14,404 results match your criteria higher throughput


Enhancing robustness of activated sludge with Aspergillus tubingensis as a protective backbone structure under high-salinity stress.

J Environ Manage 2021 Jul 19;297:113302. Epub 2021 Jul 19.

State Key Laboratory of Chemical Resource Engineering, Beijing Key Laboratory of Bioprocess, Beijing, 100029, People's Republic of China; Beijing Advanced Innovation Center for Soft Matter Science and Engineering, Beijing, 100029, People's Republic of China; Beijing University of Chemical Technology, Beijing, 100029, People's Republic of China. Electronic address:

High salt seriously destroys the stable interactions among key functional species of activated sludge, which in turn limits the performance of high-salinity wastewater biological treatment. In this study, pelletized Aspergillus tubingensis (AT) was used as a protective backbone structure for activated sludge under high-salinity stress, and a superior salt-tolerant AT-based aerobic granular sludge (AT-AGS) was developed. Results showed that the COD and NH-N removal efficiencies of salt-domesticated AT-AGS were 11. Read More

View Article and Full-Text PDF

Accurate prediction and genome-wide association analysis of digital intramuscular fat content in longissimus muscle of pigs.

Anim Genet 2021 Jul 21. Epub 2021 Jul 21.

National Key Laboratory for Swine Genetic Improvement and Production Technology, Ministry of Science and Technology of China, Jiangxi Agricultural University, Nanchang, Jiangxi Province, 330045, China.

Intramuscular fat (IMF) content is a critical indicator of pork quality that affects directly the purchasing desire of consumers. However, to measure IMF content is both laborious and costly, preventing our understanding of its genetic determinants and improvement. In the present study, we constructed an accurate and fast image acquisition and analysis system, to extract and calculate the digital IMF content, the proportion of fat areas in the image (PFAI) of the longissimus muscle of 1709 animals from multiple pig populations. Read More

View Article and Full-Text PDF

Skin Microbiota of the Captive Giant Panda () and the Distribution of Opportunistic Skin Disease-Associated Bacteria in Different Seasons.

Front Vet Sci 2021 5;8:666486. Epub 2021 Jul 5.

Key Laboratory of Animal Disease and Human Health of Sichuan Province, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China.

The giant panda is one of the rarest animals in the world. Skin diseases seriously endanger the health of giant panda and are considered the second major cause of its morbidity. Skin microbiota is a complex ecosystem, and the community structure and the pathogenic potential of bacteria on giant panda skin remain largely unclear. Read More

View Article and Full-Text PDF

Fingerprinting diverse nanoporous materials for optimal hydrogen storage conditions using meta-learning.

Sci Adv 2021 Jul 21;7(30). Epub 2021 Jul 21.

Department of Chemistry and Chemical Theory Center, University of Minnesota, 207 Pleasant Street SE, Minneapolis, MN 55455-0431, USA.

Adsorptive hydrogen storage is a desirable technology for fuel cell vehicles, and efficiently identifying the optimal storage temperature requires modeling hydrogen loading as a continuous function of pressure and temperature. Using data obtained from high-throughput Monte Carlo simulations for zeolites, metal-organic frameworks, and hyper-cross-linked polymers, we develop a meta-learning model that jointly predicts the adsorption loading for multiple materials over wide ranges of pressure and temperature. Meta-learning gives higher accuracy and improved generalization compared to fitting a model separately to each material and allows us to identify the optimal hydrogen storage temperature with the highest working capacity for a given pressure difference. Read More

View Article and Full-Text PDF

Assessment of seawater bacterial infection in rabbit tibia by Illumina MiSeq sequencing and bacterial culture.

J Orthop Surg Res 2021 Jul 21;16(1):463. Epub 2021 Jul 21.

Department of Joint Surgery, The First Affiliated Hospital of Fujian Medical University, Fuzhou, China.

Objectives: We aimed to explore the bacterial community composition following ocean bacterial infection using an animal model.

Methods: This animal-based experiment was conducted from September 2019 to November 2019. Eighteen seawater filter membranes were collected from Changle City, Fujiian Province, China, on September 8, 2019. Read More

View Article and Full-Text PDF

Characterization of the blood and neutrophil-specific microbiomes and exploration of potential bacterial biomarkers for sepsis in surgical patients.

Immun Inflamm Dis 2021 Jul 20. Epub 2021 Jul 20.

Research Institute of General Surgery, Jinling Hospital, Medical School of Nanjing University, Nanjing, China.

Introduction: Recent studies have demonstrated the presence of a circulating microbiome in the blood of healthy subjects and chronic inflammatory patients. However, our knowledge regarding the blood microbiome and its potential roles in surgical patients remains very limited. The objective of this study was to determine the blood microbial landscape in surgical patients and to explore its potential associations with postoperative sepsis. Read More

View Article and Full-Text PDF

A higher-level nuclear phylogenomic study of the carrot family (Apiaceae).

Am J Bot 2021 Jul 21. Epub 2021 Jul 21.

Royal Botanic Gardens Kew, Richmond, Surrey, TW9 3AE, UK.

Premise: The carrot family (Apiaceae) comprises 466 genera, which include many well-known crops (e.g., aniseed, caraway, carrots, celery, coriander, cumin, dill, fennel, parsley, and parsnips). Read More

View Article and Full-Text PDF

Hi-C 3.0: Improved Protocol for Genome-Wide Chromosome Conformation Capture.

Curr Protoc 2021 Jul;1(7):e198

Program in Systems Biology, Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts.

The intricate folding of chromatin enables living organisms to store genomic material in an extremely small volume while facilitating proper cell function. Hi-C is a chromosome conformation capture (3C)-based technology to detect pair-wise chromatin interactions genome-wide, and has become a benchmark tool to study genome organization. In Hi-C, chromatin conformation is first captured by chemical cross-linking of cells. Read More

View Article and Full-Text PDF

Latest impact of engineered human liver platforms on drug development.

APL Bioeng 2021 Sep 16;5(3):031506. Epub 2021 Jul 16.

Department of Bioengineering, University of Illinois at Chicago, Chicago, Illinois 60607, USA.

Drug-induced liver injury (DILI) is a leading cause of drug attrition, which is partly due to differences between preclinical animals and humans in metabolic pathways. Therefore, human liver models are utilized in biopharmaceutical practice to mitigate DILI risk and assess related mechanisms of drug transport and metabolism. However, liver cells lose phenotypic functions within 1-3 days in two-dimensional monocultures on collagen-coated polystyrene/glass, which precludes their use to model the chronic effects of drugs and disease stimuli. Read More

View Article and Full-Text PDF
September 2021

Age-Related Neurometabolomic Signature of Mouse Brain.

ACS Chem Neurosci 2021 Jul 20. Epub 2021 Jul 20.

Institute for Genomics and Bioinformatics, School of Information and Computer Sciences, University of California-Irvine, Irvine, California 92697, United States.

Neurometabolites are the ultimate gene products in the brain and the most precise biomolecular indicators of brain endophenotypes. Metabolomics is the only "omics" that provides a moment-to-moment "snapshot" of brain circuits' biochemical activities in response to external stimuli within the context of specific genetic variations. Although the expression levels of neurometabolites are highly dynamic, the underlying metabolic processes are tightly regulated during brain development, maturation, and aging. Read More

View Article and Full-Text PDF

Identification of microRNAs and their target genes related to needle discoloration of evergreen tree Chinese cedar (Cryptomeria fortunei) in cold winters.

Planta 2021 Jul 20;254(2):31. Epub 2021 Jul 20.

Key Laboratory of Forest Genetics and Biotechnology of Ministry of Education, Nanjing Forestry University, Nanjing, 210037, China.

Main Conclusion: Comparative analysis of miRNAs and their gene targets between the evergreen and yellowish-brown Cryptomeria fortunei phenotypes in cold winters suggests a possible role of miRNA-regulated pathways in needle color. Cryptomeria fortunei (Chinese cedar) is a conifer tree of considerable economic, ornamental and ecological importance. Despite the evergreen nature of C. Read More

View Article and Full-Text PDF

A Flexible System for Stepwise Automation of Microbial Testing of Drinking and Process Water.

SLAS Technol 2021 Jul 20:24726303211017534. Epub 2021 Jul 20.

Institute of Natural Materials Technology, Chair of Bioprocess Engineering, Technische Universität Dresden, Dresden, Germany.

Ambitions to improve the connectivity of devices to enable automation and digital representation of processes have been around for some time. Nevertheless, some companies, especially in life science and analytical science, tend to adopt these developments rather slowly. In the field of microbial analysis of drinking and process water, for example, a large part of the work is still carried out manually, although the high number of samples per day and the low fluctuation in work processes would predestine water analysis for a higher degree of automation. Read More

View Article and Full-Text PDF

Assessing the replicability of spatial gene expression using atlas data from the adult mouse brain.

PLoS Biol 2021 Jul 19;19(7):e3001341. Epub 2021 Jul 19.

Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, United States of America.

High-throughput, spatially resolved gene expression techniques are poised to be transformative across biology by overcoming a central limitation in single-cell biology: the lack of information on relationships that organize the cells into the functional groupings characteristic of tissues in complex multicellular organisms. Spatial expression is particularly interesting in the mammalian brain, which has a highly defined structure, strong spatial constraint in its organization, and detailed multimodal phenotypes for cells and ensembles of cells that can be linked to mesoscale properties such as projection patterns, and from there, to circuits generating behavior. However, as with any type of expression data, cross-dataset benchmarking of spatial data is a crucial first step. Read More

View Article and Full-Text PDF

In silico model for miRNA-mediated regulatory network in cancer.

Brief Bioinform 2021 Jul 19. Epub 2021 Jul 19.

Department of Computer Science, University of Central Florida, Orlando, FL 32816, USA.

Deregulation of gene expression is associated with the pathogenesis of numerous human diseases including cancer. Current data analyses on gene expression are mostly focused on differential gene/transcript expression in big data-driven studies. However, a poor connection to the proteome changes is a widespread problem in current data analyses. Read More

View Article and Full-Text PDF

Increased Retention of Cardiac Cells to a Glass Substrate through Streptavidin-Biotin Affinity.

ACS Omega 2021 Jul 1;6(27):17523-17530. Epub 2021 Jul 1.

Department of Chemical and Materials Engineering, University of Kentucky, Lexington, Kentucky 40506, United States.

In vitro analysis of primary isolated adult cardiomyocyte physiological processes often involves optical imaging of dye-loaded cells on a glass substrate. However, when exposed to rapid solution changes, primary cardiomyocytes often move to compromise quantitative measures. Improved immobilization of cells to glass would permit higher throughput assays. Read More

View Article and Full-Text PDF

Adaptive relay selection based on channel gain and link distance for cooperative out-band device-to-device networks.

Heliyon 2021 Jul 29;7(7):e07430. Epub 2021 Jun 29.

Department of Electrical and Computer Engineering, Universitas Syiah Kuala, Banda Aceh, 23111, Indonesia.

Device-to-device (D2D) communication is one of the key enabling technologies for 5G to support many connections efficiently. In a cooperative out-band D2D communication network, relay nodes have an essential role in receiving and forwarding information signals from source (S) to destination (D), making the system more reliable and with higher energy efficiency. Therefore, the relay selection method is very important in determining the best relay among existing relays to achieve maximum performance. Read More

View Article and Full-Text PDF

Carbon Nanotubes Induce Metabolomic Profile Disturbances in Zebrafish: NMR-Based Metabolomics Platform.

Front Mol Biosci 2021 2;8:688827. Epub 2021 Jul 2.

Institute for Liver and Digestive Diseases, Hallym University, Chuncheon, Korea.

The present study aims to investigate the metabolic effects of single-walled carbon nanotubes (SWCNT) on zebrafish () using H nuclear magnetic resonance (H-NMR) spectroscopy. However, there is no significant information available regarding the characterization of organic molecules, and metabolites with SWCNT exposure. Noninvasive biofluid methods have improved our understanding of SWCNT metabolism in zebrafish in recent years. Read More

View Article and Full-Text PDF

The Role of Nitric Oxide-Induced in Growth and Disease Resistance in .

Front Plant Sci 2021 2;12:685156. Epub 2021 Jul 2.

School of Applied Biosciences, Kyungpook National University, Daegu, South Korea.

Nitric oxide (NO) is a signaling molecule that regulates various processes, including plant growth and development, immunity, and environmental interactions. Using high throughput RNA-seq data, we explored the role of the NO-induced gene in plant growth and defense using functional genomics. The mutant and wild-types were challenged with either oxidative (HO, MV) or nitro-oxidative (CySNO, GSNO) stress conditions, and the phenotypic results showed that gene differentially regulates cotyledon development frequency (CDF) as well as the root and shoot lengths of the plants. Read More

View Article and Full-Text PDF

Selenium Yeast Dietary Supplement Affects Rumen Bacterial Population Dynamics and Fermentation Parameters of Tibetan Sheep () in Alpine Meadow.

Front Microbiol 2021 2;12:663945. Epub 2021 Jul 2.

State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China.

Selenium (Se) deficiency is a widespread and seasonally chronic phenomenon observed in Tibetan sheep () traditionally grazed on the Qinghai-Tibet Plateau (QTP). Effects of the dietary addition of Se-enriched yeast (SeY) on the bacterial community in sheep rumen and rumen fermentation were evaluated with the aim of gaining a better understanding of the rumen prokaryotic community. Twenty-four yearling Tibetan rams [initial average body weight (BW) of 31. Read More

View Article and Full-Text PDF

ARPEGGIO: Automated Reproducible Polyploid EpiGenetic GuIdance workflOw.

BMC Genomics 2021 Jul 17;22(1):547. Epub 2021 Jul 17.

SIB Swiss Institute of Bioinformatics, University of Zurich, Zurich, Switzerland.

Background: Whole genome duplication (WGD) events are common in the evolutionary history of many living organisms. For decades, researchers have been trying to understand the genetic and epigenetic impact of WGD and its underlying molecular mechanisms. Particular attention was given to allopolyploid study systems, species resulting from an hybridization event accompanied by WGD. Read More

View Article and Full-Text PDF

Lipidomic analysis and diagnosis of glioblastoma multiforme with rapid evaporative ionization mass spectrometry.

Electrophoresis 2021 Jul 17. Epub 2021 Jul 17.

Department of Neurosurgery, The First Affiliated Hospital of Wenzhou Medical University, Wenzhou, P. R. China.

Glioblastoma multiforme (GBM) is the most common and aggressive brain tumor in the central nervous system. GBM patients have a very low five-year survival rate and most of them died within one year. Conventional histopathological examination for GBM diagnosis is complicated and time-consuming, which always blocks the development of more precise and effective treatments in resection operation. Read More

View Article and Full-Text PDF

Circular RNA circ_001422 promotes the progression and metastasis of osteosarcoma via the miR-195-5p/FGF2/PI3K/Akt axis.

J Exp Clin Cancer Res 2021 Jul 16;40(1):235. Epub 2021 Jul 16.

Department of Joint and Orthopedics, Zhujiang Hospital, Southern Medical University, Guangzhou, 510282, China.

Background: Circular RNAs (circRNAs) are involved in diverse processes that drive cancer development. However, the expression landscape and mechanistic function of circRNAs in osteosarcoma (OS) remain to be studied.

Methods: Bioinformatic analysis and high-throughput RNA sequencing tools were employed to identify differentially expressed circRNAs between OS and adjacent noncancerous tissues. Read More

View Article and Full-Text PDF

Deploying new generation sequencing for the study of flesh color depletion in Atlantic Salmon (Salmo salar).

BMC Genomics 2021 Jul 17;22(1):545. Epub 2021 Jul 17.

GeneCology Research Centre, University of the Sunshine Coast, Queensland, Sunshine Coast, Australia.

Background: The flesh pigmentation of farmed Atlantic salmon is formed by accumulation of carotenoids derived from commercial diets. In the salmon gastrointestinal system, the hindgut is considered critical in the processes of carotenoids uptake and metabolism. In Tasmania, flesh color depletion can noticeably affect farmed Atlantic salmon at different levels of severity following extremely hot summers. Read More

View Article and Full-Text PDF

Shotgun metagenomic analysis reveals the prevalence of antibiotic resistance genes and mobile genetic elements in full scale hospital wastewater treatment plants.

J Environ Manage 2021 Jul 14;296:113270. Epub 2021 Jul 14.

Department of Civil Engineering, Yeungnam University, Gyeongsan, 38541, Republic of Korea. Electronic address:

Wastewater treatment plants are considered as hotspots of emerging antimicrobial genes and mobile genetic elements. We used a shotgun metagenomic approach to examine the wide-spectrum profiles of ARGs (antibiotic resistance genes) and MGEs (mobile genetic elements) in activated sludge samples from two different hospital trains at the wastewater treatment plants (WWTPs) in Daegu, South Korea. The influent activated sludge and effluent of two trains (six samples in total) at WWTPs receiving domestic sewage wastewater (SWW) and hospital wastewater (HWW) samples collected at multiple periods were subjected to high throughput 16S rRNA metagenome sequencing for microbial community diversity. Read More

View Article and Full-Text PDF

The clinical efficacy of computed tomography-guided I particle implantation combined with arterial infusion chemotherapy in the treatment of pancreatic cancer.

J Cancer Res Ther 2021 Jul;17(3):720-725

Department of Medical Oncology, Affiliated Zhongshan Hospital of Dalian University; The Key Laboratory of Biomarker High Throughput Screening and Target Translation of Breast and Gastrointestinal Tumor, Dalian University, Dalian, P. R. China.

Aims: This study aimed to investigate the clinical value of I radioactive particle implantation combined with regional arterial chemotherapy perfusion in the treatment of pancreatic cancer.

Subjects And Methods: The clinical data of 23 patients with pancreatic cancer were retrospectively analyzed, and the patients were divided into two groups. In the observation group, 11 patients were injected with radioactive particles in combination with regional arterial chemotherapy. Read More

View Article and Full-Text PDF

Just keep it simple? Benchmarking the accuracy of taxonomy assignment software in metabarcoding studies.

Authors:
Holly M Bik

Mol Ecol Resour 2021 Jul 16. Epub 2021 Jul 16.

Department of Marine Sciences and Institute of Bioinformatics, University of Georgia, Athens, GA, United States of America.

How do you put a name on an unknown piece of DNA? From microbes to mammals, high-throughput metabarcoding studies provide a more objective view of natural communities, overcoming many of the inherent limitations of traditional field surveys and microscopy-based observations (Deiner et al. 2017). Taxonomy assignment is one of the most critical aspects of any metabarcoding study, yet this important bioinformatics task is routinely overlooked. Read More

View Article and Full-Text PDF

Biomarker Discovery by Imperialist Competitive Algorithm in Mass Spectrometry Data for Ovarian Cancer Prediction.

J Med Signals Sens 2021 Apr-Jun;11(2):108-119. Epub 2021 May 24.

Department of Engineering, Sabzevar University of New Technologies, Sabzevar, Iran.

Background: Mass spectrometry is a method for identifying proteins and could be used for distinguishing between proteins in healthy and nonhealthy samples. This study was conducted using mass spectrometry data of ovarian cancer with high resolution. Usually, diagnostic and monitoring tests are done according to sensitivity and specificity rates; thus, the aim of this study is to compare mass spectrometry of healthy and cancerous samples in order to find a set of biomarkers or indicators with a reasonable sensitivity and specificity rates. Read More

View Article and Full-Text PDF

Exploring the Potential of Culture Supernatant With Resuscitation-Promoting Factor for Enhancing the Culturability of Soil Bacteria.

Front Microbiol 2021 29;12:685263. Epub 2021 Jun 29.

Faculty of Food and Biochemical Technology, Department of Biochemistry and Microbiology, University of Chemistry and Technology, Prague, Czechia.

A bacterial species is best characterized after its isolation in a pure culture. This is an arduous endeavor for many soil microorganisms, but it can be simplified by several techniques for improving culturability: for example, by using growth-promoting factors. We investigated the potential of a culture supernatant containing resuscitation-promoting factor (SRpf) to increase the number and diversity of cultured bacterial taxa from a nutrient-rich compost soil. Read More

View Article and Full-Text PDF

Effect of language interpretation modality on throughput and mortality for critical care patients: A retrospective observational study.

J Am Coll Emerg Physicians Open 2021 Aug 2;2(4):e12477. Epub 2021 Jul 2.

Department of Mechanical Engineering and Materials Science Duke University Durham North Carolina USA.

Objective: Limited data exist describing possible delays in patient transfer from the emergency department (ED) as a result of language barriers and the effects of interpretation services. We described the differences in ED length of stay (LOS) before intensive care unit (ICU) arrival and mortality based on availability of telephone or in-person interpretation services.

Methods: Using an ICU database from an urban academic tertiary care hospital, ED patients entering the ICU were divided into groups based on primary language and available interpretation services (in-person vs telephone). Read More

View Article and Full-Text PDF

Molecular Markers of MDR of Chemotherapy for HSCC: Proteomic Screening With High-Throughput Liquid Chromatography-Tandem Mass Spectrometry.

Front Oncol 2021 28;11:687320. Epub 2021 Jun 28.

Department of Otolaryngology, Shuguang Hospital Affiliated to Shanghai University of Traditional Chinese Medicine, Shanghai, China.

Background: Hypopharyngeal squamous cell cancer (HSCC) is a head and neck tumor with a poor prognosis. Chemotherapy lacks effectiveness because of multidrug resistance (MDR), which has increased toxic side effects. Thus, there is an urgent need to identify the molecular markers of MDR of chemotherapy for HSCC. Read More

View Article and Full-Text PDF