Search Results - "Romine, Margaret F"

Shewanella oneidensis MR-1 nanowires are outer membrane and periplasmic extensions of the extracellular electron transport components by Pirbadian, Sahand, Barchinger, Sarah E., Leung, Kar Man, Byun, Hye Suk, Jangir, Yamini, Bouhenni, Rachida A., Reed, Samantha B., Romine, Margaret F., Saffarini, Daad A., Shi, Liang, Gorby, Yuri A., Golbeck, John H., El-Naggar, Mohamed Y.

“…Bacterial nanowires offer an extracellular electron transport (EET) pathway for linking the respiratory chain of bacteria to external surfaces, including…”
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Underlying mechanisms for syntrophic metabolism of essential enzyme cofactors in microbial communities by Romine, Margaret F, Rodionov, Dmitry A, Maezato, Yukari, Osterman, Andrei L, Nelson, William C

“…Many microorganisms are unable to synthesize essential B vitamin-related enzyme cofactors de novo . The underlying mechanisms by which such microbes survive in…”
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Extracellular polymeric substances from Shewanella sp. HRCR-1 biofilms: characterization by infrared spectroscopy and proteomics by Cao, Bin, Shi, Liang, Brown, Roslyn N., Xiong, Yijia, Fredrickson, Jim K., Romine, Margaret F., Marshall, Matthew J., Lipton, Mary S., Beyenal, Haluk

“…Summary The composition of extracellular polymeric substances (EPS) from Shewanella sp. HRCR‐1 biofilms was investigated using infrared spectroscopy and…”
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Electrically Conductive Bacterial Nanowires Produced by Shewanella oneidensis Strain MR-1 and Other Microorganisms by Gorby, Yuri A., Yanina, Svetlana, McLean, Jeffrey S., Rosso, Kevin M., Moyles, Dianne, Dohnalkova, Alice, Beveridge, Terry J., Chang, In Seop, Kim, Byung Hong, Kim, Kyung Shik, Culley, David E., Reed, Samantha B., Romine, Margaret F., Saffarini, Daad A., Hill, Eric A., Shi, Liang, Elias, Dwayne A., Kennedy, David W., Pinchuk, Grigoriy, Watanabe, Kazuya, Ishii, Shun'ichi, Logan, Bruce, Nealson, Kenneth H., Fredrickson, Jim K.

“…Shewanella oneidensis MR-1 produced electrically conductive pilus-like appendages called bacterial nanowires in direct response to electron-acceptor…”
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Current Production and Metal Oxide Reduction by Shewanella oneidensis MR-1 Wild Type and Mutants by Bretschger, Orianna, Obraztsova, Anna, Sturm, Carter A, Chang, In Seop, Gorby, Yuri A, Reed, Samantha B, Culley, David E, Reardon, Catherine L, Barua, Soumitra, Romine, Margaret F, Zhou, Jizhong, Beliaev, Alexander S, Bouhenni, Rachida, Saffarini, Daad, Mansfeld, Florian, Kim, Byung-Hong, Fredrickson, James K, Nealson, Kenneth H

“…Shewanella oneidensis MR-1 is a gram-negative facultative anaerobe capable of utilizing a broad range of electron acceptors, including several solid…”
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Identification and Resolution of Microdiversity through Metagenomic Sequencing of Parallel Consortia by Nelson, William C, Maezato, Yukari, Wu, Yu-Wei, Romine, Margaret F, Lindemann, Stephen R

“…To gain a predictive understanding of the interspecies interactions within microbial communities that govern community function, the genomic complement of…”
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Genomic encyclopedia of sugar utilization pathways in the Shewanella genus by Rodionov, Dmitry A, Yang, Chen, Li, Xiaoqing, Rodionova, Irina A, Wang, Yanbing, Obraztsova, Anna Y, Zagnitko, Olga P, Overbeek, Ross, Romine, Margaret F, Reed, Samantha, Fredrickson, James K, Nealson, Kenneth H, Osterman, Andrei L

“…Carbohydrates are a primary source of carbon and energy for many bacteria. Accurate projection of known carbohydrate catabolic pathways across diverse bacteria…”
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Genomic reconstruction of Shewanella oneidensis MR-1 metabolism reveals a previously uncharacterized machinery for lactate utilization by Pinchuk, Grigory E, Rodionov, Dmitry A, Yang, Chen, Li, Xiaoqing, Osterman, Andrei L, Dervyn, Etienne, Geydebrekht, Oleg V, Reed, Samantha B, Romine, Margaret F, Collart, Frank R, Scott, James H, Fredrickson, Jim K, Beliaev, Alexander S

“…The ability to use lactate as a sole source of carbon and energy is one of the key metabolic signatures of Shewanellae, a diverse group of dissimilatory…”
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Genome-wide protein localization prediction strategies for gram negative bacteria by Romine, Margaret F

“…Genome-wide prediction of protein subcellular localization is an important type of evidence used for inferring protein function. While a variety of…”
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Genomic Reconstruction of Carbohydrate Utilization Capacities in Microbial-Mat Derived Consortia by Leyn, Semen A, Maezato, Yukari, Romine, Margaret F, Rodionov, Dmitry A

“…Two nearly identical unicyanobacterial consortia (UCC) were previously isolated from benthic microbial mats that occur in a heliothermal saline lake in…”
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Conservation of transcription start sites within genes across a bacterial genus by Shao, Wenjun, Price, Morgan N, Deutschbauer, Adam M, Romine, Margaret F, Arkin, Adam P

“…Transcription start sites (TSSs) lying inside annotated genes, on the same or opposite strand, have been observed in diverse bacteria, but the function of…”
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Ecophysiology of an uncultivated lineage of Aigarchaeota from an oxic, hot spring filamentous ‘streamer’ community by Beam, Jacob P, Jay, Zackary J, Schmid, Markus C, Rusch, Douglas B, Romine, Margaret F, M Jennings, Ryan de, Kozubal, Mark A, Tringe, Susannah G, Wagner, Michael, Inskeep, William P

“…The candidate archaeal phylum ‘Aigarchaeota’ contains microorganisms from terrestrial and subsurface geothermal ecosystems. The phylogeny and metabolic…”
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c-Type cytochrome-dependent formation of U(IV) nanoparticles by Shewanella oneidensis by Marshall, Matthew J, Beliaev, Alexander S, Dohnalkova, Alice C, Kennedy, David W, Shi, Liang, Wang, Zheming, Boyanov, Maxim I, Lai, Barry, Kemner, Kenneth M, McLean, Jeffrey S, Reed, Samantha B, Culley, David E, Bailey, Vanessa L, Simonson, Cody J, Saffarini, Daad A, Romine, Margaret F, Zachara, John M, Fredrickson, James K

“…Modern approaches for bioremediation of radionuclide contaminated environments are based on the ability of microorganisms to effectively catalyze changes in…”
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Constraint-based model of Shewanella oneidensis MR-1 metabolism: a tool for data analysis and hypothesis generation by Pinchuk, Grigoriy E, Hill, Eric A, Geydebrekht, Oleg V, De Ingeniis, Jessica, Zhang, Xiaolin, Osterman, Andrei, Scott, James H, Reed, Samantha B, Romine, Margaret F, Konopka, Allan E, Beliaev, Alexander S, Fredrickson, Jim K, Reed, Jennifer L

“…Shewanellae are gram-negative facultatively anaerobic metal-reducing bacteria commonly found in chemically (i.e., redox) stratified environments. Occupying…”
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Genomic distribution of B-vitamin auxotrophy and uptake transporters in environmental bacteria from the Chloroflexi phylum by Rodionova, Irina A., Li, Xiaoqing, Plymale, Andrew E., Motamedchaboki, Khatereh, Konopka, Allan E., Romine, Margaret F., Fredrickson, James K., Osterman, Andrei L., Rodionov, Dmitry A.

“…Summary Bacteria from the Chloroflexi phylum are dominant members of phototrophic microbial mat communities in terrestrial thermal environments. Vitamins of B…”
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Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus by Rodionov, Dmitry A, Novichkov, Pavel S, Stavrovskaya, Elena D, Rodionova, Irina A, Li, Xiaoqing, Kazanov, Marat D, Ravcheev, Dmitry A, Gerasimova, Anna V, Kazakov, Alexey E, Kovaleva, Galina Yu, Permina, Elizabeth A, Laikova, Olga N, Overbeek, Ross, Romine, Margaret F, Fredrickson, James K, Arkin, Adam P, Dubchak, Inna, Osterman, Andrei L, Gelfand, Mikhail S

“…Genome-scale prediction of gene regulation and reconstruction of transcriptional regulatory networks in bacteria is one of the critical tasks of modern…”
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Comparative Systems Biology across an Evolutionary Gradient within the Shewanella Genus by Konstantinidis, Konstantinos T., Serres, Margrethe H., Romine, Margaret F., Rodrigues, Jorge L M., Auchtung, Jennifer, McCue, Lee-Ann, Lipton, Mary S., Obraztsova, Anna, Giometti, Carol S., Nealson, Kenneth H., Fredrickson, James K., Tiedje, James M., Gordon, Jeffrey I.

“…To what extent genotypic differences translate to phenotypic variation remains a poorly understood issue of paramount importance for several cornerstone…”
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Utilization of DNA as a Sole Source of Phosphorus, Carbon, and Energy by Shewanella spp.: Ecological and Physiological Implications for Dissimilatory Metal Reduction by Pinchuk, Grigoriy E, Ammons, Christine, Culley, David E, Li, Shu-Mei W, McLean, Jeff S, Romine, Margaret F, Nealson, Kenneth H, Fredrickson, Jim K, Beliaev, Alexander S

“…The solubility of orthophosphate (PO₄³⁻) in iron-rich sediments can be exceedingly low, limiting the bioavailability of this essential nutrient to microbial…”
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Comparative Genomics and Experimental Characterization of N-Acetylglucosamine Utilization Pathway of Shewanella oneidensis by Yang, Chen, Rodionov, Dmitry A., Li, Xiaoqing, Laikova, Olga N., Gelfand, Mikhail S., Zagnitko, Olga P., Romine, Margaret F., Obraztsova, Anna Y., Nealson, Kenneth H., Osterman, Andrei L.

“…We used a comparative genomics approach implemented in the SEED annotation environment to reconstruct the chitin and GlcNAc utilization subsystem and…”
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Geomicrobiology of high-level nuclear waste-contaminated vadose sediments at the Hanford Site, Washington State by Fredrickson, J.K, Zachara, J.M, Balkwill, D.L, Kennedy, D, Li, S.M.W, Kostandarithes, H.M, Daly, M.J, Romine, M.F, Brockman, F.J

“…Sediments from a high-level nuclear waste plume were collected as part of investigations to evaluate the potential fate and migration of contaminants in the…”
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