Search Results - "Han, Cliff S"

MicroRNAs suppress NB domain genes in tomato that confer resistance to Fusarium oxysporum by Ouyang, Shouqiang, Park, Gyungsoon, Atamian, Hagop S, Han, Cliff S, Stajich, Jason E, Kaloshian, Isgouhi, Borkovich, Katherine A

“…MicroRNAs (miRNAs) suppress the transcriptional and post-transcriptional expression of genes in plants. Several miRNA families target genes encoding…”
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genomic basis of trophic strategy in marine bacteria by Lauro, Federico M, McDougald, Diane, Thomas, Torsten, Williams, Timothy J, Egan, Suhelen, Rice, Scott, DeMaere, Matthew Z, Ting, Lily, Ertan, Haluk, Johnson, Justin, Ferriera, Steven, Lapidus, Alla, Anderson, Iain, Kyrpides, Nikos, Munk, A. Christine, Detter, Chris, Han, Cliff S, Brown, Mark V, Robb, Frank T, Kjelleberg, Staffan, Cavicchioli, Ricardo

“…Many marine bacteria have evolved to grow optimally at either high (copiotrophic) or low (oligotrophic) nutrient concentrations, enabling different species to…”
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Mechanism of induction and suppression of antiviral immunity directed by virus-derived small RNAs in Drosophila by Aliyari, Roghiyh, Wu, Qingfa, Li, Hong-Wei, Wang, Xiao-Hong, Li, Feng, Green, Lance D, Han, Cliff S, Li, Wan-Xiang, Ding, Shou-Wei

“…The small RNA-directed viral immunity pathway in plants and invertebrates begins with the production by Dicer nuclease of virus-derived siRNAs (viRNAs), which…”
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Comparative genomics reveals mechanism for short-term and long-term clonal transitions in pandemic Vibrio cholerae by Chun, Jongsik, Grim, Christopher J, Hasan, Nur A, Lee, Je Hee, Choi, Seon Young, Haley, Bradd J, Taviani, Elisa, Jeon, Yoon-Seong, Kim, Dong Wook, Lee, Jae-Hak, Brettin, Thomas S, Bruce, David C, Challacombe, Jean F, Detter, J. Chris, Han, Cliff S, Munk, A. Christine, Chertkov, Olga, Meincke, Linda, Saunders, Elizabeth, Walters, Ronald A, Huq, Anwar, Nair, G. Balakrish, Colwell, Rita R

“…Vibrio cholerae, the causative agent of cholera, is a bacterium autochthonous to the aquatic environment, and a serious public health threat. V. cholerae…”
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complete genome sequence of Moorella thermoacetica (f. Clostridium thermoaceticum) by Pierce, Elizabeth, Xie, Gary, Barabote, Ravi D, Saunders, Elizabeth, Han, Cliff S, Detter, John C, Richardson, Paul, Brettin, Thomas S, Das, Amaresh, Ljungdahl, Lars G, Ragsdale, Stephen W

“…This paper describes the genome sequence of Moorella thermoacetica (f. Clostridium thermoaceticum), which is the model acetogenic bacterium that has been…”
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Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing by Fischer, Will, Ganusov, Vitaly V, Giorgi, Elena E, Hraber, Peter T, Keele, Brandon F, Leitner, Thomas, Han, Cliff S, Gleasner, Cheryl D, Green, Lance, Lo, Chien-Chi, Nag, Ambarish, Wallstrom, Timothy C, Wang, Shuyi, McMichael, Andrew J, Haynes, Barton F, Hahn, Beatrice H, Perelson, Alan S, Borrow, Persephone, Shaw, George M, Bhattacharya, Tanmoy, Korber, Bette T

“…We used ultra-deep sequencing to obtain tens of thousands of HIV-1 sequences from regions targeted by CD8+ T lymphocytes from longitudinal samples from three…”
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Deep-sea hydrothermal vent bacteria related to human pathogenic Vibrio species by Hasan, Nur A, Grim, Christopher J, Lipp, Erin K, Rivera, Irma N G, Chun, Jongsik, Haley, Bradd J, Taviani, Elisa, Choi, Seon Young, Hoq, Mozammel, Munk, A Christine, Brettin, Thomas S, Bruce, David, Challacombe, Jean F, Detter, J Chris, Han, Cliff S, Eisen, Jonathan A, Huq, Anwar, Colwell, Rita R

“…Vibrio species are both ubiquitous and abundant in marine coastal waters, estuaries, ocean sediment, and aquaculture settings worldwide. We report here the…”
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Improved lysis of single bacterial cells by a modified alkaline-thermal shock procedure by He, Jian, Du, Shiyu, Tan, Xiaohua, Arefin, Ayesha, Han, Cliff S

“…Single-cell genomics (SCG) is a recently developed tool to study the genomes of unculturable bacterial species. SCG relies on multiple-strand displacement…”
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Complete genome sequence of the filamentous anoxygenic phototrophic bacterium Chloroflexus aurantiacus by Tang, Kuo-Hsiang, Barry, Kerrie, Chertkov, Olga, Dalin, Eileen, Han, Cliff S, Hauser, Loren J, Honchak, Barbara M, Karbach, Lauren E, Land, Miriam L, Lapidus, Alla, Larimer, Frank W, Mikhailova, Natalia, Pitluck, Samuel, Pierson, Beverly K, Blankenship, Robert E

“…Chloroflexus aurantiacus is a thermophilic filamentous anoxygenic phototrophic (FAP) bacterium, and can grow phototrophically under anaerobic conditions or…”
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Genome of Polaromonas sp. Strain JS666: Insights into the Evolution of a Hydrocarbon- and Xenobiotic-Degrading Bacterium, and Features of Relevance to Biotechnology by Mattes, Timothy E, Alexander, Anne K, Richardson, Paul M, Munk, A. Christine, Han, Cliff S, Stothard, Paul, Coleman, Nicholas V

“…Polaromonas sp. strain JS666 can grow on cis-1,2-dichloroethene (cDCE) as a sole carbon and energy source and may be useful for bioremediation of chlorinated…”
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Genome Sequence of Hybrid Vibrio cholerae O1 MJ-1236, B-33, and CIRS101 and Comparative Genomics with V. cholerae by GRIM, Christopher J, HASAN, Nur A, CHALLACOMBE, Jean, HUQ, Anwar, BALAKRISH NAIR, G, COLWELL, Rita R, TAVIANI, Elisa, HALEY, Bradd, CHUN, Jongsik, BRETTIN, Thomas S, BRUCE, David C, DETTER, J. Chris, HAN, Cliff S, CHERTKOV, Olga

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Capturing and cultivating single bacterial cells in gel microdroplets to obtain near-complete genomes by Dichosa, Armand E K, Daughton, Ashlynn R, Reitenga, Krista G, Fitzsimons, Michael S, Han, Cliff S

“…Assembling a complete genome from a single bacterial cell, termed single-cell genomics, is challenging with current technologies. Recovery rates of complete…”
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Genome Sequence of the Cellulolytic Gliding Bacterium Cytophaga hutchinsonii by Xie, Gary, Bruce, David C, Challacombe, Jean F, Chertkov, Olga, Detter, John C, Gilna, Paul, Han, Cliff S, Lucas, Susan, Misra, Monica, Myers, Gerald L, Richardson, Paul, Tapia, Roxanne, Thayer, Nina, Thompson, Linda S, Brettin, Thomas S, Henrissat, Bernard, Wilson, David B, McBride, Mark J

“…The complete DNA sequence of the aerobic cellulolytic soil bacterium Cytophaga hutchinsonii, which belongs to the phylum Bacteroidetes, is presented. The…”
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genome of the Gram-positive metal- and sulfate-reducing bacterium Desulfotomaculum reducens strain MI-1 by Junier, Pilar, Junier, Thomas, Podell, Sheila, Sims, David R, Detter, John C, Lykidis, Athanasios, Han, Cliff S, Wigginton, Nicholas S, Gaasterland, Terry, Bernier-Latmani, Rizlan

“…Spore-forming, Gram-positive sulfate-reducing bacteria (SRB) represent a group of SRB that dominates the deep subsurface as well as niches in which resistance…”
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Complete Genome of the Cellulolytic Ruminal Bacterium Ruminococcus albus 7 by SUEN, Garret, STEVENSON, David M, HAUSER, Loren J, IVANOVA, Natalia N, KYRPIDES, Nikos C, LAND, Miriam L, LAPIDUS, Alla, LUCAS, Susan, OVCHINNIKOVA, Galina, PITLUCK, Sam, TAPIA, Roxanne, WOYKE, Tanja, BRUCE, David C, BOYUM, Julie, MEAD, David, WEIMER, Paul J, CHERTKOV, Olga, COPELAND, Alex, CHENG, Jan-Feng, DETTER, Chris, DETTER, John C, GOODWIN, Lynne A, HAN, Cliff S

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The Methanosarcina barkeri Genome: Comparative Analysis with Methanosarcina acetivorans and Methanosarcina mazei Reveals Extensive Rearrangement within Methanosarcinal Genomes by MAEDER, Dennis L, ANDERSON, Iain, SOWERS, Kevin R, BRETTIN, Thomas S, BRUCE, David C, GILNA, Paul, HAN, Cliff S, LAPIDUS, Alla, METCALF, William W, SAUNDERS, Elizabeth, TAPIA, Roxanne

“…ERRATUM ( vol. 189 , p. 1488 ) Article Usage Stats Services JB Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious…”
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Nearly finished genomes produced using gel microdroplet culturing reveal substantial intraspecies genomic diversity within the human microbiome by Fitzsimons, Michael S, Novotny, Mark, Lo, Chien-Chi, Dichosa, Armand E K, Yee-Greenbaum, Joyclyn L, Snook, Jeremy P, Gu, Wei, Chertkov, Olga, Davenport, Karen W, McMurry, Kim, Reitenga, Krista G, Daughton, Ashlynn R, He, Jian, Johnson, Shannon L, Gleasner, Cheryl D, Wills, Patti L, Parson-Quintana, Beverly, Chain, Patrick S, Detter, John C, Lasken, Roger S, Han, Cliff S

“…The majority of microbial genomic diversity remains unexplored. This is largely due to our inability to culture most microorganisms in isolation, which is a…”
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Genome Sequence of the Arctic Methanotroph Methylobacter tundripaludum SV96 by Svenning, Mette M, Hestnes, Anne Grethe, Wartiainen, Ingvild, Stein, Lisa Y, Klotz, Martin G, Kalyuzhnaya, Marina G, Spang, Anja, Bringel, Françoise, Vuilleumier, Stéphane, Lajus, Aurélie, Médigue, Claudine, Bruce, David C, Cheng, Jan-Fang, Goodwin, Lynne, Ivanova, Natalia, Han, James, Han, Cliff S, Hauser, Loren, Held, Brittany, Land, Miriam L, Lapidus, Alla, Lucas, Susan, Nolan, Matt, Pitluck, Sam, Woyke, Tanja

“…Methylobacter tundripaludum SV96T (ATCC BAA-1195) is a psychrotolerant aerobic methane-oxidizing gammaproteobacterium (Methylococcales, Methylococcaceae)…”
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The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments by Aklujkar, Muktak, Young, Nelson D, Holmes, Dawn, Chavan, Milind, Risso, Carla, Kiss, Hajnalka E, Han, Cliff S, Land, Miriam L, Lovley, Derek R

“…Geobacter species in a phylogenetic cluster known as subsurface clade 1 are often the predominant microorganisms in subsurface environments in which Fe(III)…”
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Survival in nuclear waste, extreme resistance, and potential applications gleaned from the genome sequence of Kineococcus radiotolerans SRS30216 by Bagwell, Christopher E, Bhat, Swapna, Hawkins, Gary M, Smith, Bryan W, Biswas, Tapan, Hoover, Timothy R, Saunders, Elizabeth, Han, Cliff S, Tsodikov, Oleg V, Shimkets, Lawrence J

“…Kineococcus radiotolerans SRS30216 was isolated from a high-level radioactive environment at the Savannah River Site (SRS) and exhibits gamma-radiation…”
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