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Genetic parameters of plasma and ruminal volatile fatty acids in sheep fed alfalfa pellets and genetic correlations with enteric methane emissions1.

Jonker A, Hickey SM, McEwan JC, Rowe SJ, Janssen PH, MacLean S, Sandoval E, Lewis S, Kjestrup H, Molano G, Agnew M, Young EA, Dodds KG, Knowler K, Pinares-Patiño CS.

J Anim Sci. 2019 Jul 2;97(7):2711-2724. doi: 10.1093/jas/skz162.


Modelling thermodynamic feedback on the metabolism of hydrogenotrophic methanogens.

Lynch TA, Wang Y, van Brunt B, Pacheco D, Janssen PH.

J Theor Biol. 2019 Sep 21;477:14-23. doi: 10.1016/j.jtbi.2019.05.018. Epub 2019 May 28.


Improved taxonomic assignment of rumen bacterial 16S rRNA sequences using a revised SILVA taxonomic framework.

Henderson G, Yilmaz P, Kumar S, Forster RJ, Kelly WJ, Leahy SC, Guan LL, Janssen PH.

PeerJ. 2019 Mar 5;7:e6496. doi: 10.7717/peerj.6496. eCollection 2019.


Temporal fermentation and microbial community dynamics in rumens of sheep grazing a ryegrass-based pasture offered either in the morning or in the afternoon.

Vibart RE, Ganesh S, Kirk MR, Kittelmann S, Leahy SC, Janssen PH, Pacheco D.

Animal. 2019 Oct;13(10):2242-2251. doi: 10.1017/S1751731119000168. Epub 2019 Feb 21.


Sharpea and Kandleria are lactic acid producing rumen bacteria that do not change their fermentation products when co-cultured with a methanogen.

Kumar S, Treloar BP, Teh KH, McKenzie CM, Henderson G, Attwood GT, Waters SM, Patchett ML, Janssen PH.

Anaerobe. 2018 Dec;54:31-38. doi: 10.1016/j.anaerobe.2018.07.008. Epub 2018 Jul 25.


Genetic parameters of methane emissions determined using portable accumulation chambers in lambs and ewes grazing pasture and genetic correlations with emissions determined in respiration chambers.

Jonker A, Hickey SM, Rowe SJ, Janssen PH, Shackell GH, Elmes S, Bain WE, Wing J, Greer GJ, Bryson B, MacLean S, Dodds KG, Pinares-Patiño CS, Young EA, Knowler K, Pickering NK, McEwan JC.

J Anim Sci. 2018 Jul 28;96(8):3031-3042. doi: 10.1093/jas/sky187.


Dynamics and genetic diversification of Escherichia coli during experimental adaptation to an anaerobic environment.

Finn TJ, Shewaramani S, Leahy SC, Janssen PH, Moon CD.

PeerJ. 2017 May 3;5:e3244. doi: 10.7717/peerj.3244. eCollection 2017.


Seasonal changes in the digesta-adherent rumen bacterial communities of dairy cattle grazing pasture.

Noel SJ, Attwood GT, Rakonjac J, Moon CD, Waghorn GC, Janssen PH.

PLoS One. 2017 Mar 15;12(3):e0173819. doi: 10.1371/journal.pone.0173819. eCollection 2017.


High School Football and Late-Life Risk of Neurodegenerative Syndromes, 1956-1970.

Janssen PH, Mandrekar J, Mielke MM, Ahlskog JE, Boeve BF, Josephs K, Savica R.

Mayo Clin Proc. 2017 Jan;92(1):66-71. doi: 10.1016/j.mayocp.2016.09.004. Epub 2016 Dec 12.


Rumen metagenome and metatranscriptome analyses of low methane yield sheep reveals a Sharpea-enriched microbiome characterised by lactic acid formation and utilisation.

Kamke J, Kittelmann S, Soni P, Li Y, Tavendale M, Ganesh S, Janssen PH, Shi W, Froula J, Rubin EM, Attwood GT.

Microbiome. 2016 Oct 19;4(1):56.


The complete genome sequence of the methanogenic archaeon ISO4-H5 provides insights into the methylotrophic lifestyle of a ruminal representative of the Methanomassiliicoccales.

Li Y, Leahy SC, Jeyanathan J, Henderson G, Cox F, Altermann E, Kelly WJ, Lambie SC, Janssen PH, Rakonjac J, Attwood GT.

Stand Genomic Sci. 2016 Sep 6;11(1):59. doi: 10.1186/s40793-016-0183-5. eCollection 2016.


Shifts in Rumen Fermentation and Microbiota Are Associated with Dissolved Ruminal Hydrogen Concentrations in Lactating Dairy Cows Fed Different Types of Carbohydrates.

Wang M, Wang R, Xie TY, Janssen PH, Sun XZ, Beauchemin KA, Tan ZL, Gao M.

J Nutr. 2016 Sep;146(9):1714-21. doi: 10.3945/jn.116.232462. Epub 2016 Aug 10.


Vaccination of Sheep with a Methanogen Protein Provides Insight into Levels of Antibody in Saliva Needed to Target Ruminal Methanogens.

Subharat S, Shu D, Zheng T, Buddle BM, Kaneko K, Hook S, Janssen PH, Wedlock DN.

PLoS One. 2016 Jul 29;11(7):e0159861. doi: 10.1371/journal.pone.0159861. eCollection 2016.


Taxonomic Assessment of Rumen Microbiota Using Total RNA and Targeted Amplicon Sequencing Approaches.

Li F, Henderson G, Sun X, Cox F, Janssen PH, Guan le L.

Front Microbiol. 2016 Jun 22;7:987. doi: 10.3389/fmicb.2016.00987. eCollection 2016.


Sampling procedure for the measurement of dissolved hydrogen and volatile fatty acids in the rumen of dairy cows.

Wang M, Wang R, Janssen PH, Zhang XM, Sun XZ, Pacheco D, Tan ZL.

J Anim Sci. 2016 Mar;94(3):1159-69. doi: 10.2527/jas.2015-9658.


The complete genome sequence of Eubacterium limosum SA11, a metabolically versatile rumen acetogen.

Kelly WJ, Henderson G, Pacheco DM, Li D, Reilly K, Naylor GE, Janssen PH, Attwood GT, Altermann E, Leahy SC.

Stand Genomic Sci. 2016 Mar 15;11:26. doi: 10.1186/s40793-016-0147-9. eCollection 2016.


Natural variation in methane emission of sheep fed on a lucerne pellet diet is unrelated to rumen ciliate community type.

Kittelmann S, Pinares-Patiño CS, Seedorf H, Kirk MR, McEwan JC, Janssen PH.

Microbiology. 2016 Mar;162(3):459-65. doi: 10.1099/mic.0.000245. Epub 2016 Jan 26.


Erratum: Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range.

Henderson G, Cox F, Ganesh S, Jonker A, Young W; Global Rumen Census Collaborators, Janssen PH.

Sci Rep. 2016 Jan 20;6:19175. doi: 10.1038/srep19175. No abstract available.


A mechanistic model of hydrogen-methanogen dynamics in the rumen.

Wang Y, Janssen PH, Lynch TA, Brunt Bv, Pacheco D.

J Theor Biol. 2016 Mar 21;393:75-81. doi: 10.1016/j.jtbi.2015.12.026. Epub 2016 Jan 15.


An adhesin from hydrogen-utilizing rumen methanogen Methanobrevibacter ruminantium M1 binds a broad range of hydrogen-producing microorganisms.

Ng F, Kittelmann S, Patchett ML, Attwood GT, Janssen PH, Rakonjac J, Gagic D.

Environ Microbiol. 2016 Sep;18(9):3010-21. doi: 10.1111/1462-2920.13155. Epub 2016 Jan 18.


A modified version of the Molly rumen model to quantify methane emissions from sheep.

Vetharaniam I, Vibart RE, Hanigan MD, Janssen PH, Tavendale MH, Pacheco D.

J Anim Sci. 2015 Jul;93(7):3551-63. doi: 10.2527/jas.2015-9037.


Buccal swabbing as a noninvasive method to determine bacterial, archaeal, and eukaryotic microbial community structures in the rumen.

Kittelmann S, Kirk MR, Jonker A, McCulloch A, Janssen PH.

Appl Environ Microbiol. 2015 Nov;81(21):7470-83. doi: 10.1128/AEM.02385-15. Epub 2015 Aug 14.


RUMINANT NUTRITION SYMPOSIUM: Use of genomics and transcriptomics to identify strategies to lower ruminal methanogenesis.

McAllister TA, Meale SJ, Valle E, Guan LL, Zhou M, Kelly WJ, Henderson G, Attwood GT, Janssen PH.

J Anim Sci. 2015 Apr;93(4):1431-49. doi: 10.2527/jas.2014-8329.


Considerations in the use of fluorescence in situ hybridization (FISH) and confocal laser scanning microscopy to characterize rumen methanogens and define their spatial distributions.

Valle ER, Henderson G, Janssen PH, Cox F, Alexander TW, McAllister TA.

Can J Microbiol. 2015 Jun;61(6):417-28. doi: 10.1139/cjm-2014-0873. Epub 2015 Mar 25.


Lambs fed fresh winter forage rape (Brassica napus L.) emit less methane than those fed perennial ryegrass (Lolium perenne L.), and possible mechanisms behind the difference.

Sun X, Henderson G, Cox F, Molano G, Harrison SJ, Luo D, Janssen PH, Pacheco D.

PLoS One. 2015 Mar 24;10(3):e0119697. doi: 10.1371/journal.pone.0119697. eCollection 2015.


Vaccination of cattle with a methanogen protein produces specific antibodies in the saliva which are stable in the rumen.

Subharat S, Shu D, Zheng T, Buddle BM, Janssen PH, Luo D, Wedlock DN.

Vet Immunol Immunopathol. 2015 Apr 15;164(3-4):201-7. doi: 10.1016/j.vetimm.2015.02.008. Epub 2015 Feb 27.


Phylogeny of intestinal ciliates, including Charonina ventriculi, and comparison of microscopy and 18S rRNA gene pyrosequencing for rumen ciliate community structure analysis.

Kittelmann S, Devente SR, Kirk MR, Seedorf H, Dehority BA, Janssen PH.

Appl Environ Microbiol. 2015 Apr;81(7):2433-44. doi: 10.1128/AEM.03697-14. Epub 2015 Jan 23.


A high-throughput screening assay for identification of inhibitors of the A1AO-ATP synthase of the rumen methanogen Methanobrevibacter ruminantium M1.

Aung HL, Dey D, Janssen PH, Ronimus RS, Cook GM.

J Microbiol Methods. 2015 Mar;110:15-7. doi: 10.1016/j.mimet.2014.12.022. Epub 2015 Jan 7.


Few highly abundant operational taxonomic units dominate within rumen methanogenic archaeal species in New Zealand sheep and cattle.

Seedorf H, Kittelmann S, Janssen PH.

Appl Environ Microbiol. 2015 Feb;81(3):986-95. doi: 10.1128/AEM.03018-14. Epub 2014 Nov 21.


RIM-DB: a taxonomic framework for community structure analysis of methanogenic archaea from the rumen and other intestinal environments.

Seedorf H, Kittelmann S, Henderson G, Janssen PH.

PeerJ. 2014 Aug 5;2:e494. doi: 10.7717/peerj.494. eCollection 2014.


Two different bacterial community types are linked with the low-methane emission trait in sheep.

Kittelmann S, Pinares-Patiño CS, Seedorf H, Kirk MR, Ganesh S, McEwan JC, Janssen PH.

PLoS One. 2014 Jul 31;9(7):e103171. doi: 10.1371/journal.pone.0103171. eCollection 2014.


Methane yield phenotypes linked to differential gene expression in the sheep rumen microbiome.

Shi W, Moon CD, Leahy SC, Kang D, Froula J, Kittelmann S, Fan C, Deutsch S, Gagic D, Seedorf H, Kelly WJ, Atua R, Sang C, Soni P, Li D, Pinares-Patiño CS, McEwan JC, Janssen PH, Chen F, Visel A, Wang Z, Attwood GT, Rubin EM.

Genome Res. 2014 Sep;24(9):1517-25. doi: 10.1101/gr.168245.113. Epub 2014 Jun 6.


Internal transcribed spacer 1 secondary structure analysis reveals a common core throughout the anaerobic fungi (Neocallimastigomycota).

Koetschan C, Kittelmann S, Lu J, Al-Halbouni D, Jarvis GN, Müller T, Wolf M, Janssen PH.

PLoS One. 2014 Mar 24;9(3):e91928. doi: 10.1371/journal.pone.0091928. eCollection 2014.


Effect of DNA extraction methods and sampling techniques on the apparent structure of cow and sheep rumen microbial communities.

Henderson G, Cox F, Kittelmann S, Miri VH, Zethof M, Noel SJ, Waghorn GC, Janssen PH.

PLoS One. 2013 Sep 11;8(9):e74787. doi: 10.1371/journal.pone.0074787. eCollection 2013.


Progress in the development of vaccines against rumen methanogens.

Wedlock DN, Janssen PH, Leahy SC, Shu D, Buddle BM.

Animal. 2013 Jun;7 Suppl 2:244-52. doi: 10.1017/S1751731113000682. Review.


Simultaneous amplicon sequencing to explore co-occurrence patterns of bacterial, archaeal and eukaryotic microorganisms in rumen microbial communities.

Kittelmann S, Seedorf H, Walters WA, Clemente JC, Knight R, Gordon JI, Janssen PH.

PLoS One. 2013;8(2):e47879. doi: 10.1371/journal.pone.0047879. Epub 2013 Feb 8.


Rumen microbial (meta)genomics and its application to ruminant production.

Morgavi DP, Kelly WJ, Janssen PH, Attwood GT.

Animal. 2013 Mar;7 Suppl 1:184-201. doi: 10.1017/S1751731112000419. Epub 2012 Mar 1.


Nitrogen metabolism and rumen microbial enumeration in lactating cows with divergent residual feed intake fed high-digestibility pasture.

Rius AG, Kittelmann S, Macdonald KA, Waghorn GC, Janssen PH, Sikkema E.

J Dairy Sci. 2012 Sep;95(9):5024-5034. doi: 10.3168/jds.2012-5392.


A proposed taxonomy of anaerobic fungi (class neocallimastigomycetes) suitable for large-scale sequence-based community structure analysis.

Kittelmann S, Naylor GE, Koolaard JP, Janssen PH.

PLoS One. 2012;7(5):e36866. doi: 10.1371/journal.pone.0036866. Epub 2012 May 16.


An exo-β-(1→3)-D-galactanase from Streptomyces sp. provides insights into type II arabinogalactan structure.

Ling NX, Lee J, Ellis M, Liao ML, Mau SL, Guest D, Janssen PH, Kováč P, Bacic A, Pettolino FA.

Carbohydr Res. 2012 May 1;352:70-81. doi: 10.1016/j.carres.2012.02.033. Epub 2012 Mar 8.


A1Ao-ATP synthase of Methanobrevibacter ruminantium couples sodium ions for ATP synthesis under physiological conditions.

McMillan DG, Ferguson SA, Dey D, Schröder K, Aung HL, Carbone V, Attwood GT, Ronimus RS, Meier T, Janssen PH, Cook GM.

J Biol Chem. 2011 Nov 18;286(46):39882-92. doi: 10.1074/jbc.M111.281675. Epub 2011 Sep 27.


Genome sequence of Chthoniobacter flavus Ellin428, an aerobic heterotrophic soil bacterium.

Kant R, van Passel MW, Palva A, Lucas S, Lapidus A, Glavina del Rio T, Dalin E, Tice H, Bruce D, Goodwin L, Pitluck S, Larimer FW, Land ML, Hauser L, Sangwan P, de Vos WM, Janssen PH, Smidt H.

J Bacteriol. 2011 Jun;193(11):2902-3. doi: 10.1128/JB.00295-11. Epub 2011 Apr 1.


Genome sequence of "Pedosphaera parvula" Ellin514, an aerobic Verrucomicrobial isolate from pasture soil.

Kant R, van Passel MW, Sangwan P, Palva A, Lucas S, Copeland A, Lapidus A, Glavina del Rio T, Dalin E, Tice H, Bruce D, Goodwin L, Pitluck S, Chertkov O, Larimer FW, Land ML, Hauser L, Brettin TS, Detter JC, Han S, de Vos WM, Janssen PH, Smidt H.

J Bacteriol. 2011 Jun;193(11):2900-1. doi: 10.1128/JB.00299-11. Epub 2011 Apr 1.


Genome sequence of the verrucomicrobium Opitutus terrae PB90-1, an abundant inhabitant of rice paddy soil ecosystems.

van Passel MW, Kant R, Palva A, Copeland A, Lucas S, Lapidus A, Glavina del Rio T, Pitluck S, Goltsman E, Clum A, Sun H, Schmutz J, Larimer FW, Land ML, Hauser L, Kyrpides N, Mikhailova N, Richardson PP, Janssen PH, de Vos WM, Smidt H.

J Bacteriol. 2011 May;193(9):2367-8. doi: 10.1128/JB.00228-11. Epub 2011 Mar 11.


Methanogen community structure in the rumens of farmed sheep, cattle and red deer fed different diets.

Jeyanathan J, Kirs M, Ronimus RS, Hoskin SO, Janssen PH.

FEMS Microbiol Ecol. 2011 May;76(2):311-26. doi: 10.1111/j.1574-6941.2011.01056.x. Epub 2011 Feb 14.


Characterization of rumen ciliate community composition in domestic sheep, deer, and cattle, feeding on varying diets, by means of PCR-DGGE and clone libraries.

Kittelmann S, Janssen PH.

FEMS Microbiol Ecol. 2011 Mar;75(3):468-81. doi: 10.1111/j.1574-6941.2010.01022.x. Epub 2011 Jan 11.


Acidobacteria, Rubrobacteridae and Chloroflexi are abundant among very slow-growing and mini-colony-forming soil bacteria.

Davis KE, Sangwan P, Janssen PH.

Environ Microbiol. 2011 Mar;13(3):798-805. doi: 10.1111/j.1462-2920.2010.02384.x. Epub 2010 Nov 25.


Isolation of previously uncultured rumen bacteria by dilution to extinction using a new liquid culture medium.

Kenters N, Henderson G, Jeyanathan J, Kittelmann S, Janssen PH.

J Microbiol Methods. 2011 Jan;84(1):52-60. doi: 10.1016/j.mimet.2010.10.011. Epub 2010 Oct 26.


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