Australian Centre for Ecogenomics

Parents: Faculty of Science  

Browse Results (30 results found)

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Hu, Shihu, Zeng, Raymond J., Haroon, Mohamed F., Keller, Jurg, Lant, Paul A., Tyson, Gene W. and Yuan, Zhiguo (2015) A laboratory investigation of interactions between denitrifying anaerobic methane oxidation (DAMO) and anammox processes in anoxic environments. Scientific Reports, 5 8706: 1-9. doi:10.1038/srep08706 22   0 Cited 0 times in Scopus0 5
Abdul Rahman, Nurdyana, Parks, Donovan H., Willner, Dana L., Engelbrektson, Anna L., Goffredi, Shana K., Warnecke, Falk, Scheffrahn, Rudolf H. and Hugenholtz, Philip (2015) A molecular survey of Australian and North American termite genera indicates that vertical inheritance is the primary force shaping termite gut microbiomes. Microbiome, 3 5: 1-16. doi:10.1186/s40168-015-0067-8 6   3
Hobson-Peters, Jody, Yam, Alice Wei Yee, Lu, Jennifer Wei Fei, Setoh, Yin Xiang, May, Fiona J., Kurucz, Nina, Walsh, Susan, Prow, Natalie A., Davis, Steven S., Weir, Richard, Melville, Lorna, Hunt, Neville, Webb, Richard I., Blitvich, Bradley J., Whelan, Peter and Hall, Roy A. (2013) A new insect-specific flavivirus from Northern Australia suppresses replication of West Nile Virus and Murray Valley Encephalitis Virus in co-infected mosquito cells. PLoS One, 8 2: . doi:10.1371/journal.pone.0056534 98   18 Cited 21 times in Scopus21 5
Carvalhais, Lilia C., Dennis, Paul G., Tyson, Gene W. and Schenk, Peer M. (2012) Application of metatranscriptomics to soil environments. Journal of Microbiological Methods, 91 2: 246-251. doi:10.1016/j.mimet.2012.08.011 73   19 Cited 21 times in Scopus21 3
Kelly, Linda Wegley, Barott, Katie L., Dinsdale, Elizabeth, Friedlander, Alan M., Nosrat, Bahador, Obura, David, Sala, Enric, Sandin, Stuart A., Smith, Jennifer E., Vermeij, Mark J. A., Williams, Gareth J., Willner, Dana and Rohwer, Forest (2012) Black reefs: Iron-induced phase shifts on coral reefs. ISME Journal, 6 3: 638-649. doi:10.1038/ismej.2011.114 64   14 Cited 13 times in Scopus13 20
Flowers, Jason J., He, Shaomei, Malfatti, Stephanie, Glavina del Rio, Tijana, Tringe, Susannah G., Hugenholtz, Philip and McMahon, Katherine D. (2013) Comparative genomics of two 'Candidatus Accumulibacter' clades performing biological phosphorus removal. ISME Journal, 7 12: 2301-2314. doi:10.1038/ismej.2013.117 34   11 Cited 10 times in Scopus10 3
Anderson, Iain, Goker, Markus, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxanne, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Huntemann, Marcel, Liolios, Konstantinos, Ivanova, Natalia, Pagani, Ioanna, Mavromatis, Konstantinos, Ovchinikova, Galina, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Brambilla, Evelyne-Marie, Huber, Harald, Yasawong, Montri, Rohde, Manfred, Spring, Stefan, Abt, Birte, Sikorski, Johannes, Wirth, Reinhard, Detter, John C., Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C., Klenk, Hans-Peter and Lapidus, Alla (2011) Complete genome sequence of the hyperthermophilic chemolithoautotroph Pyrolobus fumarii type strain (1A(T)). Standards in Genomic Sciences, 4 3: 381-392. doi:10.4056/sigs.2014648 73   5 Cited 5 times in Scopus5 4
Goker, Markus, Daligault, Hajnalka, Mwirichia, Romano, Lapidus, Alla, Lucas, Susan, Deshpande, Shweta, Pagani, Ioanna, Tapia, Roxanne, Cheng, Jan-Fang, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Han, Cliff, Land, Miriam, Hauser, Loren, Pan, Chongle, Brambilla, Evelyne, Rohde, Manfred, Spring, Stefan, Sikorski, Johannes, Wirth, Reinhard, Detter, John C., Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C. and Klenk, Hans-Peter (2011) Complete genome sequence of the thermophilic sulfur-reducer Desulfurobacterium thermolithotrophum type strain (BSA(T)) from a deep-sea hydrothermal vent. Standards in Genomic Sciences, 5 3: 407-415. doi:10.4056/sigs.2465574 63   3 Cited 4 times in Scopus4 4
Munk, A. Christine, Lapidus, Alla, Lucas, Susan, Nolan, Matt, Tice, Hope, Cheng, Jan-Fang, Del Rio, Tijana Glavina, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Huntemann, Marcel, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Tapia, Roxanne, Han, Cliff, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Brettin, Thomas, Yasawong, Montri, Brambilla, Evelyne-Marie, Rohde, Manfred, Sikorski, Johannes, Goker, Markus, Detter, John C., Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C. and Klenk, Hans-Peter (2011) Complete genome sequence of Tsukamurella paurometabola type strain (no. 33(T)). Standards in Genomic Sciences, 4 3: 342-351. doi:10.4056/sigs.1894556 54   1 Cited 2 times in Scopus2 1
Vanwonterghem, Inka, Jensen, Paul D., Dennis, Paul G., Hugenholtz, Philip, Rabaey, Korneel and Tyson, Gene W. (2014) Deterministic processes guide long-term synchronised population dynamics in replicate anaerobic digesters. ISME Journal, Advance Online 1-14. doi:10.1038/ismej.2014.50 58 1 Cited 0 times in Scopus0 13
Mondav, Rhiannon, Woodcroft, Ben J., Kim, Eun-Hae, McCalley, Carmody K., Hodgkins, Suzanne B., Crill, Patrick M., Chanton, Jeffrey, Hurst, Gregory B., VerBerkmoes, Nathan C., Saleska, Scott R., Hugenholtz, Philip, Rich, Virginia I. and Tyson, Gene W. (2014) Discovery of a novel methanogen prevalent in thawing permafrost. Nature Communications, 5 3212.1-3212.7. doi:10.1038/ncomms4212 62   9 Cited 7 times in Scopus7 86
Willner, D., Hugenholtz, P., Tan, M.E., Yerkovich, S.T., Hopkins, P.M. and Chambers, D.C. (2012). Distinct microbial signatures of healthy and failing lung allografts. In: Abstract Issue: International Society for Heart and Lung Transplantation 32nd Annual Meeting and Scientific Sessions. 32nd Annual Meeting and Scientific Sessions of the International Society for Heart and Lung Transplantation/Meeting of the ISHLT Academy Core Competencies in Mechanical Circulatory Support, Prague, Czech Republic, (S32-S32). 17-21 April 2012. doi:10.1016/j.healun.2012.01.072 76   2 0
Pervin, Hasina M., Dennis, Paul G., Lim, Hui J., Tyson, Gene W., Batstone, Damien J. and Bond, Philip L. (2013) Drivers of microbial community composition in mesophilic and thermophilic temperature-phased anaerobic digestion pre-treatment reactors. Water Research, 47 19: 7098-7108. doi:10.1016/j.watres.2013.07.053 86   11 Cited 10 times in Scopus10 1
Dennis, Paul G., Harnisch, Falk, Yeoh, Yun Kit, Tyson, Gene W. and Rabaey, Korneel (2013) Dynamics of cathode-associated microbial communities and metabolite profiles in a glycerol-fed bioelectrochemical system. Applied and Environmental Microbiology, 79 13: 4008-4014. doi:10.1128/AEM.00569-13 118   11 Cited 11 times in Scopus11 1
Liu, Yiwen, Sharma, Keshab R., Ni, Bing-Jie, Fan, Lu, Murthy, Sudhir, Tyson, Gene Q. and Yuan, Zhiguo (2015) Effects of nitrate dosing on sulfidogenic and methanogenic activities in sewer sediment. Water Research, 74 155-165. doi:10.1016/j.watres.2015.02.017 9   1 Cited 1 times in Scopus1 4
Clingenpeel, Scott, Schwientek, Patrick, Hugenholtz, Philip and Woyke, Tanja (2014) Effects of sample treatments on genome recovery via single-cell genomics. The ISME Journal, 8 12: 2546-2549. doi:10.1038/ismej.2014.92 21   2 Cited 0 times in Scopus0 12
Anderson, Iain, Teshima, Huzuki, Nolan, Matt, Lapidus, Alla, Tice, Hope, Glavina del Rio, Tijana, Cheng, Jan-Fang, Han, Cliff, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Mavromatis, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Rohde, Manfred, Lang, Elke, Detter, John C., Goker, Markus, Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C. and Klenk, Hans-Peter (2013) Genome sequence of Frateuria aurantia type strain (Kondô 67T), a xanthomonade isolated from Lilium auratium Lindl. Standards in Genomic Sciences, 9 1: 83-92. doi:10.4056/sigs.4338002 56   0 Cited 0 times in Scopus0 1
Rinke, Christian, Schwientek, Patrick, Sczyrba, Alexander, Ivanova, Natalia N., Anderson, Iain J., Cheng, Jan-Fang, Darling, Aaron, Malfatti, Stephanie, Swan, Brandon K., Gies, Esther A., Dodsworth, Jeremy A., Hedlund, Brian P., Tsiamis, George, Sievert, Stefan M., Liu, Wen-Tso, Eisen, Jonathan A., Hallam, Steven J., Kyrpides, Nikos C., Stepanauskas, Ramunas, Rubin, Edward M., Hugenholtz, Philip and Woyke, Tanja (2013) Insights into the phylogeny and coding potential of microbial dark matter. Nature, 499 7459: 431-437. doi:10.1038/nature12352 144   182 Cited 172 times in Scopus172 345
Haroon, Mohamed F., Skennerton, Connor T., Steen, Jason A., Lachner, Nancy, Hugenholtz, Philip and Tyson, Gene W. (2013) In-solution fluorescence in situ hybridization and fluorescence-activated cell sorting for single cell and population genome recovery. Methods in Enzymology, 531 3-19. doi:10.1016/B978-0-12-407863-5.00001-0 70   2 Cited 1 times in Scopus1 0
Vanwonterghem, Inka, Jensen, Paul D., Ho, Dang P., Batstone Damien J. and Tyson, Gene W. (2014) Linking microbial community structure, interactions and function in anaerobic digesters using new molecular techniques. Current Opinion in Biotechnology, 27 55-64. doi:10.1016/j.copbio.2013.11.004 124   14 Cited 17 times in Scopus17 2
Bragg,Lauren and Tyson, Gene W. (2014). Metagenomics using next-generation sequencing. In Ian T. Paulsen and Andrew J. Holmes (Ed.), Environmental Microbiology: Methods and Protocols (pp. 183-201) New York, NY United States: Humana Press Inc.. doi:10.1007/978-1-62703-712-9_15 66   5 Cited 1 times in Scopus1 15
McMullen, Allison R., Albayrak, Harun, May, Fiona J., Davis, C. Todd, Beasley, David W. C. and Barrett, Alan D. T. (2013) Molecular evolution of lineage 2 West Nile virus. Journal of General Virology, 94 Part 2: 318-325. doi:10.1099/vir.0.046888-0 27   15 Cited 14 times in Scopus14 0
Treangen, Todd J., Sommer, Dan D., Angly, Florent E., Koren, Sergey and Pop, Mihai (2011) Next generation sequence assembly with AMOS. Current Protocols in Bioinformatics, s33: 1-18. doi:10.1002/0471250953.bi1108s33 57   Cited 22 times in Scopus22 3
Paungfoo-Lonhienne, Chanyarat, Yeoh, Yun Kit, Kasinadhuni, Naga Rup Pinaki, Lonhienne, Thierry G. A., Robinson, Nicole, Hugenholtz, Philip, Ragan, Mark A. and Schmidt, Susanne (2015) Nitrogen fertilizer dose alters fungal communities in sugarcane soil and rhizosphere.. Scientific Reports, 5 8678: 1-6. doi:10.1038/srep08678 13   0 Cited 0 times in Scopus0 12
Skennerton, Connor T., Angly, Florent E., Breitbart, Mya, Bragg, Lauren, He, Shaomei, McMahon, Katherine D., Hugenholtz, Philip and Tyson, Gene W. (2011) Phage encoded H-NS: A potential Achilles heel in the bacterial defence system. Plos One, 6 5: e20095-1-e20095-7. doi:10.1371/journal.pone.0020095 77   14 Cited 13 times in Scopus13 0
Garrity, George M., Banfield, Jill, Eisen, Jonathan, van der Lelie, Niels, McMahon, Trina, Rusch, Doug, Delong, Edward, Moran, Mary Ann, Currie, Cameron, Furhman, Jed, Hallam, Steve, Hugenholtz, Phil, Moran, Nancy, Nelson, Karen, Roberts, Richard and Stepanauskas, Ramunas (2013) Prokaryotic super program advisory committee DOE joint genome institute, Walnut Creek, CA, March 27, 2012. Standards in Genomic Sciences, 8 3: 561-570. doi:10.4056/sigs.4638348 43 1 2 Cited 2 times in Scopus2 0
D'haeseleer, Patrik, Gladden, John M., Allgaier, Martin, Chain, Patrik S. G., Tringe, Susannah G., Malfatti, Stephanie A., Aldrich, Joshua T., Nicora, Carrie D., Robinson, Errol W., Pasa-Tolic, Ljiljana, Hugenholtz, Philip, Simmons, Blake A. and Singer, Steven W. (2013) Proteogenomic Analysis of a Thermophilic Bacterial Consortium Adapted to Deconstruct Switchgrass. Plos One, 8 7: e68465.1-e68465.11. doi:10.1371/journal.pone.0068465 36   8 Cited 7 times in Scopus7 59
Carvalhais, Lilia C., Dennis, Paul G., Tyson, Gene W. and Schenk, Peer M. (2013). Rhizosphere Metatranscriptomics: Challenges and Opportunities. In Frans J. de Bruijn (Ed.), Molecular Microbial Ecology of the Rhizosphere (pp. 1137-1144) Hoboken, NJ United States: Wiley-Blackwell. doi:10.1002/9781118297674.ch109 70   Cited 0 times in Scopus0 0
Webster, N. S., Luter, H. M., Soo, R. M., Botté, E. S., Simister, R. L., Abdo, D. and Whalan, S. (2012) Same, same but different: symbiotic bacterial associations in GBR sponges. Frontiers in Microbiology, 3 444: 1-11. doi:10.3389/fmicb.2012.00444 19   7 Cited 9 times in Scopus9 1
Waldor, Matthew K., Tyson, Gene, Borenstein, Elhanan, Ochman, Howard, Moeller, Andrew, Finlay, Brett B., Kong, Hedi H., Gordon, Jeffrey I., Nelson, Karen E., Dabbagh, Karim and Smith, Hamilton (2015) Where next for microbiome research?. PLoS Biology, 13 1: 1-9. doi:10.1371/journal.pbio.1002050 22   2 Cited 2 times in Scopus2 13