Genes metagenomics genomics. Medical search. Frequent questions

The unit provide a range of services: RNA-Seq, Whole Genome Sequencing, Spatial transcriptomics and Metagenomics (bacterial 16S rRNA, ITS). (gulbenkian.pt)
The unit offers 10X Genomics Visium Spatial Transcriptomics service with the Histopathology Facility. (gulbenkian.pt)
In this section, we'll provide a brief overview of the whole-genome fields of genomics, transcriptomics, and proteomics. (americascupmagazine.com)
Additionally, transcriptomics can be used to monitor the gene expression of virulence factors in microorganisms, aiding scientists in better understanding pathogenic processes from this viewpoint. (americascupmagazine.com)
When genomics and transcriptomics are applied to entire microbial communities, we use the terms metagenomics and metatranscriptomics, respectively. (americascupmagazine.com)
Another up-and-coming clinical application of genomics and transcriptomics is pharmacogenomics, also called toxicogenomics, which involves evaluating the effectiveness and safety of drugs on the basis of information from an individual's genomic sequence. (americascupmagazine.com)
I employ a range of meta-omics approaches including: meta-barcoding of microbiomes to assess microbial diversity coupled with the use of comparative meta-genomics and meta-transcriptomics in the frame of interdisciplinary and integrated research projects to link structural and functional diversity of microbes with diversity and community composition of plant communities. (ufz.de)

Silver Age of GOLD Introduces New Features The Genomes OnLine Database makes curated microbiome metadata that follows community standards freely available and enables large-scale comparative genomics analysis initiatives. (doe.gov)
Of 1,107/225/1,141 rumen microbial genera/metagenome assembled uncultured genomes (RUGs)/genes identified from whole metagenomics sequencing, 194/14/337 had significant host genomic effects (heritabilities ranging from 0.13 to 0.61), revealing that substantial variation of the microbiome is under host genomic control. (nature.com)
Novel microbial species in the rumen have recently been identified using metagenome-assembled genomes generated from whole metagenomic sequence data of microbial DNA from rumen samples 8 , 34 , but how their abundances are shaped by host genomics is still unknown. (nature.com)
We routinely use metagenomics to characterize and obtain multi-gene data for such pathogens, and to reconstruct whole genomes of novel pathogens. (cefas.co.uk)
G3 - Genes, Genomes, Genetics. (zhaw.ch)
The LBGB is in charge of the management and analysis of the sequencing data produced at Genoscope, with a broad interest in methodological developments and has extensive experience in de novo assembly, gene prediction and comparative genomics of complex genomes and samples. (galaxyproject.org)
According to Kyrpides, nearly 1,000 microbial genomes have been sequenced over the past 15 years but the data obtained has been compromised by the lack of standards for so many critical procedures in the field, from simple data exchange to gene finding, function prediction, and metabolic pathway description. (science20.com)
Here, we identified the red glume 1 (Rg-B1) gene using association genetics and haplotype analyses in ten reference grade wheat genomes. (tamu.edu)
Haplotype comparisons across ten high-quality wheat genomes revealed a MYB transcription factor as candidate gene. (tamu.edu)
The study and comparison of entire genomes, including the complete set of genes and their nucleotide sequence and organization, is called genomics. (americascupmagazine.com)

Creation of a marine eukaryote gene set through metatranscriptomics. (embl.org)
This review also describes recent achievements in genomics, metagenomics, and metatranscriptomics, which have been implemented in studies on the microbial composition of environments contaminated with organic compounds. (caister.com)
Expansion of high-throughput sequencing (HTS) technologies and reduction in analysis costs has allowed for detailed exploration of various habitats with use of amplicon, metagenomics, and metatranscriptomics approaches. (gla.ac.uk)
Metagenomics and metatranscriptomics allow researchers to study genes and gene expression from a collection of multiple species, many of which may not be easily cultured or cultured at all in the laboratory. (americascupmagazine.com)

The viruses can shuttle bacterial genes between different host cells ( A ). This can lead to changes in the metabolism of the host bacteria if the new genes are expressed by the host cells ( B ). Co-infection of a host cell by two different viruses could lead to new combinations of genes in the bacterial genome ( C ). (elifesciences.org)
Genome-Resolved Metagenomics Extends the Environmental Distribution of the Verrucomicrobia Phylum to the Deep Terrestrial Subsurface. (unh.edu)
A lot could be done with microbial genomics, says DOE JGI Genome Biology head Nikos Kyrpides writing in Nature Biotechnology , if researchers go beyond the present anthropocentric focus and institute shared standards for genomic data collection and analysis. (science20.com)
Taking this one step farther, all the genes from all the sequenced strains in a species - the pan-genome for that species - would constitute the genome representing that species for gene comparisons. (science20.com)
The U.S. Department of Energy Joint Genome Institute is committed to advancing genomics in support of DOE missions related to clean energy generation and environmental characterization and cleanup. (science20.com)
Access to pan-genome information greatly facilitates the assessment of structural variations and rapid candidate gene identification. (tamu.edu)
Whole-genome sequencing enables the detection of resistance genes, mutations, and mobile genetic elements, aiding in surveillance efforts and guiding antibiotic prescribing practices. (alliedacademies.org)

A rapidly developing research area focuses on understanding how genetic variation influences organisms, populations, communities and ecosystems and specifically the connections between genetics, gene regulation, species diversity, and ecological and biogeochemical processes. (umces.edu)
The candidate must hold a PhD in Bioinformatics, Genetics, Biology or related discipline or an engineering degree and must demonstrate experience in the field of genomics associated with the development of bioinformatics tools. (galaxyproject.org)
We examine the role of miRNAs in nodule development using a number of different approaches including genetics, genomics, molecular and cellular biology and microscopy. (sdstate.edu)
We utilize genetics, metagenomics and molecular microbiology to answer questions related to this research area. (sdstate.edu)

The research group develops computational methods for comparative and evolutionary genomics, including modelling of stochastic processes in molecular evolution. (zhaw.ch)
Comparative metagenomics of eukaryotes. (embl.org)
Shotgun metagenomics and comparative isolate genomics were used to understand the impact of oral vancomycin on the microbiome and environmental contamination. (cdc.gov)

With the combined capabilities of "top-down" and "bottom-up" approaches, proteomics can pursue inquiries ranging from quantitation of gene expression between growth conditions (whether nutritional, spatial, temporal, or chemical) to protein structural information. (wikipedia.org)
The study of proteomics is an extension of genomics that allows scientists to study the entire complement of proteins in an organism, called the proteome. (americascupmagazine.com)
Replenished interest in biochemistry, genomics, proteomics, metabolomics, metabolic engineering and system biology studies of microbes is likewise important in improvement of microbial cell factories for industial innovations. (frontiersin.org)

For example, genomics has been instrumental in tracking the spread of antimicrobial resistance genes, allowing for tailored antibiotic stewardship programs and the development of novel therapeutics [ 3 ]. (alliedacademies.org)
Our lab is developing Artificial Intelligence (AI) tools to trace microbiome samples geographically with great accuracy and understand the spread of antimicrobial resistance genes (AMR). (lu.se)

Evaluation of nanopore-based sequencing technology for gene marker based analysis of complex microbial communities. (gla.ac.uk)
He also sees a way forward using single-cell genomics - a technique now being pursued in earnest by DOE JGI researcher Tanja Woyke and her colleagues - in partnership with environmental metagenomics to provide a more holistic understanding of microbial communities and their individual members. (science20.com)

Our main projects revolve around population, medical, and evolutionary genomics, as well as metagenomics. (lu.se)

combined metaproteomics with metagenomics and metabolomics to show the effects of resistant starch on the human intestinal microbiome. (wikipedia.org)

The projects cover all biodiversity, particularly the genomics of plants and fungi and the metagenomics of complex ecosystems. (galaxyproject.org)
The successful candidate will join the Bioinformatics Laboratory for Genomics and Biodiversity (LBGB) at Genoscope, made up of around fifteen bioinformaticians. (galaxyproject.org)
Biodiversity Genomics Europe (BGE, https://biodiversitygenomics.eu/ ) has the overarching goal of accelerating the use of genomic science to enhance understanding of biodiversity, monitor biodiversity changes, and guide interventions to address its decline. (galaxyproject.org)

Metaproteomics can also be used as a tool to assess the composition of a microbial community in terms of biomass contributions of individual members species in the community and can thus complement approaches that assess community composition based on gene copy counts such as 16S rRNA gene amplicon or metagenome sequencing. (wikipedia.org)
The Microbial Genomics and Metagenomics Laboratory (MGML) provides metagenomic sequencing and analysis support to the Cincinnati Children's, University of Cincinnati and surrounding communities. (cincinnatichildrens.org)
The MGML is staffed and equipped to provide services ranging from 16S ribosomal RNA sequencing (16S rRNA), shotgun metagenomics and RNA sequencing. (cincinnatichildrens.org)
The laboratory developed a bioinformatics pipeline to that takes raw DNA sequencing read data all the way through taxonomic assignment, functional metabolic gene abundance, and antibiotic gene detection. (cincinnatichildrens.org)
The laboratory has also performed sequencing of individual bacterial isolates followed by downstream analysis of organism similarity (molecular epidemiology), presence of virulence genes and antibiotic resistance genes. (cincinnatichildrens.org)
Recently, traditional isolation methods, complemented by high-throughput sequencing metagenomics technology, have greatly increased our understanding of the diversity of bacteriophages. (biomedcentral.com)
The Genomics Unit offers short read (Illumina NexSeq 2000 and Illumina MiSeq) and long read Nanopore sequencing, Library preparation, and Fragment-analyzer/TapeStation sample QC services. (gulbenkian.pt)
For Single Cell sequencing the unit operates a 10X Genomics Chromium controller and the new Chromium X capable of high-throughput experiments. (gulbenkian.pt)
Mycobacterium angelicum , a slow-growing mycobacterium associated with animals living in freshwater environments, was delineated within the M. szulgai complex by 16S rRNA gene sequencing after its initial isolation from a freshwater angelfish ( Pterophyllum scalare ) in 2003 ( 1 ). (cdc.gov)
A clinical isolate recovered from a respiratory tract sample taken from a patient in Northern Ireland was also tentatively identified as M. angelicum on the basis of 16S rRNA gene sequencing ( 4 ). (cdc.gov)
Genoscope also contributes to the discovery of unknown microscopic organisms using metagenomics, now feasible thanks to the development of new sequencing technologies and increased bioinformatics data processing capacities. (galaxyproject.org)
3' mRNA sequencing was performed to obtain gene expression data from which stromal and immune scores were calculated using the ESTIMATE method. (bvsalud.org)

Marine bacteriophages play key roles in the community structure of microorganisms, biogeochemical cycles, and the mediation of genetic diversity through horizontal gene transfer. (biomedcentral.com)

Omics approaches for identification of gene candidate(s) encoding extracellular laccase like multicopper oxidase from Psychrobacter sp. (sintef.no)
Metaproteomics approaches are comparable to gene-centric environmental genomics, or metagenomics. (wikipedia.org)
By studying host genetic factors, researchers can identify host susceptibility genes, elucidate the variability in disease severity, and develop personalized treatment approaches. (alliedacademies.org)

These previous metagenomic studies were based on microbiota profiles mostly identified using sequence polymorphisms of the 16S rRNA gene and therefore did not consider the functional versatility of unique rumen microbial species, nor the ability of some microbial organisms to integrate foreign DNA from other microbial organisms into their DNA. (nature.com)

Antimicrobial susceptibility, virulence gene profiles and molecular subtypes of Salmonella Newport isolated from humans and other sources. (cdc.gov)
Researchers will establish a CDC International Antibiotic-Resistant Gonorrhea Isolate Bank, which will include a diverse set of Neisseria gonorrhoeae strains based on geography, genomics, and antibiotic susceptibility profiles. (cdc.gov)

The term "metaproteomics" was proposed by Francisco Rodríguez-Valera to describe the genes and/or proteins most abundantly expressed in environmental samples. (wikipedia.org)
Even though all cells of a multicellular organism have the same set of genes, cells in various tissues produce different sets of proteins. (americascupmagazine.com)

Julie Poulain is a molecular biologist working in the field of marine environmental genomics at t he Laboratory for the Genomic Analysis of Eukaryotes (LAGE) within Genoscope's UMR 8030 Genomics Metabolics Unit. (cea.fr)

Changes in the genetic composition of foundation species and in gene-environment interactions are becoming more prevalent as a result of biological invasions, anthropogenic pollution, climate warming, and other manifestations of environmental change. (umces.edu)
vB_OliS_GJ44 showed synteny with six uncultured phages, which supports its representation in uncultured environmental viral contigs from metagenomics. (biomedcentral.com)
Combined with the eight environmental viral contigs from metagenomics, this study helps fill the gap in our understanding of the isolation, genomic and evolutionary development of Oceanospirillum bacteriophages and provides new insights into the interactions between hosts and bacteriophages for these important marine hydrocarbon-degrading microbial populations. (biomedcentral.com)
However, due to a capital cost of HTS platforms and requirements for batch analysis, genomics-based studies are still not being used as a standard method for the comprehensive examination of environmental or clinical samples for microbial characterization. (gla.ac.uk)
Besides, the best performing library preparation and data analyses methods were used for analysis of environmental samples and compared to high-quality Illumina metagenomics data. (gla.ac.uk)
Towards predicting the environmental metabolome from metagenomics with a mechanistic model. (escmid.org)
Genoscope then turned to environmental genomics. (galaxyproject.org)

used metaproteomics along with metagenomics in analyzing gut microbiome changes during human development. (wikipedia.org)
Only one of these microbial genes was directly involved in methanogenesis ( cofG ), whereas others were involved in providing substrates for archaea (e.g. bcd and pccB ), important microbial interspecies communication mechanisms ( ABC.PE.P ), host-microbiome interaction ( TSTA3 ) and genetic information processes ( RP-L35 ). (nature.com)
In our population, selection based on abundances of the 30 most informative microbial genes provided a mitigation potential of 17% of mean CH 4 emissions per generation, which is higher than for selection based on measured CH 4 using respiration chambers (13%), indicating the high potential of microbiome-driven breeding to cumulatively reduce CH 4 emissions and mitigate climate change. (nature.com)

Our research includes studies of genomic repeat sequences and indel evolution with applications in cancer genomics and biotechnology, as well as studies of dynamics and evolution of viruses and other pathogens. (zhaw.ch)
It has a proprietary discovery engine that starts with vast amounts of metagenomic data "to unlock 4 billion years of microbial evolution and identify new types of gene editing systems. (biospace.com)
Recent advances in metagenomics have generated numerous insights related to the cell biology, ecology, evolution, and biogeochemistry of microbial life in the ocean. (jcvi.org)
Several studies targeting picoplankton, associated with various particle size classes, have begun to define contrasting trends in gene family evolution between free-living compared to particle associated microbes. (jcvi.org)

Additionally, genomics has facilitated the discovery of novel biomarkers and therapeutic targets for infectious diseases, aiding in the development of vaccines and immunotherapies The rise of antimicrobial resistance poses a significant threat to public health. (alliedacademies.org)

Genomics has shed light on the complex interactions between pathogens and their hosts, unravelling the mechanisms underlying virulence, immune evasion, and disease progression. (alliedacademies.org)
Ape parasite origins of human malaria virulence genes. (cdc.gov)

ETC Group has long monitored the 'Gene Giants' (who aggregate control over seeds, agrochemicals, pharmaceuticals, biotechnology, genomics and food processing and retailing). (etcgroup.org)

Cambridge, Mass.-based Moderna and Emeryville, Calif.-based Metagenomi inked a strategic research and development deal on new gene editing systems for in vivo (in the body) human therapies. (biospace.com)
Their discovery platform and expertise will expand Moderna Genomics' ongoing efforts to develop innovative in vivo gene editing therapies to address a significant unmet medical need. (biospace.com)
This review summarizes basic genomics principles relevant to translation into therapies, assessing pharmacogenomics' central role in converging diverse elements of personalized medicine. (aspetjournals.org)
Genomics provides critical insights into the genetic determinants of drug resistance, allowing for the rapid identification of resistance mechanisms and the development of targeted therapies. (alliedacademies.org)

The lab is structured around a transversal research theme (orphan gene dynamics) and three study domains: plant genomics, fungal genomics and marine plankton metagenomics. (cea.fr)
Research topic: Construct soil metagenomic libraries from forest and grassland soils along land use gradients and screen for fungal functional genes. (ufz.de)

Genomics has revolutionized pathogen detection and surveillance, enabling rapid and accurate identification of infectious agents. (alliedacademies.org)
The ultimate goal of the MetaSUB Consortium is to improve city utilization and planning through the detection, measurement, and design of metagenomics within urban environments. (lu.se)

Final Round of 2022 CSP Functional Genomics Awardees Meet the final six researchers whose proposals were selected for the 2022 Community Science Program Functional Genomics call. (doe.gov)
UMCES researchers focus on a range of scales from individual genes to genomics to metagenomics of complex communities. (umces.edu)
Specifically, researchers are interested in making this data available to industry and to environment agencies so that society can benefit from the rich gene diversity of marine life . (youris.com)
Genomics has emerged as a powerful tool in the fight against infectious diseases, enabling researchers to delve deeper into the molecular characteristics of pathogens and their interactions with hosts. (alliedacademies.org)

Scientists compare gene expression patterns between infected and uninfected host cells, gaining important information about the cellular responses to infectious disease. (americascupmagazine.com)

My work also focus to disentangle the relationship between below ground inter- and intra-kingdom microbial co-occurrence and interaction networks, patterns of functional gene profiles and its implication in understanding ecosystem processes in different microbial hotspots. (ufz.de)

Notably, advances in single cell genomics (SCG), fluorescence activated cell sorting (FACS) capture of specific populations and metagenomic assembly are providing valuable information related to within and between lineage genomic content. (jcvi.org)
With new tools in hand and international initiatives for increased collaboration underway, the field of microbial genomics is poised for a decade of exciting advances. (science20.com)

Gene expression changes can therefore be monitored through this method. (wikipedia.org)
This allows for transcriptome-wide mapping of genes expression onto tissue sections, with concomitant H&E or IF staining. (gulbenkian.pt)
Many methods use standard calculus, differential equations, machine learning and dynamical systems theory to describe and predict biological phenomena, such as for example, the relationship between codon bias and gene expression via the concept of translational efficiency, applied to codon optimization problems. (zhaw.ch)
Changes in gene expression in the presence of a drug can sometimes be an early indicator of the potential for toxic effects. (americascupmagazine.com)
miRNAs are short non-coding RNAs that regulate gene expression in a post-transcriptional manner. (sdstate.edu)
So, within the scope of the proposed Research Topic, we aim to publish articles on microbial secondary metabolites, microbial biosynthetic potential including biosynthetic gene expression, metagenomics and authors are encouraged to submit articles dealing with microorganism from unique habitats like marine sources, endophytes, thermal springs, deserts, etc. (frontiersin.org)
The systematic study of the global gene expression changes due to EPIGENETIC PROCESSES and not due to DNA base sequence changes. (bvsalud.org)

Large-scale genomic analysis shows association between homoplastic genetic variation in Mycobacterium tuberculosis genes and meningeal or pulmonary tuberculosis. (escmid.org)
Population genomics and haplotype analysis in spelt and bread wheat identifies a gene regulating glume color. (tamu.edu)
As part of the Metagenomics and Metadesign of the Subways and Urban Biomes (MetaSUB) International Consortium of over 100 cities worldwide, we collaborate with experts across many fields, including genomics, data analysis, engineering, public health, and architecture. (lu.se)

This method thus opens the way for addressing important questions about the genetic diversity, gene flow, adaptation, dispersal, and biogeography of hitherto unexplored species. (lu.se)
Metagenomics has, for example, been used to study the diversity of the oceans of the world (Mission Tara Oceans, https://fondationtaraocean.org/en/home/ ). (galaxyproject.org)

Rates of Lateral Gene Transfer in Prokaryotes: High but Why? (cdc.gov)

Streamlining Regulon Identification in Bacteria Regulons are a group of genes that can be turned on or off by the same regulatory protein. (doe.gov)

Cow Rumen and the Early Days of Metagenomics Tracing a cow rumen dataset from the lab to material for a hands-on undergraduate research course at CSU-San Marcos that has since expanded into three other universities. (doe.gov)

Challenges of the Unknown: Clinical Application of Microbial Metagenomics. (cdc.gov)

The candidate will work closely with partners at collaborating institutions in Europe who are contributing to the gene prediction and delivery tasks. (galaxyproject.org)

Marine Genomics Europe Final General Assembly, Faro (Portugal)May 2008. (awi.de)
Marine genomics has the power to reveal the many undiscovered secrets of the oceans. (youris.com)
This has been made possible by the EU funded research project Marine Genomics for Users (MG4U), designed to raise the profile of marine genomic technologies and make them available for potential applications in fields as varied as in medical research, nutrition and cosmetic products. (youris.com)
Homologs of several vB_OliS_GJ44 genes have mostly been found in marine metagenomes, suggesting the prevalence of this phage genus in the oceans. (biomedcentral.com)
Lineage specific gene family enrichment at the microscale in marine systems. (jcvi.org)

Metaproteomics allows for scientists to better understand organisms' gene functions, as genes in DNA are transcribed to mRNA which is then translated to protein. (wikipedia.org)

Sharing his vision for the future of microbial genomics, Kyrpides observes: "The remarkable number of microbes-already estimated to be several orders of magnitude greater than the number of stars in the universe-urgently calls for a transition from random, anecdotal, and small scale surveys towards a systematic and comprehensive exploration of our planet. (science20.com)
In addition, new methods, including genomics and?metagenomics, are being employed for the discovery of new enzymes from microbes. (edu.au)

Anatomy1

Organisms13

Chemicals and Drugs5

Analytical, Diagnostic and Therapeutic Techniques and Equipment6

Phenomena and Processes28

Disciplines and Occupations10

Technology, Industry, Agriculture1

Information Science10

Health Care12

Geographicals1

Transcriptomics7

Genomes10

Metatranscriptomics4

Genome7

Genetics4

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Proteomics3

Spread of antimicrobial resistance genes2

Microbial communities2

Evolutionary genomics1

Metabolomics1

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Sequencing12

Microorganisms1

Approaches3

RRNA gene1

Susceptibility2

Proteins2

Eukaryotes1

Environmental7

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Researchers4

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