Machine learning provides predictive analysis into silver nanoparticle protein corona formation from physicochemical properties

Proteins encountered in biological and environmental systems bind to engineered nanomaterials (ENMs) to form a protein corona (PC) that alters the surface chemistry, reactivity, and fate of the ENMs. Complexities such as the diversity of the PC and variation with ENM properties and reaction conditions make the PC population difficult to predict. Here, we support the development of predictive models for PC populations by relating biophysicochemical characteristics of proteins, ENMs, and solution conditions to PC formation using random forest classification. The resulting model offers a predictive analysis into the population of PC proteins in Ag ENM systems of various ENM size and surface coatings. With an area under the receiver operating characteristic curve of 0.83 and F1-score of 0.81, a model with strong performance has been constructed based upon experimental data. The weighted contribution of each variable provides recommendations for mechanistic models based upon protein enrichment classification results. Protein biophysical properties such as pI and weight are weighted heavily. Yet, ENM size, surface charge, and solution ionic strength also proved essential to an accurate model. The model can be readily modified and applied to other ENM PC populations. The model presented here represents the first step toward robust predictions of PC fingerprints

The Primarily Undergraduate Nanomaterials Cooperative: A New Model for Supporting Collaborative Research at Small Institutions on a National Scale

The Primarily Undergraduate Nanomaterials Cooperative (PUNC) is an organization for research-active faculty studying nanomaterials at Primarily Undergraduate Institutions (PUIs), where undergraduate teaching and research go hand-in-hand. In this perspective, we outline the differences in maintaining an active research group at a PUI compared to an R1 institution. We also discuss the work of PUNC, which focuses on community building, instrument sharing, and facilitating new collaborations. Currently consisting of 37 members from across the United States, PUNC has created an online community consisting of its Web site (nanocooperative.org), a weekly online summer group meeting program for faculty and students, and a Discord server for informal conversations. Additionally, in-person symposia at ACS conferences and PUNC-specific conferences are planned for the future. It is our hope that in the years to come PUNC will be seen as a model organization for community building and research support at primarily undergraduate institutions

On the issue of transparency and reproducibility in nanomedicine.

Following our call to join in the discussion over the suitability of implementing a reporting checklist for bio-nano papers, the community responds

Identification and Kinetic Studies of the Reaction Between Mg (O3SCF3)2 and Acetol

(Statement of Responsibility) by Korin E. Wheeler(Thesis) Thesis (B.A.) -- New College of Florida, 2001(Electronic Access) RESTRICTED TO NCF STUDENTS, STAFF, FACULTY, AND ON-CAMPUS USE(Bibliography) Includes bibliographical references.(Source of Description) This bibliographic record is available under the Creative Commons CC0 public domain dedication. The New College of Florida, as creator of this bibliographic record, has waived all rights to it worldwide under copyright law, including all related and neighboring rights, to the extent allowed by law.(Local) Faculty Sponsor: Sherman, Suzann

Structural and Functional Effects of Cu Metalloprotein-Driven Silver Nanoparticle Dissolution

Interactions of a model Cu-metalloprotein, azurin, with 10–100 nm silver nanoparticles (NPs) were examined to elucidate the role of oxidative dissolution and protein interaction on the biological reactivity of NPs. Although minimal protein and NP structural changes were observed upon interaction, displacement of Cu­(II) and formation of Ag­(I) azurin species under aerobic conditions implicates Cu­(II) azurin as a catalyst of NP oxidative dissolution. Consistent with NP oxidation potentials, largest concentrations of Ag­(I) azurin species were recorded in reaction with 10 nm NPs (>50%). Apo-protein was also observed under anaerobic reaction with NPs of all sizes and upon aerobic reaction with larger NPs (>20 nm), where NP oxidation is slowed. Cu­(II) azurin displacement upon reaction with NPs was significantly greater than when reacted with Ag­(I)­(<i>aq</i>) alone. Regardless of NP size, dialysis experiments show minimal reactivity between azurin and the Ag­(I)­(<i>aq</i>) species formed as a result of NP oxidative dissolution, indicating Cu displacement from azurin occurs at the NP surface. Mechanisms of azurin-silver NP interaction are proposed. Results demonstrate that NP interactions not only impact protein structure and function, but also NP reactivity, with implications for targeting, uptake, and cytotoxicity

Characterization of Extracellular Polymeric Substances from Acidophilic Microbial Biofilms

We examined the chemical composition of extracellular polymeric substances (EPS) extracted from two natural microbial pellicle biofilms growing on acid mine drainage (AMD) solutions. The EPS obtained from a mid-developmental-stage biofilm (DS1) and a mature biofilm (DS2) were qualitatively and quantitatively compared. More than twice as much EPS was derived from DS2 as from DS1 (approximately 340 and 150 mg of EPS per g [dry weight] for DS2 and DS1, respectively). Composition analyses indicated the presence of carbohydrates, metals, proteins, and minor quantities of DNA and lipids, although the relative concentrations of these components were different for the two EPS samples. EPS from DS2 contained higher concentrations of metals and carbohydrates than EPS from DS1. Fe was the most abundant metal in both samples, accounting for about 73% of the total metal content, followed by Al, Mg, and Zn. The relative concentration profile for these metals resembled that for the AMD solution in which the biofilms grew, except for Si, Mn, and Co. Glycosyl composition analysis indicated that both EPS samples were composed primarily of galactose, glucose, heptose, rhamnose, and mannose, while the relative amounts of individual sugars were substantially different in DS1 and DS2. Additionally, carbohydrate linkage analysis revealed multiply linked heptose, galactose, glucose, mannose, and rhamnose, with some of the glucose in a 4-linked form. These results indicate that the biochemical composition of the EPS from these acidic biofilms is dependent on maturity and is controlled by the microbial communities, as well as the local geochemical environment