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| Author | Identifier | Number of Items | Total Downloads |
|---|---|---|---|
| Hugenholtz, P |  https://orcid.org/0000-0001-5386-7925 |
49 | 2024 |
| Title | Author(s) | IrusType | Repository | Item URL | Total Downloads |
|---|---|---|---|---|---|
| A bioinformatician's guide to metagenomics | Kunin, V.; Copeland, A.; Lapidus, A.; Mavromatis, K.; Hugenholtz, P. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:242959 | 65 |
| A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.) | Rinke, Christian; Rubino, Francesco; Messer, Lauren F.; Youssef, Noha; Parks, Donovan H.; Chuvochina, Maria; Brown, Mark; Jeffries, Thomas; Tyson, Gene W.; Seymour, Justin R.; Hugenholtz, Philip | Article | University of Queensland [UQ eSpace] | 26 | |
| An ecological and phylogenetic investigation of a bacterial biofilm growing on the cooling coils in an air-handling system | Hugenholtz, Philip | Thesis or Dissertation | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:350170 | 5 |
| An expanded genomic representation of the phylum Cyanobacteria | Soo, Rochelle M.; Skennerton, Connor T.; Sekiguchi, Yuji; Imelfort, Michael; Paech, Samuel J.; Dennis, Paul G.; Steen, Jason A.; Parks, Donovan H.; Tyson, Gene W.; Hugenholtz, Philip | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:328047 | 4 |
| An experimental metagenome data management and analysis system | Markowitz, Victor M.; Ivanova, Natalia; Palaniappan, Krishna; Szeto, Ernest; Korzeniewski, Frank; Lykidis, Athanasios; Anderson, Iain; Mavrommatis, Konstantinos; Kunin, Victor; Martin, Hector Garcia; Dubchak, Inna; Hugenholtz, Phil; Kyrpides, Nikos C. | Conference Papers/Posters | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262636 | 1 |
| Back from the dead; the curious tale of the predatory cyanobacterium Vampirovibrio chlorellavorus. | Soo, Rochelle M.; Woodcroft, Ben J.; Parks, Donovan H.; Tyson, Gene W.; Hugenholtz, Philip | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:362070 | 41 |
| Bacterial community structures of phosphate-removing and non-phosphate- removing activated sludges from sequencing batch reactors | Bond, P. L.; Hugenholtz, P.; Keller, J.; Blackall, L. L. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:245679 | 17 |
| Beneficial changes in rumen bacterial community profile in sheep and dairy calves as a result of feeding the probiotic Bacillus amyloliquefaciens H57 | Schofield, Benjamin J.; Lachner, Nancy; Le, Oanh T.; McNeill, David M.; Dart, Peter; Ouwerkerk, Diane; Hugenholtz, Philip; Klieve, Athol V. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:716299 | 9 |
| CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes: supplemental material | Parks, Donovan H.; Imelfort, Michael; Skennerton, Connor T.; Hugenholtz, Philip; Tyson, Gene W. | Dataset | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:407731 | 49 |
| Chthoniobacter flavus gen. nov., sp nov., the first pure-culture representative of subdivision two, Spartobacteria classis nov., of the phylum Verrucomicrobia | Sangwan, Parveen; Chen, Xiaolei; Hugenholtz, Philip; Janssen, Peter H. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262643 | 41 |
| Comparative genomics of non-pseudomonal bacterial species colonising paediatric cystic fibrosis patients | Ormerod, Kate L.; George, Narelle M.; Fraser, James A.; Wainwright, Claire; Hugenholtz, Philip | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:370693 | 1 |
| Comparative metagenomics of microbial communities | Tringe, Susannah Green; von Mering, Christian; Kobayashi, Arthur; Salamov, Asaf A.; Chen, Kevin; Chang, Hwai W.; Podar, Mircea; Short, Jay M.; Mathur, Eric J.; Detter, John C.; Bork, Peer; Hugenholtz, Philip; Rubin, Edward M. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262347 | 1 |
| Complete genome sequence of the facultatively anaerobic, appendaged bacterium Muricauda ruestringensis type strain (B1(T)) | Huntemann, Marcel; Teshima, Hazuki; Lapidus, Alla; Nolan, Matt; Lucas, Susan; Hammon, Nancy; Deshpande, Shweta; Cheng, Jan-Fang; Tapia, Roxanne; Goodwin, Lynne A.; Pitluck, Sam; Liolios, Konstantinos; Pagani, Ioanna; Ivanova, Natalia; Mavromatis, Konstant | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:282316 | 1 |
| CRISPR Recognition Tool (CRT) : A tool for automatic detection of clustered regularly interspaced palindromic repeats | Bland, Charles; Ramsey, Teresa L.; Sabree, Fareedah; Lowe, Michael; Brown, Kyndall; Kyrpides, Nikos C.; Hugenholtz, Philip | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262478 | 1 |
| Deterministic processes guide long-term synchronised population dynamics in replicate anaerobic digesters | Vanwonterghem, Inka; Jensen, Paul D.; Dennis, Paul G.; Hugenholtz, Philip; Rabaey, Korneel; Tyson, Gene W. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:329326 | 1 |
| Discovery of a novel methanogen prevalent in thawing permafrost | 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.; Tyson, Gene W. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:326068 | 390 |
| Diversity of radA genes from cultured and uncultured Archaea: Comparative analysis of putative RadA proteins and their use as a phylogenetic marker | Sandler, S. J.; Hugenholtz, P.; Schleper, C.; DeLong, E. F.; Pace, N. R.; Clark, A. J. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262653 | 18 |
| Evolution of photosynthesis and aerobic respiration in the cyanobacteria | Soo, Rochelle M.; Hemp, James; Hugenholtz, Philip | Article | University of Queensland [UQ eSpace] | 250 | |
| Extremely acidophilic protists from acid mine drainage host Rickettsiales-lineage endosymbionts that have intervening sequences in their 16S rRNA genes | Baker, BJ; Hugenholtz, P; Dawson, SC; Banfield, JF | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262646 | 65 |
| Genome sequence of the Antarctic rhodopsins-containing flavobacterium Gillisia limnaea type strain (R-8282(T)) | Riedel, Thomas; Held, Brittany; Nolan, Matt; Lucas, Susan; Lapidus, Alla; Tice, Hope; Del Rio, Tijana Glavina; Cheng, Jan-Fang; Han, Cliff; Tapia, Roxanne; Goodwin, Lynne A.; Pitluck, Sam; Liolios, Konstantinos; Mavromatis, Konstantinos; Pagani, Ioanna; I | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:292451 | 1 |
| Genome sequence of the filamentous, gliding Thiothrix nivea neotype strain (JP2(T)) | Lapidus, Alla; Nolan, Matt; Lucas, Susan; Del Rio, Tijana Glavina; Tice, Hope; Cheng, Jan-Fang; Tapia, Roxanne; Han, Cliff; Goodwin, Lynne; Pitluck, Sam; Liolios, Konstantinos; Pagani, Ioanna; Ivanova, Natalia; Huntemann, Marcel; Mavromatis, Konstantinos; | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:270108 | 1 |
| Genome sequence of the free-living aerobic spirochete Turneriella parva type strain (H-T), and emendation of the species Turneriella parva | Stackebrandt, Erko; Chertkov, Olga; Lapidus, Alla; Nolan, Matt; Lucas, Susan; Hammon, Nancy; Deshpande, Shweta; Cheng, Jan-Fang; Tapia, Roxanne; Goodwin, Lynne A.; Pitluck, Sam; Liolios, Konstantinos; Pagani, Ioanna; Ivanova, Natalia; Mavromatis, Konstant | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:311220 | 1 |
| Genome sequence of the homoacetogenic bacterium holophaga foetida type strain (TMBS4(T)) | Anderson, Iain; Held, Brittany; Lapidus, Alla; Nolan, Matt; Lucas, Susan; Tice, Hope; Del Rio, Tijana Glavina; Cheng, Jan-Fang; Han, Cliff; Tapia, Roxanne; Goodwin, Lynne A.; Pitluck, Sam; Liolios, Konstantinos; Mavromatis, Konstantinos; Pagani, Ioanna; I | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:294607 | 1 |
| Genome-Directed Isolation of the Key Nitrogen Fixer Leptospirillum ferrodiazotrophum sp. nov. from an Acidophilic Microbial Community | Tyson, Gene W.; Lo, Ian; Baker, Brett J.; Allen, Eric E.; Hugenholtz, Philip; Banfield, Jillian F. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:190904 | 44 |
| Genomic analysis of "Elusimicrobium minutum," the first cultivated representative of the phylum "Elusimicrobia" (formerly termite group 1) | Herlemann, D. P. R.; Geissinger, O.; Ikeda-Ohtsubo, W.; Kunin, V.; Sun, H.; Lapidus, A.; Hugenholtz, P.; Brune, A. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:241443 | 85 |
| Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrass | Gladden, John M.; Allgaier, Martin; Miller, Christopher S.; Hazen, Terry C.; VanderGheynst, Jean S.; Hugenholtz, Philip; Simmons, Blake A.; Singer, Steven W. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:257390 | 44 |
| Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB | DeSantis, T. Z.; Hugenholtz, P.; Larsen, N.; Rojas, M.; Brodie, E. L.; KELLER, K.; Huber, T. L.; Dalevi, D.; Hu, P.; Andersen, G. L. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:79446 | 83 |
| Grinder: a versatile amplicon and shotgun sequence simulator | Angly, Florent E.; Willner, Dana; Rohwer, Forest; Hugenholtz, Philip; Tyson, Gene W. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:279165 | 53 |
| Heterotrophic Bacteria in An Air-Handling System | Hugenholtz, P; Fuerst, JA | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262668 | 20 |
| High-quality-draft genome sequence of the yellow-pigmented flavobacterium Joostella marina type strain (En5(T)) | Stackebrandt, Erko; Chertkov, Olga; Lapidus, Alla; Nolan, Matt; Lucas, Susan; Han, Cliff; Cheng, Jan-Fang; Tapia, Roxanne; Goodwin, Lynne A.; Bruce, David; Pitluck, Sam; Liolios, Konstantinos; Mavromatis, Konstantinos; Pagani, Ioanna; Ivanova, Natalia; Mi | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:309221 | 1 |
| Identification of polyphosphate-accumulating organisms and design of 16S rRNA-directed Probes for their detection and quantitation | Crocetti, GR; Hugenholtz, P; Bond, PL; Schuler, A; Keller, J; Jenkins, D; Blackall, LL | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:141704 | 90 |
| Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity | Hugenholtz, P.; Goebel, B. M.; Pace, N. R. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262656 | 93 |
| Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity (vol 180, pg 4765, 1998) | Hugenholtz, P.; Goebel, B. M.; Pace, N. R. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262654 | 43 |
| Investigation of candidate division TM7, a recently recognized major lineage of the domain bacteria with no known pure-culture representatives | Hugenholtz, Philip; Tyson, Gene W.; Webb, Richard I.; Wagner, Ankia M.; Blackall, Linda L. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:67598 | 51 |
| Isolation and molecular identification of planctomycete bacteria from postlarvae of the giant tiger prawn, Penaeus monodon | Fuerst, JA; Gwilliam, HG; Lindsay, M; Lichanska, A; Belcher, C; Vickers, JE; Hugenholtz, P | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:57446 | 25 |
| Laboratory cultivation of widespread and previously uncultured soil bacteria | Joseph, SJ; Hugenholtz, P; Sangwan, P; Osborne, CA; Janssen, PH | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262645 | 38 |
| Liquid serial dilution is inferior to solid media for isolation of cultures representative of the phylum-level diversity of soil bacteria | Schoenborn, Liesbeth; Yates, Penelope S.; Grinton, Bronwyn E.; Hugenholtz, Philip; Janssen, Peter H. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262644 | 94 |
| Loss of bacterial diversity during antibiotic treatment of intubated patients colonized with Pseudomonas aeruginosa | Flanagan, J. L.; Brodie, E. L.; Weng, L.; Lynch, S. V.; Garcia, O.; Brown, R.; Hugenholtz, P.; DeSantis, T. Z.; Andersen, G. L.; Wiener-Kronish, J. P.; Bristow, J. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262477 | 37 |
| Microbial diversity in a hydrocarbon- and chlorinated-solvent-contaminated aquifer undergoing intrinsic bioremediation | Dojka, M. A.; Hugenholtz, P.; Haack, S. K.; Pace, N. R. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262655 | 27 |
| Multiple lateral transfers of dissimilatory sulfite reductase genes between major lineages of sulfate-reducing prokaryotes | Klein, M.; Friedrich, M.; Roger, A. J.; Hugenholtz, P.; Fishbain, S.; Abicht, H.; Blackall, L. L.; Stahl, D. A.; Wagner, M. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262651 | 50 |
| Non-sulfate-reducing, syntrophic bacteria affiliated with Desulfotomaculum cluster I are widely distributed in methanogenic environments | Imachi, Hiroyuki; Sekiguchi, Yuji; Kamagata, Yoichi; Loy, Alexander; Qiu, Yan-Ling; Hugenholtz, Philip; Kimura, Nobutada; Wagner, Michael; Ohashi, Akiyoshi; Harada, Hideki | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262362 | 31 |
| Novel division level bacterial diversity in a Yellowstone hot spring | Hugenholtz, P.; Pitulle, C.; Hershberger, K. L.; Pace, N. R. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:262658 | 21 |
| Recipient mucosal-associated invariant T cells control GVHD within the colon | Varelias, Antiopi; Bunting, Mark D.; Ormerod, Kate L.; Koyama, Motoko; Olver, Stuart D.; Straube, Jasmin; Kuns, Rachel D.; Robb, Renee J.; Henden, Andrea S.; Cooper, Leanne; Lachner, Nancy; Gartlan, Kate H.; Lantz, Olivier; Kjer-Nielsen, Lars; Mak, Jeffre | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:726575 | 52 |
| Reestablishment of recipient-associated microbiota in the lung allograft is linked to reduced risk of bronchiolitis obliterans syndrome | Willner, Dana L.; Hugenholtz, Philip; Yerkovich, Stephanie T.; Tan, Maxine E.; Daly, Joshua N.; Lachner, Nancy; Hopkins, Peter M.; Chambers, Daniel C. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:290306 | 2 |
| Respiratory syncytial virus infection is associated with increased bacterial load in the upper respiratory tract in young children | Chappell, K.J.; Brealey, J.C.; Mackay, I.M.; Bletchly, C.; Hugenholtz, P.; Sloots, T.P.; Sly, P.D.; Young, P.R. | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:329652 | 1 |
| ShotgunFunctionalizeR: An R-package for functional comparison of metagenomes | Kristiansson, Erik; Hugenholtz, Philip; Dalevi, Daniel | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:238524 | 2 |
| Use of stable-isotope probing, full-cycle rRNA analysis, and fluorescence in situ hybridization-microautoradiography to study a methanol-fed denitrifying microbial community | Ginige, MP; Hugenholtz, P; Daims, H; Wagner, M; Keller, J; Blackall, LL | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:72779 | 35 |
| Validation of two ribosomal RNA removal methods for microbial metatranscriptomics | He, Shaomei; Wurtzel, Omri; Singh, Kanwar; Froula, Jeff L.; Yilmaz, Suzan; Tringe, Susannah G.; Wang, Zhong; Chen, Feng; Lindquist, Erika A.; Sorek, Rotem; Hugenholtz, Philip | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:218564 | 3 |
| Yeast as a biofertilizer alters plant growth and morphology | Lonhienne, Thierry; Mason, Michael G.; Ragan, Mark A.; Hugenholtz, Philip; Schmidt, Susanne; Paungfoo-Lonhienne, Chanyarat | Article | University of Queensland [UQ eSpace] | https://espace.library.uq.edu.au/view/UQ:325522 | 9 |
