Dr Chris Rinke
Senior Lecturer
School of Chemistry and Molecular Biosciences, Faculty of Science
Featured projects | Duration |
---|---|
Bacterial CRISPRi Genome Innovation Hub Collaborative Project (UQ infrastructure) |
2023 |
Book Chapter
Rinke, Christian (2018). Single-cell genomics of microbial dark matter. Microbiome analysis. (pp. 99-111) New York, United States: Humana Press. doi: 10.1007/978-1-4939-8728-3_7
Journal Articles
Tamarit, Daniel, Kostlbacher, Stephan, Appler, Kathryn E., Panagiotou, Kassiani, De Anda, Valerie, Rinke, Christian, Baker, Brett J. and Ettema, Thijs J. G. (2024). Description of Asgardarchaeum abyssi gen. nov. spec. nov., a novel species within the class Asgardarchaeia and phylum Asgardarchaeota in accordance with the SeqCode. Systematic and Applied Microbiology, 47 (4) 126525, 126525. doi: 10.1016/j.syapm.2024.126525
Mussig, Aaron J., Chaumeil, Pierre-Alain, Chuvochina, Maria, Rinke, Christian, Parks, Donovan H. and Hugenholtz, Philip (2024). Putative genome contamination has minimal impact on the GTDB taxonomy. Microbial Genomics, 10 (5) 001256. doi: 10.1099/mgen.0.001256
Prabhu, Apoorva, Tule, Sanjana, Chuvochina, Maria, Bodén, Mikael, McIlroy, Simon J, Zaugg, Julian and Rinke, Christian (2024). Machine learning and metagenomics identifies uncharacterized taxa inferred to drive biogeochemical cycles in a subtropical hypereutrophic estuary. ISME Communications, 4 (1) ARTN ycae067. doi: 10.1093/ismeco/ycae067
Fan, Lu, Xu, Bu, Chen, Songze, Liu, Yang, Li, Fuyan, Xie, Wei, Prabhu, Apoorva, Zou, Dayu, Wan, Ru, Li, Hongliang, Liu, Haodong, Liu, Yuhang, Kao, Shuh-Ji, Chen, Jianfang, Zhu, Yuanqing, Rinke, Christian, Li, Meng, Zhu, Maoyan and Zhang, Chuanlun (2024). Gene inversion led to the emergence of brackish archaeal heterotrophs in the aftermath of the Cryogenian snowball earth. PNAS Nexus, 3 (2) pgae057, pgae057. doi: 10.1093/pnasnexus/pgae057
Thomas, Marie C., Waugh, Gretel, Vanwonterghem, Inka, Webster, Nicole S., Rinke, Christian, Fisher, Rebecca, Luter, Heidi M. and Negri, Andrew P. (2023). Protecting the invisible: establishing guideline values for copper toxicity to marine microbiomes. Science of The Total Environment, 904 166658, 1-17. doi: 10.1016/j.scitotenv.2023.166658
Fan, Lu, Liu, Junfeng, Rinke, Christian, Baker, Brett J. and Zhang, Changyi (2023). Editorial: Diversity, ecology and evolution of archaeal viruses. Frontiers in Microbiology, 14 1333790, 1-2. doi: 10.3389/fmicb.2023.1333790
Chuvochina, Maria, Mussig, Aaron J., Chaumeil, Pierre-Alain, Skarshewski, Adam, Rinke, Christian, Parks, Donovan H. and Hugenholtz, Philip (2023). Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes. FEMS Microbiology Letters, 370 fnad071, 1-33. doi: 10.1093/femsle/fnad071
Peng, Yi, Prabhu, Apoorva and Rinke, Chris (2023). Facing our plastic waste crisis: biorecycling as a promising solution. Microbiology Australia, 44 (1), 52-56. doi: 10.1071/ma23013
Rinke, Christian (2022). Mystery find of microbial DNA elements called Borgs. Nature, 610 (7933), 635-637. doi: 10.1038/d41586-022-02975-3
Medvedeva, Sofia, Sun, Jiarui, Yutin, Natalya, Koonin, Eugene V., Nunoura, Takuro, Rinke, Christian and Krupovic, Mart (2022). Three families of Asgard archaeal viruses identified in metagenome-assembled genomes. Nature Microbiology, 7 (7), 962-973. doi: 10.1038/s41564-022-01144-6
Sun, Jiarui, Prabhu, Apoorva, Aroney, Samuel T. N. and Rinke, Christian (2022). Insights into plastic biodegradation: community composition and functional capabilities of the superworm (Zophobas morio) microbiome in styrofoam feeding trials. Microbial Genomics, 8 (6) 000842. doi: 10.1099/mgen.0.000842
Raina, Jean-Baptiste, Lambert, Bennett S., Parks, Donovan H., Rinke, Christian, Siboni, Nachshon, Bramucci, Anna, Ostrowski, Martin, Signal, Brandon, Lutz, Adrian, Mendis, Himasha, Rubino, Francesco, Fernandez, Vicente I., Stocker, Roman, Hugenholtz, Philip, Tyson, Gene W. and Seymour, Justin R. (2022). Chemotaxis shapes the microscale organization of the ocean’s microbiome. Nature, 605 (7908), 132-138. doi: 10.1038/s41586-022-04614-3
Sun, Jiarui, Evans, Paul N., Gagen, Emma J., Woodcroft, Ben J., Hedlund, Brian P., Woyke, Tanja, Hugenholtz, Philip and Rinke, Christian (2022). Correction: Recoding of stop codons expands the metabolic potential of two novel Asgardarchaeota. ISME Communications, 2 (1) 6, 6. doi: 10.1038/s43705-021-00048-6
Hedlund, Brian P., Zhang, Chuanlun, Wang, Fengping, Rinke, Christian and Martin, William F. (2022). Editorial: ecology, metabolism and evolution of Archaea-perspectives from Proceedings of the International Workshop on Geo-Omics of Archaea. Frontiers in Microbiology, 12 827229, 827229. doi: 10.3389/fmicb.2021.827229
Parks, Donovan H., Chuvochina, Maria, Rinke, Christian, Mussig, Aaron J., Chaumeil, Pierre-Alain and Hugenholtz, Philip (2022). GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy. Nucleic Acids Research, 50 (D1), D785-D794. doi: 10.1093/nar/gkab776
Bramucci, Anna R., Focardi, Amaranta, Rinke, Christian, Hugenholtz, Philip, Tyson, Gene W., Seymour, Justin R. and Raina, Jean-Baptiste (2021). Microvolume DNA extraction methods for microscale amplicon and metagenomic studies. ISME Communications, 1 (1) 79. doi: 10.1038/s43705-021-00079-z
Sun, Jiarui, Evans, Paul N., Gagen, Emma J., Woodcroft, Ben J., Hedlund, Brian P., Woyke, Tanja, Hugenholtz, Philip and Rinke, Christian (2021). Recoding of stop codons expands the metabolic potential of two novel Asgardarchaeota lineages. ISME Communications, 1 (1) 30, 1-14. doi: 10.1038/s43705-021-00032-0
Rinke, Christian, Chuvochina, Maria, Mussig, Aaron J., Chaumeil, Pierre-Alain, Davín, Adrián A., Waite, David W., Whitman, William B., Parks, Donovan H. and Hugenholtz, Philip (2021). A standardized archaeal taxonomy for the Genome Taxonomy Database. Nature Microbiology, 6 (7), 946-959. doi: 10.1038/s41564-021-00918-8
Nayfach, Stephen, Roux, Simon, Seshadri, Rekha, Udwary, Daniel, Varghese, Neha, Schulz, Frederik, Wu, Dongying, Paez-Espino, David, Chen, I-Min, Huntemann, Marcel, Palaniappan, Krishna, Ladau, Joshua, Mukherjee, Supratim, Reddy, T. B.K., Nielsen, Torben, Kirton, Edward, Faria, José P., Edirisinghe, Janaka N., Henry, Christopher S., Jungbluth, Sean P., Chivian, Dylan, Dehal, Paramvir, Wood-Charlson, Elisha M., Arkin, Adam P., Tringe, Susannah G., Visel, Axel, Abreu, Helena, Acinas, Silvia G., Allen, Eric ... Eloe-Fadrosh, Emiley A. (2021). A genomic catalog of Earth’s microbiomes. Nature Biotechnology, 39 (4), 499-509. doi: 10.1038/s41587-020-0718-6
Nayfach, Stephen, Roux, Simon, Seshadri, Rekha, Udwary, Daniel, Varghese, Neha, Schulz, Frederik, Wu, Dongying, Paez-Espino, David, Chen, I-Min, Huntemann, Marcel, Palaniappan, Krishna, Ladau, Joshua, Mukherjee, Supratim, Reddy, T. B.K., Nielsen, Torben, Kirton, Edward, Faria, José P., Edirisinghe, Janaka N., Henry, Christopher S., Jungbluth, Sean P., Chivian, Dylan, Dehal, Paramvir, Wood-Charlson, Elisha M., Arkin, Adam P., Tringe, Susannah G., Visel, Axel, Abreu, Helena, Acinas, Silvia G., Allen, Eric ... Eloe-Fadrosh, Emiley A. (2021). Publisher Correction: A genomic catalog of Earth’s microbiomes (Nature Biotechnology, (2021), 39, 4, (499-509), 10.1038/s41587-020-0718-6). Nature Biotechnology, 39 (4), 520-520. doi: 10.1038/s41587-020-00769-4
Nayfach, Stephen, Roux, Simon, Seshadri, Rekha, Udwary, Daniel, Varghese, Neha, Schulz, Frederik, Wu, Dongying, Paez-Espino, David, Chen, I-Min, Huntemann, Marcel, Palaniappan, Krishna, Ladau, Joshua, Mukherjee, Supratim, Reddy, T. B.K., Nielsen, Torben, Kirton, Edward, Faria, José P., Edirisinghe, Janaka N., Henry, Christopher S., Jungbluth, Sean P., Chivian, Dylan, Dehal, Paramvir, Wood-Charlson, Elisha M., Arkin, Adam P., Tringe, Susannah G., Visel, Axel, Abreu, Helena, Acinas, Silvia G., Allen, Eric ... Eloe-Fadrosh, Emiley A. (2021). Author Correction: A genomic catalog of Earth’s microbiomes (Nature Biotechnology, (2021), 39, 4, (499-509), 10.1038/s41587-020-0718-6). Nature Biotechnology, 39 (4), 521-521. doi: 10.1038/s41587-021-00898-4
Parks, Donovan H., Chuvochina, Maria, Chaumeil, Pierre-Alain, Rinke, Christian, Mussig, Aaron J. and Hugenholtz, Philip (2020). Author Correction: A complete domain-to-species taxonomy for Bacteria and Archaea (Nature Biotechnology, (2020), 38, 9, (1079-1086), 10.1038/s41587-020-0501-8). Nature Biotechnology, 38 (9), 1098-1098. doi: 10.1038/s41587-020-0539-7
Dombrowski, Nina, Williams, Tom A., Sun, Jiarui, Woodcroft, Benjamin J., Lee, Jun-Hoe, Minh, Bui Quang, Rinke, Christian and Spang, Anja (2020). Undinarchaeota illuminate DPANN phylogeny and the impact of gene transfer on archaeal evolution. Nature Communications, 11 (1) 3939, 3939. doi: 10.1038/s41467-020-17408-w
Parks, Donovan H., Chuvochina, Maria, Chaumeil, Pierre-Alain, Rinke, Christian, Mussig, Aaron J. and Hugenholtz, Philip (2020). A complete domain-to-species taxonomy for bacteria and archaea. Nature Biotechnology, 38 (9), 1098-1098. doi: 10.1038/s41587-020-0501-8
Rinke, Christian, Rubino, Francesco, Messer, Lauren F., Youssef, Noha, Parks, Donovan H., Chuvochina, Maria, Brown, Mark, Jeffries, Thomas, Tyson, Gene W., Seymour, Justin R. and Hugenholtz, Philip (2020). Correction: A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.). The ISME Journal, 14 (3), 878-878. doi: 10.1038/s41396-019-0556-z
Džunková, Mária, Low, Soo Jen, Daly, Joshua N., Deng, Li, Rinke, Christian and Hugenholtz, Philip (2019). Defining the human gut host–phage network through single-cell viral tagging. Nature Microbiology, 4 (12), 2192-2203. doi: 10.1038/s41564-019-0526-2
Chuvochina, Maria, Rinke, Christian, Parks, Donovan H., Rappé, Michael S., Tyson, Gene W., Yilmaz, Pelin, Whitman, William B. and Hugenholtz, Philip (2019). The importance of designating type material for uncultured taxa. Systematic and Applied Microbiology, 42 (1), 15-21. doi: 10.1016/j.syapm.2018.07.003
Rinke, Christian, Rubino, Francesco, Messer, Lauren F., Youssef, Noha, Parks, Donovan H., Chuvochina, Maria, Brown, Mark, Jeffries, Thomas, Tyson, Gene W., Seymour, Justin R. and Hugenholtz, Philip (2018). A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.). The ISME Journal, 13 (3), 663-675. doi: 10.1038/s41396-018-0282-y
Parks, Donovan H., Chuvochina, Maria, Waite, David W., Rinke, Christian, Skarshewski, Adam, Chaumeil, Pierre-Alain and Hugenholtz, Philip (2018). A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life. Nature Biotechnology, 36 (10), 996-1004. doi: 10.1038/nbt.4229
Bowers, Robert M., Kyrpides, Nikos C., Stepanauskas, Ramunas, Harmon-Smith, Miranda, Doud, Devin, Reddy, T. B.K., Schulz, Frederik, Jarett, Jessica, Rivers, Adam R, Eloe-Fadrosh, Emiley A., Tringe, Susannah G., Ivanova, Natalia N., Copeland, Alex, Clum, Alicia, Becraft, Eric D., Malmstrom, Rex R., Birren, Bruce, Podar, Mircea, Bork, Peer, Weinstock, George M., Garrity, George M., Dodsworth, Jeremy A., Yooseph, Shibu, Sutton, Granger, Glöckner, Frank O., Gilbert, Jack A, Nelson, William C., Hallam, Steven J., Jungbluth, Sean P. ... Woyke, Tanja (2018). Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea (Nature Biotechnology (2017) 35 (725-731) DOI: 10.1038/nbt.3893). Nature Biotechnology, 36 (7), 660-660. doi: 10.1038/nbt0718-660a
Waite, David W., Vanwonterghem, Inka, Rinke, Christian, Parks, Donovan H., Zhang, Ying, Takai, Ken, Sievert, Stefan M., Simon, Jorg, Campbell, Barbara J., Hanson, Thomas E., Woyke, Tanja, Klotz, Martin G. and Hugenholtz, Philip (2018). Addendum: Comparative genomic analysis of the class Epsilonproteobacteria and proposed reclassification to Epsilonbacteraeota (phyl. nov.) (vol 8, 682, 2017). Frontiers in Microbiology, 9 (APR) 772, 772. doi: 10.3389/fmicb.2018.00772
Bowers, Robert M., Kyrpides, Nikos C., Stepanauskas, Ramunas, Harmon-Smith, Miranda, Doud, Devin, Reddy, T. B. K., Schulz, Frederik, Jarett, Jessica, Rivers, Adam R., Eloe-Fadrosh, Emiley A., Tringe, Susannah G., Ivanova, Natalia N., Copeland, Alex, Clum, Alicia, Becraft, Eric D., Malmstrom, Rex R., Birren, Bruce, Podar, Mircea, Bork, Peer, Weinstock, George M., Garrity, George M., Dodsworth, Jeremy A., Yooseph, Shibu, Sutton, Granger, Glockner, Frank O., Gilbert, Jack A., Nelson, William C., Hallam, Steven J., Jungbluth, Sean P. ... Woyke, Tanja (2018). Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea (vol 35, pg 725, 2017). Nature Biotechnology, 36 (2), 196-196. doi: 10.1038/nbt0218-196a
Parks, Donovan H., Rinke, Christian, Chuvochina, Maria, Chaumeil, Pierre-Alain, Woodcroft, Ben J., Evans, Paul N., Hugenholtz, Philip and Tyson, Gene W. (2017). Author correction: recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life. Nature Microbiology, 3 (2), 253-253. doi: 10.1038/s41564-017-0083-5
Hawley, Alyse K., Nobu, Masaru K., Wright, Jody J., Durno, W. Evan, Morgan-Lang, Connor, Sage, Brent, Schwientek, Patrick, Swan, Brandon K., Rinke, Christian, Torres-Beltran, Monica, Mewis, Keith, Liu, Wen-Tso, Stepanauskas, Ramunas, Woyke, Tanja and Hallam, Steven J. (2017). Diverse marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients. Nature Communications, 8 (1) 1507, 1507. doi: 10.1038/s41467-017-01376-9
Parks, Donovan H., Rinke, Christian, Chuvochina, Maria, Chaumeil, Pierre-Alain, Woodcroft, Ben J., Evans, Paul N., Hugenholtz, Philip and Tyson, Gene W. (2017). Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life. Nature Microbiology, 2 (11), 1533-1542. doi: 10.1038/s41564-017-0012-7
Lambert, Bennett S., Raina, Jean-Baptiste, Fernandez, Vicente I., Rinke, Christian, Siboni, Nachshon, Rubino, Francesco, Hugenholtz, Philip, Tyson, Gene W., Seymour, Justin R. and Stocker, Roman (2017). A microfluidics-based in situ chemotaxis assay to study the behaviour of aquatic microbial communities. Nature Microbiology, 2 (10), 1344-1349. doi: 10.1038/s41564-017-0010-9
Bowers, Robert M., Kyrpides, Nikos C., Stepanauskas, Ramunas, Harmon-Smith, Miranda, Doud, Devin, Reddy, T. B. K., Schulz, Frederik, Jarett, Jessica, Rivers, Adam R., Eloe-Fadrosh, Emiley A., Tringe, Susannah G., Ivanova, Natalia N., Copeland, Alex, Clum, Alicia, Becraft, Eric D., Malmstrom, Rex R., Birren, Bruce, Podar, Mircea, Bork, Peer, Weinstock, George M., Garrity, George M., Dodsworth, Jeremy A., Yooseph, Shibu, Sutton, Granger, Gloeckner, Frank O., Gilbert, Jack A., Nelson, William C., Hallam, Steven J., Jungbluth, Sean P. ... Woyke, Tanja (2017). Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nature Biotechnology, 35 (8), 725-731. doi: 10.1038/nbt.3893
Waite, David W., Vanwonterghem, Inka, Rinke, Christian, Parks, Donovan H. , Zhang, Ying, Takai, Ken, Sievert, Stefan M. , Simon, Joerg, Campbell, Barbara J. , Hanson, Thomas E. , Woyke, Tanja, Klotz, Martin G. and Hugenholtz, Philip (2017). Comparative genomic analysis of the class Epsilonproteobacteria and proposed reclassification to Epsilonbacteraeota (phyl. nov.). Frontiers in Microbiology, 8 (APR) 682 doi: 10.3389/fmicb.2017.00682.
Kublanov, Ilya V., Sigalova, Olga M., Gavrilov, Sergey N., Lebedinsky, Alexander V., Rinke, Christian, Kovaleva, Olga, Chernyh, Nikolai A., Ivanova, Natalia, Daum, Chris, Reddy, T. B. K., Klenk, Hans-Peter, Spring, Stefan, Göker, Markus, Reva, Oleg N., Miroshnichenko, Margarita L., Kyrpides, Nikos C., Woyke, Tanja, Gelfand, Mikhail S. and Bonch-Osmolovskaya, Elizaveta A. (2017). Genomic analysis of Caldithrix abyssi, the thermophilic anaerobic bacterium of the novel bacterial phylum Calditrichaeota. Frontiers in Microbiology, 8 (195) 195, 195. doi: 10.3389/fmicb.2017.00195
Lux, Markus, Kruger, Jan, Rinke, Christian, Maus, Irena, Schluter, Andreas, Woyke, Tanja, Sczyrba, Alexander and Hammer, Barbara (2016). Acdc - automated contamination detection and confidence estimation for single-cell genome data. BMC Bioinformatics, 17 (1) 543, 543. doi: 10.1186/s12859-016-1397-7
Rinke, Christian, Low, Serene, Woodcroft, Ben J., Raina, Jean-Baptista, Skarshewski, Adam, Le, Xuyen H., Butler, Margaret K., Stocker, Roman, Seymour, Justin, Tyson, Gene W. and Hugenholtz, Philip (2016). Validation of picogram- and femtogram-input DNA libraries for microscale metagenomics. PeerJ, 4 (9) e2486, 1-28. doi: 10.7717/peerj.2486
Nobu, Masaru K., Dodsworth, Jeremy A., Murugapiran, Senthil K., Rinke, Christian, Gies, Esther A., Webster, Gordon, Schwientek, Patrick, Kille, Peter, Parkes, R. John, Sass, Henrik, Jorgensen, Bo B., Weightman, Andrew J., Liu, Wen-Tso, Hallam, Steven J., Tsiamis, George, Woyke, Tanja and Hedlund, Brian P. (2016). Phylogeny and physiology of candidate phylum 'Atribacteria' (OP9/JS1) inferred from cultivation-independent genomics. The ISME Journal, 10 (2), 273-286. doi: 10.1038/ismej.2015.97
Tennessen, Kristin, Andersen, Evan, Clingenpeel, Scott, Rinke, Christian, Lundberg, Derek S, Han, James, Dangl, Jeff L, Ivanova, Natalia, Woyke, Tanja, Kyrpides, Nikos and Pati, Amrita (2015). ProDeGe: a computational protocol for fully automated decontamination of genomes. The ISME Journal, 10 (1), 269-272. doi: 10.1038/ismej.2015.100
Youssef, Noha H., Farag, Ibrahim F., Rinke, Christian, Hallam, Steven J., Woyke, Tanja and Elshahed, Mostafa S. (2015). In silico analysis of the metabolic potential and niche specialization of candidate phylum "Latescibacteria" (WS3). PLoS One, 10 (6) e0127499, 1-21. doi: 10.1371/journal.pone.0127499
Nobu, Masaru K., Narihiro, Takashi, Rinke, Christian, Kamagata, Yoichi, Tringe, Susannah G., Woyke, Tanja and Liu, Wen-Tso (2015). Microbial dark matter ecogenomics reveals complex synergistic networks in a methanogenic bioreactor. The ISME Journal, 9 (8), 1710-1722. doi: 10.1038/ismej.2014.256
Clingenpeel, Scott, Clum, Alicia, Schwientek, Patrick, Rinke, Christian and Woyke, Tanja (2015). Reconstructing each cell's genome within complex microbial communities-dream or reality?. Frontiers in Microbiology, 5, 771. doi: 10.3389/fmicb.2014.00771
Hedlund, Brian P., Dodsworth, Jeremy A., Murugapiran, Senthil K., Rinke, Christian and Woyke, Tanja (2014). Impact of single-cell genomics and metagenomics on the emerging view of extremophile “microbial dark matter”. Extremophiles, 18 (5), 865-875. doi: 10.1007/s00792-014-0664-7
Youssef, Noha H., Rinke, Christian, Stepanauskas, Ramunas, Farag, Ibrahim, Woyke, Tanja and Elshahed, Mostafa S. (2014). Insights into the metabolism, lifestyle and putative evolutionary history of the novel archaeal phylum ‘Diapherotrites’. The ISME Journal, 9 (2), 447-460. doi: 10.1038/ismej.2014.141
Ivanova, N. N., Schwientek, P., Tripp, H. J., Rinke, C., Pati, A., Huntemann, M., Visel, A., Woyke, T., Kyrpides, N. C. and Rubin, E. M. (2014). Stop codon reassignments in the wild. Science, 344 (6186), 909-913. doi: 10.1126/science.1250691
Rinke, Christian, Lee, Janey, Nath, Nandita, Goudeau, Danielle, Thompson, Brian, Poulton, Nicole, Dmitrieff, Elizabeth, Malmstrom, Rex, Stepanauskas, Ramunas and Woyke, Tanja (2014). Obtaining genomes from uncultivated environmental microorganisms using FACS–based single-cell genomics. Nature Protocols, 9 (5), 1038-1048. doi: 10.1038/nprot.2014.067
Wilson, Micheal C., Mori, Tetsushi, Rueckert, Christian, Uria, Agustinus R., Helf, Maximilian J., Takada, Kentaro, Gernert, Christine, Steffens, Ursula A. E., Heycke, Nina, Schmitt, Susanne, Rinke, Christian, Helfrich, Eric J. N., Brachmann, Alexander O., Gurgui, Cristian, Wakimoto, Toshiyuki, Kracht, Matthias, Cruesemann, Max, Hentschel, Ute, Abe, Ikuro, Matsunaga, Shigeki, Kalinowski, Joern, Takeyama, Haruko and Piel, Joern (2014). An environmental bacterial taxon with a large and distinct metabolic repertoire (vol 506, pg 58, 2014). Nature, 507 (7491). doi: 10.1038/nature13126
Kamke, Janine, Rinke, Christian, Schwientek, Patrick, Mavromatis, Kostas, Ivanova, Natalia, Sczyrba, Alexander, Woyke, Tanja and Hentschel, Ute (2014). The candidate phylum Poribacteria by single-cell genomics: new insights into phylogeny, cell-compartmentation, eukaryote-like repeat proteins, and other genomic features. PLoS One, 9 (1) e87353, 1-10. doi: 10.1371/journal.pone.0087353
Wilson, Micheal C., Mori, Tetsushi, Rückert, Christian, Uria, Agustinus R., Helf, Maximilian J., Takada, Kentaro, Gernert, Christine, Steffens, Ursula A. E., Heycke, Nina, Schmitt, Susanne, Rinke, Christian, Helfrich, Eric J. N., Brachmann, Alexander O., Gurgui, Cristian, Wakimoto, Toshiyuki, Kracht, Matthias, Crüsemann, Max, Hentschel, Ute, Abe, Ikuro, Matsunaga, Shigeki, Kalinowski, Jörn, Takeyama, Haruko and Piel, Jörn (2014). An environmental bacterial taxon with a large and distinct metabolic repertoire. Nature, 506 (7486), 58-62. doi: 10.1038/nature12959
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
Kamke, Janine, Sczyrba, Alexander, Ivanova, Natalia, Schwientek, Patrick, Rinke, Christian, Mavromatis, Kostas, Woyke, Tanja and Hentschel, Ute (2013). Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges. The ISME Journal, 7 (12), 2287-2300. doi: 10.1038/ismej.2013.111
Woyke, Tanja, Sczyrba, Alexander, Lee, Janey, Rinke, Christian, Tighe, Damon, Clingenpeel, Scott, Malmstrom, Rex, Stepanauskas, Ramunas and Cheng, Jan-Fang (2011). Decontamination of MDA reagents for single cell whole genome amplification. PLoS One, 6 (10) e26161, 1-5. doi: 10.1371/journal.pone.0026161
Rinke, Christian and Lee, Raymond W. (2009). Macro camera temperature logger array for deep-sea hydrothermal vent and benthic studies: Macro camera temperature logger array. Limnology and Oceanography: Methods, 7 (7), 527-534. doi: 10.4319/lom.2009.7.527
Rinke, C. and Lee, R.W. (2009). Pathways, activities and thermal stability of anaerobic and aerobic enzymes in thermophilic vent paralvinellid worms. Marine Ecology Progress Series, 382, 99-112. doi: 10.3354/meps07980
Bayer, Christoph, Heindl, Niels R, Rinke, Christian, Lücker, Sebastian, Ott, Joerg A and Bulgheresi, Silvia (2009). Molecular characterization of the symbionts associated with marine nematodes of the genus Robbea. Environmental microbiology reports, 1 (2), 136-144. doi: 10.1111/j.1758-2229.2009.00019.x
Kloiber, Ulrike, Pflugfelder, Bettina, Rinke, Christian and Bright, Monika (2009). Cell proliferation and growth in Zoothamnium niveum (Oligohymenophora, Peritrichida) — thiotrophic bacteria symbiosis. Symbiosis, 47 (1), 43-50. doi: 10.1007/bf03179969
Rinke, Christian, Schmitz-Esser, Stephan, Loy, Alexander, Horn, Matthias, Wagner, Michael and Bright, Monika (2009). High genetic similarity between two geographically distinct strains of the sulfur-oxidizing symbiont 'Candidatus Thiobios zoothamnicoli'. FEMS Microbiology Ecology, 67 (2), 229-241. doi: 10.1111/j.1574-6941.2008.00628.x
Rinke, Christian, Lee, Raymond, Katz, Sigrid and Bright, Monika (2007). The effects of sulphide on growth and behaviour of the thiotrophic Zoothamnium niveum symbiosis. Proceedings. Biological sciences, 274 (1623), 2259-2269. doi: 10.1098/rspb.2007.0631
Rinke, Christian, Schmitz-Esser, Stephan, Stoecker, Kilian, Nussbaumer, Andrea D., Molnár, Dávid A., Vanura, Katrina, Wagner, Michael, Horn, Matthias, Ott, Jörg A. and Bright, Monika (2006). “Candidatus Thiobios zoothamnicoli,” an Ectosymbiotic Bacterium Covering the Giant Marine Ciliate Zoothamnium niveum. Applied and Environmental Microbiology, 72 (3), 2014-2021. doi: 10.1128/aem.72.3.2014-2021.2006
Data Collection
Tyson, Gene and Rinke, Christian (2015). Microscale Experiments to Understand a Microscale World. The University of Queensland. (Dataset) doi: 10.48610/b5ed324