Jing Yu

China National Rice Research Institute

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Dawei Zhu

China National Rice Research Institute

Shuhong Tai

Third Affiliated Hospital of Zhengzhou University

Lingqi Meng

Hebei Academy of Agriculture and Forestry Sciences

Xin Zheng

First Affiliated Hospital of Guangzhou Medical University

Qingyu Xu

North China University of Water Resources and Electric Power

Enwu Yuan

Third Affiliated Hospital of Zhengzhou University

Feifei Xu

Sichuan Agricultural University

Yafang Shao

China National Rice Research Institute

Mingxue Chen

Fujian Agriculture and Forestry University

Sijia Pan

Harbin Medical University

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Fujian Agriculture and Forestry University

Chinese Academy of Sciences

Northeast Agricultural University

Third Affiliated Hospital of Zhengzhou University

Zhengzhou University

Zhejiang University

Sichuan University

Ministry of Agriculture and Rural Affairs

China National Rice Research Institute

Shanghai Jiao Tong University

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Genomic Analysis of an Escherichia coli Sequence Type 167 Isolate Harboring a Multidrug-Resistant Conjugative Plasmid, Suggesting the Potential Transmission of the Type Strains from Animals to Humans

Infection and Drug Resistance (2023)

Sijia Pan Shuangqing Liu Shuhong Tai Jing Yu Enwu Yuan

The E. coli ST167 clone is the globally dominant ST among extraintestinal pathogenic E. coli (ExPEC) and is frequently associated with carbapenem resistance. This study reports genomic characterization of a pandrug-resistant E. coli ST167 isolate (ECO3183) and the possibility of the type strains' transmission.Antibiotic susceptibility testing was performed using disk diffusion and the VITEK 2 automated system. The E. coli ECO3183 genome was sequenced. We used the genome to analyze the phylogenetic relationship, phylogenetic group, sequence type (ST), acquired antibiotic resistance genes (ARGs), IS elements, genomics islands, the replicon type and transferability of the plasmids. The conjugative transfer of plasmids was assessed using filter mating experiments.ECO3183 contained a 4.87-Mb chromosome and two plasmids [pECO3183-1 (167.63 Kb) and pECO3183-2 (46.16 Kb)]. It belonged to phylogenetic group A, clonal complex 10 (CC10), and ST167. ECO3183 is a pandrug-resistant strain nonsusceptible to 24 tested antimicrobials representing 8 different antimicrobial classes. Among 55 E. coli isolates phylogenetically related to ECO3183, 47% (26/55) were from humans, while 35% (19/55) were from animals. Further analysis revealed that among 1140 ST167 isolates (in the EnteroBase database), 4% (47/1140) originated from environments, 17% (192/1140) were isolated from humans, and 78% (890/1140) were obtained from animals. The pECO3183-1 contained two identical repeats of a 9633 bp region (IS6100-sul1-ΔaadA16-dfrA27-arr-3-aac(6')-Ib-cr-IS26) and a 17.88-kb resistance island (sul2-aph(3″)-Ib-aph(6)-Id-IS26-Δaph(3')-Ia-IS26-tet(A)-ΔfloR-ΔISVsa3-IS26-Δaac(3)-IId-IS26-mph(A)), and these three regions contained most of ECO3183 carrying ARGs. It was identified as a conjugative plasmid, which confers MDR resistance and has the potential to spread.ECO3183 exhibited pandrug-resistance phenotype that was mediated by pECO3183-1 carrying MDR ARGs and pECO3183-2 carrying blaNDM-5. Source analysis of strains indicated that ST167 E. coli might be transmitted between species from animals to humans, which needs continued monitoring.

Replicon

Multilocus sequence typing

Insertion sequence

10.2147/idr.s420635

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Effects of in Vitro Digestions on Phenolics, Flavonoids and Their Antioxidant Activities in Non-Pigmented, Red and Black Rice

Jing Yu Xin Zheng Dawei Zhu Qingyu Xu Feifei Xu

Download This Paper Open PDF in Browser Add Paper to My Library Share: Permalink Using these links will ensure access to this page indefinitely Copy URL Copy DOI

Red rice

Black rice

10.2139/ssrn.4774010

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Changes of Polyphenols and Their Antioxidant Activities Innon-Pigmented, Red and Black Rice During in Vitro Digestion

Jing Yu Xin Zheng Dawei Zhu Qingyu Xu Feifei Xu

Digestion

Black rice

Red rice

10.2139/ssrn.4902223

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Changes of polyphenols and their antioxidant activities in non-pigmented, red and black rice during in vitro digestion

Food Chemistry X (2024)

Jing Yu Xin Zheng Dawei Zhu Qingyu Xu Feifei Xu

Digestion

Black rice

Red rice

10.1016/j.fochx.2024.101821

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Estimation of Pulsar’s Initial Spin by the Magnetic Dipole Radiation and Wind Model

Astronomy Reports (2024)

Yihong Sun Dehua Wang Chengmin Zhang Jing Yu Yungang Zhou

10.1134/s1063772924700239

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Characteristics of the complete chloroplast genome of Swertia divaricata Harry Sm. (Gentianaceae) and its phylogenetic inference

Mitochondrial DNA Part B (2023)

Yingying Hou Yulong Zhang Jing Yu Xinjie Wang

Swertia divaricata Harry Sm., 1965, (Gentianaceae) is a perennial herb endemic to Northwest Yunnan, China, belonging to the species-rich genus Swertia. It possesses unique morphological features but its systematic position remains uncertain. To determine its phylogenetic placement, the complete plastid genome of S. divaricata was assembled utilizing high-throughput sequencing data. The genome is circular, spanning 152,073 bp, and comprises a large single-copy (LSC) region of 82,470 bp, a small single-copy (SSC) region of 18,153 bp, and two inverted repeats (IR) regions, each 25,725 bp. A total of 130 genes were annotated, including 85 protein-coding genes, 37 tRNA genes, and eight rRNA genes. The plastome of S. divaricata exhibits a structure and gene composition highly similar to those of other Swertia plastomes. Phylogenetic analysis indicated that S. divaricata is closely related to S. erythrosticta, sister to a subclade comprising species from sections Swertia and Apterae. The plastome sequence described herein constitutes a valuable contribution to phylogenetic and evolutionary research on Swertia.

Inverted repeat

Gentiana

Gentianaceae

10.1080/23802359.2023.2270211

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Comparison of intracellular glutathione and related antioxidant enzymes: Impact of two glycosylated whey hydrolysates

Process Biochemistry (2020)

Haiying Yu Jing Yu Xinliu Zhang Abdul Qayum Munkh‐Amgalan Gantumur

Malondialdehyde

10.1016/j.procbio.2020.06.028

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Dissemination of blaNDM-5 Driven by Horizontal Transfer of IncFIA Plasmid Between Escherichia coli and Klebsiella pneumoniae Co-Isolated from a Patient’s Ascitic Fluid

Infection and Drug Resistance (2024)

Jing Yu Yanzi Ding Xue Zhang Shuhong Tai Chengwen Zhang

Understanding the horizontal transfer of resistance genes, such as

Ascitic fluid

10.2147/idr.s478304

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First report of a bloodstream infection caused by Trabulsiella odontotermitis in a low-birth-weight newborn undergoing surgery for intestinal obstruction: a fatal case

Emerging Microbes & Infections (2023)

Jing Yu Sijia Pan Shuhong Tai Enwu Yuan Yitao Duan

10.1080/22221751.2023.2259002

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Characteristics of the complete chloroplast genome of Swertia divaricata Harry Sm. (Gentianaceae) and its phylogenetic inference

Figshare (2023)

Yingying Hou Yulong Zhang Jing Yu Xinjie Wang

Swertia divaricata Harry Sm., 1965, (Gentianaceae) is a perennial herb endemic to Northwest Yunnan, China, belonging to the species-rich genus Swertia. It possesses unique morphological features but its systematic position remains uncertain. To determine its phylogenetic placement, the complete plastid genome of S. divaricata was assembled utilizing high-throughput sequencing data. The genome is circular, spanning 152,073 bp, and comprises a large single-copy (LSC) region of 82,470 bp, a small single-copy (SSC) region of 18,153 bp, and two inverted repeats (IR) regions, each 25,725 bp. A total of 130 genes were annotated, including 85 protein-coding genes, 37 tRNA genes, and eight rRNA genes. The plastome of S. divaricata exhibits a structure and gene composition highly similar to those of other Swertia plastomes. Phylogenetic analysis indicated that S. divaricata is closely related to S. erythrosticta, sister to a subclade comprising species from sections Swertia and Apterae. The plastome sequence described herein constitutes a valuable contribution to phylogenetic and evolutionary research on Swertia.

Gentianaceae

Gentiana

10.6084/m9.figshare.24421330

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