Articles tagged with Genome Sequencing
Researchers at UIC are expanding testing for vulnerable communities, performing genomic sequencing on samples to identify emerging SARS-CoV-2 strains. This helps gather info on variant dynamics and human immune responses, aiding public health surveillance.
Researchers study rare warbler hybrid with mismatched color patterns to disentangle genetic drivers of traits usually inherited together. The team identifies new location in genome linked to black face mask and confirms previously identified region for black throat patch.
RAMBO, a new method, cuts indexing times for large DNA databases from weeks to hours and search times from hours to seconds. The researchers used a data structure that has a significantly faster query time than state-of-the-art genome indexing methods.
A new UC Davis study confirms that SARS-CoV-2 contamination on hospital surfaces is unlikely to be infectious. The research used genome sequencing to detect the virus on surfaces and found that only a small percentage of samples were positive, suggesting that improved cleaning protocols may have reduced transmission.
Researchers have sequenced the nuclear genome of the koala lemur, a giant primate that went extinct in Madagascar around 500-2,000 years ago. The findings reveal new insights into its position on the primate family tree and how it interacted with its environment, which could help understand past lemur extinctions.
Researchers at Karolinska Institutet have developed a cost-effective method for detecting new coronavirus variants. The COVseq technology uses multiplex PCR and pooling to sequence thousands of viral genomes per week, making it an affordable solution for global surveillance.
A decade of ancient genome analysis has shown that early humans were resilient and capable, exploring new environments with no prior knowledge. This discovery challenges previous theories on human behavior and highlights the importance of genomic evidence in understanding our history.
Scientists assembled a high-quality genome of a European olive species, identifying genes involved in oleuropein biosynthesis. The study revealed 202 genes related to oleuropein, twice as many as previously known, and found olives genetically closest to the oleaster plant.
A new study reveals that wastewater sequencing can detect emerging SARS-CoV-2 variants like B.1.1.7 up to 8 weeks before they become prevalent in clinical cases. This early warning system provides a more accurate picture of virus circulation among humans, including asymptomatic individuals.
A new study suggests that excluding individuals with harmful mutations and selecting those from multiple source populations can improve the success of translocation programs for threatened species. Computer simulations show that this approach can minimize inbreeding depression and ensure population survival.
Researchers from University of British Columbia and Strategic Salmon Health Initiative found Piscine orthoreovirus (PRV) originating from Atlantic salmon farms spreading to wild Pacific salmon through open-net farming. The study suggests a link between PRV transmission and increased disease severity in Chinook salmon.
The conference aims to share experience in developing and applying bioinformatics algorithms, with topics including sequencing technologies, molecular sequence analysis, and genome assembly. Selected abstracts will be published as part of the BiATA 2021 BMC Bioinformatics supplement.
The Alvis tool helps bioinformaticians analyze DNA sequence data and reference genome databases for more accurate assembly results. It detects chimeric sequences, which can affect data accuracy, and produces efficient vector images for human interpretation.
A team of scientists from China has sequenced the genome of Lavandula angustifolia to understand the genetics behind its distinctive fragrance. The study revealed that gene duplications and terpenoid diversification led to the evolution of unique compounds, with potential applications in stress relief, skin conditioning, and pollination.
A new technology has made it possible to quickly sequence the entire genome of plant pathogens, enabling faster diagnosis and identification of emerging pathogens. This breakthrough has great implications for the plant pathology field, allowing for more accurate identification of difficult-to-diagnose pathogens.
A new study of the California condor genome found a surprising amount of genetic diversity, indicating that the species was once more abundant. The researchers believe this diversity will aid in future conservation efforts and potentially mitigate the effects of previous inbreeding.
The Yap hadal snailfish genome contains extra genes that help stabilize proteins and DNA under high pressures, enabling it to survive in the deepest parts of the ocean. The fish has lost genes involved in vision, taste, and smell, which are likely unnecessary in its dark environment.
Michigan State University scientists are breeding heat-resistant tepary beans to address global food security concerns. By leveraging the genetics of the tepary bean, researchers aim to create beans that can thrive in challenging climates and provide essential nutrients for vulnerable populations.
Researchers developed UShER to quickly analyze coronavirus genome sequences and track their relationships with other variants. The tool updates a comprehensive phylogenetic tree in real-time, enabling scientists to monitor emerging strains and transmission dynamics.
Scientists have successfully identified the complete avenacin biosynthetic pathway in oats, which provides resistance to soil-borne diseases like take-all. This discovery has implications for creating disease-resistant lines of wheat using modern technologies.
Researchers discovered a new species of bacteria, Sphingobacterium phlebotomi, in sand fly rearing substrates that attracts pregnant females, offering a potential tool for reducing sand fly populations and preventing diseases like Leishmaniasis. The bacterium's volatile chemicals can be used to create ecologically safe baits or traps.
Researchers identified a new genetic mutation causing progressive muscle damage, shedding light on the function of over 4,000 genes associated with hereditary diseases. The study's findings provide crucial insights into the development of muscle cells and their ability to recover.
Researchers successfully germinated seven ancient Judean date palm seeds from archaeological sites, gaining genetic insights into the evolution of crops. The study suggests that hybridization between date palms and wild Cretan palms occurred over 2,200 years ago, influencing agricultural practices.
Researchers at NYU Abu Dhabi have successfully sequenced the genome of previously extinct date palm varieties that lived over 2,000 years ago. The study reveals how these plants evolved over time, including increasing levels of genes from another species due to hybridization.
Researchers created Retron Library Recombineering (RLR) to generate up to millions of mutations simultaneously and screen mutant cells efficiently. RLR eliminates the toxicity observed with CRISPR and improves genome-level exploration of mutations.
Researchers found that house mice on the east and west coasts developed similar traits, such as larger bodies and bigger nests, to cope with the cold. These genetic changes suggest distinct regional features like rainfall and soil color may have driven parallel evolution along the latitudinal gradient.
Researchers developed a chip that rapidly and accurately sequences viral genomes for COVID-19 diagnosis, eliminating false positives and negatives. This technology enables faster tracing of COVID-19 cases and prevents future pandemics.
Scientists have assembled high-quality reference genomes for 16 endangered species, including the kakapo and vaquita, revealing that even small populations can survive if humans do not kill off remaining animals. The 'kitchen sink approach' combined multiple biotech tools to produce error-free genome assemblies.
Researchers at Stanford University have developed a new technique to analyze the genomes of archaic humans, revealing key differences in gene expression that may lead to physical traits. The study found associations with the vocal tract and cerebellum, suggesting rapid evolution of these organs in modern humans.
Researchers sequenced genomes from 21 specimens to investigate the genetic health of Sumatran rhinoceros. Low inbreeding levels and high genetic diversity were found in present-day populations, but potentially harmful mutations were detected, posing a risk to the species' survival.
A new study reveals that sifakas, a genus of lemurs found only in Madagascar's forests, have taste preferences and digestive adaptations that allow them to thrive on tough leaves, fruit, and even pine needles. This dietary flexibility may give them an advantage over their strictly leaf-eating or fruit-only cousins.
Researchers found that prime editors have extremely low off-target effects in plant cells, with editing rates of 0.00%~0.23%. The study suggests designing pegRNAs to minimize off-target sites and eliminates concerns about nonspecific effects from M-MLV RT.
A global consortium led by CSU scientists is sequencing complete genomes of 10 intractable weed species to advance humanity's approach to weeds and crops. The project aims to develop genomic tools for improved management and reduce the use of unsustainable practices like soil tillage.
A new study found that all six currently identified SARS-CoV-2 variants are widely spread across the Houston metropolitan area. Genome sequencing data showed geographically widespread dissemination of variants, with successful patient-to-patient transmission among communities.
Researchers have developed a new search engine, DIAMOND, that enables fast and accurate comparison of protein sequences across species. With an 80- to 360-fold computational speedup compared to BLAST, DIAMOND is poised to revolutionize comparative genomics research and enable the analysis of millions of eukaryotic genomes.
Researchers from Uppsala University discovered a new species of bumblebee, Bombus incognitus, through genetic analysis of Rocky Mountains samples. The study reveals potential for speciation in arctic and alpine environments due to climate change.
The first complete genome for the bacteria that causes bacterial spot disease in pumpkins has been assembled, providing valuable resources to understand its spread, host specificity, and potential resistance to chemical controls. The study identified key genes involved in infection and compared them with other Xanthomonas species.
The University of Maryland has co-published the first full reference genome sequence for rye in Nature Genetics. This valuable resource will help improve grain yield, disease resistance, and temperature tolerance to increase climate resilience in grain crops.
Rye's complex genome has been fully sequenced, revealing a diverse wild gene pool that holds promise for breeding. The research team hopes to transfer beneficial traits from rye to wheat without affecting baking properties.
A new method of DNA sequencing using PacBio HiFi sequencing has been successfully applied to assemble the genome of barley with high accuracy and speed. The approach yielded better quality genome sequences compared to other methods, including more complete genes and accurate reassembly of non-coding regions.
A study from Karolinska Institutet in Sweden analyzed the results of whole genome sequencing for over 3,200 patients with rare diseases, resulting in molecular diagnoses for 1,287 patients. The researchers found pathogenic mutations in over 750 genes and discovered 17 novel disease genes.
Researchers at the University of Queensland have created a highly detailed genome model for critically endangered Macadamia jansenii, a plant species that is rare in the wild. The model has been used to study the genetics and diversity of the species, providing valuable insights into how rare plant species survive population decline.
Researchers identify nearly 108,000 previously undetected structural variants and 278 SV hotspots in diverse human populations. The findings provide fundamental insights into the structure and variation of the human genome.
Researchers have developed a new method, Cre-Controlled CRISPR, which combines the benefits of the Cre/lox system and CRISPR/Cas9 genetic scissors for conditional gene inactivation. This approach allows for faster and easier gene editing with reduced labor needed to flank genes with lox sequences.
A recent study has shed new light on the evolutionary history and genomic variation of tigers, revealing population bottlenecks and recent divergence between subspecies. The research highlights the importance of local adaptation and genetic rescue efforts in tiger conservation.
A new study reveals that European Starlings in North America underwent rapid local adaptation, adjusting to temperature and rainfall variations through subtle genetic changes. The species' massive population size enabled the spread of beneficial gene variants across generations.
Researchers have discovered that non-teleost ray-finned fishes possess genetic traits similar to those of lobe- and ray-finned fishes, including limb development and respiratory systems. These findings provide crucial insights into the water-to-land transition during vertebrate evolution.
The Human Genome Project has enabled millions to access their personal genomic information, but diversity gaps persist in clinical trials. Experts call for increased Indigenous participation, open data sharing, and multidisciplinary approaches to address biases and develop polygenic risk scores for diverse communities.
Researchers have sequenced over 700 novel microbial genomes from the gut microbiome of a goat, discovering that fungi play a disproportionate role in biomass degradation. The study also found that fungi are more efficient at producing methane, a potential game-changer for renewable energy production.
Researchers have produced a high-quality reference sequence of the complex switchgrass genome using samples from 10 experimental gardens across eight states. This allows breeders to test what genes affect the plant's adaptability to various environmental conditions and associate climate adaptations with switchgrass biology.
Researchers at University of Tsukuba have produced genome sequences of two wild tomato ancestors, Solanum pimpinellifolium and S. lycopersicum var. cerasiforme, which will aid in breeding improved crop varieties with enhanced disease resistance, climate tolerance, and taste.
Researchers at the University of Texas at Austin have identified three distinct populations of switchgrass with unique adaptations to climate, paving the way for breeding high-yielding varieties matched to specific climates. This breakthrough could lead to more efficient and sustainable biofuel production.
Researchers have produced the most comprehensive genome of Sapria himalayana, a major Rafflesiaceae lineage found in Southeast Asia. The analysis revealed an astonishing degree of gene loss and surprising amounts of gene theft from ancient and modern hosts, offering new insights into the evolution of flowering plants.
Researchers developed a novel method to sequence RNA from wastewater, detecting complete and nearly complete SARS-CoV-2 genomes. This approach provides early signal detection of new variants, enhancing control measures.
Researchers developed a simple barcoding system to reduce sequencing errors in Oxford Nanopore Technologies' MinION device, enabling accurate analysis of microorganisms like SARS-CoV-2. The new method achieves error rates below 0.005% and can process long stretches of DNA up to 10 times longer than conventional technologies.
Researchers sequenced 107 microalgae species from diverse locations to gain insights into genomic differences in saltwater and freshwater microalgae. The study reveals fundamental differences in nuclear and cellular membranes between the two, with marine species containing more viral-origin genes.
A £1.2M grant will upgrade the CLIMB COVID-19 project's computational equipment to process genomic data globally. Researchers can analyze genomes from local populations in relation to global datasets, facilitating equitable data sharing and fighting pandemic diseases.
Advanced sequencing technique reveals 19 new RNA mycoviruses in fungus Aspergillus, including 9 undetected by conventional methods. The study also identifies novel RdRp gene structures, challenging existing understanding of RNA virus genetics.
Researchers from Chinese Academy of Sciences and University of Bristol solve the 'flea mystery' by classifying fleas as a group of highly modified scorpionflies. The study suggests that fleas evolved from small, nectar-feeding scorpionflies that later developed specialized blood-sucking mouthparts.
Researchers have created a more complete reference genome for the rhesus macaque, expanding its potential use in human disease modeling and genetic therapy development. The updated genome assembly reveals thousands of naturally occurring gene variants associated with human conditions like autism and developmental delay.