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Generation of an E. coli platform strain for improved sucrose utilization using adaptive laboratory evolution.

Mohamed ET, Mundhada H, Landberg J, Cann I, Mackie RI, Nielsen AT, Herrgård MJ, Feist AM.

Microb Cell Fact. 2019 Jun 29;18(1):116. doi: 10.1186/s12934-019-1165-2.


Diverse hydrogen production and consumption pathways influence methane production in ruminants.

Greening C, Geier R, Wang C, Woods LC, Morales SE, McDonald MJ, Rushton-Green R, Morgan XC, Koike S, Leahy SC, Kelly WJ, Cann I, Attwood GT, Cook GM, Mackie RI.

ISME J. 2019 Jun 26. doi: 10.1038/s41396-019-0464-2. [Epub ahead of print]


Structural and biochemical characterization of 20β-hydroxysteroid dehydrogenase from Bifidobacterium adolescentis strain L2-32.

Doden HL, Pollet RM, Mythen SM, Wawrzak Z, Devendran S, Cann I, Koropatkin NM, Ridlon JM.

J Biol Chem. 2019 Jun 17. pii: jbc.RA119.009390. doi: 10.1074/jbc.RA119.009390. [Epub ahead of print]


The 'in vivo lifestyle' of bile acid 7α-dehydroxylating bacteria: comparative genomics, metatranscriptomic, and bile acid metabolomics analysis of a defined microbial community in gnotobiotic mice.

Ridlon JM, Devendran S, Alves JM, Doden H, Wolf PG, Pereira GV, Ly L, Volland A, Takei H, Nittono H, Murai T, Kurosawa T, Chlipala GE, Green SJ, Hernandez AG, Fields CJ, Wright CL, Kakiyama G, Cann I, Kashyap P, McCracken V, Gaskins HR.

Gut Microbes. 2019 Jun 9:1-24. doi: 10.1080/19490976.2019.1618173. [Epub ahead of print]


Physiology, Metabolism, and Fossilization of Hot-Spring Filamentous Microbial Mats.

Dong Y, Sanford RA, Inskeep WP, Srivastava V, Bulone V, Fields CJ, Yau PM, Sivaguru M, Ahrén D, Fouke KW, Weber J, Werth CR, Cann IK, Keating KM, Khetani RS, Hernandez AG, Wright C, Band M, Imai BS, Fried GA, Fouke BW.

Astrobiology. 2019 Apr 30. doi: 10.1089/ast.2018.1965. [Epub ahead of print]


Combined Genomic, Transcriptomic, Proteomic, and Physiological Characterization of the Growth of Pecoramyces sp. F1 in Monoculture and Co-culture With a Syntrophic Methanogen.

Li Y, Li Y, Jin W, Sharpton TJ, Mackie RI, Cann I, Cheng Y, Zhu W.

Front Microbiol. 2019 Mar 6;10:435. doi: 10.3389/fmicb.2019.00435. eCollection 2019.


The mesophilic archaeon Methanosarcina acetivorans counteracts uracil in DNA with multiple enzymes: EndoQ, ExoIII, and UDG.

Shiraishi M, Ishino S, Heffernan M, Cann I, Ishino Y.

Sci Rep. 2018 Oct 25;8(1):15791. doi: 10.1038/s41598-018-34000-x.


Identification of Halophilic Microbes in Lung Fibrotic Tissue by Oligotyping.

D'Alessandro-Gabazza CN, Méndez-García C, Hataji O, Westergaard S, Watanabe F, Yasuma T, Toda M, Fujimoto H, Nishihama K, Fujiwara K, Taguchi O, Kobayashi T, Mackie RI, Cann I, Gabazza EC.

Front Microbiol. 2018 Aug 30;9:1892. doi: 10.3389/fmicb.2018.01892. eCollection 2018.


Bile acid oxidation by Eggerthella lenta strains C592 and DSM 2243T.

Harris SC, Devendran S, Méndez-García C, Mythen SM, Wright CL, Fields CJ, Hernandez AG, Cann I, Hylemon PB, Ridlon JM.

Gut Microbes. 2018 Nov 2;9(6):523-539. doi: 10.1080/19490976.2018.1458180. Epub 2018 May 24.


Anti-apoptotic activity of human matrix metalloproteinase-2 attenuates diabetes mellitus.

Nishihama K, Yasuma T, Yano Y, D' Alessandro-Gabazza CN, Toda M, Hinneh JA, Baffour Tonto P, Takeshita A, Totoki T, Mifuji-Moroka R, Kobayashi T, Iwasa M, Takei Y, Morser J, Cann I, Gabazza EC.

Metabolism. 2018 May;82:88-99. doi: 10.1016/j.metabol.2018.01.016. Epub 2018 Jan 31.


Let them eat fruit.

Mackie RI, Cann I.

Nat Microbiol. 2018 Feb;3(2):127-129. doi: 10.1038/s41564-018-0108-8. No abstract available.


Targeted Synthesis and Characterization of a Gene Cluster Encoding NAD(P)H-Dependent 3α-, 3β-, and 12α-Hydroxysteroid Dehydrogenases from Eggerthella CAG:298, a Gut Metagenomic Sequence.

Mythen SM, Devendran S, Méndez-García C, Cann I, Ridlon JM.

Appl Environ Microbiol. 2018 Mar 19;84(7). pii: e02475-17. doi: 10.1128/AEM.02475-17. Print 2018 Apr 1.


Metabolic networks for nitrogen utilization in Prevotella ruminicola 23.

Kim JN, Méndez-García C, Geier RR, Iakiviak M, Chang J, Cann I, Mackie RI.

Sci Rep. 2017 Aug 10;7(1):7851. doi: 10.1038/s41598-017-08463-3.


Enzymatic Mechanism for Arabinan Degradation and Transport in the Thermophilic Bacterium Caldanaerobius polysaccharolyticus.

Wefers D, Dong J, Abdel-Hamid AM, Paul HM, Pereira GV, Han Y, Dodd D, Baskaran R, Mayer B, Mackie RI, Cann I.

Appl Environ Microbiol. 2017 Aug 31;83(18). pii: e00794-17. doi: 10.1128/AEM.00794-17. Print 2017 Sep 15.


Biochemical and Structural Analyses of Two Cryptic Esterases in Bacteroides intestinalis and their Synergistic Activities with Cognate Xylanases.

Wefers D, Cavalcante JJV, Schendel RR, Deveryshetty J, Wang K, Wawrzak Z, Mackie RI, Koropatkin NM, Cann I.

J Mol Biol. 2017 Aug 4;429(16):2509-2527. doi: 10.1016/j.jmb.2017.06.017. Epub 2017 Jun 29.


A functional endonuclease Q exists in the bacterial domain: identification and characterization of endonuclease Q from Bacillus pumilus.

Shiraishi M, Ishino S, Cann I, Ishino Y.

Biosci Biotechnol Biochem. 2017 May;81(5):931-937. doi: 10.1080/09168451.2016.1277946. Epub 2017 Jan 18.


Erratum. Amelioration of Diabetes by Protein S. Diabetes 2016;65:1940-1951.

Yasuma T, Yano Y, D'Alessandro-Gabazza CN, Toda M, Gil-Bernabe P, Kobayashi T, Nishihama K, Hinneh JA, Mifuji-Moroka R, Roeen Z, Morser J, Cann I, Motoh I, Takei Y, Gabazza EC.

Diabetes. 2016 Dec;65(12):3812. Epub 2016 Nov 1. No abstract available.


Multiple cellobiohydrolases and cellobiose phosphorylases cooperate in the ruminal bacterium Ruminococcus albus 8 to degrade cellooligosaccharides.

Devendran S, Abdel-Hamid AM, Evans AF, Iakiviak M, Kwon IH, Mackie RI, Cann I.

Sci Rep. 2016 Oct 17;6:35342. doi: 10.1038/srep35342.


Bacteroides intestinalis DSM 17393, a member of the human colonic microbiome, upregulates multiple endoxylanases during growth on xylan.

Wang K, Pereira GV, Cavalcante JJ, Zhang M, Mackie R, Cann I.

Sci Rep. 2016 Sep 29;6:34360. doi: 10.1038/srep34360.


Orenia metallireducens sp. nov. Strain Z6, a Novel Metal-Reducing Member of the Phylum Firmicutes from the Deep Subsurface.

Dong Y, Sanford RA, Boyanov MI, Kemner KM, Flynn TM, O'Loughlin EJ, Chang YJ, Locke RA Jr, Weber JR, Egan SM, Mackie RI, Cann I, Fouke BW.

Appl Environ Microbiol. 2016 Oct 14;82(21):6440-6453. Print 2016 Nov 1.


Functional and modular analyses of diverse endoglucanases from Ruminococcus albus 8, a specialist plant cell wall degrading bacterium.

Iakiviak M, Devendran S, Skorupski A, Moon YH, Mackie RI, Cann I.

Sci Rep. 2016 Jul 21;6:29979. doi: 10.1038/srep29979.


Lignocellulose-derived thin stillage composition and efficient biological treatment with a high-rate hybrid anaerobic bioreactor system.

Oosterkamp MJ, Méndez-García C, Kim CH, Bauer S, Ibáñez AB, Zimmerman S, Hong PY, Cann IK, Mackie RI.

Biotechnol Biofuels. 2016 Jun 6;9:120. doi: 10.1186/s13068-016-0532-z. eCollection 2016.


Amelioration of Diabetes by Protein S.

Yasuma T, Yano Y, D'Alessandro-Gabazza CN, Toda M, Gil-Bernabe P, Kobayashi T, Nishihama K, Hinneh JA, Mifuji-Moroka R, Roeen Z, Morser J, Cann I, Motoh I, Takei Y, Gabazza EC.

Diabetes. 2016 Jul;65(7):1940-51. doi: 10.2337/db15-1404. Epub 2016 May 9. Erratum in: Diabetes. 2016 Nov 1;:.


PCNA is involved in the EndoQ-mediated DNA repair process in Thermococcales.

Shiraishi M, Ishino S, Yoshida K, Yamagami T, Cann I, Ishino Y.

Sci Rep. 2016 May 6;6:25532. doi: 10.1038/srep25532.


Cellulose degradation in the human gut: Ruminococcus champanellensis expands the cellulosome paradigm.

Cann I, Bernardi RC, Mackie RI.

Environ Microbiol. 2016 Feb;18(2):307-10. doi: 10.1111/1462-2920.13152. Epub 2016 Jan 18. No abstract available.


Engineering and characterization of new LOV-based fluorescent proteins from Chlamydomonas reinhardtii and Vaucheria frigida.

Mukherjee A, Weyant KB, Agrawal U, Walker J, Cann IK, Schroeder CM.

ACS Synth Biol. 2015 Apr 17;4(4):371-7. doi: 10.1021/sb500237x. Epub 2014 Jul 25.


Metagenomic-based study of the phylogenetic and functional gene diversity in Galápagos land and marine iguanas.

Hong PY, Mao Y, Ortiz-Kofoed S, Shah R, Cann I, Mackie RI.

Microb Ecol. 2015 Feb;69(2):444-56. doi: 10.1007/s00248-014-0547-6. Epub 2014 Dec 19.


Structural and biochemical basis for mannan utilization by Caldanaerobius polysaccharolyticus strain ATCC BAA-17.

Chekan JR, Kwon IH, Agarwal V, Dodd D, Revindran V, Mackie RI, Cann I, Nair SK.

J Biol Chem. 2014 Dec 12;289(50):34965-77. doi: 10.1074/jbc.M114.579904. Epub 2014 Oct 23.


Fe-oxide grain coatings support bacterial Fe-reducing metabolisms in 1.7-2.0 km-deep subsurface quartz arenite sandstone reservoirs of the Illinois Basin (USA).

Dong Y, Sanford RA, Locke RA 2nd, Cann IK, Mackie RI, Fouke BW.

Front Microbiol. 2014 Sep 30;5:511. doi: 10.3389/fmicb.2014.00511. eCollection 2014.


Xylan utilization in human gut commensal bacteria is orchestrated by unique modular organization of polysaccharide-degrading enzymes.

Zhang M, Chekan JR, Dodd D, Hong PY, Radlinski L, Revindran V, Nair SK, Mackie RI, Cann I.

Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):E3708-17. doi: 10.1073/pnas.1406156111. Epub 2014 Aug 18.


Molecular dynamics study of enhanced Man5B enzymatic activity.

Bernardi RC, Cann I, Schulten K.

Biotechnol Biofuels. 2014 Jun 5;7:83. doi: 10.1186/1754-6834-7-83. eCollection 2014.


Diversity of the DNA replication system in the Archaea domain.

Sarmiento F, Long F, Cann I, Whitman WB.

Archaea. 2014 Mar 26;2014:675946. doi: 10.1155/2014/675946. eCollection 2014. Review.


Nitrogen utilization and metabolism in Ruminococcus albus 8.

Kim JN, Henriksen ED, Cann IK, Mackie RI.

Appl Environ Microbiol. 2014 May;80(10):3095-102. doi: 10.1128/AEM.00029-14. Epub 2014 Mar 7.


Two new xylanases with different substrate specificities from the human gut bacterium Bacteroides intestinalis DSM 17393.

Hong PY, Iakiviak M, Dodd D, Zhang M, Mackie RI, Cann I.

Appl Environ Microbiol. 2014 Apr;80(7):2084-93. doi: 10.1128/AEM.03176-13. Epub 2014 Jan 24.


Molecular and biochemical analyses of CbCel9A/Cel48A, a highly secreted multi-modular cellulase by Caldicellulosiruptor bescii during growth on crystalline cellulose.

Yi Z, Su X, Revindran V, Mackie RI, Cann I.

PLoS One. 2013 Dec 16;8(12):e84172. doi: 10.1371/journal.pone.0084172. eCollection 2013.


Mutational and structural analyses of Caldanaerobius polysaccharolyticus Man5B reveal novel active site residues for family 5 glycoside hydrolases.

Oyama T, Schmitz GE, Dodd D, Han Y, Burnett A, Nagasawa N, Mackie RI, Nakamura H, Morikawa K, Cann I.

PLoS One. 2013 Nov 20;8(11):e80448. doi: 10.1371/journal.pone.0080448. eCollection 2013.


Halomonas sulfidaeris-dominated microbial community inhabits a 1.8 km-deep subsurface Cambrian Sandstone reservoir.

Dong Y, Kumar CG, Chia N, Kim PJ, Miller PA, Price ND, Cann IK, Flynn TM, Sanford RA, Krapac IG, Locke RA 2nd, Hong PY, Tamaki H, Liu WT, Mackie RI, Hernandez AG, Wright CL, Mikel MA, Walker JL, Sivaguru M, Fried G, Yannarell AC, Fouke BW.

Environ Microbiol. 2014 Jun;16(6):1695-708. doi: 10.1111/1462-2920.12325. Epub 2013 Dec 12.


Probiotic dosing of Ruminococcus flavefaciens affects rumen microbiome structure and function in reindeer.

Præsteng KE, Pope PB, Cann IK, Mackie RI, Mathiesen SD, Folkow LP, Eijsink VG, Sundset MA.

Microb Ecol. 2013 Nov;66(4):840-9.


Insights into lignin degradation and its potential industrial applications.

Abdel-Hamid AM, Solbiati JO, Cann IK.

Adv Appl Microbiol. 2013;82:1-28. doi: 10.1016/B978-0-12-407679-2.00001-6.


Reconstitution of a thermostable xylan-degrading enzyme mixture from the bacterium Caldicellulosiruptor bescii.

Su X, Han Y, Dodd D, Moon YH, Yoshida S, Mackie RI, Cann IK.

Appl Environ Microbiol. 2013 Mar;79(5):1481-90. doi: 10.1128/AEM.03265-12. Epub 2012 Dec 21.


Heterologous gene expression in filamentous fungi.

Su X, Schmitz G, Zhang M, Mackie RI, Cann IK.

Adv Appl Microbiol. 2012;81:1-61. doi: 10.1016/B978-0-12-394382-8.00001-0. Review.


Supplementing with non-glycoside hydrolase proteins enhances enzymatic deconstruction of plant biomass.

Su X, Zhang J, Mackie RI, Cann IK.

PLoS One. 2012;7(8):e43828. doi: 10.1371/journal.pone.0043828. Epub 2012 Aug 27.


Biochemical and structural insights into xylan utilization by the thermophilic bacterium Caldanaerobius polysaccharolyticus.

Han Y, Agarwal V, Dodd D, Kim J, Bae B, Mackie RI, Nair SK, Cann IK.

J Biol Chem. 2012 Oct 12;287(42):34946-60. doi: 10.1074/jbc.M112.391532. Epub 2012 Aug 22.


Molecular and biochemical analyses of the GH44 module of CbMan5B/Cel44A, a bifunctional enzyme from the hyperthermophilic bacterium Caldicellulosiruptor bescii.

Ye L, Su X, Schmitz GE, Moon YH, Zhang J, Mackie RI, Cann IK.

Appl Environ Microbiol. 2012 Oct;78(19):7048-59. doi: 10.1128/AEM.02009-12. Epub 2012 Jul 27.


Quantitative fluorescence labeling of aldehyde-tagged proteins for single-molecule imaging.

Shi X, Jung Y, Lin LJ, Liu C, Wu C, Cann IK, Ha T.

Nat Methods. 2012 Apr 1;9(5):499-503. doi: 10.1038/nmeth.1954.


Biochemical and mutational analyses of a multidomain cellulase/mannanase from Caldicellulosiruptor bescii.

Su X, Mackie RI, Cann IK.

Appl Environ Microbiol. 2012 Apr;78(7):2230-40. doi: 10.1128/AEM.06814-11. Epub 2012 Jan 13.


Methanosarcina acetivorans C2A topoisomerase IIIα, an archaeal enzyme with promiscuity in divalent cation dependence.

Morales R, Sriratana P, Zhang J, Cann IK.

PLoS One. 2011;6(10):e26903. doi: 10.1371/journal.pone.0026903. Epub 2011 Oct 26.


Purification, characterization, and expression of multiple glutamine synthetases from Prevotella ruminicola 23.

Kim JN, Cann IK, Mackie RI.

J Bacteriol. 2012 Jan;194(1):176-84. doi: 10.1128/JB.05916-11. Epub 2011 Oct 21.


Functional analyses of multiple lichenin-degrading enzymes from the rumen bacterium Ruminococcus albus 8.

Iakiviak M, Mackie RI, Cann IK.

Appl Environ Microbiol. 2011 Nov;77(21):7541-50. doi: 10.1128/AEM.06088-11. Epub 2011 Sep 2.


Development of a signature probe targeting the 16S-23S rRNA internal transcribed spacer of a ruminal Ruminococcus flavefaciens isolate from reindeer.

Præsteng KE, Mackie RI, Cann IK, Mathiesen SD, Sundset MA.

Benef Microbes. 2011 Mar;2(1):47-55. doi: 10.3920/BM2010.0044.


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