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Biology subjects

Tie, Z.

Publications and source records attributed to Tie, Z..

2 recordsLinked to original sources

Data-informed discovery of hydrolytic nanozymes

Nanozyme is a collection of nanomaterials with enzyme-like activity but exhibits higher environmental tolerance and long-term stability than their natural counterparts. Improving the catalytic activity and expanding the category of nanozymes are prerequisites to complement or even supersede natural enzymes. Specifically, a powerful hydrolytic nanozyme is demanded to degrade the unsustainable substance which natural enzymes hardly achieve. However, the development of hydrolytic nanozymes is still hindered by diverse hydrolytic substrates and following complicated mechanisms. Here, we apply two strategies which are informed by data to screen and predict catalytic active sites of MOF (metal-organic framework) based hydrolytic nanozymes. One is to increase the intrinsic activity by finely tuned Lewis acidity of the metal clusters. The other is to adjust the volume density of the active sites by shortening the length of ligands. Finally, we construct a Ce-FMA-MOF-based hydrolytic nanozyme with robust cleavage ability towards phosphate bonds, amide bonds, glycosidic bonds whose energy ascend in order; and even their mixture, biofilms. This work provides a rational methodology to design hydrolytic nanozyme, enriches the diversity of nanozymes, and potentially sheds a light on the evolution of enzyme engineering in the future.

biophysics↗

The Effect of Berberine on the Transcriptome and Proteome of E. coli

Berberine is commonly used to treat diarrhea in China, and the antibacterial properties of berberine have been confirmed. High-throughput sequencing technology was used to explore the changes induced in E. coli by berberine. After treatment with berberine, the expression of RstA and YbjG were found to be significantly different by RNA-seq and quantitative proteomics. However, the levels of MdtA, PmrA, LolD, LptG, MlaB, RcsF, and DppB were found to be significantly different by quantitative proteomics. Transcriptome sequencing did not yield as many results as proteome sequencing. The results of small RNA prediction showed increased sRNA00002 levels. The study showed that the differentially expressed mRNAs and proteins were associated with multidrug-resistant efflux systems. It can be inferred that berberine reduces E. coli antibiotic resistance. The results of this study are undoubtedly valuable to other researchers.

microbiology↗