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Article ; Online: Identification of mixed anaerobic infections after inguinal hernia repair based on metagenomic next-generation sequencing

Zhang Jun / Zhou Yuming / Zhong Zhenzhou / Lv Yan / Yang Xuying / Liu Xianghong

Open Medicine, Vol 19, Iss 1, Pp 520-

A case report

2024 Volume 6

Abstract: Infection following inguinal hernia repair (IHR) is uncommon. Rational use of antibiotics can significantly improve the prognosis of patients. However, accurately identifying the pathogen involved is usually challenging. This case report describes a ... ...

Abstract	Infection following inguinal hernia repair (IHR) is uncommon. Rational use of antibiotics can significantly improve the prognosis of patients. However, accurately identifying the pathogen involved is usually challenging. This case report describes a patient who developed intermittent fever after undergoing open preperitoneal tension-free repair of a bilateral inguinal hernia. The scrotal fluid specimen was cultured and subjected to metagenomic next-generation sequencing (mNGS). Culture revealed the presence of Enterococcus faecalis (a facultative anaerobe). However, mNGS detected E. faecalis along with multiple anaerobic bacteria including Bacteroides thetaiotaomicron, Parabacteroides distasonis, and Levyella massiliensis. The patient was finally diagnosed with a mixed infection of E. faecalis and multiple anaerobes, and his condition was effectively controlled after timely adjustment of the antibiotic regimen. Treating postoperative infections with multiple concurrent conditions can be challenging. mNGS is valuable for the accurate diagnosis and treatment of infections, as it not only can further verify the culture results, but also assist clinicians in ruling out pulmonary infection caused by hematogenous dissemination after IHR in patients.
Keywords	metagenomic next-generation sequencing ; infection after inguinal hernia repair ; anaerobes ; mixed infection ; adjustment of the antibiotic regimen ; case report ; Medicine ; R
Subject code	610
Language	English
Publishing date	2024-01-01T00:00:00Z
Publisher	De Gruyter
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Identification of mixed anaerobic infections after inguinal hernia repair based on metagenomic next-generation sequencing: A case report.

Zhang, Jun / Zhou, Yuming / Zhong, Zhenzhou / Lv, Yan / Yang, Xuying / Liu, Xianghong

Open medicine (Warsaw, Poland)

2024 Volume 19, Issue 1, Page(s) 20230887

Abstract	Infection following inguinal hernia repair (IHR) is uncommon. Rational use of antibiotics can significantly improve the prognosis of patients. However, accurately identifying the pathogen involved is usually challenging. This case report describes a patient who developed intermittent fever after undergoing open preperitoneal tension-free repair of a bilateral inguinal hernia. The scrotal fluid specimen was cultured and subjected to metagenomic next-generation sequencing (mNGS). Culture revealed the presence of
Language	English
Publishing date	2024-01-12
Publishing country	Poland
Document type	Case Reports
ZDB-ID	2829380-0
ISSN	2391-5463
ISSN	2391-5463
DOI	10.1515/med-2023-0887
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Comparison of metagenomic next-generation sequencing and conventional culture for the diagnostic performance in febrile patients with suspected infections.

Yang, Hui / Xu, Nannan / Yan, Meichen / Yang, Lulu / Wen, Sai / Wang, Shanshan / Qu, Chunmei / Xu, Ke / Yang, Xuying / Wang, Gang

BMC infectious diseases

2024 Volume 24, Issue 1, Page(s) 350

Abstract: Background: Timely and accurate identification of pathogens is crucial for appropriate treatment and prognosis of infectious diseases. As an increasingly popular pathogen detection method, the performance of metagenomic next-generation sequencing (mNGS) ...

Abstract	Background: Timely and accurate identification of pathogens is crucial for appropriate treatment and prognosis of infectious diseases. As an increasingly popular pathogen detection method, the performance of metagenomic next-generation sequencing (mNGS) in detecting pathogens in febrile patients with suspected infection requires further exploration. Methods: This study included 368 febrile patients with suspected infections who were admitted to the Infectious Disease Department of Qilu Hospital, Shandong University between January 5, 2021 and April 14, 2023. Both mNGS testing and conventional culture were performed in all patients. Clinical data of enrolled patients were collected, and the diagnostic performances of mNGS and culture were compared. Results: Of the 368 enrolled patients, 231 were finally diagnosed with infection and 137 were with diseases other than infection. The sensitivity (58.01% vs. 21.65%, p < 0.001) and negative predictive value (54.67% vs. 42.9%) of mNGS were superior to those of culture. In contrast, the culture exhibited higher specificity (99.27% vs. 85.40%, p < 0.001) and positive predictive value (98.84% vs. 87.01%) than mNGS. Among infected patients with positive mNGS results, 64 received adjusted antibiotic therapy including treatment transitions, antibiotic downgrading, and combination therapy. Among them, 9 had additional antifungal drugs and 21 patients had a treatment turning point based on the mNGS results and these patients recovered and discharged due to timely antibiotic adjustment. Both positive rates of puncture fluid mNGS and tissue mNGS were higher than those of culture in the patients who had prior antibiotic use, and this difference was statistically significant (p = 0.000). Conclusion: mNGS is more sensitive and accurate than traditional culture, making it ideal for identifying pathogens and screening infectious diseases, especially for those with uncultivated or difficult-to-cultivate species. Early diagnosis allows for prompt treatment with targeted antibiotics, and mNGS is recommended when samples are limited.
MeSH term(s)	Humans ; High-Throughput Nucleotide Sequencing ; Anti-Bacterial Agents ; Antifungal Agents ; Combined Modality Therapy ; Fever ; Communicable Diseases ; Sensitivity and Specificity
Chemical Substances	Anti-Bacterial Agents ; Antifungal Agents
Language	English
Publishing date	2024-03-26
Publishing country	England
Document type	Journal Article
ZDB-ID	2041550-3
ISSN	1471-2334 ; 1471-2334
ISSN (online)	1471-2334
ISSN	1471-2334
DOI	10.1186/s12879-024-09236-w
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Disseminated

Xu, Liang / Chen, Xiuxiu / Yang, Xuying / Jiang, Hongtao / Wang, Jianli / Chen, Shaowen / Xu, Jian

Frontiers in cellular and infection microbiology

2023 Volume 13, Page(s) 1115268

Abstract: We reported a 31-year-old man who received renal transplantation for more than 2 years. He was admitted to our hospital on 9 March 2022 due to intermittent diarrhea accompanied by leukopenia for more than 1 month. The patient successively developed high ... ...

Abstract	We reported a 31-year-old man who received renal transplantation for more than 2 years. He was admitted to our hospital on 9 March 2022 due to intermittent diarrhea accompanied by leukopenia for more than 1 month. The patient successively developed high fever, cough, anemia, weight loss, gastrointestinal bleeding, and liver function impairment. Computed tomography (CT) revealed a slight inflammation in the lower lobes of both lungs, enlargement of the lymph nodes in the retroperitoneal and the root of mesenteric areas, and hepatosplenomegaly.
MeSH term(s)	Male ; Humans ; Adult ; Antifungal Agents/therapeutic use ; Amphotericin B ; Voriconazole ; Kidney Transplantation
Chemical Substances	Antifungal Agents ; Amphotericin B (7XU7A7DROE) ; Voriconazole (JFU09I87TR)
Language	English
Publishing date	2023-02-02
Publishing country	Switzerland
Document type	Review ; Case Reports ; Research Support, Non-U.S. Gov't
ZDB-ID	2619676-1
ISSN	2235-2988 ; 2235-2988
ISSN (online)	2235-2988
ISSN	2235-2988
DOI	10.3389/fcimb.2023.1115268
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Relationship between vaccine hesitancy and vaccination behaviors: Systematic review and meta-analysis of observational studies.

Yang, Xuying / Shi, Naiyang / Liu, Chang / Zhang, Jiarong / Miao, Ruishuai / Jin, Hui

Vaccine

2023 Volume 42, Issue 2, Page(s) 99–110

Abstract: Background: Vaccination is crucial for prevention of infectious diseases, and identification of the impact of vaccine hesitancy on vaccination programs is crucial for early intervention and formulation of policies to alleviate vaccine hesitancy. The aim ...

Abstract	Background: Vaccination is crucial for prevention of infectious diseases, and identification of the impact of vaccine hesitancy on vaccination programs is crucial for early intervention and formulation of policies to alleviate vaccine hesitancy. The aim of this systematic review was to explore the relationship between vaccine hesitancy and negative vaccination behavior globally. Methods: We searched for observational studies in various databases. We conducted a meta-analysis using pooled odds ratios (OR) and 95 % confidence intervals (CI), performed meta regression and subgroup analysis to explore the role factors such as location and individual characteristics on the association between vaccine hesitancy and vaccination behavior. Results: A total of 46 articles were included in systematic analysis and 34 articles were included in the meta-analysis. The systematic analysis comprised 162,601 samples, whereas the meta-analysis included 147,554 samples. The meta-analysis showed that a higher rate of vaccine hesitancy was associated with an increased likelihood of adverse vaccination behaviors (all adverse behaviors: OR = 1.50, 95 % CI, 1.33-1.70, P < 0.001; unvaccinated: OR = 1.48, 95 % CI, 1.29-1.70, P < 0.001; vaccine delay: OR = 2.61, 95 % CI, 1.97-3.44, P < 0.001). The meta-regression results indicated that the heterogeneity observed was mainly from sample selection methods, age of vaccinees and the health status of participants. The results showed that parents of minor vaccinees or without high-risk health status had a higher association between vaccine hesitancy and vaccine uptake compared with populations exposed to higher health risks or adult vaccinees. Conclusion: The findings provide evidence on the association between vaccine hesitancy and adverse vaccination behaviors. The results showed that these population-specific factors should be considered in future research, and during formulation of interventions and implementation of policies to improve vaccination uptake.
MeSH term(s)	Adult ; Humans ; Vaccination Hesitancy ; Databases, Factual ; Immunization Programs ; Odds Ratio ; Vaccination
Language	English
Publishing date	2023-12-11
Publishing country	Netherlands
Document type	Meta-Analysis ; Systematic Review ; Journal Article ; Review
ZDB-ID	605674-x
ISSN	1873-2518 ; 0264-410X
ISSN (online)	1873-2518
ISSN	0264-410X
DOI	10.1016/j.vaccine.2023.11.051
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Article ; Online: Clinical features of varicella-zoster virus caused neurological diseases detected by metagenomic next-generation sequencing

Xie Shuhua / Yang Xuying / Xia Han / Lai Jinxing / Liu Qing / Lu Zhijuan / He Dehai / Liu Xianghong

Open Medicine, Vol 18, Iss 1, Pp 15016-

2023 Volume 9

Abstract: Clinical presentation of central nervous system (CNS) infections caused by varicella-zoster virus (VZV) is highly sophisticated, making identification challenging. We retrospectively reported 18 cases of VZV neurologic disease confirmed by metagenomic ... ...

Abstract	Clinical presentation of central nervous system (CNS) infections caused by varicella-zoster virus (VZV) is highly sophisticated, making identification challenging. We retrospectively reported 18 cases of VZV neurologic disease confirmed by metagenomic next-generation sequencing (mNGS). The detection rate of mNGS was higher than that of PCR assay (100 vs 66.7%, p < 0.05) and serum IgM antibody (100 vs 68.8%, p < 0.05) measurement. Of the 18 cases, five patients were diagnosed with acute meningitis, three with acute meningitis combined with facial neuritis, three with acute meningitis combined with polycranial neuritis, and the remaining seven with various clinical diagnoses. Typical clinical symptoms included headache (15), fever (9), and rash (11). Cranial or spinal MRI showed abnormalities in 12 patients, and 17 patients had obvious neurological symptoms. The predominant genotype of VZV in this study was genotype J (100%, 10/10). All patients were treated with acyclovir/penciclovir and dexamethasone, 16 recovered and 2 died. Our study highlights the good performance of mNGS in diagnosing CNS infection caused by VZV. It could provide additional diagnostic evidence in patients with diverse clinical spectrum and variable manifestations.
Keywords	vzv infection ; central nervous system ; mngs ; clinical features ; Medicine ; R
Language	English
Publishing date	2023-07-01T00:00:00Z
Publisher	De Gruyter
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Liver abscess complicated with multiple organ invasive infection caused by hematogenous disseminated hypervirulent

Chen, Qingyun / Zhang, Ye / Zhang, Lei / Xian, Shaojing / Huang, Linhui / Ding, Xiuxiu / Wu, Hua / Xia, Han / Yang, Xuying / Cai, Xingjun

Open medicine (Warsaw, Poland)

2023 Volume 18, Issue 1, Page(s) 20230694

Abstract: ... ...

Abstract	Hypervirulent
Language	English
Publishing date	2023-04-06
Publishing country	Poland
Document type	Case Reports
ZDB-ID	2829380-0
ISSN	2391-5463
ISSN	2391-5463
DOI	10.1515/med-2023-0694
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Clinical features of varicella-zoster virus caused neurological diseases detected by metagenomic next-generation sequencing.

Xie, Shuhua / Yang, Xuying / Xia, Han / Lai, Jinxing / Liu, Qing / Lu, Zhijuan / He, Dehai / Liu, Xianghong

Open medicine (Warsaw, Poland)

2023 Volume 18, Issue 1, Page(s) 20230744

Abstract	Clinical presentation of central nervous system (CNS) infections caused by varicella-zoster virus (VZV) is highly sophisticated, making identification challenging. We retrospectively reported 18 cases of VZV neurologic disease confirmed by metagenomic next-generation sequencing (mNGS). The detection rate of mNGS was higher than that of PCR assay (100 vs 66.7%,
Language	English
Publishing date	2023-07-10
Publishing country	Poland
Document type	Journal Article
ZDB-ID	2829380-0
ISSN	2391-5463
ISSN	2391-5463
DOI	10.1515/med-2023-0744
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Metagenomic-based pathogen surveillance for children with severe pneumonia in pediatric intensive care unit.

Li, Meijin / Wang, Jing / Yao, Zhongwei / Liao, Hailing / Su, Shufen / Yang, Xuying / Xie, Mingzhou / Zheng, Yinan

Frontiers in public health

2023 Volume 11, Page(s) 1177069

Abstract: Background: Pneumonia is a significant cause of morbidity and mortality in children. Metagenomic next-generation sequencing (mNGS) has the potential to assess the landscape of pathogens responsible for severe pulmonary infection.: Methods: ... ...

Abstract	Background: Pneumonia is a significant cause of morbidity and mortality in children. Metagenomic next-generation sequencing (mNGS) has the potential to assess the landscape of pathogens responsible for severe pulmonary infection. Methods: Bronchoalveolar lavage fluid (BALF) samples of 262 children with suspected pulmonary infections were collected from April 2019 to October 2021 in the Pediatric Intensive Care Unit (PICU) of Guangdong Women and Children Hospital. Both mNGS and conventional tests were utilized for pathogen detection. Results: A total of 80 underlying pathogens were identified using both mNGS and conventional tests. Respiratory syncytial virus (RSV), Staphylococcus aureus and rhinovirus were the most frequently detected pathogens in this cohort. The incidence rate of co-infection was high (58.96%, 148/251), with bacterial-viral agents most co-detected. RSV was the main pathogen in children younger than 6 months of age, and was also commonly found in older pediatric patients. Rhinovirus was prevalent in children older than 6 months. Adenovirus and Mycoplasma pneumoniae were more prevalent in children older than 3 years than in other age groups. Pneumocystis jirovecii was detected in nearly 15% of children younger than 6 months. Besides, influenza virus and adenovirus were rarely found in 2020 and 2021. Conclusions: Our study highlights the importance of using advanced diagnostic techniques like mNGS to improve our understanding of the microbial epidemiology of severe pneumonia in pediatric patients.
MeSH term(s)	Humans ; Child ; Female ; Infant ; Child, Preschool ; Aged ; Pneumonia ; Intensive Care Units, Pediatric ; Bacteriophages ; Coinfection ; High-Throughput Nucleotide Sequencing
Language	English
Publishing date	2023-06-15
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2711781-9
ISSN	2296-2565 ; 2296-2565
ISSN (online)	2296-2565
ISSN	2296-2565
DOI	10.3389/fpubh.2023.1177069
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Multi-Task Collaboration Deep Learning Framework for Infrared Precipitation Estimation

Yang, Xuying / Sun, Peng / Zhang, Feng / Du, Zhenhong / Liu, Renyi

Remote Sensing. 2021 June 12, v. 13, no. 12

2021

Abstract: Infrared observation is an all-weather, real-time, large-scale precipitation observation method with high spatio-temporal resolution. A high-precision deep learning algorithm of infrared precipitation estimation can provide powerful data support for ... ...

Abstract	Infrared observation is an all-weather, real-time, large-scale precipitation observation method with high spatio-temporal resolution. A high-precision deep learning algorithm of infrared precipitation estimation can provide powerful data support for precipitation nowcasting and other hydrological studies with high timeliness requirements. The “classification-estimation” two-stage framework is widely used for balancing the data distribution in precipitation estimation algorithms, but still has the error accumulation issue due to its simple series-wound combination mode. In this paper, we propose a multi-task collaboration framework (MTCF), i.e., a novel combination mode of the classification and estimation model, which alleviates the error accumulation and retains the ability to improve the data balance. Specifically, we design a novel positive information feedback loop composed of a consistency constraint mechanism, which largely improves the information abundance and the prediction accuracy of the classification branch, and a cross-branch interaction module (CBIM), which realizes the soft feature transformation between branches via the soft spatial attention mechanism. In addition, we also model and analyze the importance of the input infrared bands, which lay a foundation for further optimizing the input and improving the generalization of the model on other infrared data. Extensive experiments based on Himawari-8 demonstrate that compared with the baseline model, our MTCF obtains a significant improvement by 3.2%, 3.71%, 5.13%, 4.04% in F1-score when the precipitation intensity is 0.5, 2, 5, 10 mm/h, respectively. Moreover, it also has a satisfactory performance in identifying precipitation spatial distribution details and small-scale precipitation, and strong stability to the extreme-precipitation of typhoons.
Keywords	algorithms ; models ; prediction
Language	English
Dates of publication	2021-0612
Publishing place	Multidisciplinary Digital Publishing Institute
Document type	Article
ZDB-ID	2513863-7
ISSN	2072-4292
ISSN	2072-4292
DOI	10.3390/rs13122310
Database	NAL-Catalogue (AGRICOLA)

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