Full Text Journal Articles by
Author Christina M Agapakis

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Symbiotic Burkholderia Species Show Diverse Arrangements of nif/fix and nod Genes and Lack Typical High-Affinity Cytochrome cbb3 Oxidase Genes.

Sofie E De Meyer, Leah Briscoe, Pilar Martínez-Hidalgo, Christina M Agapakis, Paulina Estrada de-Los Santos, Rekha Seshadri, Wayne Reeve, George Weinstock, Graham O'Hara, John G Howieson, Ann M Hirsch,

Genome analysis of fourteen mimosoid and four papilionoid beta-rhizobia together with fourteen reference alpha-rhizobia for both nodulation (nod) and nitrogen-fixing (nif/fix) genes has shown phylogenetic congruence between 16S rRNA/MLSA (combined 16S rRNA gene sequencing and multilocus sequence analysis) and nif/fix genes, indicating a free-living diazotrophic ancestry of the beta-rhizobia. However, ... Read more >>

Mol. Plant Microbe Interact. (Molecular plant-microbe interactions : MPMI)
[2016, 29(8):609-619]

Cited: 11 times

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Designing synthetic biology.

Christina M Agapakis,

Synthetic biology is frequently defined as the application of engineering design principles to biology. Such principles are intended to streamline the practice of biological engineering, to shorten the time required to design, build, and test synthetic gene networks. This streamlining of iterative design cycles can facilitate the future construction of ... Read more >>

ACS Synth Biol (ACS synthetic biology)
[2014, 3(3):121-128]

Cited: 12 times

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Plant-associated symbiotic Burkholderia species lack hallmark strategies required in mammalian pathogenesis.

Annette A Angus, Christina M Agapakis, Stephanie Fong, Shailaja Yerrapragada, Paulina Estrada-de los Santos, Paul Yang, Nannie Song, Stephanie Kano, Jésus Caballero-Mellado, Sergio M de Faria, Felix D Dakora, George Weinstock, Ann M Hirsch,

Burkholderia is a diverse and dynamic genus, containing pathogenic species as well as species that form complex interactions with plants. Pathogenic strains, such as B. pseudomallei and B. mallei, can cause serious disease in mammals, while other Burkholderia strains are opportunistic pathogens, infecting humans or animals with a compromised immune ... Read more >>

PLoS ONE (PloS one)
[2014, 9(1):e83779]

Cited: 37 times

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A survey of the microbial community in the rhizosphere of two dominant shrubs of the Negev Desert highlands, Zygophyllum dumosum (Zygophyllaceae) and Atriplex halimus (Amaranthaceae), using cultivation-dependent and cultivation-independent methods.

Drora Kaplan, Maskit Maymon, Christina M Agapakis, Andrew Lee, Andrew Wang, Barry A Prigge, Mykola Volkogon, Ann M Hirsch,

•Plant roots comprise more than 50% of the plant's biomass. Part of that biomass includes the root microbiome, the assemblage of bacteria and fungi living in the 1-3 mm region adjacent to the external surface of the root, the rhizosphere. We hypothesized that the microorganisms living in the rhizosphere and ... Read more >>

Am. J. Bot. (American journal of botany)
[2013, 100(9):1713-1725]

Cited: 8 times

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A survey of the microbial community in the rhizosphere of two dominant shrubs of the Negev Desert highlands, Zygophyllum dumosum (Zygophyllaceae) and Atriplex halimus (Amaranthaceae), using cultivation-dependent and cultivation-independent methods

Drora Kaplan, Maskit Maymon, Christina M Agapakis, Andrew Lee, Andrew Wang, Barry A Prigge, Mykola Volkogon, Ann M Hirsch,

• Premise of the study: Plant roots comprise more than 50% of the plant’s biomass. Part of that biomass includes the root microbiome, the assemblage of bacteria and fungi living in the 1–3 mm region adjacent to the external surface of the root, the rhizosphere. We hypothesized that the microorganisms ... Read more >>

Am. J. Bot. (American journal of botany)
[2013, 100(9):1713-1725]

Cited: 8 times

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Smelling in multiple dimensions.

Christina M Agapakis, Sissel Tolaas,

Smell is perhaps the most subjective of the human senses, making odors difficult to measure and define. In everyday language, in the philosophy of aesthetics, and in the lab, this low opinion of odors means that smells are often characterized simply along an axis of good or bad. Odors and ... Read more >>

Curr Opin Chem Biol (Current opinion in chemical biology)
[2012, 16(5-6):569-575]

Cited: 3 times

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A BioBrick compatible strategy for genetic modification of plants.

Patrick M Boyle, Devin R Burrill, Mara C Inniss, Christina M Agapakis, Aaron Deardon, Jonathan G DeWerd, Michael A Gedeon, Jacqueline Y Quinn, Morgan L Paull, Anugraha M Raman, Mark R Theilmann, Lu Wang, Julia C Winn, Oliver Medvedik, Kurt Schellenberg, Karmella A Haynes, Alain Viel, Tamara J Brenner, George M Church, Jagesh V Shah, Pamela A Silver,

Plant biotechnology can be leveraged to produce food, fuel, medicine, and materials. Standardized methods advocated by the synthetic biology community can accelerate the plant design cycle, ultimately making plant engineering more widely accessible to bioengineers who can contribute diverse creative input to the design process.This paper presents work done largely ... Read more >>

J Biol Eng (Journal of Biological Engineering)
[2012, 6(1):8]

Cited: 8 times

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Natural strategies for the spatial optimization of metabolism in synthetic biology.

Christina M Agapakis, Patrick M Boyle, Pamela A Silver,

Metabolism is a highly interconnected web of chemical reactions that power life. Though the stoichiometry of metabolism is well understood, the multidimensional aspects of metabolic regulation in time and space remain difficult to define, model and engineer. Complex metabolic conversions can be performed by multiple species working cooperatively and exchanging ... Read more >>

Nat. Chem. Biol. (Nature chemical biology)
[2012, 8(6):527-535]

Cited: 96 times

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A synthetic system links FeFe-hydrogenases to essential E. coli sulfur metabolism.

Buz Barstow, Christina M Agapakis, Patrick M Boyle, Gerald Grandl, Pamela A Silver, Edwin H Wintermute,

FeFe-hydrogenases are the most active class of H2-producing enzymes known in nature and may have important applications in clean H2 energy production. Many potential uses are currently complicated by a crucial weakness: the active sites of all known FeFe-hydrogenases are irreversibly inactivated by O2.We have developed a synthetic metabolic pathway ... Read more >>

J Biol Eng (Journal of Biological Engineering)
[2011, 5:7]

Cited: 4 times

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Towards a synthetic chloroplast.

Christina M Agapakis, Henrike Niederholtmeyer, Ramil R Noche, Tami D Lieberman, Sean G Megason, Jeffrey C Way, Pamela A Silver,

BACKGROUND:The evolution of eukaryotic cells is widely agreed to have proceeded through a series of endosymbiotic events between larger cells and proteobacteria or cyanobacteria, leading to the formation of mitochondria or chloroplasts, respectively. Engineered endosymbiotic relationships between different species of cells are a valuable tool for synthetic biology, where engineered ... Read more >>

PLoS ONE (PloS one)
[2011, 6(4):e18877]

Cited: 27 times

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Synthetic biology: exploring and exploiting genetic modularity through the design of novel biological networks.

Christina M Agapakis, Pamela A Silver,

Synthetic biology has been used to describe many biological endeavors over the past thirty years--from designing enzymes and in vitro systems, to manipulating existing metabolisms and gene expression, to creating entirely synthetic replicating life forms. What separates the current incarnation of synthetic biology from the recombinant DNA technology or metabolic ... Read more >>

Mol Biosyst (Molecular bioSystems)
[2009, 5(7):704-713]

Cited: 30 times

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Association testing of the protein tyrosine phosphatase 1B gene (PTPN1) with type 2 diabetes in 7,883 people.

Jose C Florez, Christina M Agapakis, Noël P Burtt, Maria Sun, Peter Almgren, Lennart Råstam, Tiinamaija Tuomi, Daniel Gaudet, Thomas J Hudson, Mark J Daly, Kristin G Ardlie, Joel N Hirschhorn, Leif Groop, David Altshuler,

Protein tyrosine phosphatase (PTP)-1B, encoded by the PTPN1 gene, inactivates the insulin signal transduction cascade by dephosphorylating phosphotyrosine residues in insulin signaling molecules. Due to its chromosomal location under a chromosome 20 linkage peak and the metabolic effects of its absence in knockout mice, it is a candidate gene for ... Read more >>

Diabetes (Diabetes)
[2005, 54(6):1884-1891]

Cited: 27 times

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High-density haplotype structure and association testing of the insulin-degrading enzyme (IDE) gene with type 2 diabetes in 4,206 people.

Jose C Florez, Steven Wiltshire, Christina M Agapakis, Noël P Burtt, Paul I W de Bakker, Peter Almgren, Kristina Bengtsson Boström, Tiinamaija Tuomi, Daniel Gaudet, Mark J Daly, Joel N Hirschhorn, Mark I McCarthy, David Altshuler, Leif Groop,

The insulin-degrading enzyme is responsible for the intracellular proteolysis of insulin. Its gene IDE is located on chromosome 10, in an area with suggestive linkage to type 2 diabetes and related phenotypes. Due to the impact of genetic variants of this gene in rodents and the function of its protein ... Read more >>

Diabetes (Diabetes)
[2006, 55(1):128-135]

Cited: 23 times

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Myriaporone 3/4 structure--activity relationship studies define a pharmacophore targeting eukaryotic protein synthesis.

John Hines, Myriam Roy, Hua Cheng, Christina M Agapakis, Richard Taylor, Craig M Crews,

Myriaporones are naturally occurring compounds which structurally resemble the southern hemisphere of the tedanolide family of macrolide antitumor agents. Despite the fact that myriaporone 3/4 represents only a portion of tedanolide, it nonetheless retains much of its biological activity. We show here that like tedanolide, myriaporone 3/4 inhibits protein synthesis ... Read more >>

Mol Biosyst (Molecular bioSystems)
[2006, 2(8):371-379]

Cited: 5 times

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Identification of a molecular recognition role for the activation loop phosphotyrosine of the SRC tyrosine kinase.

Elizabeth J Videlock, Victor K Chung, Justin M Hall, John Hines, Christina M Agapakis, David J Austin,

A human cDNA phage display library screen, using a phosphopeptide designed to mimic the activation loop phosphotyrosine of the Src tyrosine kinase, has identified the N-terminal SH2 domain of the p85 regulatory subunit of phosphatidyl inositol-3 kinase (PI3K) as an interacting recognition domain. Activation loop phosphorylation is known to play ... Read more >>

J. Am. Chem. Soc. (Journal of the American Chemical Society)
[2005, 127(6):1600-1601]

Cited: 2 times

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