Susan D. Gillmor

Microcontact insertion printing

The authors describe a chemical patterning technique, “microcontact insertion printing,” that utilizes conventional microcontact printing to pattern isolated molecules diluted within a preexisting self-assembled monolayer. By modifying the preexisting monolayer quality, the stamping duration, and/or the concentration of the patterned molecule, they can influence the extent of molecular exchange and precisely control the molecular composition of patterned self-assembled monolayers. This simple methodology can be used to fabricate complex patterns via multiple stamping steps and has applications ranging from bioselective surfaces to molecular-scale electronic components.

Controlled deposition of picoliter amounts of fluid using an ultrasonically driven micropipette

A fluid microplotter that uses ultrasonics to deposit small fluid features has been constructed. It consists of a dispenser, composed of a micropipette fastened to a piece of lead zirconate titanate piezoelectric, attached to a precision positioning system. When an electrical signal of the appropriate frequency and voltage is applied, solution in the tip of the micropipette wicks to the surface in a controlled fashion. The gentle pumping of fluid to the surface occurs when the micropipette is driven at frequencies in the range of 400–700 kHz. Spots with diameters smaller than several microns can be deposited in this manner. Continuous lines can also be produced. Several examples of deposited patterns and structures are described. This means of deposition represents a higher-resolution alternative to standard fluid deposition techniques in the fabrication of biological microarrays or polymer-based circuits.

Enhanced molecular patterning via microdisplacement printing

Here we demonstrate the versatility of “microdisplacement printing,” a soft lithographic patterning technique that employs microcontact printing to replace pre-formed self-assembled monolayers (SAMs) selectively. We use molecules that are common in microcontact printing as well as low-molecular-weight molecules that cannot be patterned by traditional methods. Multiple component SAMs were fabricated by additional processing steps, extending microdisplacement printing to more complex patterns.

Surface-based DNA computing operations: DESTROY and READOUT

DNA computing on surfaces is where complex combinatorial mixtures of DNA molecules are immobilized on a substrate and subsets are tagged and enzymatically modified (DESTROY) in repeated cycles of the DNA computation. A restriction enzyme has been chosen for the surface DESTROY operation. For the READOUT operation, both cycle sequencing and PCR amplification followed by addressed array hybridization were studied to determine the DNA sequences after the computations.

Characterization and performance of short cationic antimicrobial peptide isomers

Cationic antimicrobial peptides (CAMPs) represent an ancient defense mechanism against invading bacteria, with peptides such as the cathelicidins being essential elements of vertebrate innate immunity. CAMPs are typically associated with broad-spectrum antimicrobial potency and limited bacterial resistance. The cathelicidin identified from the elapid snake Naja atra (NA-CATH) contains a semi-conserved repeated 11-residue motif (ATRA motif) with a sequence pattern consistent with formation of an amphipathic helical conformation. Short peptide amides (ATRA-1, -1A, -1P, and -2) generated based on the pair of ATRA motifs in NA-CATH exhibited varied antimicrobial potencies. The small size of the ATRA peptides, coupled with their varied antimicrobial performances, make them interesting models to study the impact various physico-chemical properties have on antimicrobial performance in helical CAMPs. Accordingly, the D- and L-enantiomers of the peptide ATRA-1A, which in earlier studies had shown both good antimicrobial performance and strong helical character, were investigated in order to assess the impact peptide stereochemistry has on antimicrobial performance and interaction with chiral membranes. The ATRA-1A isomers exhibit varied potencies against four bacterial strains, and their conformational properties in the presence of mixed zwitterionic/anionic liposomes are influenced by anionic lipid content. These studies reveal subtle differences in the properties of the peptide isomers. Differences are also seen in the abilities of the ATRA-1A isomers to induce liposome fusion/aggregation, bilayer rearrangement and lysing through turbidity studies and fluorescence microscopy. The similarities and differences in the properties of the ATRA-1A isomers could aid in efforts to develop D-peptide-based therapeutics using high-performing L-peptides as templates.

Computation with DNA on surfaces

DNA computation has the potential to tackle computationally difficult problems that have real-world implications. The parallel search capabilities of DNA make it a valuable tool to approach problems that have a large number of possible solutions, for which conventional computers have limited potential. Surface science can play a significant role in harnessing the parallel nature of DNA for computation. This article briefly reviews conventional computing architecture, discusses DNA computation, and describes the role of surface science in DNA computation.

Long-Term Reduction in Poly(dimethylsiloxane) Surface Hydrophobicity via Cold-Plasma Treatments

Poly(dimethylsiloxane), PDMS, a versatile elastomer, is the polymer of choice for microfluidic systems. It is inexpensive, relatively easy to pattern, and permeable to oxygen. Unmodified PDMS is highly hydrophobic. It is typically exposed to an oxygen plasma to reduce this hydrophobicity. Unfortunately, the PDMS surface soon returns to its original hydrophobic state. We present two alternative plasma treatments that yield long-term modification of the wetting properties of a PDMS surface. An oxygen plasma pretreatment followed by exposure to a SiCl4 plasma and an oxygen-CCl4 mixture plasma both cause a permanent reduction in the hydrophobicity of the PDMS surface. We investigate the properties of the plasma-treated surfaces with X-ray photoelectron spectroscopy (XPS) and contact angle measurements. We propose that the plasma treated PDMS surface is a dynamic mosaic of high- and low-contact-angle functionalities. The SiCl4 and CCl4 plasmas attach polar groups that block coverage of the surface by low-molecular-weight groups that exist in PDMS. We describe an application that benefits from these new plasma treatments, the use of a PDMS stencil to form dense arrays of DNA on a surface.

The structure and behavior of the NA-CATH antimicrobial peptide with liposomes.

Naja atra cathelicidin (NA-CATH) is a 34-amino acid highly cationic peptide identified in Chinese cobras to possess potent toxicity against gram-negative and gram-positive bacteria and low toxicity against host cells. Here, we report the NMR solution structure of the full-length NA-CATH peptide and its interaction with liposomes. The structure shows a well-defined α-helix between residues Phe3 to Lys23, on which one surface is lined by the side-chains of one arginine and 11 lysine residues, while the other side is populated by hydrophobic residues. The last eleven amino acids, which are predominately aromatic and hydrophobic in nature, have no defined structure. NMR data reveal that these residues do not interact with the hydrophobic residues of the helix, indicating that the C-terminal residues have random conformations. Fluorescence requenching experiments, in which liposomes serve as a mimic of the bacterial membranes, result in fluorophore leakage that is consistent with a membrane thinning or transient pore formation mechanism. NMR titration studies of the peptide-liposome interaction reveal that the peptide is in fast exchange with the liposome, consistent with the fluorescent studies. These data indicate that full length NA-CATH possesses a helical segment and unstructured C-terminal tail that disrupts the bilayer to induce leakage and lysing.

The Recombinant Sea Urchin Immune Effector Protein, rSpTransformer-E1, Binds to Phosphatidic Acid and Deforms Membranes

The purple sea urchin, Strongylocentrotus purpuratus, possesses a sophisticated innate immune system that functions without adaptive capabilities and responds to pathogens effectively by expressing the highly diverse SpTransformer gene family (formerly the Sp185/333 gene family). The swift gene expression response and the sequence diversity of SpTransformer cDNAs suggest that the encoded proteins have immune functions. Individual sea urchins can express up to 260 distinct SpTransformer proteins, and their diversity suggests that different versions may have different functions. Although the deduced proteins are diverse, they share an overall structure of a hydrophobic leader, a glycine-rich N-terminal region, a histidine-rich region, and a C-terminal region. Circular dichroism analysis of a recombinant SpTransformer protein, rSpTransformer-E1 (rSpTrf-E1) demonstrates that it is intrinsically disordered and transforms to α helical in the presence of buffer additives and binding targets. Although native SpTrf proteins are associated with the membranes of perinuclear vesicles in the phagocyte class of coelomocytes and are present on the surface of small phagocytes, they have no predicted transmembrane region or conserved site for glycophosphatidylinositol linkage. To determine whether native SpTrf proteins associate with phagocyte membranes through interactions with lipids, when rSpTrf-E1 is incubated with lipid-embedded nylon strips, it binds to phosphatidic acid (PA) through both the glycine-rich region and the histidine-rich region. Synthetic liposomes composed of PA and phosphatidylcholine show binding between rSpTrf-E1 and PA by fluorescence resonance energy transfer, which is associated with leakage of luminal contents suggesting changes in lipid organization and perhaps liposome lysis. Interactions with liposomes also change membrane curvature leading to liposome budding, fusion, and invagination, which is associated with PA clustering induced by rSpTrf-E1 binding. Longer incubations result in the extraction of PA from the liposomes, which form disorganized clusters. CD shows that when rSpTrf-E1 binds to PA, it changes its secondary structure from disordered to α helical. These results provide evidence for how SpTransformer proteins may associate with molecules that have exposed phosphates including PA on cell membranes and how the characteristic of protein multimerization may drive changes in the organization of membrane lipids.

Dimpled vesicles: the interplay between energetics and transient pores.

The familiar biconcave shape of the red-blood cell (RBC) deforms as the cell travels through capillaries. Its dimpled configurations are unique cell shapes and display malleability to form echinocytes, discocytes and stomatocytes, in response to external perturbations. Sheetz and Singer introduced intercalating species to the exterior lipid leaflet of the membrane to promote cup-shaped stomatocytes, and observed that additives to the interior had the opposite effect. Shape transformations appear to be controlled via the RBC bilayer and the asymmetric surface areas of the two leaflets [Proc. Natl. Acad. Sci. U.S.A. 1974, 71, 4457]. Our system promotes area-difference between the lipid bilayer leaflets from a fully symmetrical system and has mimicked the RBC discoid. In our analysis, we explore the system energetic and geometric confinements, which points to transient pores as enablers for the vesicles to deflate and thereby to assume lower profiles.