Article
Environmental Sciences
Sarrah M. Dunham-Cheatham, Kelly B. Klingler, Margarita Vargas Estrada, Mae Sexauer Gustin
Summary: Studies have found high concentrations of mercury in some commercial pet food products, with limited research on methylmercury. Three tested pet food products exceeded suggested mercury limits, but methylmercury levels were safe. Genetic tools were used to analyze ingredients, revealing consistency and adulteration in pet food products.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Medicine, Legal
Shubham Yadav, Vijay Tripathi, Vaibhav Saran
Summary: Characterization of human saliva through Next-Generation Sequencing has revealed the influence of habits, such as smoking, alcohol consumption, and vegan diet, on the microbial composition and diversity of the salivary microbiome.
FORENSIC SCIENCE INTERNATIONAL
(2023)
Article
Medical Laboratory Technology
Bennett Oh Vic Shum, Carel Jacobus Pretorius, Letitia Min Fen Sng, Ilya Henner, Paulette Barahona, Emre Basar, Jim McGill, Urs Wilgen, Anna Zournazi, Lilian Downie, Natalie Taylor, Liam Cheney, Sylvania Wu, Natalie Angela Twine, Denis Carolin Bauer, Gerald Francis Watts, Akash Navilebasappa, Kishore Rajagopal Kumar, Jacobus Petrus Johannes Ungerer, Glenn Bennett
Summary: The study found that newborn screening can be expanded using targeted gene sequencing (TGS), which is a feasible and cost-effective method. The TGS assay had a high sensitivity (>99%) and specificity (100%) with a turnaround time of 7 to 10 days and a maximum batch size of 1536 samples. This approach can increase the number of conditions screened and improve the effectiveness of newborn screening programs.
CLINICAL CHEMISTRY
(2023)
Article
Genetics & Heredity
Gang Liu, Shumiao Zhang, Xinsheng Zhao, Chao Li, Minghao Gong
Summary: Diet analysis is crucial in animal ecology, and the next generation sequencing (NGS) approach has been suggested as a promising tool to improve efficiency. However, challenges in generating NGS-based diet data and subsequent analyses have hindered its widespread application in the field. More developments and incorporation of additional perspectives are needed to encourage ecologists to gain novel insights in their work.
Article
Biochemistry & Molecular Biology
Amy K. Wray, M. Zachariah Peery, Michelle A. Jusino, Jade M. Kochanski, Mark T. Banik, Jonathan M. Palmer, Daniel L. Lindner, Claudio Gratton
Summary: This study investigated the relationships between prey consumption and prey availability in two common arthropodivorous bats, finding that the most commonly consumed prey items were consistently detected in bat diets independently of their respective abundance. Despite fluctuations in quantitative prey availability, the probability of prey consumption was largely unrelated to abundance. However, the community structure of prey detected in bat diets was influenced by the local or regional abundance of prey.
Review
Fisheries
Tina Kollannoor Johny, Rinu Madhu Puthusseri, Sarita Ganapathy Bhat
Summary: The fish gut is a complex ecosystem influenced by various factors, and the gut microbiota plays important roles in the physiological functions of the host. With technological advancements, the application of culture-independent techniques in studying fish gut microbiota is promising for a better understanding.
AQUACULTURE RESEARCH
(2021)
Article
Environmental Sciences
Yawen Mu, Chao Song, Jianghua Yang, Yong Zhang, Xiaowei Zhang
Summary: This study used DNA barcoding to identify species and assess biodiversity of fish in Tai Lake. High-throughput sequencing greatly improved the capture rate of barcode sequences of fish, and barcode gap analysis successfully delineated species in all specimens. The results are expected to provide new insights into fish diversity conservation in Tai Lake.
Article
Chemistry, Applied
Nur Fadhilah Khairil Mokhtar, Siti Zaharah Imran, Ming Gan Han, Mun Chun Leong, Mohd Nasir Mohd Desa, Raja Mohd Hafidz Raja Nhari, Nor Nadiha Mohd Zaki, Yus Aniza Yusof, Shuhaimi Mustafa, Amalia Mohd Hashim
Summary: The expansion of aquaculture and fish feed industry has raised concerns about the origin and safety of the ingredients used in commercially available fish feeds. This study utilized Next Generation Sequencing-based DNA metabarcoding assay to determine the composition of animal species in fish feed samples and found that commercial fish feeds in Malaysia contain undesirable animal species. Accurate and legally enforced labeling of mammalian species in fish feed products is necessary.
FOOD ADDITIVES AND CONTAMINANTS PART A-CHEMISTRY ANALYSIS CONTROL EXPOSURE & RISK ASSESSMENT
(2022)
Article
Infectious Diseases
Lucas G. Huggins, Vito Colella, Anson V. Koehler, Bettina Schunack, Rebecca J. Traub
Summary: Recent surveys in Southeast Asia, including Cambodia, have revealed a high prevalence of canine vector-borne pathogens with zoonotic potential. In Cambodia, a significant number of free-roaming dogs were found to be infected with various pathogens, including those with zoonotic implications. The study showcases the power of a next-generation sequencing-based metabarcoding approach in unbiasedly detecting a wide range of pathogenic organisms in dogs.
TRANSBOUNDARY AND EMERGING DISEASES
(2022)
Review
Oncology
Nicholas Bradley Larson, Ann L. Oberg, Alex A. Adjei, Liguo Wang
Summary: Next-generation sequencing (NGS) technologies, widely used in cancer research, generate vast and diverse data that require sophisticated computational methods and bioinformatics expertise. This review provides background details of NGS technology and basic bioinformatics concepts for clinicians interested in cancer research applications, with a focus on DNA-based approaches. It introduces principles of library preparation, alignment, variant calling, variant annotations, and NGS applications for other molecular data types. The review also discusses the utility of NGS methods in NSCLC research and study design considerations for leveraging NGS technologies in clinical care.
JOURNAL OF THORACIC ONCOLOGY
(2023)
Article
Fisheries
Raquel Rios-Castro, Raquel Aranguren, Alejandro Romero, Elisa Banchi, Alberto Pallavicini, Beatriz Novoa, Antonio Figueras
Summary: In this study, the spatial and temporal distribution of Perkinsus olseni, a protozoan parasite, was analyzed using sequencing and real-time PCR methods. The pathogen was found to be present in water and sediment samples, showing seasonal prevalence. It was also detected in clams and for the first time in Cerastoderma edule with low abundance and infection intensity levels.
Article
Food Science & Technology
Roberta Piredda, Anna Mottola, Giulia Cipriano, Roberto Carlucci, Giuseppina Ciccarese, Angela Di Pinto
Summary: The multi-species fish products market is growing rapidly due to urbanization, modern lifestyles, and new technologies. These products lack species-related morphological traits and may contain fish waste, making them susceptible to substitution fraud. New molecular tools, such as metabarcoding, can be used to trace species in complex food matrices.
Article
Biochemistry & Molecular Biology
Rein Brys, Annelies Haegeman, David Halfmaerten, Sabrina Neyrinck, Ariane Staelens, Johan Auwerx, Tom Ruttink
Summary: The study utilized a fine-scale water sampling design combined with eDNA metabarcoding to investigate occupancy patterns and spatial dispersion of eDNA of fish and amphibian species in a lentic system. Results showed high eDNA decay rates and limited spatial eDNA dispersal, with the eDNA sampling method demonstrating high sensitivity in detecting individual presence. This approach allowed for precise monitoring of spatial occupancy patterns of aquatic species in the ecosystem.
Review
Pharmacology & Pharmacy
Xiangjun Ji, Baitang Ning, Jinghua Liu, Ruth Roberts, Larry Lesko, Weida Tong, Zhichao Liu, Tieliu Shi
Summary: Pharmacogenomics plays essential roles in optimizing drug responses and avoiding adverse events. Population-specific therapeutic interventions and genotyping can improve clinical outcomes, highlighting the importance of precision medicine strategies. Challenges and regulatory efforts still exist in advancing this field further.
DRUG DISCOVERY TODAY
(2021)
Article
Biodiversity Conservation
Yingying Liu, Man Si, Zhenglanyi Huang, Jiang Feng, Tinglei Jiang
Summary: The loss of crop yield caused by non-native invasive pests has global impacts on population, biodiversity, ecosystems, and the economy. The fall armyworm (FAW) has become a major invasive pest worldwide, posing a significant threat to global food security. This study investigated the effectiveness of different methods for monitoring FAW, and found that DNA metabarcoding using bat fecal samples could detect the presence of FAW nearly one month earlier than traditional surveillance methods.
ECOLOGICAL INDICATORS
(2023)
Article
Surgery
Hao Li, Feng Wang, Guangyu Ji, Jiping Teng, Xi Liang, Xiang Liang, Da Ni, Zhijun Zhu, Jinlong Wu, Xin Guan, Guoqing Li, Mingsong Wang
Summary: This study retrospectively analyzed data from 259 patients with pectus excavatum who were treated with modified Nuss procedure between August 2020 and August 2021. The results showed that the modified Nuss procedure had optimistic outcomes with minimal invasion and low complication rate. It can be potentially applied to other hospitals in the future.
ASIAN JOURNAL OF SURGERY
(2023)
Article
Engineering, Electrical & Electronic
Jiaen Guo, Xin Guan
Summary: In this article, a deep adversarial cascaded hashing (DACH) method is proposed to address the cross-modal retrieval of vessel images. By building a deep cascaded network, subtle and discriminative features are extracted from the vessel images and further enhanced. Additionally, hash learning and weighted quintuplet loss are used to reduce cross-modal discrepancy and supervise the transition between different metric spaces. Experimental results show that the proposed DACH method is effective and outperforms state-of-the-art methods in cross-modal vessel image retrieval tasks.
IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING
(2023)
Article
Chemistry, Multidisciplinary
Jian Mao, Minmin Xue, Xin Guan, Qian Wang, Zhirui Wang, Guangyong Qin, Hua He
Summary: In this study, near-infrared CDs with a maximum emission of around 750 nm were designed and synthesized by weaving a nitrogen-doped aromatic backbone with surplus carboxyl groups on the surface. The NIR-CDs can be conjugated to monovalent antibody fragments for labeling and imaging of cellular receptors, and they exhibit improved signal-to-noise ratio and localization precision compared to visible CDs. Fluorescent burst analysis allows for accurate counting of cellular receptors at nanoscale resolution. Using NIR-CDs-based SMLM, oligomerization and internalization of programmed cell death-ligand 1 by a small molecule inhibitor for checkpoint blockade were demonstrated. The NIR-CDs can serve as a generally applicable probe for quantitative nanoscopy in chemistry and biology.
Article
Computer Science, Information Systems
Yufei Hu, Xin Guan, Benran Hu, Yongnan Liu, Hongyang Chen, Tomoaki Ohtsuki
Summary: This article proposes a data pricing mechanism, which consists of static and dynamic pricing parts, and introduces a feature selection algorithm considering multiple new factors, offering near-optimal solutions for knowledge discovery tasks in electricity spot markets.
IEEE INTERNET OF THINGS JOURNAL
(2023)
Article
Environmental Sciences
Luo Qin, Guangxin Liu, Xiangzhong Li, E. Chongyi, Jiang Li, Changrun Wu, Xin Guan, Yuan Wang
Summary: In this study, hydroclimate changes in the transition zone over the past millennium are reconstructed based on sediment organic contents and stable carbon isotopes from Xiligou Lake in the northeastern Qinghai-Tibetan Plateau. The bimodal pattern of the lake basin's humidity is likely due to alternations of the Asian summer monsoon and Westerlies as moisture suppliers. The short-lived high stand event in the 1920s and the wetting trend since 1850 AD are attributed to meltwater input and excess water demand from human activities.
Article
Medical Laboratory Technology
Huijie Wang, Guangtao Xia, Xin Guan, Li Wang, Lei Qin, Min Fu
Summary: The study aimed to detect the expression level of nuclear factor erythroid 2-related factor 2 (Nrf2) in the serum of rheumatoid arthritis (RA) patients and investigate its correlation with disease activity, pro-inflammatory factors, clinical characteristics, and changes after treatment. The results showed that Nrf2 levels were significantly elevated in the serum of RA patients, along with increased levels of malondialdehyde (MDA). Nrf2 levels were positively correlated with disease activity and pro-inflammatory factor levels. Nrf2 may serve as a potential indicator to monitor disease activity and prognosis in RA patients.
CLINICAL BIOCHEMISTRY
(2023)
Article
Chemistry, Inorganic & Nuclear
Xin Guan, Haiyan Wen, Benwei Wang, Zhiyuan Wang, Yanling Zhou, Hongming Liu, Hailan Chen, Lixia Pan, Zhen Ma
Summary: The study evaluated the anticancer activity of five copper(II) compounds and their binding properties with DNA and bovine serum albumin (BSA). The compounds exhibited significant anticancer activity and strong binding interactions with DNA and BSA.
JOURNAL OF COORDINATION CHEMISTRY
(2023)
Article
Evolutionary Biology
Brock Mashburn, Reshad Jhangeer-Khan, Alfred Begue, Vikash Tatayah, Kenneth M. Olsen, Christine E. Edwards
Summary: Hibiscus liliiflorus, an endemic species to Rodrigues island, is critically endangered with only 2 wild individuals remaining. The study found that the MWF nursery only has 3 of the 4 original wild genotypes, and no unique genotypes were found in ex situ botanic garden collections. Seeds produced in the MWF nursery were a result of both self-fertilization and crossing between genotypes.
JOURNAL OF HEREDITY
(2023)
Article
Physics, Applied
Suxia Xie, Siyi Sun, Zhijian Li, Jingcheng Yang, Weiwei Shen, Xin Guan
Summary: We studied an all-dielectric metasurface composed of one transverse nanohole and two identical vertical nanoholes, which supports both symmetry-protected and accidental bound states in the continuum (BICs). By destructive interference between the surface states from the transverse nanohole and the identical vertical nanoholes, two symmetry-protected BICs emerge, which can be turned into quasi-BICs by adjusting the electric field polarization direction. The accidental BICs come from destructive interference from different radiation channels, which are less influenced by the in-plane structural parameters symmetry. All three BICs in the metasurface have ultra-high Q-factors (exceeding 10(6), 10(4), and 10(6), respectively), making them highly valuable in biosensor applications. Furthermore, the metasurface exhibits outstanding ultra-slow light properties at BICs, with a group index of about 10(6), enabling the development of new generation flat-optics slow light devices.
JOURNAL OF PHYSICS D-APPLIED PHYSICS
(2023)
Article
Biochemistry & Molecular Biology
Hongyan Li, Nan Ge, Xin Guan, Chao Han, Ying Li, Liming Shen, Mengmeng Chen, Bingqiang Zhang, Chao Qu, Wei Zou
Summary: This study aimed to determine the effects of the ER-alpha 36 modulator SNG162 on GBM growth and invasion. The results showed that SNG162 could inhibit the growth and invasion of GBM by suppressing the expression of ER-alpha 36, suggesting that it could be a potential therapeutic agent for GBM.
Article
Plant Sciences
Denise L. Lindsay, Xin Guan, Nathan E. Harms, James T. Cronin, Laura A. Meyerson, Richard F. Lance
Summary: To identify different subspecies of the common reed (Phragmites australis), we developed real-time quantitative PCR assays. Using chloroplast DNA sequences, we developed three novel qPCR assays that can discriminate between the three subspecies. These assays provide a more accurate method for rapid identification.
APPLICATIONS IN PLANT SCIENCES
(2023)
Editorial Material
Microbiology
Xin Guan, Flora Pensec
Article
Medicine, General & Internal
Jingjing Lyu, Xin Guan, Yuhan Zhou, Huan Guo, Shanshan Cheng, Chaolong Wang
Summary: The study aims to develop cost-effective models to identify high-risk individuals for early diagnosis of hepatobiliary and pancreatic cancers. Based on a 6-year follow-up study, the researchers identified incident cases of hepatocellular carcinoma, biliary tract cancer, and pancreatic cancer, and constructed clinical risk scores. These models have shown high utility in stratifying high-risk individuals.
JOURNAL OF EVIDENCE BASED MEDICINE
(2023)
Article
Oncology
Meili Dang, Xiaorui Zhao, Yu Cao, Xin Guan, Yuxia Liu
Summary: The objective of this study was to determine the impact of Huangqi Guizhi decoction of five ingredients on hemorheology and inflammatory factors in patients with acute myocardial infarction (AMI) after percutaneous coronary intervention (PCI). The results showed that the use of Huangqi Guizhi decoction significantly improved clinical efficacy, reduced levels of inflammatory factors, and improved hemorheology indicators. Moreover, age, history of diabetes mellitus, NYHA classification, hs-CRP, and LVEF were identified as independent risk factors for MACE.
AMERICAN JOURNAL OF TRANSLATIONAL RESEARCH
(2023)
Article
Engineering, Environmental
Long Li, Jiangnan Wang, Hongchao Li, Xin Guan, Kang Li, Bing Zhang, Xueqin Li, Jinli Zhang
Summary: In this study, mixed-dimensional fillers of NiCo-layered double hydroxide-decorated polypyrrole nanotubes (PNT@NiCo-LDH) were synthesized and incorporated into Pebax MH 1657 (Pebax) matrix to fabricate mixed matrix membranes (MMMs) for efficient CO2 separation. PNT@NiCo-LDH played a vital role in constructing 1D/2D/3D CO2 transport pathways in MMMs and accelerating CO2 selective transport. The prepared MMMs exhibited excellent CO2 separation performance.
JOURNAL OF ENVIRONMENTAL CHEMICAL ENGINEERING
(2023)