Year |
Citation |
Score |
2022 |
Rasmussen AN, Francis CA. Genome-Resolved Metagenomic Insights into Massive Seasonal Ammonia-Oxidizing Archaea Blooms in San Francisco Bay. Msystems. e0127021. PMID 35076275 DOI: 10.1128/msystems.01270-21 |
0.368 |
|
2021 |
Reji L, Cardarelli EL, Boye K, Bargar JR, Francis CA. Diverse ecophysiological adaptations of subsurface Thaumarchaeota in floodplain sediments revealed through genome-resolved metagenomics. The Isme Journal. PMID 34873295 DOI: 10.1038/s41396-021-01167-7 |
0.356 |
|
2020 |
Cardarelli EL, Bargar JR, Francis CA. Diverse Thaumarchaeota Dominate Subsurface Ammonia-oxidizing Communities in Semi-arid Floodplains in the Western United States. Microbial Ecology. PMID 32535638 DOI: 10.1007/S00248-020-01534-5 |
0.512 |
|
2020 |
Reji L, Tolar BB, Chavez FP, Francis CA. Depth-Differentiation and Seasonality of Planktonic Microbial Assemblages in the Monterey Bay Upwelling System. Frontiers in Microbiology. 11: 1075. PMID 32523584 DOI: 10.3389/Fmicb.2020.01075 |
0.417 |
|
2020 |
Reji L, Francis CA. Metagenome-assembled genomes reveal unique metabolic adaptations of a basal marine Thaumarchaeota lineage. The Isme Journal. PMID 32405026 DOI: 10.1038/S41396-020-0675-6 |
0.379 |
|
2020 |
Tolar BB, Boye K, Bobb C, Maher K, Bargar JR, Francis CA. Stability of Floodplain Subsurface Microbial Communities Through Seasonal Hydrological and Geochemical Cycles Frontiers in Earth Science. 8. DOI: 10.3389/Feart.2020.00338 |
0.417 |
|
2019 |
Reji L, Tolar BB, Smith JM, Chavez FP, Francis CA. Depth distributions of Nitrite Reductase (nirK) Gene Variants Reveal Spatial Dynamics of Thaumarchaeal Ecotype Populations in Coastal Monterey Bay. Environmental Microbiology. PMID 31330081 DOI: 10.1111/1462-2920.14753 |
0.391 |
|
2019 |
Reji L, Tolar BB, Smith JM, Chavez FP, Francis CA. Differential co-occurrence relationships shaping ecotype diversification within Thaumarchaeota populations in the coastal ocean water column. The Isme Journal. PMID 30610232 DOI: 10.1038/S41396-018-0311-X |
0.394 |
|
2018 |
Damashek J, Francis CA. Microbial Nitrogen Cycling in Estuaries: From Genes to Ecosystem Processes Estuaries and Coasts. 41: 626-660. DOI: 10.1007/S12237-017-0306-2 |
0.399 |
|
2017 |
Lee JA, Francis CA. Deep nirS amplicon sequencing of San Francisco Bay sediments enables prediction of geography and environmental conditions from denitrifying community composition. Environmental Microbiology. PMID 28892301 DOI: 10.1111/1462-2920.13920 |
0.42 |
|
2017 |
Tolar BB, Herrmann J, Bargar JR, van den Bedem H, Wakatsuki S, Francis CA. Integrated Structural Biology and Molecular Ecology of N-cycling Enzymes from Ammonia-Oxidizing Archaea. Environmental Microbiology Reports. PMID 28677304 DOI: 10.1111/1758-2229.12567 |
0.381 |
|
2017 |
Peay KG, von Sperber C, Cardarelli E, Toju H, Francis CA, Chadwick OA, Vitousek PM. Convergence and contrast in the community structure of Bacteria, Fungi and Archaea along a tropical elevation-climate gradient. Fems Microbiology Ecology. PMID 28402397 DOI: 10.1093/Femsec/Fix045 |
0.408 |
|
2017 |
von Sperber C, Chadwick OA, Casciotti KL, Peay KG, Francis CA, Kim AE, Vitousek PM. Controls of nitrogen cycling evaluated along a well-characterized climate gradient. Ecology. PMID 28130777 DOI: 10.1002/Ecy.1751 |
0.32 |
|
2017 |
Damashek J, Pettie K, Brown Z, Mills M, Arrigo K, Francis C. Regional patterns in ammonia-oxidizing communities throughout Chukchi Sea waters from the Bering Strait to the Beaufort Sea Aquatic Microbial Ecology. 79: 273-286. DOI: 10.3354/Ame01834 |
0.402 |
|
2016 |
Lee JA, Francis CA. Spatiotemporal Characterization of San Francisco Bay Denitrifying Communities: a Comparison of nirK and nirS Diversity and Abundance. Microbial Ecology. PMID 27709247 DOI: 10.1007/S00248-016-0865-Y |
0.447 |
|
2016 |
Damashek J, Casciotti KL, Francis CA. Variable Nitrification Rates Across Environmental Gradients in Turbid, Nutrient-Rich Estuary Waters of San Francisco Bay Estuaries and Coasts. 39: 1050-1071. DOI: 10.1007/S12237-016-0071-7 |
0.391 |
|
2015 |
Ying SC, Damashek J, Fendorf S, Francis CA. Indigenous arsenic(V)-reducing microbial communities in redox-fluctuating near-surface sediments of the Mekong Delta. Geobiology. 13: 581-7. PMID 26466963 DOI: 10.1111/Gbi.12152 |
0.741 |
|
2015 |
Smith JM, Mosier AC, Francis CA. Spatiotemporal relationships between the abundance, distribution, and potential activities of ammonia-oxidizing and denitrifying microorganisms in intertidal sediments. Microbial Ecology. 69: 13-24. PMID 25038845 DOI: 10.1007/S00248-014-0450-1 |
0.509 |
|
2015 |
Smith JM, Damashek J, Chavez FP, Francis CA. Factors influencing nitrification rates and the abundance and transcriptional activity of ammonia-oxidizing microorganisms in the dark northeast Pacific Ocean Limnology and Oceanography. DOI: 10.1002/Lno.10235 |
0.461 |
|
2014 |
Damashek J, Smith JM, Mosier AC, Francis CA. Benthic ammonia oxidizers differ in community structure and biogeochemical potential across a riverine delta. Frontiers in Microbiology. 5: 743. PMID 25620958 DOI: 10.3389/Fmicb.2014.00743 |
0.499 |
|
2014 |
Smith JM, Chavez FP, Francis CA. Ammonium uptake by phytoplankton regulates nitrification in the sunlit ocean. Plos One. 9: e108173. PMID 25251022 DOI: 10.1371/Journal.Pone.0108173 |
0.406 |
|
2014 |
Wells GF, Wu CH, Piceno YM, Eggleston B, Brodie EL, Desantis TZ, Andersen GL, Hazen TC, Francis CA, Criddle CS. Microbial biogeography across a full-scale wastewater treatment plant transect: evidence for immigration between coupled processes. Applied Microbiology and Biotechnology. 98: 4723-36. PMID 24553968 DOI: 10.1007/S00253-014-5564-3 |
0.33 |
|
2014 |
Smith JM, Casciotti KL, Chavez FP, Francis CA. Differential contributions of archaeal ammonia oxidizer ecotypes to nitrification in coastal surface waters. The Isme Journal. 8: 1704-14. PMID 24553472 DOI: 10.1038/Ismej.2014.11 |
0.425 |
|
2013 |
Francis CA, O'Mullan GD, Cornwell JC, Ward BB. Transitions in nirS-type denitrifier diversity, community composition, and biogeochemical activity along the Chesapeake Bay estuary. Frontiers in Microbiology. 4: 237. PMID 24009603 DOI: 10.3389/Fmicb.2013.00237 |
0.437 |
|
2013 |
Yeung CH, Francis CA, Criddle CS. Adaptation of nitrifying microbial biomass to nickel in batch incubations. Applied Microbiology and Biotechnology. 97: 847-57. PMID 22374414 DOI: 10.1007/S00253-012-3947-X |
0.337 |
|
2013 |
Santoro AE, Sakamoto CM, Smith JM, Plant JN, Gehman AL, Worden AZ, Johnson KS, Francis CA, Casciotti KL. Measurements of nitrite production and nitrite-producing organisms in and around the primary nitrite maximum in the central California Current Biogeosciences Discussions. 10: 5803-5840. DOI: 10.5194/Bgd-10-5803-2013 |
0.458 |
|
2013 |
Santoro AE, Sakamoto CM, Smith JM, Plant JN, Gehman AL, Worden AZ, Johnson KS, Francis CA, Casciotti KL. Measurements of nitrite production in and around the primary nitrite maximum in the central California Current Biogeosciences. 10: 7395-7410. DOI: 10.5194/Bg-10-7395-2013 |
0.424 |
|
2013 |
Ying SC, Masue-Slowey Y, Kocar BD, Griffis SD, Webb S, Marcus MA, Francis CA, Fendorf S. Distributed microbially- and chemically-mediated redox processes controlling arsenic dynamics within Mn-/Fe-oxide constructed aggregates Geochimica Et Cosmochimica Acta. 104: 29-41. DOI: 10.1016/J.Gca.2012.08.020 |
0.725 |
|
2012 |
Biller SJ, Mosier AC, Wells GF, Francis CA. Global Biodiversity of Aquatic Ammonia-Oxidizing Archaea is Partitioned by Habitat. Frontiers in Microbiology. 3: 252. PMID 22826704 DOI: 10.3389/Fmicb.2012.00252 |
0.42 |
|
2012 |
Mosier AC, Lund MB, Francis CA. Ecophysiology of an ammonia-oxidizing archaeon adapted to low-salinity habitats. Microbial Ecology. 64: 955-63. PMID 22644483 DOI: 10.1007/S00248-012-0075-1 |
0.416 |
|
2012 |
Lund MB, Smith JM, Francis CA. Diversity, abundance and expression of nitrite reductase (nirK)-like genes in marine thaumarchaea. The Isme Journal. 6: 1966-77. PMID 22592819 DOI: 10.1038/Ismej.2012.40 |
0.47 |
|
2012 |
Mosier AC, Allen EE, Kim M, Ferriera S, Francis CA. Genome sequence of "Candidatus Nitrosopumilus salaria" BD31, an ammonia-oxidizing archaeon from the San Francisco Bay estuary. Journal of Bacteriology. 194: 2121-2. PMID 22461555 DOI: 10.1128/Jb.00013-12 |
0.4 |
|
2012 |
Mosier AC, Allen EE, Kim M, Ferriera S, Francis CA. Genome sequence of "Candidatus Nitrosoarchaeum limnia" BG20, a low-salinity ammonia-oxidizing archaeon from the San Francisco Bay estuary. Journal of Bacteriology. 194: 2119-20. PMID 22461554 DOI: 10.1128/Jb.00007-12 |
0.389 |
|
2012 |
Robidart JC, Preston CM, Paerl RW, Turk KA, Mosier AC, Francis CA, Scholin CA, Zehr JP. Seasonal Synechococcus and Thaumarchaeal population dynamics examined with high resolution with remote in situ instrumentation. The Isme Journal. 6: 513-23. PMID 21975596 DOI: 10.1038/Ismej.2011.127 |
0.386 |
|
2011 |
Wells GF, Park HD, Eggleston B, Francis CA, Criddle CS. Fine-scale bacterial community dynamics and the taxa-time relationship within a full-scale activated sludge bioreactor. Water Research. 45: 5476-88. PMID 21875739 DOI: 10.1016/J.Watres.2011.08.006 |
0.372 |
|
2011 |
Pitcher A, Hopmans EC, Mosier AC, Park SJ, Rhee SK, Francis CA, Schouten S, Sinninghe Damsté JS. Core and intact polar glycerol dibiphytanyl glycerol tetraether lipids of ammonia-oxidizing Archaea enriched from marine and estuarine sediments Applied and Environmental Microbiology. 77: 3468-3477. PMID 21441324 DOI: 10.1128/Aem.02758-10 |
0.355 |
|
2011 |
Blainey PC, Mosier AC, Potanina A, Francis CA, Quake SR. Genome of a low-salinity ammonia-oxidizing archaeon determined by single-cell and metagenomic analysis. Plos One. 6: e16626. PMID 21364937 DOI: 10.1371/Journal.Pone.0016626 |
0.364 |
|
2011 |
Mosier AC, Francis CA. Determining the distribution of marine and coastal ammonia-oxidizing archaea and bacteria using a quantitative approach. Methods in Enzymology. 486: 205-21. PMID 21185437 DOI: 10.1016/B978-0-12-381294-0.00009-2 |
0.453 |
|
2011 |
Wankel SD, Mosier AC, Hansel CM, Paytan A, Francis CA. Spatial variability in nitrification rates and ammonia-oxidizing microbial communities in the agriculturally impacted Elkhorn Slough estuary, California. Applied and Environmental Microbiology. 77: 269-80. PMID 21057023 DOI: 10.1128/Aem.01318-10 |
0.505 |
|
2010 |
Mosier AC, Francis CA. Denitrifier abundance and activity across the San Francisco Bay estuary. Environmental Microbiology Reports. 2: 667-76. PMID 23766254 DOI: 10.1111/J.1758-2229.2010.00156.X |
0.441 |
|
2010 |
Ofiteru ID, Lunn M, Curtis TP, Wells GF, Criddle CS, Francis CA, Sloan WT. Combined niche and neutral effects in a microbial wastewater treatment community. Proceedings of the National Academy of Sciences of the United States of America. 107: 15345-50. PMID 20705897 DOI: 10.1073/Pnas.1000604107 |
0.371 |
|
2010 |
Santoro AE, Casciotti KL, Francis CA. Activity, abundance and diversity of nitrifying archaea and bacteria in the central California Current. Environmental Microbiology. 12: 1989-2006. PMID 20345944 DOI: 10.1111/J.1462-2920.2010.02205.X |
0.412 |
|
2010 |
Reed DW, Smith JM, Francis CA, Fujita Y. Responses of ammonia-oxidizing bacterial and archaeal populations to organic nitrogen amendments in low-nutrient groundwater. Applied and Environmental Microbiology. 76: 2517-23. PMID 20190081 DOI: 10.1128/Aem.02436-09 |
0.471 |
|
2009 |
Wells GF, Park HD, Yeung CH, Eggleston B, Francis CA, Criddle CS. Ammonia-oxidizing communities in a highly aerated full-scale activated sludge bioreactor: betaproteobacterial dynamics and low relative abundance of Crenarchaea. Environmental Microbiology. 11: 2310-28. PMID 19515200 DOI: 10.1111/J.1462-2920.2009.01958.X |
0.435 |
|
2008 |
Bulow SE, Francis CA, Jackson GA, Ward BB. Sediment denitrifier community composition and nirS gene expression investigated with functional gene microarrays. Environmental Microbiology. 10: 3057-69. PMID 18973624 DOI: 10.1111/J.1462-2920.2008.01765.X |
0.372 |
|
2008 |
Mosier AC, Francis CA. Relative abundance and diversity of ammonia-oxidizing archaea and bacteria in the San Francisco Bay estuary. Environmental Microbiology. 10: 3002-16. PMID 18973621 DOI: 10.1111/J.1462-2920.2008.01764.X |
0.439 |
|
2008 |
Santoro AE, Francis CA, de Sieyes NR, Boehm AB. Shifts in the relative abundance of ammonia-oxidizing bacteria and archaea across physicochemical gradients in a subterranean estuary. Environmental Microbiology. 10: 1068-79. PMID 18266758 DOI: 10.1111/J.1462-2920.2007.01547.X |
0.44 |
|
2008 |
Beman JM, Popp BN, Francis CA. Molecular and biogeochemical evidence for ammonia oxidation by marine Crenarchaeota in the Gulf of California. The Isme Journal. 2: 429-41. PMID 18200070 DOI: 10.1038/Ismej.2007.118 |
0.48 |
|
2008 |
Hansel CM, Fendorf S, Jardine PM, Francis CA. Changes in bacterial and archaeal community structure and functional diversity along a geochemically variable soil profile. Applied and Environmental Microbiology. 74: 1620-33. PMID 18192411 DOI: 10.1128/Aem.01787-07 |
0.609 |
|
2007 |
Francis CA, Beman JM, Kuypers MM. New processes and players in the nitrogen cycle: the microbial ecology of anaerobic and archaeal ammonia oxidation. The Isme Journal. 1: 19-27. PMID 18043610 DOI: 10.1038/Ismej.2007.8 |
0.442 |
|
2007 |
Spear JR, Barton HA, Robertson CE, Francis CA, Pace NR. Microbial community biofabrics in a geothermal mine adit. Applied and Environmental Microbiology. 73: 6172-80. PMID 17693567 DOI: 10.1128/Aem.00393-07 |
0.407 |
|
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 |
0.416 |
|
2007 |
Oakley BB, Francis CA, Roberts KJ, Fuchsman CA, Srinivasan S, Staley JT. Analysis of nitrite reductase (nirK and nirS) genes and cultivation reveal depauperate community of denitrifying bacteria in the Black Sea suboxic zone. Environmental Microbiology. 9: 118-30. PMID 17227417 DOI: 10.1111/J.1462-2920.2006.01121.X |
0.409 |
|
2006 |
Beman JM, Francis CA. Diversity of ammonia-oxidizing archaea and bacteria in the sediments of a hypernutrified subtropical estuary: Bahía del Tóbari, Mexico. Applied and Environmental Microbiology. 72: 7767-77. PMID 17012598 DOI: 10.1128/Aem.00946-06 |
0.516 |
|
2006 |
Park HD, Wells GF, Bae H, Criddle CS, Francis CA. Occurrence of ammonia-oxidizing archaea in wastewater treatment plant bioreactors. Applied and Environmental Microbiology. 72: 5643-7. PMID 16885322 DOI: 10.1128/Aem.00402-06 |
0.419 |
|
2006 |
Hansel CM, Francis CA. Coupled photochemical and enzymatic Mn(II) oxidation pathways of a planktonic Roseobacter-Like bacterium. Applied and Environmental Microbiology. 72: 3543-9. PMID 16672501 DOI: 10.1128/Aem.72.5.3543-3549.2006 |
0.479 |
|
2006 |
Santoro AE, Boehm AB, Francis CA. Denitrifier community composition along a nitrate and salinity gradient in a coastal aquifer. Applied and Environmental Microbiology. 72: 2102-9. PMID 16517659 DOI: 10.1128/Aem.72.3.2102-2109.2006 |
0.409 |
|
2006 |
Wankel SD, Kendall C, Francis CA, Paytan A. Nitrogen sources and cycling in the San Francisco Bay estuary: A nitrate dual isotopic composition approach Limnology and Oceanography. 51: 1654-1664. DOI: 10.4319/Lo.2006.51.4.1654 |
0.322 |
|
2006 |
Glatz RE, Lepp PW, Ward BB, Francis CA. Planktonic microbial community composition across steep physical/chemical gradients in permanently ice-covered Lake Bonney, Antarctica Geobiology. 4: 53-67. DOI: 10.1111/J.1472-4669.2006.00057.X |
0.415 |
|
2005 |
Francis CA, Roberts KJ, Beman JM, Santoro AE, Oakley BB. Ubiquity and diversity of ammonia-oxidizing archaea in water columns and sediments of the ocean. Proceedings of the National Academy of Sciences of the United States of America. 102: 14683-8. PMID 16186488 DOI: 10.1073/Pnas.0506625102 |
0.495 |
|
2004 |
Jayakumar D, Francis C, Naqvi S, Ward B. Diversity of nitrite reductase genes (nirS) in the denitrifying water column of the coastal Arabian Sea Aquatic Microbial Ecology. 34: 69-78. DOI: 10.3354/Ame034069 |
0.418 |
|
2004 |
Jayakumar DA, Francis CA, Naqvi SWA, Ward BB. Diversity of nitrite reductase genes (nirS) in the denitrifying water column of the coastal Arabian Sea Aquatic Microbial Ecology. 34: 69-78. |
0.312 |
|
2003 |
Taroncher-Oldenburg G, Griner EM, Francis CA, Ward BB. Oligonucleotide microarray for the study of functional gene diversity in the nitrogen cycle in the environment. Applied and Environmental Microbiology. 69: 1159-71. PMID 12571043 DOI: 10.1128/Aem.69.2.1159-1171.2003 |
0.412 |
|
2003 |
Francis CA, O'Mullan GD, Ward BB. Diversity of ammonia monooxygenase (amoA) genes across environmental gradients in Chesapeake Bay sediments Geobiology. 1: 129-140. DOI: 10.1046/J.1472-4669.2003.00010.X |
0.447 |
|
2002 |
Francis CA, Casciotti KL, Tebo BM. Localization of Mn(II)-oxidizing activity and the putative multicopper oxidase, MnxG, to the exosporium of the marine Bacillus sp. strain SG-1. Archives of Microbiology. 178: 450-6. PMID 12420165 DOI: 10.1007/S00203-002-0472-9 |
0.64 |
|
2002 |
Francis CA, Tebo BM. Enzymatic manganese(II) oxidation by metabolically dormant spores of diverse Bacillus species. Applied and Environmental Microbiology. 68: 874-80. PMID 11823231 DOI: 10.1128/Aem.68.2.874-880.2002 |
0.67 |
|
2002 |
Obraztsova AY, Francis CA, Tebo BM. Sulfur disproportionation by the facultative anaerobe Pantoea agglomerans SP1 as a mechanism for chromium(VI) reduction Geomicrobiology Journal. 19: 121-132. DOI: 10.1080/014904502317246219 |
0.591 |
|
2001 |
Francis CA, Tebo BM. cumA multicopper oxidase genes from diverse Mn(II)-oxidizing and non-Mn(II)-oxidizing Pseudomonas strains. Applied and Environmental Microbiology. 67: 4272-8. PMID 11526033 DOI: 10.1128/Aem.67.9.4272-4278.2001 |
0.646 |
|
2001 |
Francis CA, Co EM, Tebo BM. Enzymatic manganese(II) oxidation by a marine alpha-proteobacterium. Applied and Environmental Microbiology. 67: 4024-9. PMID 11526000 DOI: 10.1128/Aem.67.9.4024-4029.2001 |
0.634 |
|
2000 |
Francis CA, Obraztsova AY, Tebo BM. Dissimilatory metal reduction by the facultative anaerobe Pantoea agglomerans SP1. Applied and Environmental Microbiology. 66: 543-8. PMID 10653716 DOI: 10.1128/Aem.66.2.543-548.2000 |
0.626 |
|
2000 |
Francis CA, Tebo BM. New insights into the diversity of genes and enzymes involved in bacterial Mn(II) oxidation Acs Division of Environmental Chemistry, Preprints. 40: 488-490. |
0.328 |
|
1999 |
Francis CA, Tebo BM. Marine Bacillus spores as catalysts for oxidative precipitation and sorption of metals. Journal of Molecular Microbiology and Biotechnology. 1: 71-8. PMID 10941787 |
0.634 |
|
1998 |
Francis C, Francis A, Golet D, Ward B. Quantification of catechol 2,3-dioxygenase gene homology and benzoate utilization in intertidal sediments Aquatic Microbial Ecology. 15: 225-231. DOI: 10.3354/Ame015225 |
0.353 |
|
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