarum strains during growth under food-like conditions
-
[79] Siragusa, S., De Angelis, M., Calasso, M., Campanella, D., Minervini, F., Di Cagno, R., et al. Fermentation and proteome profiles of Lactobacillus plantarum strains during growth under food-like conditions. J. Proteome 96 (2014), 366–380, 10.1016/j.jprot.2013.11.003.
-
(2014)
J. Proteome
, vol.96
, pp. 366-380
-
-
Siragusa, S.1
De Angelis, M.2
Calasso, M.3
Campanella, D.4
Minervini, F.5
Di Cagno, R.6
-
80
-
-
84868087230
-
Metabolic and proteomic adaptation of Lactobacillus rhamnosus strains during growth under cheese-like environmental conditions compared to de Man, Rogosa, and Sharpe medium
-
[80] Bove, C.G., De Angelis, M., Gatti, M., Calasso, M., Neviani, E., Gobbetti, M., Metabolic and proteomic adaptation of Lactobacillus rhamnosus strains during growth under cheese-like environmental conditions compared to de Man, Rogosa, and Sharpe medium. Proteomics 12 (2012), 3206–3218, 10.1002/pmic.201200157.
-
(2012)
Proteomics
, vol.12
, pp. 3206-3218
-
-
Bove, C.G.1
De Angelis, M.2
Gatti, M.3
Calasso, M.4
Neviani, E.5
Gobbetti, M.6
-
81
-
-
84855849594
-
A temporal-omic study of Propionibacterium freudenreichii CIRM-BIA1 adaptation strategies in conditions mimicking cheese ripening in the cold
-
e29083
-
[81] Dalmasso, M., Aubert, J., Briard-Bion, V., Chuat, V., Deutsch, S.-M., Even, S., et al. A temporal-omic study of Propionibacterium freudenreichii CIRM-BIA1 adaptation strategies in conditions mimicking cheese ripening in the cold. PLoS ONE, 7, 2012, e29083, 10.1371/journal.pone.0029083.
-
(2012)
PLoS ONE
, vol.7
-
-
Dalmasso, M.1
Aubert, J.2
Briard-Bion, V.3
Chuat, V.4
Deutsch, S.-M.5
Even, S.6
-
82
-
-
70449366364
-
Proteome analysis of Lactobacillus rhamnosus GG using 2-D DIGE and mass spectrometry shows differential protein production in laboratory and industrial-type growth media
-
[82] Koskenniemi, K., Koponen, J., Kankainen, M., Savijoki, K., Tynkkynen, S., De Vos, W.M., et al. Proteome analysis of Lactobacillus rhamnosus GG using 2-D DIGE and mass spectrometry shows differential protein production in laboratory and industrial-type growth media. J. Proteome Res. 8 (2009), 4993–5007, 10.1021/pr9003823.
-
(2009)
J. Proteome Res.
, vol.8
, pp. 4993-5007
-
-
Koskenniemi, K.1
Koponen, J.2
Kankainen, M.3
Savijoki, K.4
Tynkkynen, S.5
De Vos, W.M.6
-
83
-
-
0028141696
-
Starvation-induced stress resistance in Lactococcus lactis subsp. lactis IL1403
-
[83] Hartke, A., Bouche, S., Gansel, X., Boutibonnes, P., Auffray, Y., Starvation-induced stress resistance in Lactococcus lactis subsp. lactis IL1403. Appl. Environ. Microbiol., 60, 1994, 3474.
-
(1994)
Appl. Environ. Microbiol.
, vol.60
, pp. 3474
-
-
Hartke, A.1
Bouche, S.2
Gansel, X.3
Boutibonnes, P.4
Auffray, Y.5
-
84
-
-
60049085864
-
Proteomic analysis of lactose-starved Lactobacillus casei during stationary growth phase
-
[84] Hussain, M.A., Knight, M.I., Britz, M.L., Proteomic analysis of lactose-starved Lactobacillus casei during stationary growth phase. J. Appl. Microbiol. 106 (2009), 764–773, 10.1111/j.1365-2672.2008.03961.x.
-
(2009)
J. Appl. Microbiol.
, vol.106
, pp. 764-773
-
-
Hussain, M.A.1
Knight, M.I.2
Britz, M.L.3
-
85
-
-
84887229191
-
Impact of lactose starvation on the physiology of Lactobacillus casei GCRL163 in the presence or absence of Tween 80
-
[85] Al-Naseri, A., Bowman, J.P., Wilson, R., Nilsson, R.E., Britz, M.L., Impact of lactose starvation on the physiology of Lactobacillus casei GCRL163 in the presence or absence of Tween 80. J. Proteome Res. 12 (2013), 5313–5322, 10.1021/pr400661g.
-
(2013)
J. Proteome Res.
, vol.12
, pp. 5313-5322
-
-
Al-Naseri, A.1
Bowman, J.P.2
Wilson, R.3
Nilsson, R.E.4
Britz, M.L.5
-
86
-
-
79958146340
-
Oxidative stress-related responses of Bifidobacterium longum subsp. longum BBMN68 at the proteomic level after exposure to oxygen
-
[86] Xiao, M., Xu, P., Zhao, J., Wang, Z., Zuo, F., Zhang, J., et al. Oxidative stress-related responses of Bifidobacterium longum subsp. longum BBMN68 at the proteomic level after exposure to oxygen. Microbiology 157 (2011), 1573–1588, 10.1099/mic.0.044297-0.
-
(2011)
Microbiology
, vol.157
, pp. 1573-1588
-
-
Xiao, M.1
Xu, P.2
Zhao, J.3
Wang, Z.4
Zuo, F.5
Zhang, J.6
-
87
-
-
84920705459
-
Proteomic analysis of the response to NaCl stress of Lactobacillus bulgaricus
-
[87] Li, C., Li, P.-Z., Sun, J.-W., Huo, G.-C., Liu, L.-B., Proteomic analysis of the response to NaCl stress of Lactobacillus bulgaricus. Biotechnol. Lett. 36 (2014), 2263–2269, 10.1007/s10529-014-1601-7.
-
(2014)
Biotechnol. Lett.
, vol.36
, pp. 2263-2269
-
-
Li, C.1
Li, P.-Z.2
Sun, J.-W.3
Huo, G.-C.4
Liu, L.-B.5
-
88
-
-
84866893539
-
Comparative proteomic analysis of Lactobacillus plantarum WCFS1 and ΔctsR mutant strains under physiological and heat stress conditions
-
[88] Russo, P., de la Luz Mohedano, M., Capozzi, V., de Palencia, P.F., López, P., Spano, G., et al. Comparative proteomic analysis of Lactobacillus plantarum WCFS1 and ΔctsR mutant strains under physiological and heat stress conditions. Int. J. Mol. Sci. 13 (2012), 10680–10696, 10.3390/ijms130910680.
-
(2012)
Int. J. Mol. Sci.
, vol.13
, pp. 10680-10696
-
-
Russo, P.1
de la Luz Mohedano, M.2
Capozzi, V.3
de Palencia, P.F.4
López, P.5
Spano, G.6
-
89
-
-
33645902169
-
Changes in protein synthesis during thermal adaptation of Propionibacterium freudenreichii subsp. shermanii
-
[89] Anastasiou, R., Leverrier, P., Krestas, I., Rouault, A., Kalantzopoulos, G., Boyaval, P., et al. Changes in protein synthesis during thermal adaptation of Propionibacterium freudenreichii subsp. shermanii. Int. J. Food Microbiol. 108 (2006), 301–314, 10.1016/j.ijfoodmicro.2005.11.015.
-
(2006)
Int. J. Food Microbiol.
, vol.108
, pp. 301-314
-
-
Anastasiou, R.1
Leverrier, P.2
Krestas, I.3
Rouault, A.4
Kalantzopoulos, G.5
Boyaval, P.6
-
90
-
-
33645462173
-
Comparative proteome approach to characterize the high-pressure stress response of Lactobacillus sanfranciscensis DSM 20451(T)
-
[90] Hörmann, S., Scheyhing, C., Behr, J., Pavlovic, M., Ehrmann, M., Vogel, R.F., Comparative proteome approach to characterize the high-pressure stress response of Lactobacillus sanfranciscensis DSM 20451(T). Proteomics 6 (2006), 1878–1885, 10.1002/pmic.200402086.
-
(2006)
Proteomics
, vol.6
, pp. 1878-1885
-
-
Hörmann, S.1
Scheyhing, C.2
Behr, J.3
Pavlovic, M.4
Ehrmann, M.5
Vogel, R.F.6
-
91
-
-
84877272638
-
Comparative proteome analysis of Bifidobacterium longum subsp. infantis grown on Glucans from different sources and a model for their utilization
-
[91] Zhao, J., Cheung, P.C.K., Comparative proteome analysis of Bifidobacterium longum subsp. infantis grown on Glucans from different sources and a model for their utilization. J. Agric. Food Chem. 61 (2013), 4360–4370, 10.1021/jf400792j.
-
(2013)
J. Agric. Food Chem.
, vol.61
, pp. 4360-4370
-
-
Zhao, J.1
Cheung, P.C.K.2
-
92
-
-
78149436124
-
Combined transcriptome and proteome analysis of Bifidobacterium animalis subsp. lactis BB-12 grown on xylo-oligosaccharides and a model of their utilization
-
[92] Gilad, O., Jacobsen, S., Stuer-Lauridsen, B., Pedersen, M.B., Garrigues, C., Svensson, B., Combined transcriptome and proteome analysis of Bifidobacterium animalis subsp. lactis BB-12 grown on xylo-oligosaccharides and a model of their utilization. Appl. Environ. Microbiol. 76 (2010), 7285–7291, 10.1128/AEM.00738-10.
-
(2010)
Appl. Environ. Microbiol.
, vol.76
, pp. 7285-7291
-
-
Gilad, O.1
Jacobsen, S.2
Stuer-Lauridsen, B.3
Pedersen, M.B.4
Garrigues, C.5
Svensson, B.6
-
93
-
-
84855891090
-
Insights into physiological traits of Bifidobacterium animalis subsp. lactis BB-12 through membrane proteome analysis
-
[93] Gilad, O., Hjernø, K., Østerlund, E.C., Margolles, A., Svensson, B., Stuer-Lauridsen, B., et al. Insights into physiological traits of Bifidobacterium animalis subsp. lactis BB-12 through membrane proteome analysis. J. Proteome 75 (2012), 1190–1200, 10.1016/j.jprot.2011.10.031.
-
(2012)
J. Proteome
, vol.75
, pp. 1190-1200
-
-
Gilad, O.1
Hjernø, K.2
Østerlund, E.C.3
Margolles, A.4
Svensson, B.5
Stuer-Lauridsen, B.6
-
94
-
-
80051822783
-
Proteome reference map of Lactobacillus acidophilus NCFM and quantitative proteomics towards understanding the prebiotic action of lactitol
-
[94] Majumder, A., Sultan, A., Jersie-Christensen, R.R., Ejby, M., Schmidt, B.G., Lahtinen, S.J., et al. Proteome reference map of Lactobacillus acidophilus NCFM and quantitative proteomics towards understanding the prebiotic action of lactitol. Proteomics 11 (2011), 3470–3481, 10.1002/pmic.201100115.
-
(2011)
Proteomics
, vol.11
, pp. 3470-3481
-
-
Majumder, A.1
Sultan, A.2
Jersie-Christensen, R.R.3
Ejby, M.4
Schmidt, B.G.5
Lahtinen, S.J.6
-
95
-
-
84952684631
-
Lactobacillus acidophilus-rutin interplay investigated by proteomics
-
e0142376
-
[95] Mazzeo, M.F., Lippolis, R., Sorrentino, A., Liberti, S., Fragnito, F., Siciliano, R.A., Lactobacillus acidophilus-rutin interplay investigated by proteomics. PLoS ONE, 10, 2015, e0142376, 10.1371/journal.pone.0142376.
-
(2015)
PLoS ONE
, vol.10
-
-
Mazzeo, M.F.1
Lippolis, R.2
Sorrentino, A.3
Liberti, S.4
Fragnito, F.5
Siciliano, R.A.6
-
96
-
-
79953078716
-
Comparative proteomic analysis of Lactobacillus plantarum for the identification of key proteins in bile tolerance
-
[96] Hamon, E., Horvatovich, P., Izquierdo, E., Bringel, F., Marchioni, E., Aoudé-Werner, D., et al. Comparative proteomic analysis of Lactobacillus plantarum for the identification of key proteins in bile tolerance. BMC Microbiol., 11, 2011, 63, 10.1186/1471-2180-11-63.
-
(2011)
BMC Microbiol.
, vol.11
, pp. 63
-
-
Hamon, E.1
Horvatovich, P.2
Izquierdo, E.3
Bringel, F.4
Marchioni, E.5
Aoudé-Werner, D.6
-
97
-
-
84874030878
-
Proteomic and transcriptional analysis of Lactobacillus johnsonii pf01 during bile salt exposure by itraq shotgun proteomics and quantitative RT-PCR
-
[97] Lee, J.Y., Pajarillo, E.A.B., Kim, M.J., Chae, J.P., Kang, D.K., Proteomic and transcriptional analysis of Lactobacillus johnsonii pf01 during bile salt exposure by itraq shotgun proteomics and quantitative RT-PCR. J. Proteome Res. 12 (2013), 432–443, 10.1021/pr300794y.
-
(2013)
J. Proteome Res.
, vol.12
, pp. 432-443
-
-
Lee, J.Y.1
Pajarillo, E.A.B.2
Kim, M.J.3
Chae, J.P.4
Kang, D.K.5
-
98
-
-
64049096809
-
The cell-envelope proteome of Bifidobacterium longum in an in vitro bile environment
-
[98] Ruiz, L., Couté, Y., Sánchez, B., De los Reyes-Gavilán, C.G., Sanchez, J.C., Margolles, A., The cell-envelope proteome of Bifidobacterium longum in an in vitro bile environment. Microbiology 155 (2009), 957–967, 10.1099/mic.0.024273-0.
-
(2009)
Microbiology
, vol.155
, pp. 957-967
-
-
Ruiz, L.1
Couté, Y.2
Sánchez, B.3
De los Reyes-Gavilán, C.G.4
Sanchez, J.C.5
Margolles, A.6
-
99
-
-
84907958774
-
-
[99] H. An, F.P. Douillard, G. Wang, Z. Zhai, J. Yang, S. Song et al., Integrated transcriptomic and proteomic analysis of the bile stress response in a centenarian-originated probiotic Bifidobacterium longum BBMN68., Mol. Cell. Proteomics. (2014) 2558–2572. doi: http://dx.doi.org/10.1074/mcp.M114.039156.
-
(2014)
Integrated transcriptomic and proteomic analysis of the bile stress response in a centenarian-originated probiotic Bifidobacterium longum BBMN68., Mol. Cell. Proteomics.
, pp. 2558-2572
-
-
An, H.1
Douillard, F.P.2
Wang, G.3
Zhai, Z.4
Yang, J.5
-
100
-
-
77955016876
-
Effect of bile salts stress on protein synthesis of Lactobacillus casei Zhang revealed by 2-dimensional gel electrophoresis
-
[100] Wu, R., Sun, Z., Wu, J., Meng, H., Zhang, H., Effect of bile salts stress on protein synthesis of Lactobacillus casei Zhang revealed by 2-dimensional gel electrophoresis. J. Dairy Sci. 93 (2010), 3858–3868, 10.3168/jds.2009-2967.
-
(2010)
J. Dairy Sci.
, vol.93
, pp. 3858-3868
-
-
Wu, R.1
Sun, Z.2
Wu, J.3
Meng, H.4
Zhang, H.5
-
101
-
-
77955657269
-
Inside the adaptation process of Lactobacillus delbrueckii subsp. lactis to bile
-
[101] Burns, P., Sánchez, B., Vinderola, G., Ruas-Madiedo, P., Ruiz, L., Margolles, A., et al. Inside the adaptation process of Lactobacillus delbrueckii subsp. lactis to bile. Int. J. Food Microbiol. 142 (2010), 132–141, 10.1016/j.ijfoodmicro.2010.06.013.
-
(2010)
Int. J. Food Microbiol.
, vol.142
, pp. 132-141
-
-
Burns, P.1
Sánchez, B.2
Vinderola, G.3
Ruas-Madiedo, P.4
Ruiz, L.5
Margolles, A.6
-
102
-
-
79953219103
-
Proteomics and transcriptomics characterization of bile stress response in probiotic Lactobacillus rhamnosus GG
-
M110.002741
-
[102] Koskenniemi, K., Laakso, K., Koponen, J., Kankainen, M., Greco, D., Auvinen, P., et al. Proteomics and transcriptomics characterization of bile stress response in probiotic Lactobacillus rhamnosus GG. Mol. Cell. Proteomics, 10, 2011, M110.002741, 10.1074/mcp.M110.002741.
-
(2011)
Mol. Cell. Proteomics
, vol.10
-
-
Koskenniemi, K.1
Laakso, K.2
Koponen, J.3
Kankainen, M.4
Greco, D.5
Auvinen, P.6
-
103
-
-
38649114046
-
Analysis of host-inducing proteome changes in Bifidobacterium longum NCC2705 grown in vivo
-
[103] Yuan, J., Wang, B., Sun, Z., Bo, X., Yuan, X., He, X., et al. Analysis of host-inducing proteome changes in Bifidobacterium longum NCC2705 grown in vivo. J. Proteome Res. 7 (2008), 375–385, 10.1021/pr0704940.
-
(2008)
J. Proteome Res.
, vol.7
, pp. 375-385
-
-
Yuan, J.1
Wang, B.2
Sun, Z.3
Bo, X.4
Yuan, X.5
He, X.6
-
104
-
-
84874786947
-
Proteomic analysis of Bifidobacterium longum subsp. infantis reveals the metabolic insight on consumption of prebiotics and host glycans
-
e57535
-
[104] Kim, J.-H., An, H.J., Garrido, D., German, J.B., Lebrilla, C.B., Mills, D.A., Proteomic analysis of Bifidobacterium longum subsp. infantis reveals the metabolic insight on consumption of prebiotics and host glycans. PLoS One, 8, 2013, e57535, 10.1371/journal.pone.0057535.
-
(2013)
PLoS One
, vol.8
-
-
Kim, J.-H.1
An, H.J.2
Garrido, D.3
German, J.B.4
Lebrilla, C.B.5
Mills, D.A.6
-
105
-
-
84864033436
-
Properties of probiotic bacteria explored by proteomic approaches
-
[105] van de Guchte, M., Chaze, T., Jan, G., Mistou, M.Y., Properties of probiotic bacteria explored by proteomic approaches. Curr. Opin. Microbiol. 15 (2012), 381–389, 10.1016/j.mib.2012.04.003.
-
(2012)
Curr. Opin. Microbiol.
, vol.15
, pp. 381-389
-
-
van de Guchte, M.1
Chaze, T.2
Jan, G.3
Mistou, M.Y.4
-
106
-
-
84870390001
-
Oral administration of Bifidobacterium longum CECT 7347 modulates jejunal proteome in an in vivo gliadin-induced enteropathy animal model
-
[106] Olivares, M., Laparra, M., Sanz, Y., Oral administration of Bifidobacterium longum CECT 7347 modulates jejunal proteome in an in vivo gliadin-induced enteropathy animal model. J. Proteome 77 (2012), 310–320, 10.1016/j.jprot.2012.09.005.
-
(2012)
J. Proteome
, vol.77
, pp. 310-320
-
-
Olivares, M.1
Laparra, M.2
Sanz, Y.3
-
107
-
-
45849123165
-
Characterization of the cholesterol-reducing activity in a cell-free supernatant of Lactobacillus acidophilus ATCC 43121
-
[107] Kim, Y., Whang, J.Y., Whang, K.Y., Oh, S., Kim, S.H., Characterization of the cholesterol-reducing activity in a cell-free supernatant of Lactobacillus acidophilus ATCC 43121. Biosci. Biotechnol. Biochem. 72 (2008), 1483–1490, 10.1271/bbb.70802.
-
(2008)
Biosci. Biotechnol. Biochem.
, vol.72
, pp. 1483-1490
-
-
Kim, Y.1
Whang, J.Y.2
Whang, K.Y.3
Oh, S.4
Kim, S.H.5
-
108
-
-
77954710931
-
Genetic and proteomic analysis of factors affecting serum cholesterol reduction by Lactobacillus acidophilus A4
-
[108] Lee, J., Kim, Y., Yun, H.S., Kim, J.G., Oh, S., Kim, S.H., Genetic and proteomic analysis of factors affecting serum cholesterol reduction by Lactobacillus acidophilus A4. Appl. Environ. Microbiol. 76 (2010), 4829–4835, 10.1128/AEM.02892-09.
-
(2010)
Appl. Environ. Microbiol.
, vol.76
, pp. 4829-4835
-
-
Lee, J.1
Kim, Y.2
Yun, H.S.3
Kim, J.G.4
Oh, S.5
Kim, S.H.6
-
109
-
-
84919348368
-
Proteome analysis of Lactobacillus helveticus H9 during growth in skim milk
-
[109] Chen, Y.F., Zhao, W.J., Wu, R.N., Sun, Z.H., Zhang, W.Y., Wang, J.C., et al. Proteome analysis of Lactobacillus helveticus H9 during growth in skim milk. J. Dairy Sci. 97 (2014), 7413–7425, 10.3168/jds.2014-8520.
-
(2014)
J. Dairy Sci.
, vol.97
, pp. 7413-7425
-
-
Chen, Y.F.1
Zhao, W.J.2
Wu, R.N.3
Sun, Z.H.4
Zhang, W.Y.5
Wang, J.C.6
-
110
-
-
84938794096
-
Lactobacillus casei low-temperature, dairy-associated proteome promotes persistence in the mammalian digestive tract
-
[110] Lee, B., Tachon, S., Eigenheer, R.A., Phinney, B.S., Marco, M.L., Lactobacillus casei low-temperature, dairy-associated proteome promotes persistence in the mammalian digestive tract. J. Proteome Res. 14 (2015), 3136–3147, 10.1021/acs.jproteome.5b00387.
-
(2015)
J. Proteome Res.
, vol.14
, pp. 3136-3147
-
-
Lee, B.1
Tachon, S.2
Eigenheer, R.A.3
Phinney, B.S.4
Marco, M.L.5
-
111
-
-
84876191394
-
Effects of the peptide pheromone plantaricin A and cocultivation with Lactobacillus sanfranciscensis DPPMA174 on the exoproteome and the adhesion capacity of Lactobacillus plantarum DC400
-
[111] Calasso, M., Di Cagno, R., De Angelis, M., Campanella, D., Minervini, F., Gobbetti, M., Effects of the peptide pheromone plantaricin A and cocultivation with Lactobacillus sanfranciscensis DPPMA174 on the exoproteome and the adhesion capacity of Lactobacillus plantarum DC400. Appl. Environ. Microbiol. 79 (2013), 2657–2669, 10.1128/AEM.03625-12.
-
(2013)
Appl. Environ. Microbiol.
, vol.79
, pp. 2657-2669
-
-
Calasso, M.1
Di Cagno, R.2
De Angelis, M.3
Campanella, D.4
Minervini, F.5
Gobbetti, M.6
-
112
-
-
84924546209
-
The effects of Bifidobacterium breve on immune mediators and proteome of HT29 cells monolayers
-
[112] Sánchez, B., González-Rodríguez, I., Arboleya, S., López, P., Suárez, A., Ruas-Madiedo, P., et al. The effects of Bifidobacterium breve on immune mediators and proteome of HT29 cells monolayers. Biomed Res. Int., 2015, 2015, 479140, 10.1155/2015/479140.
-
(2015)
Biomed Res. Int.
, vol.2015
, pp. 479140
-
-
Sánchez, B.1
González-Rodríguez, I.2
Arboleya, S.3
López, P.4
Suárez, A.5
Ruas-Madiedo, P.6
-
113
-
-
84862908557
-
Dietary supplementation with the probiotic Lactobacillus fermentum I5007 and the antibiotic aureomycin differentially affects the small intestinal proteomes of weanling piglets
-
[113] Wang, X., Yang, F., Liu, C., Zhou, H., Wu, G., Qiao, S., et al. Dietary supplementation with the probiotic Lactobacillus fermentum I5007 and the antibiotic aureomycin differentially affects the small intestinal proteomes of weanling piglets. J. Nutr. 142 (2012), 7–13, 10.3945/jn.111.147074.
-
(2012)
J. Nutr.
, vol.142
, pp. 7-13
-
-
Wang, X.1
Yang, F.2
Liu, C.3
Zhou, H.4
Wu, G.5
Qiao, S.6
-
114
-
-
84892848164
-
Metaproteomics of our microbiome — developing insight in function and activity in man and model systems
-
[114] Kolmeder, C.A., de Vos, W.M., Metaproteomics of our microbiome — developing insight in function and activity in man and model systems. J. Proteome 97 (2014), 3–16, 10.1016/j.jprot.2013.05.018.
-
(2014)
J. Proteome
, vol.97
, pp. 3-16
-
-
Kolmeder, C.A.1
de Vos, W.M.2
-
115
-
-
84859573112
-
Exploring mixed microbial community functioning: recent advances in metaproteomics
-
[115] Siggins, A., Gunnigle, E., Abram, F., Exploring mixed microbial community functioning: recent advances in metaproteomics. FEMS Microbiol. Ecol. 80 (2012), 265–280, 10.1111/j.1574-6941.2011.01284.x.
-
(2012)
FEMS Microbiol. Ecol.
, vol.80
, pp. 265-280
-
-
Siggins, A.1
Gunnigle, E.2
Abram, F.3
-
116
-
-
84936148748
-
Metaproteomics: extracting and mining proteome information to characterize metabolic activities in microbial communities
-
[116] Abraham, P.E., Giannone, R.J., Xiong, W., Hettich, R.L., Metaproteomics: extracting and mining proteome information to characterize metabolic activities in microbial communities. Curr. Protoc. Bioinformatics. 46 (2014), 13.26.1–13.26.14, 10.1002/0471250953.bi1326s46.
-
(2014)
Curr. Protoc. Bioinformatics.
, vol.46
, pp. 13.26.1-13.26.14
-
-
Abraham, P.E.1
Giannone, R.J.2
Xiong, W.3
Hettich, R.L.4
-
117
-
-
78649854658
-
Direct cellular lysis/protein extraction protocol for soil metaproteomics
-
[117] Chourey, K., Jansson, J., Verberkmoes, N., Shah, M., Chavarria, K.L., Tom, L.M., et al. Direct cellular lysis/protein extraction protocol for soil metaproteomics. J. Proteome Res. 9 (2010), 6615–6622, 10.1021/pr100787q.
-
(2010)
J. Proteome Res.
, vol.9
, pp. 6615-6622
-
-
Chourey, K.1
Jansson, J.2
Verberkmoes, N.3
Shah, M.4
Chavarria, K.L.5
Tom, L.M.6
-
118
-
-
84947606433
-
sApplication of density gradient for the isolation of the fecal microbial stool component and the potential use thereof
-
[118] Hevia, A., Delgado, S., Margolles, A., Sánchez, B., sApplication of density gradient for the isolation of the fecal microbial stool component and the potential use thereof. Sci. Rep., 5, 2015, 16807, 10.1038/srep16807.
-
(2015)
Sci. Rep.
, vol.5
, pp. 16807
-
-
Hevia, A.1
Delgado, S.2
Margolles, A.3
Sánchez, B.4
-
119
-
-
33847177982
-
Metaproteomics approach to study the functionality of the microbiota in the human infant gastrointestinal tract
-
[119] Klaassens, E.S., De Vos, W.M., Vaughan, E.E., Metaproteomics approach to study the functionality of the microbiota in the human infant gastrointestinal tract. Appl. Environ. Microbiol. 73 (2007), 1388–1392, 10.1128/AEM.01921-06.
-
(2007)
Appl. Environ. Microbiol.
, vol.73
, pp. 1388-1392
-
-
Klaassens, E.S.1
De Vos, W.M.2
Vaughan, E.E.3
-
120
-
-
58549089276
-
Shotgun metaproteomics of the human distal gut microbiota
-
[120] Verberkmoes, N.C., Russell, A.L., Shah, M., Godzik, A., Rosenquist, M., Halfvarson, J., et al. Shotgun metaproteomics of the human distal gut microbiota. ISME J. 3 (2009), 179–189, 10.1038/ismej.2008.108.
-
(2009)
ISME J.
, vol.3
, pp. 179-189
-
-
Verberkmoes, N.C.1
Russell, A.L.2
Shah, M.3
Godzik, A.4
Rosenquist, M.5
Halfvarson, J.6
-
121
-
-
84944167587
-
Navigating through metaproteomics data - a logbook of database searching
-
[121] Muth, T., Kolmeder, C.A., Salojärvi, J., Keskitalo, S., Varjosalo, M., Verdam, F.J., et al. Navigating through metaproteomics data - a logbook of database searching. Proteomics, n/a–n/a, 2015, 10.1002/pmic.201400560.
-
(2015)
Proteomics
-
-
Muth, T.1
Kolmeder, C.A.2
Salojärvi, J.3
Keskitalo, S.4
Varjosalo, M.5
Verdam, F.J.6
-
122
-
-
84855915896
-
Comparative metaproteomics and diversity analysis of human intestinal microbiota testifies for its temporal stability and expression of core functions
-
[122] Kolmeder, C.A., de Been, M., Nikkilä, J., Ritamo, I., Mättö, J., Valmu, L., et al. Comparative metaproteomics and diversity analysis of human intestinal microbiota testifies for its temporal stability and expression of core functions. PLoS One, 7, 2012, 10.1371/journal.pone.0029913.
-
(2012)
PLoS One
, vol.7
-
-
Kolmeder, C.A.1
de Been, M.2
Nikkilä, J.3
Ritamo, I.4
Mättö, J.5
Valmu, L.6
-
123
-
-
78650780115
-
An iterative workflow for mining the human intestinal metaproteome
-
[123] Rooijers, K., Kolmeder, C., Juste, C., Doré, J., de Been, M., Boeren, S., et al. An iterative workflow for mining the human intestinal metaproteome. BMC Genomics, 12, 2011, 6, 10.1186/1471-2164-12-6.
-
(2011)
BMC Genomics
, vol.12
, pp. 6
-
-
Rooijers, K.1
Kolmeder, C.2
Juste, C.3
Doré, J.4
de Been, M.5
Boeren, S.6
-
124
-
-
84892527790
-
Gut microbiota disturbance during antibiotic therapy: a multi-omic approach
-
[124] Ferrer, M., Santos, V.A.P.M. dos, Ott, S.J., Moya, A., Gut microbiota disturbance during antibiotic therapy: a multi-omic approach. Gut Microbes 5 (2013), 1591–1601, 10.1136/gutjnl-2012-303184.
-
(2013)
Gut Microbes
, vol.5
, pp. 1591-1601
-
-
Ferrer, M.1
dos Santos, V.A.P.M.2
Ott, S.J.3
Moya, A.4
-
125
-
-
84944147974
-
Colonic metaproteomic signatures of active bacteria and the host in obesity
-
[125] Kolmeder, C.A., Ritari, J., Verdam, F.J., Muth, T., Keskitalo, S., Varjosalo, M., et al. Colonic metaproteomic signatures of active bacteria and the host in obesity. Proteomics 15 (2015), 3544–3552, 10.1002/pmic.201500049.
-
(2015)
Proteomics
, vol.15
, pp. 3544-3552
-
-
Kolmeder, C.A.1
Ritari, J.2
Verdam, F.J.3
Muth, T.4
Keskitalo, S.5
Varjosalo, M.6
-
126
-
-
84939564256
-
Monitoring host responses to the gut microbiota
-
[126] Lichtman, J.S., Sonnenburg, J.L., Elias, J.E., Monitoring host responses to the gut microbiota. ISME J., 2015, 1–8, 10.1038/ismej.2015.93.
-
(2015)
ISME J.
, pp. 1-8
-
-
Lichtman, J.S.1
Sonnenburg, J.L.2
Elias, J.E.3
-
127
-
-
34547907059
-
Cell envelope changes in Bifidobacterium animalis ssp. lactis as a response to bile
-
[127] Ruiz, L., Sánchez, B., Ruas-Madiedo, P., de Los Reyes-Gavilán, C.G., Margolles, A., Cell envelope changes in Bifidobacterium animalis ssp. lactis as a response to bile. FEMS Microbiol. Lett. 274 (2007), 316–322, 10.1111/j.1574-6968.2007.00854.x.
-
(2007)
FEMS Microbiol. Lett.
, vol.274
, pp. 316-322
-
-
Ruiz, L.1
Sánchez, B.2
Ruas-Madiedo, P.3
de Los Reyes-Gavilán, C.G.4
Margolles, A.5
-
128
-
-
51349115043
-
Exported proteins in probiotic bacteria: adhesion to intestinal surfaces, host immunomodulation and molecular cross-talking with the host
-
[128] Sánchez, B., Bressollier, P., Urdaci, M.C., Exported proteins in probiotic bacteria: adhesion to intestinal surfaces, host immunomodulation and molecular cross-talking with the host. FEMS Immunol. Med. Microbiol. 54 (2008), 1–17, 10.1111/j.1574-695X.2008.00454.x.
-
(2008)
FEMS Immunol. Med. Microbiol.
, vol.54
, pp. 1-17
-
-
Sánchez, B.1
Bressollier, P.2
Urdaci, M.C.3
-
129
-
-
84913582904
-
Characterization of potentially probiotic lactic acid bacteria isolated from olives: evaluation of short chain fatty acids production and analysis of the extracellular proteome
-
[129] Pessione, A., Lo Bianco, G., Mangiapane, E., Cirrincione, S., Pessione, E., Characterization of potentially probiotic lactic acid bacteria isolated from olives: evaluation of short chain fatty acids production and analysis of the extracellular proteome. Food Res. Int. 67 (2015), 247–254, 10.1016/j.foodres.2014.11.029.
-
(2015)
Food Res. Int.
, vol.67
, pp. 247-254
-
-
Pessione, A.1
Lo Bianco, G.2
Mangiapane, E.3
Cirrincione, S.4
Pessione, E.5
-
130
-
-
84873276407
-
Factors involved in the colonization and survival of bifidobacteria in the gastrointestinal tract
-
[130] González-Rodríguez, I., Ruiz, L., Gueimonde, M., Margolles, A., Sánchez, B., Factors involved in the colonization and survival of bifidobacteria in the gastrointestinal tract. FEMS Microbiol. Lett. 340 (2013), 1–10, 10.1111/1574-6968.12056.
-
(2013)
FEMS Microbiol. Lett.
, vol.340
, pp. 1-10
-
-
González-Rodríguez, I.1
Ruiz, L.2
Gueimonde, M.3
Margolles, A.4
Sánchez, B.5
-
131
-
-
84873053043
-
Impact of Lactobacillus plantarum sortase on target protein sorting, gastrointestinal persistence, and host immune response modulation
-
[131] Remus, D.M., Bongers, R.S., Meijerink, M., Fusetti, F., Poolman, B., de Vos, P., et al. Impact of Lactobacillus plantarum sortase on target protein sorting, gastrointestinal persistence, and host immune response modulation. J. Bacteriol. 195 (2013), 502–509, 10.1128/JB.01321-12.
-
(2013)
J. Bacteriol.
, vol.195
, pp. 502-509
-
-
Remus, D.M.1
Bongers, R.S.2
Meijerink, M.3
Fusetti, F.4
Poolman, B.5
de Vos, P.6
-
132
-
-
84922269780
-
Sortase-deficient lactobacilli: effect on immunomodulation and gut retention
-
[132] Call, E.K., Goh, Y.J., Selle, K., Klaenhammer, T.R., O'Flaherty, S., Sortase-deficient lactobacilli: effect on immunomodulation and gut retention. Microbiology 161 (2015), 311–321, 10.1099/mic.0.000007.
-
(2015)
Microbiology
, vol.161
, pp. 311-321
-
-
Call, E.K.1
Goh, Y.J.2
Selle, K.3
Klaenhammer, T.R.4
O'Flaherty, S.5
-
133
-
-
84901608607
-
Proteomic analysis of the interaction of Bifidobacterium longum NCC2705 with the intestine cells Caco-2 and identification of plasminogen receptors
-
[133] Wei, X., Yan, X., Chen, X., Yang, Z., Li, H., Zou, D., et al. Proteomic analysis of the interaction of Bifidobacterium longum NCC2705 with the intestine cells Caco-2 and identification of plasminogen receptors. J. Proteome 108 (2014), 89–98, 10.1016/j.jprot.2014.04.038.
-
(2014)
J. Proteome
, vol.108
, pp. 89-98
-
-
Wei, X.1
Yan, X.2
Chen, X.3
Yang, Z.4
Li, H.5
Zou, D.6
-
134
-
-
34250333853
-
pH-dependent association of enolase and glyceraldehyde-3-phosphate dehydrogenase of Lactobacillus crispatus with the cell wall and lipoteichoic acids
-
[134] Antikainen, J., Kuparinen, V., Kupannen, V., Lähteenmäki, K., Korhonen, T.K., pH-dependent association of enolase and glyceraldehyde-3-phosphate dehydrogenase of Lactobacillus crispatus with the cell wall and lipoteichoic acids. J. Bacteriol. 189 (2007), 4539–4543, 10.1128/JB.00378-07.
-
(2007)
J. Bacteriol.
, vol.189
, pp. 4539-4543
-
-
Antikainen, J.1
Kuparinen, V.2
Kupannen, V.3
Lähteenmäki, K.4
Korhonen, T.K.5
-
135
-
-
84862764146
-
Increases in GroES and GroEL from Lactobacillus acidophilus L-92 in response to a decrease in medium pH, and changes in cytokine release from splenocytes: transcriptome and proteome analyses
-
[135] Kuwana, R., Yamamoto, N., Increases in GroES and GroEL from Lactobacillus acidophilus L-92 in response to a decrease in medium pH, and changes in cytokine release from splenocytes: transcriptome and proteome analyses. J. Biosci. Bioeng. 114 (2012), 9–16, 10.1016/j.jbiosc.2012.02.010.
-
(2012)
J. Biosci. Bioeng.
, vol.114
, pp. 9-16
-
-
Kuwana, R.1
Yamamoto, N.2
-
136
-
-
77953221206
-
DnaK from Bifidobacterium animalis subsp. lactis is a surface-exposed human plasminogen receptor upregulated in response to bile salts
-
doi:10.1099/mic.0.038307-0
-
[136] Candela, M., Centanni, M., Fiori, J., Biagi, E., Turroni, S., Orrico, C., et al. DnaK from Bifidobacterium animalis subsp. lactis is a surface-exposed human plasminogen receptor upregulated in response to bile salts. Microbiology 156 (2010), 1609–1618 doi:10.1099/mic.0.038307-0.
-
(2010)
Microbiology
, vol.156
, pp. 1609-1618
-
-
Candela, M.1
Centanni, M.2
Fiori, J.3
Biagi, E.4
Turroni, S.5
Orrico, C.6
-
137
-
-
78049494627
-
Extracellular proteins secreted by probiotic bacteria as mediators of effects that promote mucosa-bacteria interactions
-
[137] Sánchez, B., Urdaci, M.C., Margolles, A., Extracellular proteins secreted by probiotic bacteria as mediators of effects that promote mucosa-bacteria interactions. Microbiology 156 (2010), 3232–3242, 10.1099/mic.0.044057-0.
-
(2010)
Microbiology
, vol.156
, pp. 3232-3242
-
-
Sánchez, B.1
Urdaci, M.C.2
Margolles, A.3
-
138
-
-
77955005087
-
Adhesive properties, extracellular protein production, and metabolism in the Lactobacillus rhamnosus GG strain when grown in the presence of mucin
-
[138] Sánchez, B., Saad, N.N., Schmitter, J.M.J.-M.J.-M.M., Bressollier, P., Urdaci, M.C.M.C., Sanchez, B., et al. Adhesive properties, extracellular protein production, and metabolism in the Lactobacillus rhamnosus GG strain when grown in the presence of mucin. J. Microbiol. Biotechnol. 20 (2010), 978–984, 10.4014/jmb.0911.11007.
-
(2010)
J. Microbiol. Biotechnol.
, vol.20
, pp. 978-984
-
-
Sánchez, B.1
Saad, N.N.2
Schmitter, J.M.J.-M.J.-M.M.3
Bressollier, P.4
Urdaci, M.C.M.C.5
Sanchez, B.6
-
139
-
-
80054091352
-
Human cecum content modulates production of extracellular proteins by food and probiotic bacteria
-
[139] Sanchez, B., Ruiz, L., Suarez, A., de los Reyes-Gavilan, C.G., Margolles, A., Human cecum content modulates production of extracellular proteins by food and probiotic bacteria. FEMS Microbiol. Lett. 324 (2011), 189–194, 10.1111/j.1574-6968.2011.02408.x.
-
(2011)
FEMS Microbiol. Lett.
, vol.324
, pp. 189-194
-
-
Sanchez, B.1
Ruiz, L.2
Suarez, A.3
de los Reyes-Gavilan, C.G.4
Margolles, A.5
-
140
-
-
49449116100
-
Implication of an outer surface lipoprotein in adhesion of Bifidobacterium bifidum to Caco-2 cells
-
[140] Guglielmetti, S., Tamagnini, I., Mora, D., Minuzzo, M., Scarafoni, A., Arioli, S., et al. Implication of an outer surface lipoprotein in adhesion of Bifidobacterium bifidum to Caco-2 cells. Appl. Environ. Microbiol. 74 (2008), 4695–4702, 10.1128/AEM.00124-08.
-
(2008)
Appl. Environ. Microbiol.
, vol.74
, pp. 4695-4702
-
-
Guglielmetti, S.1
Tamagnini, I.2
Mora, D.3
Minuzzo, M.4
Scarafoni, A.5
Arioli, S.6
-
141
-
-
84905575478
-
Expression of sortase-dependent pili of Bifidobacterium bifidum PRL2010 in response to environmental gut conditions
-
[141] Turroni, F., Serafini, F., Mangifesta, M., Arioli, S., Mora, D., van Sinderen, D., et al. Expression of sortase-dependent pili of Bifidobacterium bifidum PRL2010 in response to environmental gut conditions. FEMS Microbiol. Lett. 357 (2014), 23–33, 10.1111/1574-6968.12509.
-
(2014)
FEMS Microbiol. Lett.
, vol.357
, pp. 23-33
-
-
Turroni, F.1
Serafini, F.2
Mangifesta, M.3
Arioli, S.4
Mora, D.5
van Sinderen, D.6
-
142
-
-
84876587508
-
Adhesion and nanomechanics of pili from the probiotic Lactobacillus rhamnosus GG
-
[142] Tripathi, P., Beaussart, A., Alsteens, D., Dupres, V., Claes, I., Von Ossowski, I., et al. Adhesion and nanomechanics of pili from the probiotic Lactobacillus rhamnosus GG. ACS Nano 7 (2013), 3685–3697, 10.1021/nn400705u.
-
(2013)
ACS Nano
, vol.7
, pp. 3685-3697
-
-
Tripathi, P.1
Beaussart, A.2
Alsteens, D.3
Dupres, V.4
Claes, I.5
Von Ossowski, I.6
-
143
-
-
80054010871
-
Characterization of adhesive molecule with affinity to Caco-2 cells in Lactobacillus acidophilus by proteome analysis
-
[143] Ashida, N., Yanagihara, S., Shinoda, T., Yamamoto, N., Characterization of adhesive molecule with affinity to Caco-2 cells in Lactobacillus acidophilus by proteome analysis. J. Biosci. Bioeng. 112 (2011), 333–337, 10.1016/j.jbiosc.2011.06.001.
-
(2011)
J. Biosci. Bioeng.
, vol.112
, pp. 333-337
-
-
Ashida, N.1
Yanagihara, S.2
Shinoda, T.3
Yamamoto, N.4
-
144
-
-
84912008806
-
Phenotypical analysis of the Lactobacillus rhamnosus GG fimbrial spaFED operon: surface expression and functional characterization of recombinant SpaFED pili in Lactococcus lactis
-
e113922
-
[144] Rintahaka, J., Yu, X., Kant, R., Palva, A., von Ossowski, I., Phenotypical analysis of the Lactobacillus rhamnosus GG fimbrial spaFED operon: surface expression and functional characterization of recombinant SpaFED pili in Lactococcus lactis. PLoS ONE, 9, 2014, e113922, 10.1371/journal.pone.0113922.
-
(2014)
PLoS ONE
, vol.9
-
-
Rintahaka, J.1
Yu, X.2
Kant, R.3
Palva, A.4
von Ossowski, I.5
-
145
-
-
84962752460
-
The Lactobacillus plantarum Eno A1 enolase is involved in immunostimulation of Caco-2 cells and in biofilm development
-
[145] Vastano, V., Pagano, A., Fusco, A., Merola, G., Sacco, M., Donnarumma, G., The Lactobacillus plantarum Eno A1 enolase is involved in immunostimulation of Caco-2 cells and in biofilm development. Adv. Exp. Med. Biol., 2015, 10.1007/5584_2015_5009.
-
(2015)
Adv. Exp. Med. Biol.
-
-
Vastano, V.1
Pagano, A.2
Fusco, A.3
Merola, G.4
Sacco, M.5
Donnarumma, G.6
-
146
-
-
62749196670
-
Surface displaced alfa-enolase of Lactobacillus plantarum is a fibronectin binding protein
-
[146] Castaldo, C., Vastano, V., Siciliano, R.A., Candela, M., Vici, M., Muscariello, L., et al. Surface displaced alfa-enolase of Lactobacillus plantarum is a fibronectin binding protein. Microb. Cell Factories, 8, 2009, 14, 10.1186/1475-2859-8-14.
-
(2009)
Microb. Cell Factories
, vol.8
, pp. 14
-
-
Castaldo, C.1
Vastano, V.2
Siciliano, R.A.3
Candela, M.4
Vici, M.5
Muscariello, L.6
-
147
-
-
84862286169
-
A framework for human microbiome research
-
[147] Human Microbiome Project Consortium, A framework for human microbiome research. Nature 486 (2012), 215–221, 10.1038/nature11209.
-
(2012)
Nature
, vol.486
, pp. 215-221
-
-
Human Microbiome Project Consortium1
-
148
-
-
84867074831
-
A metagenome-wide association study of gut microbiota in type 2 diabetes
-
[148] Qin, J., Li, Y., Cai, Z., Li, S., Zhu, J., Zhang, F., et al. A metagenome-wide association study of gut microbiota in type 2 diabetes. Nature 490 (2012), 55–60, 10.1038/nature11450.
-
(2012)
Nature
, vol.490
, pp. 55-60
-
-
Qin, J.1
Li, Y.2
Cai, Z.3
Li, S.4
Zhu, J.5
Zhang, F.6
-
149
-
-
84862276328
-
Structure, function and diversity of the healthy human microbiome
-
[149] Human Microbiome Project Consortium, Structure, function and diversity of the healthy human microbiome. Nature 486 (2012), 207–214, 10.1038/nature11234.
-
(2012)
Nature
, vol.486
, pp. 207-214
-
-
Human Microbiome Project Consortium1
-
150
-
-
84976865403
-
The Pfam protein families database: towards a more sustainable future
-
[150] Finn, R.D., Coggill, P., Eberhardt, R.Y., Eddy, S.R., Mistry, J., Mitchell, A.L., et al. The Pfam protein families database: towards a more sustainable future. Nucleic Acids Res. 44 (2016), D279–D285, 10.1093/nar/gkv1344.
-
(2016)
Nucleic Acids Res.
, vol.44
, pp. D279-D285
-
-
Finn, R.D.1
Coggill, P.2
Eberhardt, R.Y.3
Eddy, S.R.4
Mistry, J.5
Mitchell, A.L.6
-
151
-
-
84976877550
-
The MG-RAST metagenomics database and portal in 2015
-
[151] Wilke, A., Bischof, J., Gerlach, W., Glass, E., Harrison, T., Keegan, K.P., et al. The MG-RAST metagenomics database and portal in 2015. Nucleic Acids Res. 44 (2016), D590–D594, 10.1093/nar/gkv1322.
-
(2016)
Nucleic Acids Res.
, vol.44
, pp. D590-D594
-
-
Wilke, A.1
Bischof, J.2
Gerlach, W.3
Glass, E.4
Harrison, T.5
Keegan, K.P.6
-
152
-
-
84891800783
-
IMG/M 4 version of the integrated metagenome comparative analysis system
-
[152] Markowitz, V.M., Chen, I.-M.A., Chu, K., Szeto, E., Palaniappan, K., Pillay, M., et al. IMG/M 4 version of the integrated metagenome comparative analysis system. Nucleic Acids Res. 42 (2014), D568–D573, 10.1093/nar/gkt919.
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D568-D573
-
-
Markowitz, V.M.1
Chen, I.-M.A.2
Chu, K.3
Szeto, E.4
Palaniappan, K.5
Pillay, M.6
-
153
-
-
0042902833
-
The COG database: an updated version includes eukaryotes
-
[153] Tatusov, R.L., Fedorova, N.D., Jackson, J.D., Jacobs, A.R., Kiryutin, B., Koonin, E.V., et al. The COG database: an updated version includes eukaryotes. BMC Bioinformatics, 4, 2003, 41, 10.1186/1471-2105-4-41.
-
(2003)
BMC Bioinformatics
, vol.4
, pp. 41
-
-
Tatusov, R.L.1
Fedorova, N.D.2
Jackson, J.D.3
Jacobs, A.R.4
Kiryutin, B.5
Koonin, E.V.6
-
154
-
-
84891760956
-
Data, information, knowledge and principle: back to metabolism in KEGG
-
[154] Kanehisa, M., Goto, S., Sato, Y., Kawashima, M., Furumichi, M., Tanabe, M., Data, information, knowledge and principle: back to metabolism in KEGG. Nucleic Acids Res., 42, 2014, 10.1093/nar/gkt1076.
-
(2014)
Nucleic Acids Res.
, vol.42
-
-
Kanehisa, M.1
Goto, S.2
Sato, Y.3
Kawashima, M.4
Furumichi, M.5
Tanabe, M.6
-
155
-
-
84910121467
-
Mapping the inner workings of the microbiome: genomic- and metagenomic-based study of metabolism and metabolic interactions in the human microbiome
-
[155] Manor, O., Levy, R., Borenstein, E., Mapping the inner workings of the microbiome: genomic- and metagenomic-based study of metabolism and metabolic interactions in the human microbiome. Cell Metab. 20 (2014), 742–752, 10.1016/j.cmet.2014.07.021.
-
(2014)
Cell Metab.
, vol.20
, pp. 742-752
-
-
Manor, O.1
Levy, R.2
Borenstein, E.3
-
156
-
-
84910125156
-
Determining microbial products and identifying molecular targets in the human microbiome
-
[156] Joice, R., Yasuda, K., Shafquat, A., Morgan, X.C., Huttenhower, C., Determining microbial products and identifying molecular targets in the human microbiome. Cell Metab. 20 (2014), 731–741, 10.1016/j.cmet.2014.10.003.
-
(2014)
Cell Metab.
, vol.20
, pp. 731-741
-
-
Joice, R.1
Yasuda, K.2
Shafquat, A.3
Morgan, X.C.4
Huttenhower, C.5
-
157
-
-
79955877212
-
RAPSearch: a fast protein similarity search tool for short reads
-
[157] Ye, Y., Choi, J.-H., Tang, H., RAPSearch: a fast protein similarity search tool for short reads. BMC Bioinformatics., 12, 2011, 159, 10.1186/1471-2105-12-159.
-
(2011)
BMC Bioinformatics.
, vol.12
, pp. 159
-
-
Ye, Y.1
Choi, J.-H.2
Tang, H.3
-
158
-
-
84891349082
-
A poor man's BLASTX-high-throughput metagenomic protein database search using PAUDA
-
[158] Huson, D.H., Xie, C., A poor man's BLASTX-high-throughput metagenomic protein database search using PAUDA. Bioinformatics 30 (2014), 38–39, 10.1093/bioinformatics/btt254.
-
(2014)
Bioinformatics
, vol.30
, pp. 38-39
-
-
Huson, D.H.1
Xie, C.2
-
159
-
-
84949023743
-
Web resources for metagenomics studies
-
[159] Dudhagara, P., Bhavsar, S., Bhagat, C., Ghelani, A., Patel, R., Bhavsar, S., et al. Web resources for metagenomics studies. Genomics. Proteomics Bioinformatics. 13 (2015), 296–303, 10.1016/j.gpb.2015.10.003.
-
(2015)
Genomics. Proteomics Bioinformatics.
, vol.13
, pp. 296-303
-
-
Dudhagara, P.1
Bhavsar, S.2
Bhagat, C.3
Ghelani, A.4
Patel, R.5
Bhavsar, S.6
-
160
-
-
84929302786
-
Deciphering the human microbiome using next-generation sequencing data and bioinformatics approaches
-
[160] Kim, Y., Koh, I., Rho, M., Deciphering the human microbiome using next-generation sequencing data and bioinformatics approaches. Methods 79-80 (2015), 52–59, 10.1016/j.ymeth.2014.10.022.
-
(2015)
Methods
, vol.79-80
, pp. 52-59
-
-
Kim, Y.1
Koh, I.2
Rho, M.3
-
161
-
-
84926522922
-
The unipept metaproteomics analysis pipeline
-
[161] Mesuere, B., Debyser, G., Aerts, M., Devreese, B., Vandamme, P., Dawyndt, P., The unipept metaproteomics analysis pipeline. Proteomics 15 (2015), 1437–1442, 10.1002/pmic.201400361.
-
(2015)
Proteomics
, vol.15
, pp. 1437-1442
-
-
Mesuere, B.1
Debyser, G.2
Aerts, M.3
Devreese, B.4
Vandamme, P.5
Dawyndt, P.6
-
162
-
-
84924426335
-
The MetaProteomeAnalyzer: a powerful open-source software suite for metaproteomics data analysis and interpretation
-
[162] Muth, T., Behne, A., Heyer, R., Kohrs, F., Benndorf, D., Hoffmann, M., et al. The MetaProteomeAnalyzer: a powerful open-source software suite for metaproteomics data analysis and interpretation. J. Proteome Res. 14 (2015), 1557–1565, 10.1021/pr501246w.
-
(2015)
J. Proteome Res.
, vol.14
, pp. 1557-1565
-
-
Muth, T.1
Behne, A.2
Heyer, R.3
Kohrs, F.4
Benndorf, D.5
Hoffmann, M.6
-
163
-
-
84897360972
-
Model organisms proteomics–from holobionts to human nutrition
-
[163] Tholey, A., Treitz, C., Kussmann, M., Bendixen, E., Schrimpf, S.P., Hengartner, M.O., Model organisms proteomics–from holobionts to human nutrition. Proteomics 13 (2013), 2537–2541, 10.1002/pmic.201370144.
-
(2013)
Proteomics
, vol.13
, pp. 2537-2541
-
-
Tholey, A.1
Treitz, C.2
Kussmann, M.3
Bendixen, E.4
Schrimpf, S.P.5
Hengartner, M.O.6
-
164
-
-
84921451720
-
Application of metagenomics in the human gut microbiome
-
[164] Wang, W.-L., Xu, S.-Y., Ren, Z.-G., Tao, L., Jiang, J.-W., Zheng, S.-S., Application of metagenomics in the human gut microbiome. World J. Gastroenterol. 21 (2015), 803–814, 10.3748/wjg.v21.i3.803.
-
(2015)
World J. Gastroenterol.
, vol.21
, pp. 803-814
-
-
Wang, W.-L.1
Xu, S.-Y.2
Ren, Z.-G.3
Tao, L.4
Jiang, J.-W.5
Zheng, S.-S.6
-
165
-
-
77954502710
-
PeptideClassifier for protein inference and targeted quantitative proteomics
-
[165] Qeli, E., Ahrens, C.H., PeptideClassifier for protein inference and targeted quantitative proteomics. Nat. Biotechnol. 28 (2010), 647–650, 10.1038/nbt0710-647.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 647-650
-
-
Qeli, E.1
Ahrens, C.H.2
-
166
-
-
47249084222
-
A Bayesian approach to protein inference problem in shotgun proteomics
-
[166] Li, Y.F., Arnold, R.J., Li, Y., Radivojac, P., Sheng, Q., Tang, H., A Bayesian approach to protein inference problem in shotgun proteomics. Lect. Notes Comput. Sci. (Including Subser. Lect. Notes Artif. Intell. Lect. Notes Bioinformatics), 2008, 167–180, 10.1007/978-3-540-78839-3_15.
-
(2008)
Lect. Notes Comput. Sci. (Including Subser. Lect. Notes Artif. Intell. Lect. Notes Bioinformatics)
, pp. 167-180
-
-
Li, Y.F.1
Arnold, R.J.2
Li, Y.3
Radivojac, P.4
Sheng, Q.5
Tang, H.6
-
167
-
-
84873384484
-
ProteinLasso: a Lasso regression approach to protein inference problem in shotgun proteomics
-
[167] Huang, T., Gong, H., Yang, C., He, Z., ProteinLasso: a Lasso regression approach to protein inference problem in shotgun proteomics. Comput. Biol. Chem. 43 (2013), 46–54, 10.1016/j.compbiolchem.2012.12.008.
-
(2013)
Comput. Biol. Chem.
, vol.43
, pp. 46-54
-
-
Huang, T.1
Gong, H.2
Yang, C.3
He, Z.4
-
168
-
-
84944152234
-
Microbial metaproteomics for characterizing the range of metabolic functions and activities of human gut microbiota
-
[168] Xiong, W., Abraham, P.E., Li, Z., Pan, C., Hettich, R.L., Microbial metaproteomics for characterizing the range of metabolic functions and activities of human gut microbiota. Proteomics 15 (2015), 3424–3438, 10.1002/pmic.201400571.
-
(2015)
Proteomics
, vol.15
, pp. 3424-3438
-
-
Xiong, W.1
Abraham, P.E.2
Li, Z.3
Pan, C.4
Hettich, R.L.5
-
169
-
-
84900988344
-
Elucidating the interactions between the human gut microbiota and its host through metabolic modeling
-
[169] Shoaie, S., Nielsen, J., Elucidating the interactions between the human gut microbiota and its host through metabolic modeling. Front. Genet., 5, 2014, 86, 10.3389/fgene.2014.00086.
-
(2014)
Front. Genet.
, vol.5
, pp. 86
-
-
Shoaie, S.1
Nielsen, J.2
-
170
-
-
84940100441
-
From next-generation sequencing to systematic modeling of the gut microbiome
-
[170] Ji, B., Nielsen, J., From next-generation sequencing to systematic modeling of the gut microbiome. Front. Genet., 6, 2015, 219, 10.3389/fgene.2015.00219.
-
(2015)
Front. Genet.
, vol.6
, pp. 219
-
-
Ji, B.1
Nielsen, J.2
-
171
-
-
84897947195
-
Genome-scale metabolic reconstructions of Bifidobacterium adolescentis L2-32 and Faecalibacterium prausnitzii A2-165 and their interaction
-
[171] El-Semman, I.E., Karlsson, F.H., Shoaie, S., Nookaew, I., Soliman, T.H., Nielsen, J., Genome-scale metabolic reconstructions of Bifidobacterium adolescentis L2-32 and Faecalibacterium prausnitzii A2-165 and their interaction. BMC Syst. Biol., 8, 2014, 41, 10.1186/1752-0509-8-41.
-
(2014)
BMC Syst. Biol.
, vol.8
, pp. 41
-
-
El-Semman, I.E.1
Karlsson, F.H.2
Shoaie, S.3
Nookaew, I.4
Soliman, T.H.5
Nielsen, J.6
-
172
-
-
84912066103
-
BiomeNet: a Bayesian model for inference of metabolic divergence among microbial communities
-
e1003918
-
[172] Shafiei, M., Dunn, K.A., Chipman, H., Gu, H., Bielawski, J.P., BiomeNet: a Bayesian model for inference of metabolic divergence among microbial communities. PLoS Comput. Biol., 10, 2014, e1003918, 10.1371/journal.pcbi.1003918.
-
(2014)
PLoS Comput. Biol.
, vol.10
-
-
Shafiei, M.1
Dunn, K.A.2
Chipman, H.3
Gu, H.4
Bielawski, J.P.5
-
173
-
-
84919797603
-
Zinc proteome interaction network as a model to identify nutrient-affected pathways in human pathologies
-
[173] Leoni, G., Rosato, A., Perozzi, G., Murgia, C., Zinc proteome interaction network as a model to identify nutrient-affected pathways in human pathologies. Genes Nutr., 9, 2014, 436, 10.1007/s12263-014-0436-0.
-
(2014)
Genes Nutr.
, vol.9
, pp. 436
-
-
Leoni, G.1
Rosato, A.2
Perozzi, G.3
Murgia, C.4
|