Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants.
Heyer R, Schallert K, Siewert C, Kohrs F, Greve J, Maus I, Klang J, Klocke M, Heiermann M, Hoffmann M, Puttker S, et al. (2019)
Microbiome 7(1): 69.
Zeitschriftenaufsatz
| Veröffentlicht | Englisch
Download
Es wurden keine Dateien hochgeladen. Nur Publikationsnachweis!
Autor*in
Heyer, R;
Schallert, K;
Siewert, C;
Kohrs, F;
Greve, J;
Maus, IrenaUniBi;
Klang, J;
Klocke, M;
Heiermann, M;
Hoffmann, M;
Puttker, S;
Calusinska, M
Alle
Alle
Einrichtung
Abstract / Bemerkung
BACKGROUND: In biogas plants, complex microbial communities produce methane and carbon dioxide by anaerobic digestion of biomass. For the characterization of the microbial functional networks, samples of 11 reactors were analyzed using a high-resolution metaproteomics pipeline.; RESULTS: Examined methanogenesis archaeal communities were either mixotrophic or strictly hydrogenotrophic in syntrophy with bacterial acetate oxidizers. Mapping of identified metaproteins with process steps described by the Anaerobic Digestion Model 1 confirmed its main assumptions and also proposed some extensions such as syntrophic acetate oxidation or fermentation of alcohols. Results indicate that the microbial communities were shaped by syntrophy as well as competition and phage-host interactions causing cell lysis. For the families Bacillaceae, Enterobacteriaceae, and Clostridiaceae, the number of phages exceeded up to 20-fold the number of host cells.; CONCLUSION: Phage-induced cell lysis might slow down the conversion of substrates to biogas, though, it could support the growth of auxotrophic microbes by cycling of nutrients.
Erscheinungsjahr
2019
Zeitschriftentitel
Microbiome
Band
7
Ausgabe
1
Art.-Nr.
69
ISSN
2049-2618
Page URI
https://pub.uni-bielefeld.de/record/2935489
Zitieren
Heyer R, Schallert K, Siewert C, et al. Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants. Microbiome. 2019;7(1): 69.
Heyer, R., Schallert, K., Siewert, C., Kohrs, F., Greve, J., Maus, I., Klang, J., et al. (2019). Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants. Microbiome, 7(1), 69. doi:10.1186/s40168-019-0673-y
Heyer, R, Schallert, K, Siewert, C, Kohrs, F, Greve, J, Maus, Irena, Klang, J, et al. 2019. “Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants.”. Microbiome 7 (1): 69.
Heyer, R., Schallert, K., Siewert, C., Kohrs, F., Greve, J., Maus, I., Klang, J., Klocke, M., Heiermann, M., Hoffmann, M., et al. (2019). Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants. Microbiome 7:69.
Heyer, R., et al., 2019. Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants. Microbiome, 7(1): 69.
R. Heyer, et al., “Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants.”, Microbiome, vol. 7, 2019, : 69.
Heyer, R., Schallert, K., Siewert, C., Kohrs, F., Greve, J., Maus, I., Klang, J., Klocke, M., Heiermann, M., Hoffmann, M., Puttker, S., Calusinska, M., Zoun, R., Saake, G., Benndorf, D., Reichl, U.: Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants. Microbiome. 7, : 69 (2019).
Heyer, R, Schallert, K, Siewert, C, Kohrs, F, Greve, J, Maus, Irena, Klang, J, Klocke, M, Heiermann, M, Hoffmann, M, Puttker, S, Calusinska, M, Zoun, R, Saake, G, Benndorf, D, and Reichl, U. “Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants.”. Microbiome 7.1 (2019): 69.
70 References
Daten bereitgestellt von Europe PubMed Central.
Biomethanation and its potential.
Angelidaki I, Karakashev D, Batstone DJ, Plugge CM, Stams AJ., Meth. Enzymol. 494(), 2011
PMID: 21402222
Angelidaki I, Karakashev D, Batstone DJ, Plugge CM, Stams AJ., Meth. Enzymol. 494(), 2011
PMID: 21402222
Enhanced biomethane production rate and yield from lignocellulosic ensiled forage ley by in situ anaerobic digestion treatment with endogenous cellulolytic enzymes.
Speda J, Johansson MA, Odnell A, Karlsson M., Biotechnol Biofuels 10(), 2017
PMID: 28523077
Speda J, Johansson MA, Odnell A, Karlsson M., Biotechnol Biofuels 10(), 2017
PMID: 28523077
Biogas production: current state and perspectives.
Weiland P., Appl. Microbiol. Biotechnol. 85(4), 2009
PMID: 19777226
Weiland P., Appl. Microbiol. Biotechnol. 85(4), 2009
PMID: 19777226
Energetics of syntrophic cooperation in methanogenic degradation.
Schink B., Microbiol. Mol. Biol. Rev. 61(2), 1997
PMID: 9184013
Schink B., Microbiol. Mol. Biol. Rev. 61(2), 1997
PMID: 9184013
Methanogenic archaea: ecologically relevant differences in energy conservation.
Thauer RK, Kaster AK, Seedorf H, Buckel W, Hedderich R., Nat. Rev. Microbiol. 6(8), 2008
PMID: 18587410
Thauer RK, Kaster AK, Seedorf H, Buckel W, Hedderich R., Nat. Rev. Microbiol. 6(8), 2008
PMID: 18587410
The IWA Anaerobic Digestion Model No 1 (ADM1).
Batstone DJ, Keller J, Angelidaki I, Kalyuzhnyi SV, Pavlostathis SG, Rozzi A, Sanders WT, Siegrist H, Vavilin VA., Water Sci. Technol. 45(10), 2002
PMID: 12188579
Batstone DJ, Keller J, Angelidaki I, Kalyuzhnyi SV, Pavlostathis SG, Rozzi A, Sanders WT, Siegrist H, Vavilin VA., Water Sci. Technol. 45(10), 2002
PMID: 12188579
Diagnostic concept for dynamically operated biogas production plants
Bensmann A, Hanke-Rauschenbach R, Heyer R, Kohrs F, Benndorf D, Kausmann R, Plochl M, Heiermann M, Reichl U, Sundmacher K., 2016
Bensmann A, Hanke-Rauschenbach R, Heyer R, Kohrs F, Benndorf D, Kausmann R, Plochl M, Heiermann M, Reichl U, Sundmacher K., 2016
Mathematical modelling of anaerobic digestion of biomass and waste: Power and limitations
Lauwers J, Appels L, Thompson IP, Degreve J, Van JE, Dewil R., 2013
Lauwers J, Appels L, Thompson IP, Degreve J, Van JE, Dewil R., 2013
Syntrophic acetate-oxidizing microbes in methanogenic environments.
Hattori S., Microbes Environ. 23(2), 2008
PMID: 21558697
Hattori S., Microbes Environ. 23(2), 2008
PMID: 21558697
Biogas production through syntrophic acetate oxidation and deliberate operating strategies for improved digester performance
Westerholm M, Moestedt J, Schnurer A., 2016
Westerholm M, Moestedt J, Schnurer A., 2016
Methanosarcina: the rediscovered methanogen for heavy duty biomethanation.
De Vrieze J, Hennebel T, Boon N, Verstraete W., Bioresour. Technol. 112(), 2012
PMID: 22418081
De Vrieze J, Hennebel T, Boon N, Verstraete W., Bioresour. Technol. 112(), 2012
PMID: 22418081
Bacteriocins of gram-positive bacteria.
Jack RW, Tagg JR, Ray B., Microbiol. Rev. 59(2), 1995
PMID: 7603408
Jack RW, Tagg JR, Ray B., Microbiol. Rev. 59(2), 1995
PMID: 7603408
Analysis of dsDNA and RNA viromes in methanogenic digesters reveals novel viral genetic diversity.
Calusinska M, Marynowska M, Goux X, Lentzen E, Delfosse P., Environ. Microbiol. 18(4), 2016
PMID: 26568175
Calusinska M, Marynowska M, Goux X, Lentzen E, Delfosse P., Environ. Microbiol. 18(4), 2016
PMID: 26568175
AUTHOR UNKNOWN, 0
CRISPR-Cas9 Structures and Mechanisms.
Jiang F, Doudna JA., Annu Rev Biophys 46(), 2017
PMID: 28375731
Jiang F, Doudna JA., Annu Rev Biophys 46(), 2017
PMID: 28375731
Characterization of the methanogenic Archaea within two-phase biogas reactor systems operated with plant biomass.
Klocke M, Nettmann E, Bergmann I, Mundt K, Souidi K, Mumme J, Linke B., Syst. Appl. Microbiol. 31(3), 2008
PMID: 18501543
Klocke M, Nettmann E, Bergmann I, Mundt K, Souidi K, Mumme J, Linke B., Syst. Appl. Microbiol. 31(3), 2008
PMID: 18501543
AUTHOR UNKNOWN, 0
Methanogenic Community Dynamics during Anaerobic Utilization of Agricultural Wastes
Ziganshin AM, Ziganshina EE, Kleinsteuber S, Proter J, Ilinskaya ON., 2012
Ziganshin AM, Ziganshina EE, Kleinsteuber S, Proter J, Ilinskaya ON., 2012
A metabolic quotient for methanogenic Archaea.
Munk B, Bauer C, Gronauer A, Lebuhn M., Water Sci. Technol. 66(11), 2012
PMID: 23032759
Munk B, Bauer C, Gronauer A, Lebuhn M., Water Sci. Technol. 66(11), 2012
PMID: 23032759
Characterization of microbial biofilms in a thermophilic biogas system by high-throughput metagenome sequencing.
Rademacher A, Zakrzewski M, Schluter A, Schonberg M, Szczepanowski R, Goesmann A, Puhler A, Klocke M., FEMS Microbiol. Ecol. 79(3), 2011
PMID: 22126587
Rademacher A, Zakrzewski M, Schluter A, Schonberg M, Szczepanowski R, Goesmann A, Puhler A, Klocke M., FEMS Microbiol. Ecol. 79(3), 2011
PMID: 22126587
AUTHOR UNKNOWN, 0
Metagenome and metaproteome analyses of microbial communities in mesophilic biogas-producing anaerobic batch fermentations indicate concerted plant carbohydrate degradation.
Hanreich A, Schimpf U, Zakrzewski M, Schluter A, Benndorf D, Heyer R, Rapp E, Puhler A, Reichl U, Klocke M., Syst. Appl. Microbiol. 36(5), 2013
PMID: 23694815
Hanreich A, Schimpf U, Zakrzewski M, Schluter A, Benndorf D, Heyer R, Rapp E, Puhler A, Reichl U, Klocke M., Syst. Appl. Microbiol. 36(5), 2013
PMID: 23694815
Identification and genome reconstruction of abundant distinct taxa in microbiomes from one thermophilic and three mesophilic production-scale biogas plants.
Stolze Y, Bremges A, Rumming M, Henke C, Maus I, Puhler A, Sczyrba A, Schluter A., Biotechnol Biofuels 9(), 2016
PMID: 27462367
Stolze Y, Bremges A, Rumming M, Henke C, Maus I, Puhler A, Sczyrba A, Schluter A., Biotechnol Biofuels 9(), 2016
PMID: 27462367
Unraveling the microbiome of a thermophilic biogas plant by metagenome and metatranscriptome analysis complemented by characterization of bacterial and archaeal isolates.
Maus I, Koeck DE, Cibis KG, Hahnke S, Kim YS, Langer T, Kreubel J, Erhard M, Bremges A, Off S, Stolze Y, Jaenicke S, Goesmann A, Sczyrba A, Scherer P, Konig H, Schwarz WH, Zverlov VV, Liebl W, Puhler A, Schluter A, Klocke M., Biotechnol Biofuels 9(), 2016
PMID: 27525040
Maus I, Koeck DE, Cibis KG, Hahnke S, Kim YS, Langer T, Kreubel J, Erhard M, Bremges A, Off S, Stolze Y, Jaenicke S, Goesmann A, Sczyrba A, Scherer P, Konig H, Schwarz WH, Zverlov VV, Liebl W, Puhler A, Schluter A, Klocke M., Biotechnol Biofuels 9(), 2016
PMID: 27525040
Profiling of the metabolically active community from a production-scale biogas plant by means of high-throughput metatranscriptome sequencing.
Zakrzewski M, Goesmann A, Jaenicke S, Junemann S, Eikmeyer F, Szczepanowski R, Al-Soud WA, Sorensen S, Puhler A, Schluter A., J. Biotechnol. 158(4), 2012
PMID: 22342600
Zakrzewski M, Goesmann A, Jaenicke S, Junemann S, Eikmeyer F, Szczepanowski R, Al-Soud WA, Sorensen S, Puhler A, Schluter A., J. Biotechnol. 158(4), 2012
PMID: 22342600
Optimisation of protein extraction and 2-DE for metaproteomics of microbial communities from anaerobic wastewater treatment biofilms.
Abram F, Gunnigle E, O'Flaherty V., Electrophoresis 30(23), 2009
PMID: 19960479
Abram F, Gunnigle E, O'Flaherty V., Electrophoresis 30(23), 2009
PMID: 19960479
AUTHOR UNKNOWN, 0
Metaproteome analysis to determine the metabolically active part of a thermophilic microbial community producing biogas from agricultural biomass.
Hanreich A, Heyer R, Benndorf D, Rapp E, Pioch M, Reichl U, Klocke M., Can. J. Microbiol. 58(7), 2012
PMID: 22690648
Hanreich A, Heyer R, Benndorf D, Rapp E, Pioch M, Reichl U, Klocke M., Can. J. Microbiol. 58(7), 2012
PMID: 22690648
Proteotyping of biogas plant microbiomes separates biogas plants according to process temperature and reactor type.
Heyer R, Benndorf D, Kohrs F, De Vrieze J, Boon N, Hoffmann M, Rapp E, Schluter A, Sczyrba A, Reichl U., Biotechnol Biofuels 9(), 2016
PMID: 27462366
Heyer R, Benndorf D, Kohrs F, De Vrieze J, Boon N, Hoffmann M, Rapp E, Schluter A, Sczyrba A, Reichl U., Biotechnol Biofuels 9(), 2016
PMID: 27462366
Metaproteomics of complex microbial communities in biogas plants.
Heyer R, Kohrs F, Reichl U, Benndorf D., Microb Biotechnol 8(5), 2015
PMID: 25874383
Heyer R, Kohrs F, Reichl U, Benndorf D., Microb Biotechnol 8(5), 2015
PMID: 25874383
The MetaProteomeAnalyzer: a powerful open-source software suite for metaproteomics data analysis and interpretation.
Muth T, Behne A, Heyer R, Kohrs F, Benndorf D, Hoffmann M, Lehteva M, Reichl U, Martens L, Rapp E., J. Proteome Res. 14(3), 2015
PMID: 25660940
Muth T, Behne A, Heyer R, Kohrs F, Benndorf D, Hoffmann M, Lehteva M, Reichl U, Martens L, Rapp E., J. Proteome Res. 14(3), 2015
PMID: 25660940
Metaproteomics of cellulose methanisation under thermophilic conditions reveals a surprisingly high proteolytic activity.
Lu F, Bize A, Guillot A, Monnet V, Madigou C, Chapleur O, Mazeas L, He P, Bouchez T., ISME J 8(1), 2013
PMID: 23949661
Lu F, Bize A, Guillot A, Monnet V, Madigou C, Chapleur O, Mazeas L, He P, Bouchez T., ISME J 8(1), 2013
PMID: 23949661
UniRef: comprehensive and non-redundant UniProt reference clusters.
Suzek BE, Huang H, McGarvey P, Mazumder R, Wu CH., Bioinformatics 23(10), 2007
PMID: 17379688
Suzek BE, Huang H, McGarvey P, Mazumder R, Wu CH., Bioinformatics 23(10), 2007
PMID: 17379688
Homomultimeric protease and putative bacteriocin homolog from Thermotoga maritima.
Hicks PM, Chang LS, Kelly RM., Meth. Enzymol. 330(), 2001
PMID: 11210524
Hicks PM, Chang LS, Kelly RM., Meth. Enzymol. 330(), 2001
PMID: 11210524
Challenges and perspectives of metaproteomic data analysis.
Heyer R, Schallert K, Zoun R, Becher B, Saake G, Benndorf D., J. Biotechnol. 261(), 2017
PMID: 28663049
Heyer R, Schallert K, Zoun R, Becher B, Saake G, Benndorf D., J. Biotechnol. 261(), 2017
PMID: 28663049
Bioinformatics for NGS-based metagenomics and the application to biogas research.
Junemann S, Kleinbolting N, Jaenicke S, Henke C, Hassa J, Nelkner J, Stolze Y, Albaum SP, Schluter A, Goesmann A, Sczyrba A, Stoye J., J. Biotechnol. 261(), 2017
PMID: 28823476
Junemann S, Kleinbolting N, Jaenicke S, Henke C, Hassa J, Nelkner J, Stolze Y, Albaum SP, Schluter A, Goesmann A, Sczyrba A, Stoye J., J. Biotechnol. 261(), 2017
PMID: 28823476
Metaproteomics analysis of the functional insights into microbial communities of combined hydrogen and methane production by anaerobic fermentation from reed straw.
Jia X, Xi BD, Li MX, Yang Y, Wang Y., PLoS ONE 12(8), 2017
PMID: 28817657
Jia X, Xi BD, Li MX, Yang Y, Wang Y., PLoS ONE 12(8), 2017
PMID: 28817657
Sample prefractionation with liquid isoelectric focusing enables in depth microbial metaproteome analysis of mesophilic and thermophilic biogas plants.
Kohrs F, Heyer R, Magnussen A, Benndorf D, Muth T, Behne A, Rapp E, Kausmann R, Heiermann M, Klocke M, Reichl U., Anaerobe 29(), 2013
PMID: 24309213
Kohrs F, Heyer R, Magnussen A, Benndorf D, Muth T, Behne A, Rapp E, Kausmann R, Heiermann M, Klocke M, Reichl U., Anaerobe 29(), 2013
PMID: 24309213
Extracellular enzyme production and cheating in Pseudomonas fluorescens depend on diffusion rates.
Allison SD, Lu L, Kent AG, Martiny AC., Front Microbiol 5(), 2014
PMID: 24782855
Allison SD, Lu L, Kent AG, Martiny AC., Front Microbiol 5(), 2014
PMID: 24782855
Marine viruses--major players in the global ecosystem.
Suttle CA., Nat. Rev. Microbiol. 5(10), 2007
PMID: 17853907
Suttle CA., Nat. Rev. Microbiol. 5(10), 2007
PMID: 17853907
Assessing species biomass contributions in microbial communities via metaproteomics.
Kleiner M, Thorson E, Sharp CE, Dong X, Liu D, Li C, Strous M., Nat Commun 8(1), 2017
PMID: 29146960
Kleiner M, Thorson E, Sharp CE, Dong X, Liu D, Li C, Strous M., Nat Commun 8(1), 2017
PMID: 29146960
Understanding the enormous diversity of bacteriophages: the tailed phages that infect the bacterial family Enterobacteriaceae.
Grose JH, Casjens SR., Virology 468-470(), 2014
PMID: 25240328
Grose JH, Casjens SR., Virology 468-470(), 2014
PMID: 25240328
Phages in nature.
Clokie MR, Millard AD, Letarov AV, Heaphy S., Bacteriophage 1(1), 2011
PMID: 21687533
Clokie MR, Millard AD, Letarov AV, Heaphy S., Bacteriophage 1(1), 2011
PMID: 21687533
AUTHOR UNKNOWN, 0
Underlying mechanisms for syntrophic metabolism of essential enzyme cofactors in microbial communities.
Romine MF, Rodionov DA, Maezato Y, Osterman AL, Nelson WC., ISME J 11(6), 2017
PMID: 28186498
Romine MF, Rodionov DA, Maezato Y, Osterman AL, Nelson WC., ISME J 11(6), 2017
PMID: 28186498
Enumeration studies on methanogenic bacteria
Siebert ML, Toerien DF, Hattingh WHJ., 1968
Siebert ML, Toerien DF, Hattingh WHJ., 1968
Bacteriophages: how bacterial spores capture and protect phage DNA.
Sonenshein AL., Curr. Biol. 16(1), 2006
PMID: 16401409
Sonenshein AL., Curr. Biol. 16(1), 2006
PMID: 16401409
Phylogenomic networks reveal limited phylogenetic range of lateral gene transfer by transduction.
Popa O, Landan G, Dagan T., ISME J 11(2), 2016
PMID: 27648812
Popa O, Landan G, Dagan T., ISME J 11(2), 2016
PMID: 27648812
Illuminating structural proteins in viral "dark matter" with metaproteomics.
Brum JR, Ignacio-Espinoza JC, Kim EH, Trubl G, Jones RM, Roux S, VerBerkmoes NC, Rich VI, Sullivan MB., Proc. Natl. Acad. Sci. U.S.A. 113(9), 2016
PMID: 26884177
Brum JR, Ignacio-Espinoza JC, Kim EH, Trubl G, Jones RM, Roux S, VerBerkmoes NC, Rich VI, Sullivan MB., Proc. Natl. Acad. Sci. U.S.A. 113(9), 2016
PMID: 26884177
In situ visualization of newly synthesized proteins in environmental microbes using amino acid tagging and click chemistry.
Hatzenpichler R, Scheller S, Tavormina PL, Babin BM, Tirrell DA, Orphan VJ., Environ. Microbiol. 16(8), 2014
PMID: 24571640
Hatzenpichler R, Scheller S, Tavormina PL, Babin BM, Tirrell DA, Orphan VJ., Environ. Microbiol. 16(8), 2014
PMID: 24571640
Protein-SIP in environmental studies.
Jehmlich N, Vogt C, Lunsmann V, Richnow HH, von Bergen M., Curr. Opin. Biotechnol. 41(), 2016
PMID: 27116035
Jehmlich N, Vogt C, Lunsmann V, Richnow HH, von Bergen M., Curr. Opin. Biotechnol. 41(), 2016
PMID: 27116035
Impact of spontaneous prophage induction on the fitness of bacterial populations and host-microbe interactions.
Nanda AM, Thormann K, Frunzke J., J. Bacteriol. 197(3), 2014
PMID: 25404701
Nanda AM, Thormann K, Frunzke J., J. Bacteriol. 197(3), 2014
PMID: 25404701
Metaproteome analysis of the microbial communities in agricultural biogas plants.
Heyer R, Kohrs F, Benndorf D, Rapp E, Kausmann R, Heiermann M, Klocke M, Reichl U., N Biotechnol 30(6), 2013
PMID: 23369865
Heyer R, Kohrs F, Benndorf D, Rapp E, Kausmann R, Heiermann M, Klocke M, Reichl U., N Biotechnol 30(6), 2013
PMID: 23369865
Eine Störungsfreie Mikromethode zur Bestimmung des Proteingehaltes in Gewebehomogenaten
Popov N, Schmitt M, Schulzeck S, Matthies H., 1975
Popov N, Schmitt M, Schulzeck S, Matthies H., 1975
Stoichiometry of the amido black reaction with proteins.
Racusen D., Anal. Biochem. 52(1), 1973
PMID: 4121309
Racusen D., Anal. Biochem. 52(1), 1973
PMID: 4121309
Cleavage of structural proteins during the assembly of the head of bacteriophage T4.
Laemmli UK., Nature 227(5259), 1970
PMID: 5432063
Laemmli UK., Nature 227(5259), 1970
PMID: 5432063
Mass spectrometric sequencing of proteins silver-stained polyacrylamide gels.
Shevchenko A, Wilm M, Vorm O, Mann M., Anal. Chem. 68(5), 1996
PMID: 8779443
Shevchenko A, Wilm M, Vorm O, Mann M., Anal. Chem. 68(5), 1996
PMID: 8779443
Open mass spectrometry search algorithm.
Geer LY, Markey SP, Kowalak JA, Wagner L, Xu M, Maynard DM, Yang X, Shi W, Bryant SH., J. Proteome Res. 3(5), 2004
PMID: 15473683
Geer LY, Markey SP, Kowalak JA, Wagner L, Xu M, Maynard DM, Yang X, Shi W, Bryant SH., J. Proteome Res. 3(5), 2004
PMID: 15473683
TANDEM: matching proteins with tandem mass spectra.
Craig R, Beavis RC., Bioinformatics 20(9), 2004
PMID: 14976030
Craig R, Beavis RC., Bioinformatics 20(9), 2004
PMID: 14976030
Probability-based protein identification by searching sequence databases using mass spectrometry data.
Perkins DN, Pappin DJ, Creasy DM, Cottrell JS., Electrophoresis 20(18), 1999
PMID: 10612281
Perkins DN, Pappin DJ, Creasy DM, Cottrell JS., Electrophoresis 20(18), 1999
PMID: 10612281
Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations.
Elias JE, Haas W, Faherty BK, Gygi SP., Nat. Methods 2(9), 2005
PMID: 16118637
Elias JE, Haas W, Faherty BK, Gygi SP., Nat. Methods 2(9), 2005
PMID: 16118637
UniProt: a hub for protein information.
UniProt Consortium, Bateman A, Martin MJ, O'Donovan C, Magrane M, Apweiler R, Alpi E, Antunes R, Arganiska J, Bely B, Bingley M, Bonilla C, Britto R, Bursteinas B, Chavali G, Cibrian-Uhalte E, Silva AD, De Giorgi M, Dogan T, Fazzini F, Gane P, Castro LG, Garmiri P, Hatton-Ellis E, Hieta R, Huntley R, Legge D, Liu W, Luo J, MacDougall A, Mutowo P, Nightingale A, Orchard S, Pichler K, Poggioli D, Pundir S, Pureza L, Qi G, Rosanoff S, Saidi R, Sawford T, Shypitsyna A, Turner E, Volynkin V, Wardell T, Watkins X, Zellner H, Cowley A, Figueira L, Li W, McWilliam H, Lopez R, Xenarios I, Bougueleret L, Bridge A, Poux S, Redaschi N, Aimo L, Argoud-Puy G, Auchincloss A, Axelsen K, Bansal P, Baratin D, Blatter MC, Boeckmann B, Bolleman J, Boutet E, Breuza L, Casal-Casas C, de Castro E, Coudert E, Cuche B, Doche M, Dornevil D, Duvaud S, Estreicher A, Famiglietti L, Feuermann M, Gasteiger E, Gehant S, Gerritsen V, Gos A, Gruaz-Gumowski N, Hinz U, Hulo C, Jungo F, Keller G, Lara V, Lemercier P, Lieberherr D, Lombardot T, Martin X, Masson P, Morgat A, Neto T, Nouspikel N, Paesano S, Pedruzzi I, Pilbout S, Pozzato M, Pruess M, Rivoire C, Roechert B, Schneider M, Sigrist C, Sonesson K, Staehli S, Stutz A, Sundaram S, Tognolli M, Verbregue L, Veuthey AL, Wu CH, Arighi CN, Arminski L, Chen C, Chen Y, Garavelli JS, Huang H, Laiho K, McGarvey P, Natale DA, Suzek BE, Vinayaka C, Wang Q, Wang Y, Yeh LS, Yerramalla MS, Zhang J., Nucleic Acids Res. 43(Database issue), 2014
PMID: 25348405
UniProt Consortium, Bateman A, Martin MJ, O'Donovan C, Magrane M, Apweiler R, Alpi E, Antunes R, Arganiska J, Bely B, Bingley M, Bonilla C, Britto R, Bursteinas B, Chavali G, Cibrian-Uhalte E, Silva AD, De Giorgi M, Dogan T, Fazzini F, Gane P, Castro LG, Garmiri P, Hatton-Ellis E, Hieta R, Huntley R, Legge D, Liu W, Luo J, MacDougall A, Mutowo P, Nightingale A, Orchard S, Pichler K, Poggioli D, Pundir S, Pureza L, Qi G, Rosanoff S, Saidi R, Sawford T, Shypitsyna A, Turner E, Volynkin V, Wardell T, Watkins X, Zellner H, Cowley A, Figueira L, Li W, McWilliam H, Lopez R, Xenarios I, Bougueleret L, Bridge A, Poux S, Redaschi N, Aimo L, Argoud-Puy G, Auchincloss A, Axelsen K, Bansal P, Baratin D, Blatter MC, Boeckmann B, Bolleman J, Boutet E, Breuza L, Casal-Casas C, de Castro E, Coudert E, Cuche B, Doche M, Dornevil D, Duvaud S, Estreicher A, Famiglietti L, Feuermann M, Gasteiger E, Gehant S, Gerritsen V, Gos A, Gruaz-Gumowski N, Hinz U, Hulo C, Jungo F, Keller G, Lara V, Lemercier P, Lieberherr D, Lombardot T, Martin X, Masson P, Morgat A, Neto T, Nouspikel N, Paesano S, Pedruzzi I, Pilbout S, Pozzato M, Pruess M, Rivoire C, Roechert B, Schneider M, Sigrist C, Sonesson K, Staehli S, Stutz A, Sundaram S, Tognolli M, Verbregue L, Veuthey AL, Wu CH, Arighi CN, Arminski L, Chen C, Chen Y, Garavelli JS, Huang H, Laiho K, McGarvey P, Natale DA, Suzek BE, Vinayaka C, Wang Q, Wang Y, Yeh LS, Yerramalla MS, Zhang J., Nucleic Acids Res. 43(Database issue), 2014
PMID: 25348405
The metagenome of a biogas-producing microbial community of a production-scale biogas plant fermenter analysed by the 454-pyrosequencing technology.
Schluter A, Bekel T, Diaz NN, Dondrup M, Eichenlaub R, Gartemann KH, Krahn I, Krause L, Kromeke H, Kruse O, Mussgnug JH, Neuweger H, Niehaus K, Puhler A, Runte KJ, Szczepanowski R, Tauch A, Tilker A, Viehover P, Goesmann A., J. Biotechnol. 136(1-2), 2008
PMID: 18597880
Schluter A, Bekel T, Diaz NN, Dondrup M, Eichenlaub R, Gartemann KH, Krahn I, Krause L, Kromeke H, Kruse O, Mussgnug JH, Neuweger H, Niehaus K, Puhler A, Runte KJ, Szczepanowski R, Tauch A, Tilker A, Viehover P, Goesmann A., J. Biotechnol. 136(1-2), 2008
PMID: 18597880
2016 update of the PRIDE database and its related tools.
Vizcaino JA, Csordas A, Del-Toro N, Dianes JA, Griss J, Lavidas I, Mayer G, Perez-Riverol Y, Reisinger F, Ternent T, Xu QW, Wang R, Hermjakob H., Nucleic Acids Res. 44(22), 2016
PMID: 27683222
Vizcaino JA, Csordas A, Del-Toro N, Dianes JA, Griss J, Lavidas I, Mayer G, Perez-Riverol Y, Reisinger F, Ternent T, Xu QW, Wang R, Hermjakob H., Nucleic Acids Res. 44(22), 2016
PMID: 27683222
Basic local alignment search tool.
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ., J. Mol. Biol. 215(3), 1990
PMID: 2231712
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ., J. Mol. Biol. 215(3), 1990
PMID: 2231712
UniProtJAPI: a remote API for accessing UniProt data.
Patient S, Wieser D, Kleen M, Kretschmann E, Jesus Martin M, Apweiler R., Bioinformatics 24(10), 2008
PMID: 18390879
Patient S, Wieser D, Kleen M, Kretschmann E, Jesus Martin M, Apweiler R., Bioinformatics 24(10), 2008
PMID: 18390879
AUTHOR UNKNOWN, 0
Interactive metagenomic visualization in a Web browser.
Ondov BD, Bergman NH, Phillippy AM., BMC Bioinformatics 12(), 2011
PMID: 21961884
Ondov BD, Bergman NH, Phillippy AM., BMC Bioinformatics 12(), 2011
PMID: 21961884
Export
Markieren/ Markierung löschen
Markierte Publikationen
Web of Science
Dieser Datensatz im Web of Science®Quellen
PMID: 31029164
PubMed | Europe PMC
Suchen in
Google Scholar