Search Results - "Arp, Daniel J"

Use of Aliphatic n-Alkynes To Discriminate Soil Nitrification Activities of Ammonia-Oxidizing Thaumarchaea and Bacteria by TAYLOR, Anne E, VAJRALA, Neeraja, GIGUERE, Andrew T, GITELMAN, Alix I, ARP, Daniel J, MYROLD, David D, SAYAVEDRA-SOTO, Luis, BOTTOMLEY, Peter J

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Hydroxylamine as an intermediate in ammonia oxidation by globally abundant marine archaea by Vajrala, Neeraja, Martens-Habbena, Willm, Sayavedra-Soto, Luis A., Schauer, Andrew, Bottomley, Peter J., Stahl, David A., Arp, Daniel J.

“…The ammonia-oxidizing archaea have recently been recognized as a significant component of many microbial communities in the biosphere. Although the overall…”
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Stress response of a marine ammonia-oxidizing archaeon informs physiological status of environmental populations by Qin, Wei, Amin, Shady A, Lundeen, Rachel A, Heal, Katherine R, Martens-Habbena, Willm, Turkarslan, Serdar, Urakawa, Hidetoshi, Costa, Kyle C, Hendrickson, Erik L, Wang, Tony, Beck, David AC, Tiquia-Arashiro, Sonia M, Taub, Fred, Holmes, Andrew D, Vajrala, Neeraja, Berube, Paul M, Lowe, Todd M, Moffett, James W, Devol, Allan H, Baliga, Nitin S, Arp, Daniel J, Sayavedra-Soto, Luis A, Hackett, Murray, Armbrust, E Virginia, Ingalls, Anitra E, Stahl, David A

“…High representation by ammonia-oxidizing archaea (AOA) in marine systems is consistent with their high affinity for ammonia, efficient carbon fixation, and…”
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Characterization of a Nitrite Reductase Involved in Nitrifier Denitrification by Lawton, Thomas J., Bowen, Kimberly E., Sayavedra-Soto, Luis A., Arp, Daniel J., Rosenzweig, Amy C.

“…Nitrifier denitrification is the conversion of nitrite to nitrous oxide by ammonia-oxidizing organisms. This process, which is distinct from denitrification,…”
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Metabolism of inorganic N compounds by ammonia-oxidizing bacteria by Arp, Daniel J, Stein, Lisa Y

“…Ammonia oxidizing bacteria extract energy for growth from the oxidation of ammonia to nitrite. Ammonia monooxygenase, which initiates ammonia oxidation,…”
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Complete Genome Sequence of Nitrosospira multiformis, an Ammonia-Oxidizing Bacterium from the Soil Environment by Norton, Jeanette M, Klotz, Martin G, Stein, Lisa Y, Arp, Daniel J, Bottomley, Peter J, Chain, Patrick S.G, Hauser, Loren J, Land, Miriam L, Larimer, Frank W, Shin, Maria W, Starkenburg, Shawn R

“…The complete genome of the ammonia-oxidizing bacterium Nitrosospira multiformis (ATCC 25196T) consists of a circular chromosome and three small plasmids…”
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Whole-genome analysis of the ammonia-oxidizing bacterium, Nitrosomonas eutropha C91: implications for niche adaptation by Stein, Lisa Y, Arp, Daniel J, Berube, Paul M, Chain, Patrick S.G, Hauser, Loren, Jetten, Mike S.M, Klotz, Martin G, Larimer, Frank W, Norton, Jeanette M, Op den Camp, Huub J.M, Shin, Maria, Wei, Xueming

“…Analysis of the structure and inventory of the genome of Nitrosomonas eutropha C91 revealed distinctive features that may explain the adaptation of N…”
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Complete Genome Sequence of Nitrobacter hamburgensis X14 and Comparative Genomic Analysis of Species within the Genus Nitrobacter by Starkenburg, Shawn R, Larimer, Frank W, Stein, Lisa Y, Klotz, Martin G, Chain, Patrick S.G, Sayavedra-Soto, Luis A, Poret-Peterson, Amisha T, Gentry, Mira E, Arp, Daniel J, Ward, Bess, Bottomley, Peter J

“…The alphaproteobacterium Nitrobacter hamburgensis X14 is a gram-negative facultative chemolithoautotroph that conserves energy from the oxidation of nitrite to…”
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Symerythrin Structures at Atomic Resolution and the Origins of Rubrerythrins and the Ferritin-Like Superfamily by Cooley, Richard B., Arp, Daniel J., Karplus, P. Andrew

“…Rubrerythrins are diiron-containing peroxidases that belong to the ferritin-like superfamily (FLSF). Here, we describe the structures of symerythrin, a novel…”
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Complete Genome Sequence of the Marine, Chemolithoautotrophic, Ammonia-Oxidizing Bacterium Nitrosococcus oceani ATCC 19707 by Klotz, Martin G, Arp, Daniel J, Chain, Patrick S.G, El-Sheikh, Amal F, Hauser, Loren J, Hommes, Norman G, Larimer, Frank W, Malfatti, Stephanie A, Norton, Jeanette M, Poret-Peterson, Amisha T, Vergez, Lisa M, Ward, Bess B

“…The gammaproteobacterium Nitrosococcus oceani (ATCC 19707) is a gram-negative obligate chemolithoautotroph capable of extracting energy and reducing power from…”
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Genome Sequence of the Chemolithoautotrophic Nitrite-Oxidizing Bacterium Nitrobacter winogradskyi Nb-255 by Starkenburg, Shawn R, Chain, Patrick S. G, Sayavedra-Soto, Luis A, Hauser, Loren, Land, Miriam L, Larimer, Frank W, Malfatti, Stephanie A, Klotz, Martin G, Bottomley, Peter J, Arp, Daniel J, Hickey, William J

“…The alphaproteobacterium Nitrobacter winogradskyi (ATCC 25391) is a gram-negative facultative chemolithoautotroph capable of extracting energy from the…”
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Nitrification and degradation of halogenated hydrocarbons—a tenuous balance for ammonia-oxidizing bacteria by Sayavedra-Soto, Luis A, Gvakharia, Barbara, Bottomley, Peter J, Arp, Daniel J, Dolan, Mark E

“…The process of nitrification has the potential for the in situ bioremediation of halogenated compounds provided a number of challenges can be overcome. In…”
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Genome Sequence of Nitrosomonas sp. Strain AL212, an Ammonia-Oxidizing Bacterium Sensitive to High Levels of Ammonia by Yuichi, Suwa, Norton, Jeanette M, Bollmann, Annette, Klotz, Martin G, Stein, Lisa Y, Laanbroek, Hendrikus J, Arp, Daniel J, Goodwin, Lynne A, Chertkov, Olga, Held, Brittany, Bruce, David, Detter, J. Chris, Detter, Janine C, Tapia, Roxanne, Han, Cliff S

“…Nitrosomonas sp. strain AL212 is an obligate chemolithotrophic ammonia-oxidizing bacterium (AOB) that was originally isolated in 1997 by Yuichi Suwa and…”
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A Diiron Protein Autogenerates a Valine-Phenylalanine Cross-Link by Cooley, Richard B., Rhoads, Timothy W., Arp, Daniel J., Karplus, P. Andrew

“…All known internal covalent cross-links in proteins involve functionalized groups having oxygen, nitrogen, or sulfur atoms present to facilitate their…”
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Role of a Fur homolog in iron metabolism in Nitrosomonas europaea by Vajrala, Neeraja, Sayavedra-Soto, Luis A, Bottomley, Peter J, Arp, Daniel J

“…In response to environmental iron concentrations, many bacteria coordinately regulate transcription of genes involved in iron acquisition via the ferric uptake…”
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Chemolithoorganotrophic Growth of Nitrosomonas europaea on Fructose by Hommes, Norman G, Sayavedra-Soto, Luis A, Arp, Daniel J

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Evolutionary Origin of a Secondary Structure: π-Helices as Cryptic but Widespread Insertional Variations of α-Helices That Enhance Protein Functionality by Cooley, Richard B., Arp, Daniel J., Karplus, P. Andrew

“…Formally annotated π-helices are rare in protein structures but have been correlated with functional sites. Here, we analyze protein structures to show that…”
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Global analysis of the Nitrosomonas europaea iron starvation stimulon by Vajrala, Neeraja, Sayavedra-Soto, Luis A., Bottomley, Peter J., Arp, Daniel J.

“…The importance of iron to the metabolism of the ammonia-oxidizing bacterium Nitrosomonas europaea is well known. However, the mechanisms by which N. europaea…”
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Global Transcriptional Response of Nitrosomonas europaea to Chloroform and Chloromethane by Gvakharia, Barbara O, Permina, Elizabeth A, Gelfand, Mikhail S, Bottomley, Peter J, Sayavedra-Soto, Luis A, Arp, Daniel J

“…Upon exposure of Nitrosomonas europaea to chloroform (7 μM, 1 h), transcripts for 175 of 2,460 genes were found at higher levels in treated cells than in…”
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Loss of Ammonia Monooxygenase Activity in Nitrosomonas europaea upon Exposure to Nitrite by STEIN, L. Y, ARP, D. J

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