Search Results - "Hettich, Robert {Bob} L"

Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities by Hettich, Robert L, Pan, Chongle, Chourey, Karuna, Giannone, Richard J

“…The availability of extensive genome information for many different microbes, including unculturable species in mixed communities from environmental samples,…”
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Effects of microbiota-directed foods in gnotobiotic animals and undernourished children by Gehrig, Jeanette L, Venkatesh, Siddarth, Chang, Hao-Wei, Hibberd, Matthew C, Kung, Vanderlene L, Cheng, Jiye, Chen, Robert Y, Subramanian, Sathish, Cowardin, Carrie A, Meier, Martin F, O'Donnell, David, Talcott, Michael, Spears, Larry D, Semenkovich, Clay F, Henrissat, Bernard, Giannone, Richard J, Hettich, Robert L, Ilkayeva, Olga, Muehlbauer, Michael, Newgard, Christopher B, Sawyer, Christopher, Head, Richard D, Rodionov, Dmitry A, Arzamasov, Aleksandr A, Leyn, Semen A, Osterman, Andrei L, Hossain, Md Iqbal, Islam, Munirul, Choudhury, Nuzhat, Sarker, Shafiqul Alam, Huq, Sayeeda, Mahmud, Imteaz, Mostafa, Ishita, Mahfuz, Mustafa, Barratt, Michael J, Ahmed, Tahmeed, Gordon, Jeffrey I

“…To examine the contributions of impaired gut microbial community development to childhood undernutrition, we combined metabolomic and proteomic analyses of…”
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Outer membrane vesicles catabolize lignin-derived aromatic compounds in Pseudomonas putida KT2440 by Salvachúa, Davinia, Werner, Allison Z., Pardo, Isabel, Michalska, Martyna, Black, Brenna A., Donohoe, Bryon S., Haugen, Stefan J., Katahira, Rui, Notonier, Sandra, Ramirez, Kelsey J., Amore, Antonella, Purvine, Samuel O., Zink, Erika M., Abraham, Paul E., Giannone, Richard J., Poudel, Suresh, Laible, Philip D., Hettich, Robert L., Beckham, Gregg T.

“…Lignin is an abundant and recalcitrant component of plant cell walls. While lignin degradation in nature is typically attributed to fungi, growing evidence…”
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Systematic Comparison of Label-Free, Metabolic Labeling, and Isobaric Chemical Labeling for Quantitative Proteomics on LTQ Orbitrap Velos by Li, Zhou, Adams, Rachel M, Chourey, Karuna, Hurst, Gregory B, Hettich, Robert L, Pan, Chongle

“…A variety of quantitative proteomics methods have been developed, including label-free, metabolic labeling, and isobaric chemical labeling using iTRAQ or TMT…”
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Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome by McNulty, Nathan P, Wu, Meng, Erickson, Alison R, Pan, Chongle, Erickson, Brian K, Martens, Eric C, Pudlo, Nicholas A, Muegge, Brian D, Henrissat, Bernard, Hettich, Robert L, Gordon, Jeffrey I

“…The human gut microbiota is an important metabolic organ, yet little is known about how its individual species interact, establish dominant positions, and…”
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Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease by Erickson, Alison R, Cantarel, Brandi L, Lamendella, Regina, Darzi, Youssef, Mongodin, Emmanuel F, Pan, Chongle, Shah, Manesh, Halfvarson, Jonas, Tysk, Curt, Henrissat, Bernard, Raes, Jeroen, Verberkmoes, Nathan C, Fraser, Claire M, Hettich, Robert L, Jansson, Janet K

“…Crohn's disease (CD) is an inflammatory bowel disease of complex etiology, although dysbiosis of the gut microbiota has been implicated in chronic…”
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Microbial metaproteomics: identifying the repertoire of proteins that microorganisms use to compete and cooperate in complex environmental communities by Hettich, Robert L, Sharma, Ritin, Chourey, Karuna, Giannone, Richard J

“…Highlights ► Multi-dimensional LC-MS provides deep metaproteome measurements. ► High throughput and mass accuracy capabilities for MS are critical for…”
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Shotgun metaproteomics of the human distal gut microbiota by Verberkmoes, Nathan C, Russell, Alison L, Shah, Manesh, Godzik, Adam, Rosenquist, Magnus, Halfvarson, Jonas, Lefsrud, Mark G, Apajalahti, Juha, Tysk, Curt, Hettich, Robert L, Jansson, Janet K

“…The human gut contains a dense, complex and diverse microbial community, comprising the gut microbiome. Metagenomics has recently revealed the composition of…”
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Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla by Mahowald, Michael A, Rey, Federico E, Seedorf, Henning, Turnbaugh, Peter J, Fulton, Robert S, Wollam, Aye, Shah, Neha, Wang, Chunyan, Magrini, Vincent, Wilson, Richard K, Cantarel, Brandi L, Coutinho, Pedro M, Henrissat, Bernard, Crock, Lara W, Russell, Alison, Verberkmoes, Nathan C, Hettich, Robert L, Gordon, Jeffrey I

“…The adult human distal gut microbial community is typically dominated by 2 bacterial phyla (divisions), the Firmicutes and the Bacteroidetes. Little is known…”
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Quantifying codon usage in signal peptides: Gene expression and amino acid usage explain apparent selection for inefficient codons by Cope, Alexander L., Hettich, Robert L., Gilchrist, Michael A.

“…The Sec secretion pathway is found across all domains of life. A critical feature of Sec secreted proteins is the signal peptide, a short peptide with distinct…”
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Enigmatic, ultrasmall, uncultivated Archaea by Baker, Brett J, Comolli, Luis R, Dick, Gregory J, Hauser, Loren J, Hyatt, Doug, Dill, Brian D, Land, Miriam L, VerBerkmoes, Nathan C, Hettich, Robert L, Banfield, Jillian F

“…Metagenomics has provided access to genomes of as yet uncultivated microorganisms in natural environments, yet there are gaps in our knowledge--particularly…”
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Direct Cellular Lysis/Protein Extraction Protocol for Soil Metaproteomics by Chourey, Karuna, Jansson, Janet, VerBerkmoes, Nathan, Shah, Manesh, Chavarria, Krystle L., Tom, Lauren M., Brodie, Eoin L., Hettich, Robert L.

“…We present a novel direct protocol for deep proteome characterization of microorganisms in soil. The method employs thermally assisted detergent-based cellular…”
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Diverse and divergent protein post-translational modifications in two growth stages of a natural microbial community by Li, Zhou, Wang, Yingfeng, Yao, Qiuming, Justice, Nicholas B., Ahn, Tae-Hyuk, Xu, Dong, Hettich, Robert L., Banfield, Jillian F., Pan, Chongle

“…Detailed characterization of post-translational modifications (PTMs) of proteins in microbial communities remains a significant challenge. Here we directly…”
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Detecting Differential and Correlated Protein Expression in Label-Free Shotgun Proteomics by Zhang, Bing, VerBerkmoes, Nathan C, Langston, Michael A, Uberbacher, Edward, Hettich, Robert L, Samatova, Nagiza F

“…Recent studies have revealed a relationship between protein abundance and sampling statistics, such as sequence coverage, peptide count, and spectral count, in…”
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Microbes in thawing permafrost: the unknown variable in the climate change equation by Graham, David E, Wallenstein, Matthew D, Vishnivetskaya, Tatiana A, Waldrop, Mark P, Phelps, Tommy J, Pfiffner, Susan M, Onstott, Tullis C, Whyte, Lyle G, Rivkina, Elizaveta M, Gilichinsky, David A, Elias, Dwayne A, Mackelprang, Rachel, VerBerkmoes, Nathan C, Hettich, Robert L, Wagner, Dirk, Wullschleger, Stan D, Jansson, Janet K

“…Considering that 25% of Earth's terrestrial surface is underlain by permafrost (ground that has been continuously frozen for at least 2 years), our…”
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Community Proteomics of a Natural Microbial Biofilm by Ram, Rachna J, VerBerkmoes, Nathan C, Thelen, Michael P, Tyson, Gene W, Baker, Brett J, Blake, Robert C, Shah, Manesh, Hettich, Robert L, Banfield, Jillian F

“…Using genomic and mass spectrometry-based proteomic methods, we evaluated gene expression, identified key activities, and examined partitioning of metabolic…”
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Environmental proteomics reveals early microbial community responses to biostimulation at a uranium- and nitrate-contaminated site by Chourey, Karuna, Nissen, Silke, Vishnivetskaya, Tatiana, Shah, Manesh, Pfiffner, Susan, Hettich, Robert L., Löffler, Frank E.

“…High‐performance MS instrumentation coupled with improved protein extraction techniques enables metaproteomics to identify active members of soil and…”
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Insights into the Structure and Metabolic Function of Microbes That Shape Pelagic Iron-Rich Aggregates (“Iron Snow”) by SHIPENG LU, CHOUREY, Karuna, REICHE, Marco, NIETZSCHE, Sandor, SHAH, Manesh B, NEU, Thomas R, HETTICH, Robert L, KÜSEL, Kirsten

“…Classifications Services AEM Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley Reddit…”
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Discovery and annotation of small proteins using genomics, proteomics, and computational approaches by Yang, Xiaohan, Tschaplinski, Timothy J, Hurst, Gregory B, Jawdy, Sara, Abraham, Paul E, Lankford, Patricia K, Adams, Rachel M, Shah, Manesh B, Hettich, Robert L, Lindquist, Erika, Kalluri, Udaya C, Gunter, Lee E, Pennacchio, Christa, Tuskan, Gerald A

“…Small proteins (10-200 amino acids [aa] in length) encoded by short open reading frames (sORF) play important regulatory roles in various biological processes,…”
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Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities by Denef, Vincent J, Kalnejais, Linda H, Mueller, Ryan S, Wilmes, Paul, Baker, Brett J, Thomas, Brian C, VerBerkmoes, Nathan C, Hettich, Robert L, Banfield, Jillian F

“…Bacterial species concepts are controversial. More widely accepted is the need to understand how differences in gene content and sequence lead to ecological…”
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