Rui Shi

Dr. Rui Shi

Southwest Forestry University
orcid

Research Focus & Metrics

Academic Career Length

6Years (2021-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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29 December 2022 in ACS Sustainable Chemistry & Engineering
Verified
Journal Article
Closed access
YAYulong An
Yulong An
CLCan Liu
Can Liu
MCMing Chen
Ming Chen
XYXiangjiang Yin
Xiangjiang Yin
DHDefa Hou
Defa Hou
XLXu Lin
Xu Lin

25 January 2022 in Microorganisms
Verified
Journal Article
Open access
PDF file
RSRui Shi
Rui Shi
SWShu Wang
Shu Wang
BXBinjie Xiong
Binjie Xiong
HGHaiyan Gu
Haiyan Gu
HWHuiling Wang
Huiling Wang
XHXiahong He
Xiahong He
Bioorganic fertilizers can alleviate (a) biotic stresses and sustainably increase crop yields. The effect of bioorganic fertilizers on the rhizosphere bacterial community of Panax notoginseng and soil metabolism remains unknown. Here, we tracked the changes in the soil physicochemical properties, bacterial microbiota responses, and soil metabolic functions after the addition of a bioorganic fertilizer in a P. notoginseng field. The application of a bioorganic fertilizer reduced the soil acidification, improved the organic matter, and increased the contents of the total/available soil nutrients. Soil amendment with a bioorganic fertilizer significantly affected the structure of the rhizosphere bacterial community, leading to the enrichment of specific bacterial consortia such as Rhodanobacter, Arthrobacter, Sphingomonas, Devosia, Pseudolabrys, Luteimonas, Lysobacter, Nitrosospira, and Nakamurella. Previously, many of these genera have been associated with nutrient cycling, plant productivity, and disease suppression. Metabolome analysis further highlighted that the bioorganic fertilizer treatment significantly reduced phenolic acids and flavonoids and enhanced organic acids, saccharides and alcohols, and amino acids. This result indicates a high survival of bacterial microbiota in the rhizosphere and an availability of nutrients for P. notoginseng growth. This work showed that the application of bioorganic fertilizers significantly improves soil health status, alters soil metabolic functions, and stimulates a specific subset of rhizosphere microbiota for nutrient cycling and disease protection in P. notoginseng.

8 December 2021 in Agronomy
Verified
Journal Article
Open access
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RSRui Shi
Rui Shi
HGHaiyan Gu
Haiyan Gu
SHShu He
Shu He
BXBinjie Xiong
Binjie Xiong
YHYouguo Huang
Youguo Huang
XHXiahong He
Xiahong He
The present study investigated the potential changes in the structure of bacterial communities and their functional profiles in the rhizospheres of Panax notoginseng cultivated under field (CK) and pine forest conditions (T). The rhizospheres of two-year-old P. notoginseng plants were used to extract DNA for metagenomic sequencing and metabolites for metabolomic profiling. The results revealed a higher root weight (p < 0.05) in plants grown under the forest than CK. The rhizospheric bacterial community comprised mainly three dominant phyla including Acidobacteria, Proteobacteria, and Candidatus rokubacteria which accounted for 75% of the total microbial population. Among them, Acidobacteria was the most abundant bacterial taxa, accounting for 42.4% and 40.4% of the total populations in CK and T, respectively. Relative abundances of bacterial genera revealed that Bradyrhizobium, Candidatus koribacter and Edaphobacter, were the dominant genera in both groups. Comparatively, a higher Proteobacteria to Acidobacteria ratio was observed in forest rhizospheres than in field conditions. Candidatus Rokubacteria and Candidatus nitrostelea were identified as biomarker taxa in forest rhizospheres, while the same could be said for taxa belonging to betaproteobacteria and gammaproteobacteria, Burkholderiales and Verrucomicrobia for field rhizospheres. No differential metabolite contents were observed between the two rhizosphere groups, indicating no adverse effects of P. notoginseng cultivation on the soil quality under forest plantation.

12 February 2024 in ACS Applied Materials & Interfaces
Verified
Journal Article
Closed access
MCMenglin Chen
Menglin Chen
CLCan Liu
Can Liu
HSHao Sun
Hao Sun
FYFulin Yang
Fulin Yang
DHDefa Hou
Defa Hou
XLXu Lin
Xu Lin

Verified
Journal Article
Open access
PDF file
YLYan Li
Yan Li
CLCan Liu
Can Liu
MCMenglin Chen
Menglin Chen
AYAn Yulong
An Yulong
YZYunwu Zheng
Yunwu Zheng
XLXu Lin
Xu Lin
Carbon dots (CDs) are widely used nanomaterials that not only exhibit good biocompatibility and photostability, but also benefit from a simple preparation process and easy functionalization, making them promising for broad applications in the fields of heavy metal ion detection and optoelectronic devices. Based on the excellent optical properties of CDs and the current situation of increasing energy shortages, this paper selects the natural polyphenolic compound tannic acid (TA) found in biomass materials as the carbon source and innovatively adopts a simple and convenient solvent-free pyrolysis method without auxiliary reagents or solvents. The CDs with good water solubility and certain fluorescence properties were directly prepared under the condition of high temperature, and the obtained CDs exhibited blue fluorescence, and a high QY of 35.4% was obtained at 300 °C. The analysis and results demonstrate the selectivity of these CDs for the detection of various metal ion solutions. In particular, these CDs are sensitive to Ni2+ and can be used as fluorescent sensors for the efficient and sustainable detection of Ni2+, whereas previous sensors were often specific to Fe3+ and Hg2+. Thus, a new sensing technique has been developed for the detection of Ni2+ to achieve more sensitive and rapid detection.

23 May 2024 in Plants
Verified
Journal Article
Open access
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XYXinru Yan
Xinru Yan
AZAo Zhang
Ao Zhang
YGYiming Guan
Yiming Guan
JJJinlong Jiao
Jinlong Jiao
Murad GhanimMurad Ghanim
Murad Ghanim
RSRui Shi
Rui Shi
Panax notoginseng is a perennial plant well known for its versatile medicinal properties, including hepatoprotective, antioxidant, anti-inflammatory, anti-tumor, estrogen-like, and antidepressant characteristics. It has been reported that plant age affects the quality of P. notoginseng. This study aimed to explore the differential metabolome and transcriptome of 2-year (PN2) and 3-year-old (PN3) P. notoginseng plant root samples. Principal component analysis of metabolome and transcriptome data revealed major differences between the two groups (PN2 vs. PN3). A total of 1813 metabolites and 28,587 genes were detected in this study, of which 255 metabolites and 3141 genes were found to be differential (p < 0.05) between PN2 vs. PN3, respectively. Among differential metabolites and genes, 155 metabolites and 1217 genes were up-regulated, while 100 metabolites and 1924 genes were down-regulated. The KEGG pathway analysis revealed differentially enriched metabolites belonging to class lipids (“13S-hydroperoxy-9Z, 11E-octadecadionic acid”, “9S-hydroxy-10E, 12Z-octadecadionic acid”, “9S-oxo-10E, 12Z-octadecadionic acid”, and “9,10,13-trihydroxy-11-octadecadionic acid”), nucleotides and derivatives (guanine and cytidine), and phenolic acids (chlorogenic acid) were found to be enriched (p < 0.05) in PN3 compared to PN2. Further, these differentially enriched metabolites were found to be significantly (p < 0.05) regulated via linoleic acid metabolism, nucleotide metabolism, plant hormone signal transduction, and arachidonic acid metabolism pathways. Furthermore, the transcriptome analysis showed the up-regulation of key genes MAT, DMAS, SDH, gallate 1-beta-glucosyltransferase, and beta-D-glucosidase in various plants’ secondary metabolic pathways and SAUR, GID1, PP2C, ETR, CTR1, EBF1/2, and ERF1/2 genes observed in phytohormone signal transduction pathway that is involved in plant growth and development, and protection against the various stressors. This study concluded that the roots of a 3-year-old P. notoginseng plant have better metabolome and transcriptome profiles compared to a 2-year-old plant with importantly enriched metabolites and genes in pathways related to metabolism, plant hormone signal transduction, and various biological processes. These findings provide insights into the plant’s dynamic biochemical and molecular changes during its growth that have several implications regarding its therapeutic use.