@article{shastry_chu_barbieri_greback-clarke_smith_cummings_minzoni_pancorbo_gilleskie_ritola_et al._2023, title={Rational design and experimental evaluation of peptide ligands for the purification of adeno-associated viruses via affinity chromatography}, volume={9}, ISSN={["1860-7314"]}, DOI={10.1002/biot.202300230}, abstractNote={Adeno-associated viruses (AAVs) have acquired a central role in modern medicine as delivery agents for gene therapies targeting rare diseases. While new AAVs with improved tissue targeting, potency, and safety are being introduced, their biomanufacturing technology is lagging. In particular, the AAV purification pipeline hinges on protein ligands for the affinity-based capture step. While featuring excellent AAV binding capacity and selectivity, these ligands require strong acid (pH <3) elution conditions, which can compromise the product's activity and stability. Additionally, their high cost and limited lifetime has a significant impact on the price tag of AAV-based therapies. Seeking to introduce a more robust and affordable affinity technology, this study introduces a cohort of peptide ligands that (i) mimic the biorecognition activity of the AAV receptor (AAVR) and anti-AAV antibody A20, (ii) enable product elution under near-physiological conditions (pH 6.0), and (iii) grant extended reusability by withstanding multiple regenerations. A20-mimetic CYIHFSGYTNYNPSLKSC and AAVR-mimetic CVIDGSQSTDDDKIC demonstrated excellent capture of serotypes belonging to distinct clones/clades - namely, AAV1, AAV2, AAV5, AAV6, AAV8, and AAV9. This corroborates the in silico models documenting their ability to target regions of the viral capsid that are conserved across all serotypes. CVIDGSQSTDDDKIC-Toyopearl resin features binding capacity (≈10}, journal={BIOTECHNOLOGY JOURNAL}, author={Shastry, Shriarjun and Chu, Wenning and Barbieri, Eduardo and Greback-Clarke, Paul and Smith, William K. and Cummings, Christopher and Minzoni, Arianna and Pancorbo, Jennifer and Gilleskie, Gary and Ritola, Kimberly and et al.}, year={2023}, month={Sep} }
 @article{roberts_deen_johnson_levine_2003, title={Utilizing alternative indices to compare the conformance of market hogs across three packers}, volume={11}, number={6}, journal={Journal of Swine Health and Production}, author={Roberts, J. D. and Deen, J. and Johnson, T. and Levine, J. F.}, year={2003}, pages={284–290} }
 @book{johnson_berk_2000, title={Data analysis with JMP IN 4}, ISBN={053437395X}, publisher={Pacific Grove, CA: Duxbury/Thomson Learning}, author={Johnson, T. and Berk, K. N.}, year={2000} }
 @article{wagner_johnson_lindsey_1997, title={Investigation of the one-flask synthesis of porphyrins bearing meso-linked straps of variable length, rigidity, and redox activity}, volume={53}, ISSN={["0040-4020"]}, DOI={10.1016/S0040-4020(97)00327-X}, abstractNote={The reactions of 18 dialdehydes have been examined in the two-step one-flask room temperature porphyrin synthesis. Efficient alkylation methods were established for the reaction of diols and diacids with m-bromomethylbenzaldehyde. Dialdehydes linked at the o,o′-or m,m′-positions were converted to strapped porphyrins in yields up to 25%, while the one p,p′-linked dialdehyde that was examined failed to give porphyrin. The resulting porphyrins bear straps joining adjacent meso-positions rather than across the face of the porphyrin. Dialdehydes incorporating rigid groups provided improved yields in some but not all cases. The yield of strapped porphyrin exhibited a maximum at 10−2 M reactant concentrations. The o,o′-strapped porphyrins exist as atropisomers that are sufficiently stable to interconversion at room temperature to be separable chromatographically. No atropisomers of m,m′-strapped porphyrins could be separated, though some could be observed by 1H NMR spectroscopy. For two different m,m′-strapped porphyrins, the ΔG‡ values for interconversion of the atropisomers were found to be 66 and 68 kJ/mol. The outer rings in these strapped porphyrins range in size from 14 to 24 atoms. Five porphyrins with bridging redox-active groups (ferrocene or anthraquinone) have been prepared in one-flask reactions, including a porphyrin bearing one ferrocene and one anthraquinone in straps across adjacent meta-substituted phenyl sites.}, number={20}, journal={TETRAHEDRON}, author={Wagner, RW and Johnson, TE and Lindsey, JS}, year={1997}, month={May}, pages={6755–6790} }
 @misc{wagner_johnson_lindsey_1996, title={Soluble synthetic multiporphyrin arrays .1. Modular design and synthesis}, volume={118}, ISSN={["0002-7863"]}, DOI={10.1021/ja961611n}, abstractNote={A set of porphyrin building blocks has been developed for the construction of light-harvesting model compounds and related molecular photonic devices. The porphyrins are facially encumbered to enhance solubility in organic solvents, are employed in a defined metalation state (free base (Fb) or zinc chelate), and bear peripheral functional groups such as iodo or ethyne for joining the porphyrins via covalent bonds. The coupling of an iodophenylporphyrin and an ethynylphenylporphyrin via mild Pd-mediated reactions (2−4 mM of each porphyrin in toluene/triethylamine (5:1) with Pd2(dba)3 and AsPh3 at 35 °C for 2 h) yields the corresponding diphenylethyne-linked multiporphyrin array in 70−80% yield. The arrays are easily purified by a sequence of flash silica chromatography, preparative size exclusion chromatography, and gravity elution silica chromatography. The diphenylethyne linkers give a center-to-center separation of the porphyrins of ∼20 Å. Model light-harvesting compounds are easily prepared using Zn and Fb porphyrin building blocks. In order to investigate the role of the linker in through-bond electronic communication, and the effect of through-bond electronic communication on the rates and yields of photoinduced energy transfer in the arrays, four ZnFb dimers have been prepared that have a systematic increase in steric hindrance in the diphenylethyne unit. The presence of steric hindrance inhibits rotation of the phenyl group toward coplanarity with the porphyrin, thereby modulating the electronic communication. A linear ZnFbZn trimer and a right-angle ZnFbZn trimer have been prepared to probe the effects of geometry on electronic communication pathways. A linear ZnZnFb trimer has been synthesized to investigate the photodynamics of energy migration among isoenergetic zinc porphyrins. These multiporphyrin arrays have sufficient solubility (∼5 mM) for routine handling in organic solvents such as toluene, CH2Cl2, or CHCl3, and can be examined spectroscopically (1−10 μM) in diverse solvents such as tetrahydrofuran, acetone, dimethyl sulfoxide, and castor oil. This building block approach should make diverse multiporphyrin arrays readily available.}, number={45}, journal={JOURNAL OF THE AMERICAN CHEMICAL SOCIETY}, author={Wagner, RW and Johnson, TE and Lindsey, JS}, year={1996}, month={Nov}, pages={11166–11180} }
 @article{hsiao_krueger_wagner_johnson_delaney_mauzerall_fleming_lindsey_bocian_donohoe_1996, title={Soluble synthetic multiporphyrin arrays .2. Photodynamics of energy-transfer processes}, volume={118}, ISSN={["0002-7863"]}, DOI={10.1021/ja961612f}, abstractNote={Soluble ethyne-linked tetraarylporphyrin arrays that mimic natural light-harvesting complexes by absorbing light and directing excited-state energy have been investigated by static and time-resolved absorption and fluorescence spectroscopies. Of particular interest is the role of the diarylethyne linkers in mediating energy transfer. The major conclusions from this study, which is limited to the examination of arrays containing Zn and free-base (Fb) porphyrins, include the following: (1) Singlet excited-state energy transfer from the Zn porphyrin to the Fb porphyrin is extremely efficient (95−99%). Competitive electron-transfer reactions are not observed. (2) The rate of energy transfer is slowed up to 4-fold by the addition of groups to the linker that limit the ability of the linker and porphyrin to adopt geometries tending toward coplanarity. Thus, the mechanism of energy transfer predominantly involves through-bond communication via the linker. Consistent with this notion, the measured lifetimes of the Zn porphyrin in the dimers at room temperature yield energy-transfer rates ((88 ps)-1 < ktrans < (24 ps)-1) that are significantly faster than those predicted by the Förster (through-space) mechanism ((720 ps)-1). Nevertheless, the electronic communication is weak and the individual porphyrins appear to retain their intrinsic radiative and non-radiative rates upon incorporation into the arrays. (3) Transient absorption data indicate that the energy-transfer rate between two isoenergetic Zn porphyrins in a linear trimeric array terminated by a Fb porphyrin is (52 ± 19 ps)-1 in toluene at room temperature, while the time-resolved fluorescence data suggest that it may be significantly faster. Accordingly, incorporation of multiple isoenergetic pigments in extended linear or two-dimensional arrays will permit efficient overall energy transfer. (4) Medium effects, including variations in solvent polarity, temperature, viscosity, and axial solvent ligation, only very weakly alter (≤2.5-fold) the energy-transfer rates. However, the Fb porphyrin fluorescence in the Zn−Fb dimers is quenched in the polar solvent dimethyl sulfoxide (but not in toluene, castor oil, or acetone), which is attributed to charge-transfer with the neighboring Zn porphyrin following energy transfer. Collectively, the studies demonstrate that extended multiporphyrin arrays can be designed in a rational manner with predictable photophysical features and efficient light-harvesting properties through use of the diarylethyne-linked porphyrin motif.}, number={45}, journal={JOURNAL OF THE AMERICAN CHEMICAL SOCIETY}, author={Hsiao, JS and Krueger, BP and Wagner, RW and Johnson, TE and Delaney, JK and Mauzerall, DC and Fleming, GR and Lindsey, JS and Bocian, DF and Donohoe, RJ}, year={1996}, month={Nov}, pages={11181–11193} }