2021
- L.S. McKee, S.L. La Rosa, B. Westereng, V.G.H. Eijsink, P.B. Pope, J. Larsbrink (2021). Polysaccharide degradation by the Bacteroidetes: mechanisms and nomenclature. Environ. Microbiol. Rep. https://doi.org/10.1111/1758-2229.12980
- L.J. Lindstad, G. Lo, S. Leivers, L. Michalak, Z. Lu, G.V. Pereira, Å.K. Rørh, E.C. Martens, L.S. McKee, S.H. Duncan, B. Westereng, P.B. Pope, S.L. La Rosa (2021). Human gut Faecalibacterium prausnitzii deploy a highly efficient conserved system to cross-feed on β-mannan-derived oligosaccharides. mBio 12; e03628-20
- S. Mehta, M. Crane, E. Leith, B. Batut, S. Hiltemann, M.Ø. Arntzen, P.B. Pope, B.J. Kunath, F. Delogu, R. Sajulga, P. Kumar, J.E. Johnson, T.J. Griffin, P.D. Jagtap. ASaiM-MT: a validated and optimized ASaiM workflow for metatranscriptomics analysis within Galaxy framework. F1000Research 10; 103
- K. Jameson, G. Mathiesen, P.B. Pope, B. Westereng, S.L. La Rosa (2021). Biochemical characterization of two cellobiose 2-epimerases and application for efficient production of lactulose and epilactose. Curr Res Biotechnol. doi.org/10.1016/j.crbiot.2021.02.003
- M.A. Strand, Y. Jin, S.R. Sandve, P.B. Pope, T.R. Hvidsten (2021). Trans-kingdom network analysis provides insight into host-microbiome interactions in Atlantic salmon. Comput Struct Biotechnol J. doi: 10.1016/j.csbj.2021.01.038
2020
- L. Michalak, J.C. Gaby, L. Lagos, S.L. La Rosa, T.R. Hvidsten, C. Tétard-Jones, W.G.T. Willats, N. Terrapon, V. Lombard, B. Henrissat, J. Dröge, M.Ø. Arntzen, L.H. Hagen, M. Øverland, P.B. Pope*, B. Westereng* (2020). Microbiota-directed fibre activates both targeted and secondary metabolic shifts in the distal gut. *equal contributions. Nature Communications. 11; 5773
- Nayfach, S. Roux, R. Seshadri, D. Udwary, N. Varghese, F. Schulz, D. Wu, D. Paez-Espino, I-M. Chen, M. Huntemann, K. Palaniappan, J. Ladau, S. Mukherjee, T.B.K. Reddy, T. Nielsen, E. Kirton, J.P. Faria, J.N. Edirisinghe, C.S. Henry, S.P. Jungbluth, D. Chivian, P. Dehal, E.M. Wood-Charlson, A.P. Arkin, S.Tringe, A.Visel, IMG/M Data Consortium, T. Woyke, N.J. Mouncey, N.N. Ivanova, N.C. Kyrpides, E.A. Eloe-Fadrosh (2020). A Genomic Catalogue of Earth’s Microbiomes. Nature Biotech. doi: 10.1038/s41587-020-0718-6
- F. Delogu, B.J. Kunath, P.N. Evans, M.Ø. Arntzen, T.R. Hvidsten, P.B. Pope (2020). Integration of absolute multi-omics reveals translational and metabolic interplay in mixed-kingdom microbiomes. Nature Communications. doi.org/10.1038/s41467-020-18543-0
- L.H. Hagen, C.G. Brooke, C. Shaw, I. Brand-Thomas, A.D. Norbeck, H. Piao, M.Ø. Arntzen, H. Brewer, A. Copeland, N. Isern, A. Shukla, V. Lombard, B. Henrissat, M. O’Malley, I. Grigoriev, S.G. Tringe, R.I. Mackie, L. Pasa-Tolic, P.B. Pope, M. Hess (2020). Proteome specialization of anaerobic fungi during ruminal degradation of recalcitrant plant fiber. ISME J. doi.org/10.1038/s41396-020-00769-x
- S. Mazurkewich, R. Helland, A.K. MacKenzie, V.G.H. Eijsink, P.B. Pope, G. Brändén, J. Larsbrink (2020). Structural analysis of the enzymes from the Chitin Utilization Locus of Flavobacterium johnsoniae. Sci. Rep. 10; 13775
- M. Shaffer, M.A. Borton, B.B. McGivern, L.M. Solden, A.A. Zayed, S.L. La Rosa, P. Liu, J. Rodriguez-Ramos, A.B. Narrowe, B. Bolduc, R.A. Daly, G. Smith, D. Vik, P.B. Pope, M.B. Sullivan, S. Roux, K.C. Wrighton (2020). Distilling microbial metabolism to automate the curation of microbiome function. Nucl. Acids Res. doi: 10.1093/nar/gkaa621
- T.O. Andersen, L.H. Hagen, M.Ø. Arntzen, P.B. Pope (2020). Rumen metaproteomics: Closer to linking rumen microbial activities to animal productivity traits. Methods. https://doi.org/10.1016/j.ymeth.2020.07.011
- M. Kujawska, S.L. La Rosa, P.B. Pope, L. Hoyles, A. McCartney, L.J. Hall (2020). Succession of Bifidobacterium longum strains in response to the changing early life nutritional environment reveals specific adaptations to distinct dietary substrates. iScience. 23; 101368
- A. Gilbert, E. Townsend, K.S. Crew, T. Hitch, J. Friedersdorff, C.J. Creevey, P.B. Pope, D. Ouwerkerk, E. Jameson (2020). Rumen virus populations: technological advances enhancing current understanding. Front. Microbiol. 11; 450
2019
- G. Minniti, S.R. Sandve, S. Linden, P.B. Pope, M.Ø. Arntzen, G. Vaaje-Kolstad (2019). The farmed Atlantic salmon (Salmo salar) skin-mucus proteome and its nutrient potential for the resident bacterial community. Genes. 10; e515
- B.J. Kunath, G. Minniti, M. Skaugen, L.H. Hagen, G. Vaaje-Kolstad, V.G.H. Eijsink, P.B. Pope, M.Ø. Arntzen (2019). Metaproteomics: Sample Preparation and Methodological Considerations. Adv Exp Med Biol. 1073:187-215
- A. Salgado-Flores, A.T. Tveit, A.D. Wright, P.B. Pope, M.A. Sundset (2019). Characterization of the cecum microbiome from wild and captive rock ptarmigans indigenous to Arctic Norway. PLoS One. 14:e0213503
- S. Leanti La Rosa, M.L. Leth, L. Michalak, M.E. Hansen, M.Ø. Arntzen, P.B. Pope, E.C. Martens, M.A. Hachem, B. Westereng (2019). The Human Gut Firmicute Roseburia intestinalis is a primary degrader of dietary β-mannans. Nature Communications. 10:905.
- S. Leanti La Rosa, V. Kachrimanidou, F. Buffetto, P.B. Pope, N. Pudlo, E.C. Martens, R. Rastall, G. Gibson, B. Westereng (2019). Wood-derived Dietary Fibers Promote Beneficial Human Gut Microbiota. mSphere. 4: e00554-18
2018
- B.J. Kunath, F. Delogu, M.Ø. Arntzen, V.G.H. Eijsink, T.R. Hvidsten, P.B. Pope (2018) From proteins to polysaccharides: lifestyle and genetic evolution of Coprothermobacter proteolyticus. ISME J. 13: 603-617.
- N. Liu, H. Li, M.G. Chevrette, L. Zhang, L. Cao, H. Zhou, X. Zhou, Z. Zhou, P.B. Pope, C.R. Currie, Y. Huang and Q. Wang (2018). Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood feeding higher termite. ISME J. 13: 104-117.
- M. Taillefer, M.Ø. Arntzen, B. Henrissat, P.B. Pope, J. Larsbrink (2018). Proteomic dissection of the cellulolytic machineries used by soil dwelling Bacteroidetes. mSystems. doi: 10.1128/mSystems.00240-18
- L.M. Solden, A.E. Naas, S. Roux, R.A. Daly, W.B. Collins, C.D. Nicora, S.O. Purvine, J. Schuckel, B. Jorgensen, W.G.T. Willats, D.E. Spalinger, M.S. Lipton,M.B. Sullivan, P.B. Pope, K.C. Wrighton (2018). Interspecies cross-feeding orchestrates carbon degradation in the rumen ecosystem. Nature Microbiology. doi: 10.1038/s41564-018-0225-4
- J.B. Emerson, S. Roux, J.R. Brum, B. Bolduc, B.J. Woodcroft, H.B. Jang, C.M. Singleton, L.M. Solden, A.E. Naas, J.A. Boyd, S.B. Hodgkins, R.M. Wilson, G.Trubl, C. Li, S. Frolking, P.B. Pope, K.C. Wrighton, P.M. Crill, J.P. Chanton, S.R. Saleska, G.W. Tyson, V.I. Rich, M.B. Sullivan (2018). Host-linked soil viral ecology along a permafrost thaw gradient. Nature Microbiology. doi: 10.1038/s41564-018-0190-y.
- M.S. Jensen, L. Fredriksen, A.K. MacKenzie, P.B. Pope, I. Leiros, P. Chylenski, A.K. Williamson, T. Christopeit, H. Østby, G. Vaaje-Kolstad, V.G.H. Eijsink (2018). Discovery and characterization of a thermostable two-domain GH6 endoglucanase from a compost metagenome. PLoS One. 13; e0197862
- A.E. Naas, L.M. Solden, A.D. Norbeck, H. Brewer, L. H. Hagen, I. M. Heggenes, A.C. McHardy, R.I. Mackie, L. Paša-Tolić, M.Ø. Arntzen, V.G.H. Eijsink, N.M. Koropatkin, M. Hess, K.C. Wrighton, P.B. Pope (2018). "Candidatus Paraporphyromonas polyenzymogenes" encodes multi-modular cellulases linked to the Type IX secretion system. Microbiome. DOI: 10.1186/s40168-018-0421-8
- K. Rudi, I.L. Angell, P.B. Pope, J.O. Vik, S.R. Sandve, L.G. Snipen (2017). A stable core gut microbiota across fresh-to salt water transition for farmed Atlantic salmon. Appl. Environ. Microb. doi: 10.1128/AEM.01974-17
2017
- G. Minniti, L.H. Hagen, D. Porcellato, S.M. Jørgensen, *P.B. Pope, *G. Vaaje-Kolstad (2017). The skin-mucus microbial community of farmed Atlantic salmon (Salmo salar). Front. Microbiol. doi: 10.3389/fmicb.2017.02043 * equal contributions.
- M.Ø. Arntzen, A. Várnai, R.I. Mackie, V.G.H. Eijsink, P.B. Pope (2017). Outer membrane vesicles from Fibrobacter succinogenes S85 contain an array of Carbohydrate-Active Enzymes with versatile polysaccharide-degrading capacity. Environ Microbiol. 19; 2701-2714.
- B.J. Kunath, A. Bremges, A. Weimann, A.C. McHardy, P.B. Pope (2017). Metagenomics and CAZyme Discovery. Methods Mol Biol. 1588;255-277
- J. Larsbrink, T.R. Tuveng, P.B. Pope, V. Bulone, V.G.H. Eijsink, H. Brumer, L.S. McKee (2017). Proteomic data on enzyme secretion and activity in the bacterium Chitinophaga pinensis. Data in Brief. 11; 484-490.
- J. Larsbrink, T.R. Tuveng, P.B. Pope, V. Bulone, V.G.H. Eijsink, H. Brumer, L.S. McKee (2017). Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 156; 63-74.
- D. Paez-Espino, I.-M.A. Chen, K. Palaniappan, A. Ratner, K. Chu, E. Szeto, M. Pillay, J. Huang, V.M. Markowitz, T. Nielsen, M. Huntemann, T.B.K. Reddy, G.A. Pavlopoulos, M.B. Sullivan, B.J. Campbell, F. Chen, K. McMahon, S.J. Hallam, V. Denef, R. Cavicchioli, S.M. Caffrey, W.R. Streit, J. Webster, K.M. Handley, G.H. Salekdeh, N. Tsesmetzis, J.C. Setubal, P.B. Pope, W-T. Liu, A.R. Rivers, N.N. Ivanova, N.C. Kyrpides (2017). IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses. Nucl. Acids Res.45(D1); D457-D465.
2016
- A. Weimann, K, Mooren, J.A. Frank, P.B. Pope, A. Bremges, A.C. McHardy (2016). From genomes to phenotypes: Traitar, the microbial trait analyzer. mSystems 1; 00101-16.
- J. Larsbrink, Y. Zhu, S.S. Kharade, K.J. Kwiatkowski, V.G.H. Eijsink, N.M. Koropatkin, M.J. McBride, P.B. Pope (2016). A Polysaccharide Utilization Locus from Flavobacterium johnsoniae enables conversion of recalcitrant chitin. Biotechnol. Biofuels. 9; 260.
- L.H. Hagen, J.A. Frank, M. Zamanzadeh, V.G.H. Eijsink, P.B. Pope, S.J. Horn, M.Ø. Arntzen (2016). Quantitative metaproteomics highlight the metabolic contributions of uncultured phylotypes in a thermophilic anaerobic digester. Appl. Environ. Microb. 83; e01955-16.
- Ö.C. Umu, C. Bäuerl, M. Oostindjer, P.B. Pope, P.E. Hernández, G. Pérez-Martínez, D.B. Diep (2016). The Potential of Class II Bacteriocins to Modify Gut Microbiota to Improve Host Health. PLoS One 11;e0164036.
- J.A. Frank, M.Ø. Arntzen, L. Sun, L.H. Hagen, A.C. McHardy, S.J. Horn, V.G.H. Eijsink, A. Schnürer, P.B. Pope (2016). Novel Syntrophic Populations Dominate an Ammonia-Tolerant Methanogenic Microbiome. mSystems 1; e00092-16
- A. Salgado-Flores, M. Bockwoldt, L.H. Hagen, P.B. Pope, M.A. Sundset (2016). A first insight into the fecal microbiota of the high Arctic muskoxen (Ovibos moschatus). Microbial Genomics doi: 10.1099/mgen.0.00006
- A. Salgado-Flores, L.H. Hagen, S.L. Ishaq, M. Zamanzadeh, A.D. Wright, P.B. Pope, M.A. Sundset (2016). Rumen and Cecum Microbiomes in Reindeer (Rangifer tarandus tarandus) Are Changed in Response to a Lichen Diet and May Affect Enteric Methane Emissions. PLoS One 11; e0155213.
- J.A. Frank, Y. Pan, A. Tooming-Klunderud, V.G.H. Eijsink, A.C. McHardy, A.J. Nederbragt, P.B. Pope (2016). Improved metagenome assemblies and taxonomic binning using long-read circular consensus sequence data. Sci. Rep. 6; 25373.
2015
- G. Henderson, F. Cox, S. Ganesh, A. Jonker, W. Young, Global Rumen Census Collaborators, and P. H. Janssen (2015). Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range. Sci. Rep. 5; p14567.
- L. Sun, P.B. Pope, V.G.H. Eijsink, A. Schnürer (2015). Characterization of microbial community structure during continuous anaerobic digestion of straw and cow manure. Microb Biotechnol. 8; p815.
- A.E. Naas, A.K. MacKenzie, B. Dalhus, V.G.H. Eijsink, P.B. Pope (2015). Structural features of a Bacteroidetes-affiliated cellulase linked to a polysaccharide utilization locus. Sci. Rep. 5; p11666.
- L.H. Hagen, V. Vivekanand, P.B. Pope, V.G.H. Eijsink, S.J. Horn (2015). The effect of storage conditions on microbial community composition and biomethane potential in a biogas starter culture. Appl. Microb Biotechnol. 99; p5749.
- Ö.C.O. Umu, J.A. Frank, J.U. Fangel, M. Oostindjer, C. Souza da Silva, E.J. Bolhuis, G. Bosch, W.G.T. Willats, *P.B. Pope and *D.B. Diep (2015). Resistant starch diet induces change in the swine microbiome and a predominance of beneficial bacterial populations. Microbiome 3; p16. * equal contributions.
- A.K. Mackenzie, A.E. Naas, J. Mravec, S. Kracun, J. Schückel, J.U. Fangel, J.W. Agger, W.G.T. Willats, V.G.H. Eijsink, P.B. Pope (2015). A Polysaccharide utilisation locus from an uncultured Bacteroidetes phylotype infers ecological adaptation and substrate versatility. Appl. Environ. Microb. 81; p187.
2014
- S. Konietzny, P.B. Pope, A. Weimann, A.C. McHardy (2014). Inference of phenotype-defining functional modules of protein families for microbial plant biomass degraders Biotechnol. Biofuels 7; p124.
- L.H. Hagen, V. Vivekanand, R. Linjordet, P.B. Pope, V.G.H. Eijsink, S.J. Horn (2014). Microbial community structure and dynamics during co-digestion of whey permeate and cow manure in CSTR systems Bioresour Technol. 171: p350.
- A.E. Naas, A.K. Mackenzie, J. Mravec, J. Schückel, W.G.T. Willats, V.G.H. Eijsink, P.B. Pope (2014). Do rumen Bacteroidetes utilize an alternative mechanism for cellulose degradation? mBio 5; e01401-14.
- Y. Zhou, P.B. Pope, et al. (2014). Omics-based interpretation of synergism in a soil-derived cellulose-degrading microbial community Sci. Rep. 4; p5288.
- C.P. Rosewarne, P.B. Pope, J.L. Cheung and M. Morrison (2014). Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum BacteroidetesJ. Ind. Microbiol. Biot. 41(3); p601.
- E. Avershina, O. Storrø, T. Øyen, R. Johnsen, P.B. Pope and K. Rudi (2014). Major fecal microbiota shifts in composition and diversity with age in a geographically restricted cohort of mothers and their children FEMS Microbiol Ecol. 87(1); p280.
2013
- Ö.C.O. Umu, M. Oostindjer, P.B. Pope, B. Svihus, B. Egelandsdal, I.F. Nes and D.B. Diep (2013). Potential applications of gut microbiota to control human physiology. Antonie van Leeuwenhoek 104(5); p609.
- K.E. Præsteng, P.B. Pope, R.I. Mackie, I.K.O. Cann, S.D. Mathiesen, A.S. Blix, L.P. Folkow, V.G.H. Eijsink and M.A. Sundset (2013). Probiotic dosing of a highly fibrolytic Ruminococcus flavefaciens affects rumen microbiome structure and function in reindeer Microbiol Ecol. 66(4); p840.
- P.B. Pope, V. Vivekanand, V.G.H Eijsink and S.J. Horn (2013). Microbial Community Structure in a Biogas Digester Utilizing the Marine Energy Crop Saccharinalatissima3Biotech 3(5); p407.
- A. Weimann, Y. Trukhina, P.B. Pope, S.G.A. Konietzny and A.C. McHardy (2013). De novo prediction of the genomic components and capabilities for microbial plant biomass degradation from (meta-)genomes. Biotechnol. Biofuels 6 (1); p24.
2012
- C.R. Kleiveland, L.T.O. Hult, K. Kuczkowska, M. Jacobsen, T. Lea and P.B. Pope (2012). Draft Genome Sequence of the Methane Oxidizing Bacterium Methylococcus capsulatus(Texas). J. Bacteriol. 194(23); p6626.
- A.K. Mackenzie, P.B. Pope, H.L. Pedersen, R.Gupta, M. Morrison, W.G.T. Willats and V.G.H. Eijsink (2012). Two SusD-like proteins encoded within a Polysaccharide Utilization Locus of an uncultured ruminant Bacteroidetes phylotype bind strongly to cellulose. Appl. Environ. Microb. 78(16); p5935.
- P.B. Pope, A.K. Mackenzie, I. Gregor, W. Smith, M.A. Sundset, A.C. McHardy, M. Morrison and V.G.H. Eijsink (2012). Metagenomics of the Svalbard reindeer rumen microbiome reveals abundance of polysaccharide utilization loci. PLoS ONE 7(6); p38571.
2011
- P.B. Pope, W. Smith, S.E. Denman, S.G. Tringe, K. Barry, P. Hugenholtz, C.S. McSweeney, A.C. McHardy and M. Morrison (2011). Isolation and cultivation of Succinivibrionaceae implicated in low methane emissions from Tammar wallabies. Science 333(7); p646.
- K.Patil, P. Haider, P.B. Pope, P.J. Turnbaugh, M. Morrison, T. Scheffer, and A.C. McHardy (2011). Taxonomic metagenome sequence assignment with structured output models. Nat. Methods. 8(3); p191.
- C.P. Rosewarne, P.B. Pope, S.E. Denman, C.S. McSweeney, P. OCuiv and M. Morrison (2011). High-yield and phylogenetically robust methods of DNA recovery for metagenomic analysis of the microbial biofilms adherent to plant biomass in the herbivore gut. Microb. Ecol. 61(2); p448.
- P.B. Pope, M. Totsika, D. Aguirre de Carcer, M. A. Schembri and M. Morrison (2011). Muramidases found in the foregut microbiome of the Tammar wallaby can direct cell-aggregation and biofilm formation. ISME J. 5(2); p341.
2010
2009
2008