Full Text Journal Articles by
Author Barry S Goldman

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Western corn rootworm (Diabrotica virgifera virgifera) transcriptome assembly and genomic analysis of population structure.

Lex E Flagel, Raman Bansal, Randall A Kerstetter, Mao Chen, Matthew Carroll, Ronald Flannagan, Thomas Clark, Barry S Goldman, Andy P Michel,

<h4>Background</h4>Western corn rootworm (WCR) is one of the most significant insect pests of maize in North America. WCR has dramatically increased its range in the last century, invading key maize production areas in the US and abroad. In addition, this species has a history of evolving traits that allow it ... Read more >>

BMC Genomics (BMC genomics)
[2014, 15:195]

Cited: 11 times

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Genetic markers for western corn rootworm resistance to Bt toxin.

Lex E Flagel, Shilpa Swarup, Mao Chen, Christopher Bauer, Humphrey Wanjugi, Matthew Carroll, Patrick Hill, Meghan Tuscan, Raman Bansal, Ronald Flannagan, Thomas L Clark, Andrew P Michel, Graham P Head, Barry S Goldman,

Western corn rootworm (WCR) is a major maize (Zea mays L.) pest leading to annual economic losses of more than 1 billion dollars in the United States. Transgenic maize expressing insecticidal toxins derived from the bacterium Bacillus thuringiensis (Bt) are widely used for the management of WCR. However, cultivation of ... Read more >>

G3 (Bethesda) (G3 (Bethesda, Md.))
[2015, 5(3):399-405]

Cited: 12 times

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Reconciliation of sequence data and updated annotation of the genome of Agrobacterium tumefaciens C58, and distribution of a linear chromosome in the genus Agrobacterium.

Steven Slater, João C Setubal, Brad Goodner, Kathryn Houmiel, Jian Sun, Rajinder Kaul, Barry S Goldman, Stephen K Farrand, Nalvo Almeida, Thomas Burr, Eugene Nester, David M Rhoads, Ryosuke Kadoi, Trucian Ostheimer, Nicole Pride, Allison Sabo, Erin Henry, Erin Telepak, Lindsey Cromes, Alana Harkleroad, Louis Oliphant, Phil Pratt-Szegila, Roy Welch, Derek Wood,

Two groups independently sequenced the Agrobacterium tumefaciens C58 genome in 2001. We report here consolidation of these sequences, updated annotation, and additional analysis of the evolutionary history of the linear chromosome, which is apparently limited to the biovar I group of Agrobacterium. ... Read more >>

Appl Environ Microbiol (Applied and environmental microbiology)
[2013, 79(4):1414-1417]

Cited: 14 times

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Expression of the Arabidopsis thaliana BBX32 gene in soybean increases grain yield.

Sasha B Preuss, Robert Meister, Qingzhang Xu, Carl P Urwin, Federico A Tripodi, Steven E Screen, Veena S Anil, Shuquan Zhu, James A Morrell, Grace Liu, Oliver J Ratcliffe, T Lynne Reuber, Rajnish Khanna, Barry S Goldman, Erin Bell, Todd E Ziegler, Amanda L McClerren, Thomas G Ruff, Marie E Petracek,

Crop yield is a highly complex quantitative trait. Historically, successful breeding for improved grain yield has led to crop plants with improved source capacity, altered plant architecture, and increased resistance to abiotic and biotic stresses. To date, transgenic approaches towards improving crop grain yield have primarily focused on protecting plants ... Read more >>

PLoS One (PloS one)
[2012, 7(2):e30717]

Cited: 41 times

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Phenotypic variation and host interactions of Xenorhabdus bovienii SS-2004, the entomopathogenic symbiont of Steinernema jollieti nematodes.

Darby R Sugar, Kristen E Murfin, John M Chaston, Aaron W Andersen, Gregory R Richards, Limaris deLéon, James A Baum, William P Clinton, Steven Forst, Barry S Goldman, Karina C Krasomil-Osterfeld, Steven Slater, S Patricia Stock, Heidi Goodrich-Blair,

Xenorhabdus bovienii (SS-2004) bacteria reside in the intestine of the infective-juvenile (IJ) stage of the entomopathogenic nematode, Steinernema jollieti. The recent sequencing of the X. bovienii genome facilitates its use as a model to understand host - symbiont interactions. To provide a biological foundation for such studies, we characterized X. ... Read more >>

Environ Microbiol (Environmental microbiology)
[2012, 14(4):924-939]

Cited: 22 times

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The entomopathogenic bacterial endosymbionts Xenorhabdus and Photorhabdus: convergent lifestyles from divergent genomes.

John M Chaston, Garret Suen, Sarah L Tucker, Aaron W Andersen, Archna Bhasin, Edna Bode, Helge B Bode, Alexander O Brachmann, Charles E Cowles, Kimberly N Cowles, Creg Darby, Limaris de Léon, Kevin Drace, Zijin Du, Alain Givaudan, Erin E Herbert Tran, Kelsea A Jewell, Jennifer J Knack, Karina C Krasomil-Osterfeld, Ryan Kukor, Anne Lanois, Phil Latreille, Nancy K Leimgruber, Carolyn M Lipke, Renyi Liu, Xiaojun Lu, Eric C Martens, Pradeep R Marri, Claudine Médigue, Megan L Menard, Nancy M Miller, Nydia Morales-Soto, Stacie Norton, Jean-Claude Ogier, Samantha S Orchard, Dongjin Park, Youngjin Park, Barbara A Qurollo, Darby Renneckar Sugar, Gregory R Richards, Zoé Rouy, Brad Slominski, Kathryn Slominski, Holly Snyder, Brian C Tjaden, Ransome van der Hoeven, Roy D Welch, Cathy Wheeler, Bosong Xiang, Brad Barbazuk, Sophie Gaudriault, Brad Goodner, Steven C Slater, Steven Forst, Barry S Goldman, Heidi Goodrich-Blair,

Members of the genus Xenorhabdus are entomopathogenic bacteria that associate with nematodes. The nematode-bacteria pair infects and kills insects, with both partners contributing to insect pathogenesis and the bacteria providing nutrition to the nematode from available insect-derived nutrients. The nematode provides the bacteria with protection from predators, access to nutrients, ... Read more >>

PLoS One (PloS one)
[2011, 6(11):e27909]

Cited: 81 times

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Metabolically engineered soybean seed with enhanced threonine levels: biochemical characterization and seed-specific expression of lysine-insensitive variants of aspartate kinases from the enteric bacterium Xenorhabdus bovienii.

Qungang Qi, Jintai Huang, James Crowley, Lisa Ruschke, Barry S Goldman, Li Wen, William D Rapp,

Threonine (Thr) is one of a few limiting essential amino acids (EAAs) in the animal feed industry, and its level in feed rations can impact production of important meat sources, such as swine and poultry. Threonine as well as EAAs lysine (Lys) and methionine (Met) are all synthesized via the ... Read more >>

Plant Biotechnol J (Plant biotechnology journal)
[2011, 9(2):193-204]

Cited: 14 times

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Genome sequence of Azotobacter vinelandii, an obligate aerobe specialized to support diverse anaerobic metabolic processes.

João C Setubal, Patricia dos Santos, Barry S Goldman, Helga Ertesvåg, Guadelupe Espin, Luis M Rubio, Svein Valla, Nalvo F Almeida, Divya Balasubramanian, Lindsey Cromes, Leonardo Curatti, Zijin Du, Eric Godsy, Brad Goodner, Kaitlyn Hellner-Burris, José A Hernandez, Katherine Houmiel, Juan Imperial, Christina Kennedy, Timothy J Larson, Phil Latreille, Lauren S Ligon, Jing Lu, Mali Maerk, Nancy M Miller, Stacie Norton, Ina P O'Carroll, Ian Paulsen, Estella C Raulfs, Rebecca Roemer, James Rosser, Daniel Segura, Steve Slater, Shawn L Stricklin, David J Studholme, Jian Sun, Carlos J Viana, Erik Wallin, Baomin Wang, Cathy Wheeler, Huijun Zhu, Dennis R Dean, Ray Dixon, Derek Wood,

Azotobacter vinelandii is a soil bacterium related to the Pseudomonas genus that fixes nitrogen under aerobic conditions while simultaneously protecting nitrogenase from oxygen damage. In response to carbon availability, this organism undergoes a simple differentiation process to form cysts that are resistant to drought and other physical and chemical agents. ... Read more >>

J Bacteriol (Journal of bacteriology)
[2009, 191(14):4534-4545]

Cited: 113 times

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Predicting prokaryotic ecological niches using genome sequence analysis.

Garret Suen, Barry S Goldman, Roy D Welch,

Automated DNA sequencing technology is so rapid that analysis has become the rate-limiting step. Hundreds of prokaryotic genome sequences are publicly available, with new genomes uploaded at the rate of approximately 20 per month. As a result, this growing body of genome sequences will include microorganisms not previously identified, isolated, ... Read more >>

PLoS One (PloS one)
[2007, 2(8):e743]

Cited: 12 times

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Optical mapping as a routine tool for bacterial genome sequence finishing.

Phil Latreille, Stacie Norton, Barry S Goldman, John Henkhaus, Nancy Miller, Brad Barbazuk, Helge B Bode, Creg Darby, Zijin Du, Steve Forst, Sophie Gaudriault, Brad Goodner, Heidi Goodrich-Blair, Steven Slater,

<h4>Background</h4>In sequencing the genomes of two Xenorhabdus species, we encountered a large number of sequence repeats and assembly anomalies that stalled finishing efforts. This included a stretch of about 12 Kb that is over 99.9% identical between the plasmid and chromosome of X. nematophila.<h4>Results</h4>Whole genome restriction maps of the sequenced ... Read more >>

BMC Genomics (BMC genomics)
[2007, 8:321]

Cited: 73 times

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Functional genome annotation through phylogenomic mapping.

Balaji S Srinivasan, Nora B Caberoy, Garret Suen, Rion G Taylor, Radhika Shah, Farah Tengra, Barry S Goldman, Anthony G Garza, Roy D Welch,

Accurate determination of functional interactions among proteins at the genome level remains a challenge for genomic research. Here we introduce a genome-scale approach to functional protein annotation--phylogenomic mapping--that requires only sequence data, can be applied equally well to both finished and unfinished genomes, and can be extended beyond single genomes ... Read more >>

Nat Biotechnol (Nature biotechnology)
[2005, 23(6):691-698]

Cited: 13 times

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Bacterial postgenomics: the promise and peril of systems biology.

Garret Suen, Jimmy S Jakobsen, Barry S Goldman, Mitchell Singer, Anthony G Garza, Roy D Welch,

J Bacteriol (Journal of bacteriology)
[2006, 188(23):7999-8004]

Cited: 2 times

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Genomic analyses of bacterial respiratory and cytochrome c assembly systems: Bordetella as a model for the system II cytochrome c biogenesis pathway.

Robert G Kranz, Caroline S Beckett, Barry S Goldman,

An analysis of thirty-three genomes of selected bacteria for the presence of specific respiratory pathways and cytochrome c biogenesis systems has led to observations on respiration and biogenesis. A table summarizing these results is presented. The data suggested that Bordetella pertussis would be an excellent genetic model to study the ... Read more >>

Res Microbiol (Research in microbiology)
[2002, 153(1):1-6]

Cited: 22 times

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