Forest Rohwer - Publications

Affiliations: 
San Diego State University, San Diego, CA, United States 

139 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Rubio-Portillo E, Martin-Cuadrado AB, Caraballo-Rodríguez AM, Rohwer F, Dorrestein PC, Antón J. Virulence as a Side Effect of Interspecies Interaction in Coral Pathogens. Mbio. 11. PMID 32694137 DOI: 10.1128/Mbio.00201-20  0.352
2020 Roach TNF, Little M, Arts MGI, Huckeba J, Haas AF, George EE, Quinn RA, Cobián-Güemes AG, Naliboff DS, Silveira CB, Vermeij MJA, Kelly LW, Dorrestein PC, Rohwer F. A multiomic analysis of in situ coral-turf algal interactions. Proceedings of the National Academy of Sciences of the United States of America. PMID 32482859 DOI: 10.1073/Pnas.1915455117  0.416
2020 French BJ, Lim YW, Zgliczynski BJ, Edwards RA, Rohwer F, Sandin SA. Decoding diversity in a coral reef fish species complex with restricted range using metagenomic sequencing of gut contents. Ecology and Evolution. 10: 3413-3423. PMID 32273998 DOI: 10.1002/Ece3.6138  0.356
2020 Boling L, Cuevas DA, Grasis JA, Kang HS, Knowles B, Levi K, Maughan H, McNair K, Rojas MI, Sanchez SE, Smurthwaite C, Rohwer F. Dietary prophage inducers and antimicrobials: toward landscaping the human gut microbiome. Gut Microbes. 1-14. PMID 31931655 DOI: 10.1080/19490976.2019.1701353  0.328
2019 Cobián Güemes AG, Lim YW, Quinn RA, Conrad DJ, Benler S, Maughan H, Edwards R, Brettin T, Cantú VA, Cuevas D, Hamidi R, Dorrestein P, Rohwer F. Cystic Fibrosis Rapid Response: Translating Multi-omics Data into Clinically Relevant Information. Mbio. 10. PMID 30992350 DOI: 10.1128/Mbio.00431-19  0.304
2019 Kelly LW, Nelson CE, Haas AF, Naliboff DS, Calhoun S, Carlson CA, Edwards RA, Fox MD, Hatay M, Johnson MD, Kelly ELA, Lim YW, Macherla S, Quinlan ZA, Silva GGZ, ... ... Rohwer F, et al. Diel population and functional synchrony of microbial communities on coral reefs. Nature Communications. 10: 1691. PMID 30979882 DOI: 10.1038/S41467-019-09419-Z  0.416
2019 Roach TN, Nulton J, Sibani P, Rohwer F, Salamon P. Emergent structure in a stochastic model of ecological evolution Ecological Modelling. 401: 129-133. DOI: 10.1016/J.Ecolmodel.2019.03.004  0.301
2018 Benler S, Cobián-Güemes AG, McNair K, Hung SH, Levi K, Edwards R, Rohwer F. A diversity-generating retroelement encoded by a globally ubiquitous Bacteroides phage. Microbiome. 6: 191. PMID 30352623 DOI: 10.1186/S40168-018-0573-6  0.378
2018 Nakajima R, Haas AF, Silveira CB, Kelly EL, Smith JE, Sandin S, Kelly LW, Rohwer F, Nakatomi N, Kurihara H. Release of dissolved and particulate organic matter by the soft coral Lobophytum and subsequent microbial degradation Journal of Experimental Marine Biology and Ecology. 504: 53-60. DOI: 10.1016/J.Jembe.2018.02.008  0.329
2017 Garg N, Wang M, Hyde E, da Silva RR, Melnik AV, Protsyuk I, Bouslimani A, Lim YW, Wong R, Humphrey G, Ackermann G, Spivey T, Brouha SS, Bandeira N, Lin GY, ... Rohwer F, et al. Three-Dimensional Microbiome and Metabolome Cartography of a Diseased Human Lung. Cell Host & Microbe. PMID 29056429 DOI: 10.1016/J.Chom.2017.10.001  0.311
2017 Knowles B, Bailey B, Boling L, Breitbart M, Cobián-Güemes A, Del Campo J, Edwards R, Felts B, Grasis J, Haas AF, Katira P, Kelly LW, Luque A, Nulton J, Paul L, ... ... Rohwer F, et al. Variability and host density independence in inductions-based estimates of environmental lysogeny. Nature Microbiology. 2: 17064. PMID 28452987 DOI: 10.1038/Nmicrobiol.2017.64  0.626
2016 Cobián Güemes AG, Youle M, Cantú VA, Felts B, Nulton J, Rohwer F. Viruses as Winners in the Game of Life. Annual Review of Virology. 3: 197-214. PMID 27741409 DOI: 10.1146/Annurev-Virology-100114-054952  0.4
2016 Haas AF, Fairoz MF, Kelly LW, Nelson CE, Dinsdale EA, Edwards RA, Giles S, Hatay M, Hisakawa N, Knowles B, Lim YW, Maughan H, Pantos O, Roach TN, Sanchez SE, ... ... Rohwer F, et al. Global microbialization of coral reefs. Nature Microbiology. 1: 16042. PMID 27572833 DOI: 10.1038/Nmicrobiol.2016.42  0.406
2016 Bonilla N, Rojas MI, Netto Flores Cruz G, Hung SH, Rohwer F, Barr JJ. Phage on tap-a quick and efficient protocol for the preparation of bacteriophage laboratory stocks. Peerj. 4: e2261. PMID 27547567 DOI: 10.7717/Peerj.2261  0.312
2016 McDole Somera T, Bailey B, Barott K, Grasis J, Hatay M, Hilton BJ, Hisakawa N, Nosrat B, Nulton J, Silveira CB, Sullivan C, Brainard RE, Rohwer F. Energetic differences between bacterioplankton trophic groups and coral reef resistance. Proceedings. Biological Sciences / the Royal Society. 283. PMID 27097927 DOI: 10.1098/Rspb.2016.0467  0.322
2016 Knowles B, Silveira CB, Bailey BA, Barott K, Cantu VA, Cobián-Güemes AG, Coutinho FH, Dinsdale EA, Felts B, Furby KA, George EE, Green KT, Gregoracci GB, Haas AF, Haggerty JM, ... ... Rohwer F, et al. Lytic to temperate switching of viral communities. Nature. PMID 26982729 DOI: 10.1038/Nature17193  0.439
2016 Smith JE, Brainard R, Carter A, Grillo S, Edwards C, Harris J, Lewis L, Obura D, Rohwer F, Sala E, Vroom PS, Sandin S. Re-evaluating the health of coral reef communities: baselines and evidence for human impacts across the central Pacific. Proceedings. Biological Sciences / the Royal Society. 283. PMID 26740615 DOI: 10.1098/Rspb.2015.1985  0.388
2016 Baljon AR, Arroyo E, Salamon P, Nulton J, Felts B, Barr J, Rohwer F. Hunting Strategy of Phages that Infect Bacteria Biophysical Journal. 110: 494a. DOI: 10.1016/J.Bpj.2015.11.2642  0.307
2015 Hisakawa N, Quistad SD, Hester ER, Martynova D, Maughan H, Sala E, Gavrilo MV, Rohwer F. Metagenomic and satellite analyses of red snow in the Russian Arctic. Peerj. 3: e1491. PMID 26713242 DOI: 10.7717/Peerj.1491  0.325
2015 Rohwer F, Segall AM. In retrospect: A century of phage lessons. Nature. 528: 46-8. PMID 26632584 DOI: 10.1038/528046A  0.315
2015 Barr JJ, Auro R, Sam-Soon N, Kassegne S, Peters G, Bonilla N, Hatay M, Mourtada S, Bailey B, Youle M, Felts B, Baljon A, Nulton J, Salamon P, Rohwer F. Subdiffusive motion of bacteriophage in mucosal surfaces increases the frequency of bacterial encounters. Proceedings of the National Academy of Sciences of the United States of America. 112: 13675-80. PMID 26483471 DOI: 10.1073/Pnas.1508355112  0.324
2015 Reyes A, Blanton LV, Cao S, Zhao G, Manary M, Trehan I, Smith MI, Wang D, Virgin HW, Rohwer F, Gordon JI. Gut DNA viromes of Malawian twins discordant for severe acute malnutrition. Proceedings of the National Academy of Sciences of the United States of America. 112: 11941-6. PMID 26351661 DOI: 10.1073/Pnas.1514285112  0.375
2015 Roitman S, Flores-Uribe J, Philosof A, Knowles B, Rohwer F, Ignacio-Espinoza JC, Sullivan MB, Cornejo-Castillo FM, Sánchez P, Acinas SG, Dupont CL, Béjà O. Closing the gaps on the viral photosystem-I psaDCAB gene organization. Environmental Microbiology. PMID 26310718 DOI: 10.1111/1462-2920.13036  0.322
2015 Sanchez SE, Cuevas DA, Rostron JE, Liang TY, Pivaroff CG, Haynes MR, Nulton J, Felts B, Bailey BA, Salamon P, Edwards RA, Burgin AB, Segall AM, Rohwer F. Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins. Journal of Visualized Experiments : Jove. PMID 26132888 DOI: 10.3791/52854  0.4
2015 Haas AF, Rohwer F. Metabolic cascades in marine microbial communities. Proceedings of the National Academy of Sciences of the United States of America. 112: 5552-3. PMID 25918428 DOI: 10.1073/Pnas.1504310112  0.301
2015 Garg N, Kapono C, Lim YW, Koyama N, Vermeij MJ, Conrad D, Rohwer F, Dorrestein PC. Mass spectral similarity for untargeted metabolomics data analysis of complex mixtures. International Journal of Mass Spectrometry. 377: 719-717. PMID 25844058 DOI: 10.1016/J.Ijms.2014.06.005  0.309
2015 Hevroni G, Enav H, Rohwer F, Béjà O. Diversity of viral photosystem-I psaA genes. The Isme Journal. 9: 1892-8. PMID 25535938 DOI: 10.1038/Ismej.2014.244  0.375
2015 Quinn RA, Whiteson K, Lim YW, Salamon P, Bailey B, Mienardi S, Sanchez SE, Blake D, Conrad D, Rohwer F. A Winogradsky-based culture system shows an association between microbial fermentation and cystic fibrosis exacerbation. The Isme Journal. 9: 1024-38. PMID 25514533 DOI: 10.1038/Ismej.2014.234  0.365
2014 Lim YW, Haynes M, Furlan M, Robertson CE, Harris JK, Rohwer F. Purifying the impure: sequencing metagenomes and metatranscriptomes from complex animal-associated samples. Journal of Visualized Experiments : Jove. PMID 25549184 DOI: 10.3791/52117  0.42
2014 Haas AF, Knowles B, Lim YW, McDole Somera T, Kelly LW, Hatay M, Rohwer F. Unraveling the unseen players in the ocean - a field guide to water chemistry and marine microbiology. Journal of Visualized Experiments : Jove. e52131. PMID 25407983 DOI: 10.3791/52131  0.437
2014 Grasis JA, Lachnit T, Anton-Erxleben F, Lim YW, Schmieder R, Fraune S, Franzenburg S, Insua S, Machado G, Haynes M, Little M, Kimble R, Rosenstiel P, Rohwer FL, Bosch TC. Species-specific viromes in the ancestral holobiont Hydra. Plos One. 9: e109952. PMID 25343582 DOI: 10.1371/Journal.Pone.0109952  0.334
2014 Lim YW, Cuevas DA, Silva GG, Aguinaldo K, Dinsdale EA, Haas AF, Hatay M, Sanchez SE, Wegley-Kelly L, Dutilh BE, Harkins TT, Lee CC, Tom W, Sandin SA, Smith JE, ... ... Rohwer F, et al. Sequencing at sea: challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition. Peerj. 2: e520. PMID 25177534 DOI: 10.7717/Peerj.520  0.394
2014 Kelly LW, Williams GJ, Barott KL, Carlson CA, Dinsdale EA, Edwards RA, Haas AF, Haynes M, Lim YW, McDole T, Nelson CE, Sala E, Sandin SA, Smith JE, Vermeij MJ, ... ... Rohwer F, et al. Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. Proceedings of the National Academy of Sciences of the United States of America. 111: 10227-32. PMID 24982156 DOI: 10.1073/Pnas.1403319111  0.404
2014 Quinn RA, Lim YW, Maughan H, Conrad D, Rohwer F, Whiteson KL. Biogeochemical forces shape the composition and physiology of polymicrobial communities in the cystic fibrosis lung. Mbio. 5: e00956-13. PMID 24643867 DOI: 10.1128/Mbio.00956-13  0.388
2014 Lim YW, Evangelista JS, Schmieder R, Bailey B, Haynes M, Furlan M, Maughan H, Edwards R, Rohwer F, Conrad D. Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis. Journal of Clinical Microbiology. 52: 425-37. PMID 24478471 DOI: 10.1128/Jcm.02204-13  0.391
2014 Whiteson KL, Meinardi S, Lim YW, Schmieder R, Maughan H, Quinn R, Blake DR, Conrad D, Rohwer F. Breath gas metabolites and bacterial metagenomes from cystic fibrosis airways indicate active pH neutral 2,3-butanedione fermentation. The Isme Journal. 8: 1247-58. PMID 24401860 DOI: 10.1038/Ismej.2013.229  0.305
2014 Whiteson K, Lim YW, Quinn R, Meinardi S, Blake D, Conrad D, Rohwer F. Linking genetic potential and active metabolism in cystic fibrosis microbial communities to find biomarkers of disease state F1000research. 5. DOI: 10.7490/F1000Research.1097088.1  0.317
2014 Cuevas DA, Garza D, Sanchez SE, Rostron J, Henry CS, Vonstein V, Overbeek RA, Segall A, Rohwer F, Dinsdale EA, Edwards RA. Elucidating genomic gaps using phenotypic profiles F1000research. 3: 210. DOI: 10.12688/F1000Research.5140.1  0.325
2013 Reyes A, Wu M, McNulty NP, Rohwer FL, Gordon JI. Gnotobiotic mouse model of phage-bacterial host dynamics in the human gut. Proceedings of the National Academy of Sciences of the United States of America. 110: 20236-41. PMID 24259713 DOI: 10.1073/Pnas.1319470110  0.355
2013 Haas AF, Nelson CE, Rohwer F, Wegley-Kelly L, Quistad SD, Carlson CA, Leichter JJ, Hatay M, Smith JE. Influence of coral and algal exudates on microbially mediated reef metabolism. Peerj. 1: e108. PMID 23882445 DOI: 10.7717/Peerj.108  0.401
2013 Gregg A, Hatay M, Haas A, Robinett N, Barott K, Vermeij M, Marhaver K, Meirelles P, Thompson F, Rohwer F. Biological oxygen demand optode analysis of coral reef-associated microbial communities exposed to algal exudates. Peerj. 1: e107. PMID 23882444 DOI: 10.7717/Peerj.107  0.352
2013 Barr JJ, Auro R, Furlan M, Whiteson KL, Erb ML, Pogliano J, Stotland A, Wolkowicz R, Cutting AS, Doran KS, Salamon P, Youle M, Rohwer F. Bacteriophage adhering to mucus provide a non-host-derived immunity. Proceedings of the National Academy of Sciences of the United States of America. 110: 10771-6. PMID 23690590 DOI: 10.1073/Pnas.1305923110  0.343
2013 Marhaver KL, Vermeij MJ, Rohwer F, Sandin SA. Janzen-Connell effects in a broadcast-spawning Caribbean coral: distance-dependent survival of larvae and settlers. Ecology. 94: 146-60. PMID 23600249 DOI: 10.1890/12-0985.1  0.315
2013 Mokili JL, Dutilh BE, Lim YW, Schneider BS, Taylor T, Haynes MR, Metzgar D, Myers CA, Blair PJ, Nosrat B, Wolfe ND, Rohwer F. Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness. Plos One. 8: e58404. PMID 23554892 DOI: 10.1371/Journal.Pone.0058404  0.311
2013 Frank JA, Lorimer D, Youle M, Witte P, Craig T, Abendroth J, Rohwer F, Edwards RA, Segall AM, Burgin AB. Structure and function of a cyanophage-encoded peptide deformylase. The Isme Journal. 7: 1150-60. PMID 23407310 DOI: 10.1038/Ismej.2013.4  0.34
2013 Nelson CE, Goldberg SJ, Wegley Kelly L, Haas AF, Smith JE, Rohwer F, Carlson CA. Coral and macroalgal exudates vary in neutral sugar composition and differentially enrich reef bacterioplankton lineages. The Isme Journal. 7: 962-79. PMID 23303369 DOI: 10.1038/Ismej.2012.161  0.385
2013 Conrad D, Haynes M, Salamon P, Rainey PB, Youle M, Rohwer F. Cystic fibrosis therapy: a community ecology perspective. American Journal of Respiratory Cell and Molecular Biology. 48: 150-6. PMID 23103995 DOI: 10.1165/Rcmb.2012-0059Ps  0.398
2013 Lim YW, Schmieder R, Haynes M, Willner D, Furlan M, Youle M, Abbott K, Edwards R, Evangelista J, Conrad D, Rohwer F. Metagenomics and metatranscriptomics: windows on CF-associated viral and microbial communities. Journal of Cystic Fibrosis : Official Journal of the European Cystic Fibrosis Society. 12: 154-64. PMID 22951208 DOI: 10.1016/J.Jcf.2012.07.009  0.386
2012 Cassman N, Prieto-Davó A, Walsh K, Silva GG, Angly F, Akhter S, Barott K, Busch J, McDole T, Haggerty JM, Willner D, Alarcón G, Ulloa O, DeLong EF, Dutilh BE, ... Rohwer F, et al. Oxygen minimum zones harbour novel viral communities with low diversity. Environmental Microbiology. 14: 3043-65. PMID 23039259 DOI: 10.1111/J.1462-2920.2012.02891.X  0.451
2012 McDole T, Nulton J, Barott KL, Felts B, Hand C, Hatay M, Lee H, Nadon MO, Nosrat B, Salamon P, Bailey B, Sandin SA, Vargas-Angel B, Youle M, Zgliczynski BJ, ... ... Rohwer F, et al. Assessing coral reefs on a Pacific-wide scale using the microbialization score. Plos One. 7: e43233. PMID 22970122 DOI: 10.1371/Journal.Pone.0043233  0.38
2012 Reyes A, Semenkovich NP, Whiteson K, Rohwer F, Gordon JI. Going viral: next-generation sequencing applied to phage populations in the human gut. Nature Reviews. Microbiology. 10: 607-17. PMID 22864264 DOI: 10.1038/Nrmicro2853  0.418
2012 Youle M, Rohwer F, Stacy A, Whiteley M, Steel BC, Delalez NJ, Nord AL, Berry RM, Armitage JP, Kamoun S, Hogenhout S, Diggle SP, Gurney J, Pollitt EJ, Boetius A, et al. The Microbial Olympics. Nature Reviews. Microbiology. 10: 583-8. PMID 22796885 DOI: 10.1038/Nrmicro2837  0.306
2012 Mokili JL, Rohwer F, Dutilh BE. Metagenomics and future perspectives in virus discovery. Current Opinion in Virology. 2: 63-77. PMID 22440968 DOI: 10.1016/J.Coviro.2011.12.004  0.409
2012 Pride DT, Salzman J, Haynes M, Rohwer F, Davis-Long C, White RA, Loomer P, Armitage GC, Relman DA. Evidence of a robust resident bacteriophage population revealed through analysis of the human salivary virome. The Isme Journal. 6: 915-26. PMID 22158393 DOI: 10.1038/Ismej.2011.169  0.448
2012 Willner D, Haynes MR, Furlan M, Hanson N, Kirby B, Lim YW, Rainey PB, Schmieder R, Youle M, Conrad D, Rohwer F. Case studies of the spatial heterogeneity of DNA viruses in the cystic fibrosis lung. American Journal of Respiratory Cell and Molecular Biology. 46: 127-31. PMID 21980056 DOI: 10.1165/Rcmb.2011-0253Oc  0.334
2012 Kelly LW, Barott KL, Dinsdale E, Friedlander AM, Nosrat B, Obura D, Sala E, Sandin SA, Smith JE, Vermeij MJ, Williams GJ, Willner D, Rohwer F. Black reefs: iron-induced phase shifts on coral reefs. The Isme Journal. 6: 638-49. PMID 21881615 DOI: 10.1038/Ismej.2011.114  0.309
2012 Willner D, Haynes MR, Furlan M, Schmieder R, Lim YW, Rainey PB, Rohwer F, Conrad D. Spatial distribution of microbial communities in the cystic fibrosis lung. The Isme Journal. 6: 471-4. PMID 21796216 DOI: 10.1038/Ismej.2011.104  0.324
2012 Djamali E, Nulton JD, Turner PJ, Rohwer F, Salamon P. Heat output by marine microbial and viral communities Journal of Non-Equilibrium Thermodynamics. 37. DOI: 10.1515/Jnetdy-2011-0235  0.351
2011 Ghai R, Pašić L, Fernández AB, Martin-Cuadrado AB, Mizuno CM, McMahon KD, Papke RT, Stepanauskas R, Rodriguez-Brito B, Rohwer F, Sánchez-Porro C, Ventosa A, Rodríguez-Valera F. New abundant microbial groups in aquatic hypersaline environments. Scientific Reports. 1: 135. PMID 22355652 DOI: 10.1038/Srep00135  0.374
2011 Haas AF, Nelson CE, Wegley Kelly L, Carlson CA, Rohwer F, Leichter JJ, Wyatt A, Smith JE. Effects of coral reef benthic primary producers on dissolved organic carbon and microbial activity. Plos One. 6: e27973. PMID 22125645 DOI: 10.1371/Journal.Pone.0027973  0.355
2011 Ng TF, Willner DL, Lim YW, Schmieder R, Chau B, Nilsson C, Anthony S, Ruan Y, Rohwer F, Breitbart M. Broad surveys of DNA viral diversity obtained through viral metagenomics of mosquitoes. Plos One. 6: e20579. PMID 21674005 DOI: 10.1371/Journal.Pone.0020579  0.746
2011 Rohwer F, Youle M. Consider something viral in your research Nature Reviews Microbiology. 9: 308-309. PMID 21612126 DOI: 10.1038/Nrmicro2563  0.312
2011 Sharon I, Battchikova N, Aro EM, Giglione C, Meinnel T, Glaser F, Pinter RY, Breitbart M, Rohwer F, Béjà O. Comparative metagenomics of microbial traits within oceanic viral communities. The Isme Journal. 5: 1178-90. PMID 21307954 DOI: 10.1038/Ismej.2011.2  0.642
2011 Barott KL, Rodriguez-Brito B, JanouÅ¡kovec J, Marhaver KL, Smith JE, Keeling P, Rohwer FL. Microbial diversity associated with four functional groups of benthic reef algae and the reef-building coral Montastraea annularis. Environmental Microbiology. 13: 1192-204. PMID 21272183 DOI: 10.1111/J.1462-2920.2010.02419.X  0.302
2011 Alperovitch-Lavy A, Sharon I, Rohwer F, Aro EM, Glaser F, Milo R, Nelson N, Béjà O. Reconstructing a puzzle: existence of cyanophages containing both photosystem-I and photosystem-II gene suites inferred from oceanic metagenomic datasets. Environmental Microbiology. 13: 24-32. PMID 20649642 DOI: 10.1111/J.1462-2920.2010.02304.X  0.335
2011 Willner D, Furlan M, Schmieder R, Grasis JA, Pride DT, Relman DA, Angly FE, McDole T, Mariella RP, Rohwer F, Haynes M. Metagenomic detection of phage-encoded platelet-binding factors in the human oral cavity. Proceedings of the National Academy of Sciences of the United States of America. 108: 4547-53. PMID 20547834 DOI: 10.1073/Pnas.1000089107  0.452
2010 Reyes A, Haynes M, Hanson N, Angly FE, Heath AC, Rohwer F, Gordon JI. Viruses in the faecal microbiota of monozygotic twins and their mothers. Nature. 466: 334-8. PMID 20631792 DOI: 10.1038/Nature09199  0.468
2010 Schmieder R, Lim YW, Rohwer F, Edwards R. TagCleaner: Identification and removal of tag sequences from genomic and metagenomic datasets. Bmc Bioinformatics. 11: 341. PMID 20573248 DOI: 10.1186/1471-2105-11-341  0.34
2010 Rodriguez-Brito B, Li L, Wegley L, Furlan M, Angly F, Breitbart M, Buchanan J, Desnues C, Dinsdale E, Edwards R, Felts B, Haynes M, Liu H, Lipson D, Mahaffy J, ... ... Rohwer F, et al. Viral and microbial community dynamics in four aquatic environments. The Isme Journal. 4: 739-51. PMID 20147985 DOI: 10.1038/Ismej.2010.1  0.645
2010 Ng T, Willner D, Nilsson C, Lim Y, Schmieder R, Chau B, Ruan Y, Rohwer F, Breitbart M. Vector-based metagenomics for animal virus surveillance International Journal of Infectious Diseases. 14: e378. DOI: 10.1016/J.Ijid.2010.02.461  0.689
2009 Angly FE, Willner D, Prieto-Davó A, Edwards RA, Schmieder R, Vega-Thurber R, Antonopoulos DA, Barott K, Cottrell MT, Desnues C, Dinsdale EA, Furlan M, Haynes M, Henn MR, Hu Y, ... ... Rohwer F, et al. The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes. Plos Computational Biology. 5: e1000593. PMID 20011103 DOI: 10.1371/Journal.Pcbi.1000593  0.454
2009 Pasić L, Rodriguez-Mueller B, Martin-Cuadrado AB, Mira A, Rohwer F, Rodriguez-Valera F. Metagenomic islands of hyperhalophiles: the case of Salinibacter ruber. Bmc Genomics. 10: 570. PMID 19951421 DOI: 10.1186/1471-2164-10-570  0.371
2009 Rohwer F, Prangishvili D, Lindell D. Roles of viruses in the environment. Environmental Microbiology. 11: 2771-4. PMID 19878268 DOI: 10.1111/J.1462-2920.2009.02101.X  0.308
2009 Rodriguez-Valera F, Martin-Cuadrado AB, Rodriguez-Brito B, Pasić L, Thingstad TF, Rohwer F, Mira A. Explaining microbial population genomics through phage predation. Nature Reviews. Microbiology. 7: 828-36. PMID 19834481 DOI: 10.1038/Npre.2009.3489.1  0.375
2009 Willner D, Furlan M, Haynes M, Schmieder R, Angly FE, Silva J, Tammadoni S, Nosrat B, Conrad D, Rohwer F. Metagenomic analysis of respiratory tract DNA viral communities in cystic fibrosis and non-cystic fibrosis individuals. Plos One. 4: e7370. PMID 19816605 DOI: 10.1371/Journal.Pone.0007370  0.41
2009 Sharon I, Alperovitch A, Rohwer F, Haynes M, Glaser F, Atamna-Ismaeel N, Pinter RY, Partensky F, Koonin EV, Wolf YI, Nelson N, Béjà O. Photosystem I gene cassettes are present in marine virus genomes. Nature. 461: 258-62. PMID 19710652 DOI: 10.1038/Nature08284  0.394
2009 Angly F, Youle M, Nosrat B, Srinagesh S, Rodriguez-Brito B, McNairnie P, Deyanat-Yazdi G, Breitbart M, Rohwer F. Genomic analysis of multiple Roseophage SIO1 strains. Environmental Microbiology. 11: 2863-73. PMID 19659499 DOI: 10.1111/J.1462-2920.2009.02021.X  0.615
2009 Rohwer F, Thurber RV. Viruses manipulate the marine environment. Nature. 459: 207-12. PMID 19444207 DOI: 10.1038/Nature08060  0.386
2009 Thurber RV, Willner-Hall D, Rodriguez-Mueller B, Desnues C, Edwards RA, Angly F, Dinsdale E, Kelly L, Rohwer F. Metagenomic analysis of stressed coral holobionts Environmental Microbiology. 11: 2148-2163. PMID 19397678 DOI: 10.1111/J.1462-2920.2009.01935.X  0.403
2009 Willner D, Thurber RV, Rohwer F. Metagenomic signatures of 86 microbial and viral metagenomes. Environmental Microbiology. 11: 1752-66. PMID 19302541 DOI: 10.1111/J.1462-2920.2009.01901.X  0.452
2009 Thurber RV, Haynes M, Breitbart M, Wegley L, Rohwer F. Laboratory procedures to generate viral metagenomes. Nature Protocols. 4: 470-83. PMID 19300441 DOI: 10.1038/Nprot.2009.10  0.602
2009 Breitbart M, Hoare A, Nitti A, Siefert J, Haynes M, Dinsdale E, Edwards R, Souza V, Rohwer F, Hollander D. Metagenomic and stable isotopic analyses of modern freshwater microbialites in Cuatro Ciénegas, Mexico. Environmental Microbiology. 11: 16-34. PMID 18764874 DOI: 10.1111/J.1462-2920.2008.01725.X  0.642
2009 Smarr L, Gilna P, Papadopoulos P, DeFanti TA, Hidley G, Wooley J, Virginia Armbrust E, Rohwer F, Frost E. Building an OptIPlanet collaboratory to support microbial metagenomics Future Generation Computer Systems. 25: 124-131. DOI: 10.1016/J.Future.2008.06.009  0.36
2008 Vega Thurber RL, Barott KL, Hall D, Liu H, Rodriguez-Mueller B, Desnues C, Edwards RA, Haynes M, Angly FE, Wegley L, Rohwer FL. Metagenomic analysis indicates that stressors induce production of herpes-like viruses in the coral Porites compressa. Proceedings of the National Academy of Sciences of the United States of America. 105: 18413-8. PMID 19017800 DOI: 10.1073/Pnas.0808985105  0.303
2008 McDaniel L, Breitbart M, Mobberley J, Long A, Haynes M, Rohwer F, Paul JH. Metagenomic analysis of lysogeny in Tampa Bay: implications for prophage gene expression. Plos One. 3: e3263. PMID 18810270 DOI: 10.1371/Journal.Pone.0003263  0.608
2008 Breitbart M, Haynes M, Kelley S, Angly F, Edwards RA, Felts B, Mahaffy JM, Mueller J, Nulton J, Rayhawk S, Rodriguez-Brito B, Salamon P, Rohwer F. Viral diversity and dynamics in an infant gut. Research in Microbiology. 159: 367-73. PMID 18541415 DOI: 10.1016/J.Resmic.2008.04.006  0.625
2008 Marhaver KL, Edwards RA, Rohwer F. Viral communities associated with healthy and bleaching corals Environmental Microbiology. 10: 2277-2286. PMID 18479440 DOI: 10.1111/J.1462-2920.2008.01652.X  0.474
2008 Tringe SG, Zhang T, Liu X, Yu Y, Lee WH, Yap J, Yao F, Suan ST, Ing SK, Haynes M, Rohwer F, Wei CL, Tan P, Bristow J, Rubin EM, et al. The airborne metagenome in an indoor urban environment. Plos One. 3: e1862. PMID 18382653 DOI: 10.1371/Journal.Pone.0001862  0.37
2008 Dinsdale EA, Edwards RA, Hall D, Angly F, Breitbart M, Brulc JM, Furlan M, Desnues C, Haynes M, Li L, McDaniel L, Moran MA, Nelson KE, Nilsson C, Olson R, ... ... Rohwer F, et al. Functional metagenomic profiling of nine biomes. Nature. 452: 629-32. PMID 18337718 DOI: 10.1038/Nature06810  0.621
2008 Desnues C, Rodriguez-Brito B, Rayhawk S, Kelley S, Tran T, Haynes M, Liu H, Furlan M, Wegley L, Chau B, Ruan Y, Hall D, Angly FE, Edwards RA, Li L, ... ... Rohwer F, et al. Biodiversity and biogeography of phages in modern stromatolites and thrombolites. Nature. 452: 340-3. PMID 18311127 DOI: 10.1038/Nature06735  0.671
2008 Dinsdale EA, Pantos O, Smriga S, Edwards RA, Angly F, Wegley L, Hatay M, Hall D, Brown E, Haynes M, Krause L, Sala E, Sandin SA, Thurber RV, Willis BL, ... ... Rohwer F, et al. Microbial ecology of four coral atolls in the Northern Line Islands. Plos One. 3: e1584. PMID 18301735 DOI: 10.1371/Journal.Pone.0001584  0.436
2008 Sandin SA, Smith JE, Demartini EE, Dinsdale EA, Donner SD, Friedlander AM, Konotchick T, Malay M, Maragos JE, Obura D, Pantos O, Paulay G, Richie M, Rohwer F, Schroeder RE, et al. Baselines and degradation of coral reefs in the Northern Line Islands. Plos One. 3: e1548. PMID 18301734 DOI: 10.1371/Journal.Pone.0001548  0.32
2008 Krause L, Diaz NN, Goesmann A, Kelley S, Nattkemper TW, Rohwer F, Edwards RA, Stoye J. Phylogenetic classification of short environmental DNA fragments. Nucleic Acids Research. 36: 2230-9. PMID 18285365 DOI: 10.1093/Nar/Gkn038  0.382
2008 Kunin V, He S, Warnecke F, Peterson SB, Garcia Martin H, Haynes M, Ivanova N, Blackall LL, Breitbart M, Rohwer F, McMahon KD, Hugenholtz P. A bacterial metapopulation adapts locally to phage predation despite global dispersal. Genome Research. 18: 293-7. PMID 18077539 DOI: 10.1101/Gr.6835308  0.631
2008 Wegley L, Edwards R, Rodriguez-Brito B, Liu H, Rohwer F. Metagenomic analysis of the microbial community associated with the coral Porites astreoides. Environmental Microbiology. 9: 2707-19. PMID 17922755 DOI: 10.1111/J.1462-2920.2007.01383.X  0.461
2008 Dinsdale EA, Edwards RA, Hall D, Angly F, Breitbart M, Brulc JM, Furlan M, Desnues C, Haynes M, Li L, McDaniel L, Moran MA, Nelson KE, Nilsson C, Olson R, ... ... Rohwer F, et al. Functional metagenomic profiling of nine biomes (Nature (2008) 452, (629-632 )) Nature. 455: 830. DOI: 10.1038/Nature07346  0.545
2008 Breitbart M, Middelboe M, Rohwer F. Marine Viruses: Community Dynamics, Diversity and Impact on Microbial Processes Microbial Ecology of the Oceans: Second Edition. 443-479. DOI: 10.1002/9780470281840.ch12  0.58
2007 Fierer N, Breitbart M, Nulton J, Salamon P, Lozupone C, Jones R, Robeson M, Edwards RA, Felts B, Rayhawk S, Knight R, Rohwer F, Jackson RB. Metagenomic and small-subunit rRNA analyses reveal the genetic diversity of bacteria, archaea, fungi, and viruses in soil. Applied and Environmental Microbiology. 73: 7059-66. PMID 17827313 DOI: 10.1128/Aem.00358-07  0.61
2007 Beman JM, Roberts KJ, Wegley L, Rohwer F, Francis CA. Distribution and diversity of archaeal ammonia monooxygenase genes associated with corals. Applied and Environmental Microbiology. 73: 5642-7. PMID 17586663 DOI: 10.1128/Aem.00461-07  0.427
2007 Hoffmann KH, Rodriguez-Brito B, Breitbart M, Bangor D, Angly F, Felts B, Nulton J, Rohwer F, Salamon P. Power law rank-abundance models for marine phage communities. Fems Microbiology Letters. 273: 224-8. PMID 17559407 DOI: 10.1111/J.1574-6968.2007.00790.X  0.566
2007 Johnston IS, Rohwer F. Microbial landscapes on the outer tissue surfaces of the reef-building coral Porites compressa Coral Reefs. 26: 375-383. DOI: 10.1007/S00338-007-0208-Z  0.316
2006 Angly FE, Felts B, Breitbart M, Salamon P, Edwards RA, Carlson C, Chan AM, Haynes M, Kelley S, Liu H, Mahaffy JM, Mueller JE, Nulton J, Olson R, Parsons R, ... ... Rohwer F, et al. The marine viromes of four oceanic regions. Plos Biology. 4: e368. PMID 17090214 DOI: 10.1371/Journal.Pbio.0040368  0.63
2006 Krause L, Diaz NN, Bartels D, Edwards RA, Pühler A, Rohwer F, Meyer F, Stoye J. Finding novel genes in bacterial communities isolated from the environment. Bioinformatics (Oxford, England). 22: e281-9. PMID 16873483 DOI: 10.1093/Bioinformatics/Btl247  0.383
2006 Casas V, Miyake J, Balsley H, Roark J, Telles S, Leeds S, Zurita I, Breitbart M, Bartlett D, Azam F, Rohwer F. Widespread occurrence of phage-encoded exotoxin genes in terrestrial and aquatic environments in Southern California. Fems Microbiology Letters. 261: 141-9. PMID 16842371 DOI: 10.1111/J.1574-6968.2006.00345.X  0.593
2006 Edwards RA, Rodriguez-Brito B, Wegley L, Haynes M, Breitbart M, Peterson DM, Saar MO, Alexander S, Alexander EC, Rohwer F. Using pyrosequencing to shed light on deep mine microbial ecology. Bmc Genomics. 7: 57. PMID 16549033 DOI: 10.1186/1471-2164-7-57  0.599
2006 Rodriguez-Brito B, Rohwer F, Edwards RA. An application of statistics to comparative metagenomics. Bmc Bioinformatics. 7: 162. PMID 16549025 DOI: 10.1186/1471-2105-7-162  0.437
2006 Yu Y, Breitbart M, McNairnie P, Rohwer F. FastGroupII: a web-based bioinformatics platform for analyses of large 16S rDNA libraries. Bmc Bioinformatics. 7: 57. PMID 16464253 DOI: 10.1186/1471-2105-7-57  0.584
2006 Zhang T, Breitbart M, Lee WH, Run JQ, Wei CL, Soh SW, Hibberd ML, Liu ET, Rohwer F, Ruan Y. RNA viral community in human feces: prevalence of plant pathogenic viruses. Plos Biology. 4: e3. PMID 16336043 DOI: 10.1371/Journal.Pbio.0040003  0.604
2006 Kline DI, Kuntz NM, Breitbart M, Knowlton N, Rohwer F. Role of elevated organic carbon levels and microbial activity in coral mortality Marine Ecology Progress Series. 314: 119-125. DOI: 10.3354/Meps314119  0.544
2005 Breitbart M, Rohwer F. Method for discovering novel DNA viruses in blood using viral particle selection and shotgun sequencing. Biotechniques. 39: 729-36. PMID 16312220 DOI: 10.2144/000112019  0.592
2005 Breitbart M, Rohwer F. Here a virus, there a virus, everywhere the same virus? Trends in Microbiology. 13: 278-84. PMID 15936660 DOI: 10.1016/J.Tim.2005.04.003  0.58
2005 Edwards RA, Rohwer F. Viral metagenomics. Nature Reviews. Microbiology. 3: 504-10. PMID 15886693 DOI: 10.1038/nrmicro1163  0.379
2005 Purdy A, Rohwer F, Edwards R, Azam F, Bartlett DH. A glimpse into the expanded genome content of Vibrio cholerae through identification of genes present in environmental strains. Journal of Bacteriology. 187: 2992-3001. PMID 15838025 DOI: 10.1128/Jb.187.9.2992-3001.2005  0.365
2005 Sullivan MB, Coleman ML, Weigele P, Rohwer F, Chisholm SW. Three Prochlorococcus cyanophage genomes: signature features and ecological interpretations. Plos Biology. 3: e144. PMID 15828858 DOI: 10.1371/Journal.Pbio.0030144  0.387
2005 Angly F, Rodriguez-Brito B, Bangor D, McNairnie P, Breitbart M, Salamon P, Felts B, Nulton J, Mahaffy J, Rohwer F. PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information. Bmc Bioinformatics. 6: 41. PMID 15743531 DOI: 10.1186/1471-2105-6-41  0.66
2005 Adhya S, Black L, Friedman D, Hatfull G, Kreuzer K, Merril C, Oppenheim A, Rohwer F, Young R. 2004 ASM Conference on the New Phage Biology: the 'Phage Summit'. Molecular Microbiology. 55: 1300-14. PMID 15720541 DOI: 10.1111/J.1365-2958.2005.04509.X  0.312
2005 Breitbart M, Bhagooli R, Griffin S, Johnston I, Rohwer F. Microbial communities associated with skeletal tumors on Porites compressa. Fems Microbiology Letters. 243: 431-6. PMID 15686846 DOI: 10.1016/J.Femsle.2005.01.004  0.566
2004 Casas V, Kline DI, Wegley L, Yu Y, Breitbart M, Rohwer F. Widespread association of a Rickettsiales-like bacterium with reef-building corals. Environmental Microbiology. 6: 1137-48. PMID 15479247 DOI: 10.1111/J.1462-2920.2004.00647.X  0.606
2004 Sano E, Carlson S, Wegley L, Rohwer F. Movement of viruses between biomes. Applied and Environmental Microbiology. 70: 5842-6. PMID 15466522 DOI: 10.1128/Aem.70.10.5842-5846.2004  0.368
2004 Lindell D, Sullivan MB, Johnson ZI, Tolonen AC, Rohwer F, Chisholm SW. Transfer of photosynthesis genes to and from Prochlorococcus viruses. Proceedings of the National Academy of Sciences of the United States of America. 101: 11013-8. PMID 15256601 DOI: 10.1073/Pnas.0401526101  0.348
2004 Breitbart M, Miyake JH, Rohwer F. Global distribution of nearly identical phage-encoded DNA sequences. Fems Microbiology Letters. 236: 249-56. PMID 15251204 DOI: 10.1111/J.1574-6968.2004.Tb09654.X  0.643
2004 Breitbart M, Felts B, Kelley S, Mahaffy JM, Nulton J, Salamon P, Rohwer F. Diversity and population structure of a near-shore marine-sediment viral community. Proceedings. Biological Sciences / the Royal Society. 271: 565-74. PMID 15156913 DOI: 10.1098/Rspb.2003.2628  0.664
2004 Breitbart M, Wegley L, Leeds S, Schoenfeld T, Rohwer F. Phage community dynamics in hot springs. Applied and Environmental Microbiology. 70: 1633-40. PMID 15006788 DOI: 10.1128/Aem.70.3.1633-1640.2004  0.63
2004 Wegley L, Yu Y, Breitbart M, Casas V, Kline DI, Rohwer F. Coral-associated Archaea Marine Ecology Progress Series. 273: 89-96. DOI: 10.3354/Meps273089  0.606
2003 Mosier-Boss PA, Lieberman SH, Andrews JM, Rohwer FL, Wegley LE, Breitbart M. Use of fluorescently labeled phage in the detection and identification of bacterial species. Applied Spectroscopy. 57: 1138-44. PMID 14611044 DOI: 10.1366/00037020360696008  0.585
2003 Knowlton N, Rohwer F. Multispecies microbial mutualisms on coral reefs: the host as a habitat. The American Naturalist. 162: S51-62. PMID 14583857 DOI: 10.1086/378684  0.366
2003 Seguritan V, Feng IW, Rohwer F, Swift M, Segall AM. Genome sequences of two closely related Vibrio parahaemolyticus phages, VP16T and VP16C. Journal of Bacteriology. 185: 6434-47. PMID 14563879 DOI: 10.1128/Jb.185.21.6434-6447.2003  0.39
2003 Breitbart M, Hewson I, Felts B, Mahaffy JM, Nulton J, Salamon P, Rohwer F. Metagenomic analyses of an uncultured viral community from human feces. Journal of Bacteriology. 185: 6220-3. PMID 14526037 DOI: 10.1128/Jb.185.20.6220-6223.2003  0.646
2003 Rohwer F. Global Phage Diversity Cell. 113: 141-141. PMID 12705861 DOI: 10.1016/S0092-8674(03)00276-9  0.348
2003 Fung MM, Rohwer F, McGuire KL. IL-2 activation of a PI3K-dependent STAT3 serine phosphorylation pathway in primary human T cells. Cellular Signalling. 15: 625-36. PMID 12681450 DOI: 10.1016/S0898-6568(03)00003-2  0.574
2002 Paul JH, Sullivan MB, Segall AM, Rohwer F. Marine phage genomics. Comparative Biochemistry and Physiology. Part B, Biochemistry & Molecular Biology. 133: 463-76. PMID 12470812 DOI: 10.1016/S1096-4959(02)00168-9  0.445
2002 Breitbart M, Salamon P, Andresen B, Mahaffy JM, Segall AM, Mead D, Azam F, Rohwer F. Genomic analysis of uncultured marine viral communities. Proceedings of the National Academy of Sciences of the United States of America. 99: 14250-5. PMID 12384570 DOI: 10.1073/Pnas.202488399  0.669
2002 Rohwer F, Edwards R. The Phage Proteomic Tree: a genome-based taxonomy for phage. Journal of Bacteriology. 184: 4529-35. PMID 12142423 DOI: 10.1128/Jb.184.16.4529-4535.2002  0.394
2002 Hagström Å, Pommier T, Rohwer F, Simu K, Stolte W, Svensson D, Zweifel UL. Use of 16S Ribosomal DNA for Delineation of Marine Bacterioplankton Species Applied and Environmental Microbiology. 68: 3628-3633. PMID 12089052 DOI: 10.1128/Aem.68.7.3628-3633.2002  0.389
2002 Rohwer F, Seguritan V, Azam F, Knowlton N. Diversity and distribution of coral-associated bacteria Marine Ecology Progress Series. 243: 1-10. DOI: 10.3354/Meps243001  0.44
2001 Seguritan V, Rohwer F. FastGroup: a program to dereplicate libraries of 16S rDNA sequences. Bmc Bioinformatics. 2: 9. PMID 11707150 DOI: 10.1186/1471-2105-2-9  0.331
2001 Rohwer F, Seguritan V, Choi DH, Segall AM, Azam F. Production of shotgun libraries using random amplification Biotechniques. 31: 108-118. PMID 11464504 DOI: 10.2144/01311Rr02  0.346
2001 Rohwer F, Breitbart M, Jara J, Azam F, Knowlton N. Diversity of bacteria associated with the Caribbean coral Montastraea franksi Coral Reefs. 20: 85-91. DOI: 10.1007/S003380100138  0.55
2000 Rohwer F, Segall A, Steward G, Seguritan V, Breitbart M, Wolven F, Farooq Azam F. The complete genomic sequence of the marine phage Roseophage SIO1 shares homology with nonmarine phages Limnology and Oceanography. 45: 408-418. DOI: 10.4319/Lo.2000.45.2.0408  0.612
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