Articles tagged with Genome Sequencing
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.
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.
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.
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 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 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 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.
Genetic analysis reveals that improved maize varieties developed by Indigenous South Americans were reintroduced into Central America, potentially leading to more productive and consumed varieties. The study provides new insights into the spread of maize in the Americas and its impact on human history.
Three 2,000-year-old cobs from Honduras show that humans brought maize varieties back to Mesoamerica, sparking potential productivity increases and shaping civilization. This new study fills gaps in corn's history, revealing a more complex domestication story with parallel but differing speeds across regions.
Researchers have identified 35 known and one new neuropeptide produced by the American cockroach that could be targeted for pest control. The neuropeptides' expression varies by tissue, developmental stage, and sex, making some more suitable targets than others.
The iGenomics app allows iPhone users to create a mobile genetics laboratory, enabling pandemic and ecology workers to study DNA on-the-go. The device can quickly map viral pathogen sequences and identify mutations for diagnosis and treatment.
A new study recommends strategies for generating polygenic risk scores that inspire confidence among consumers, reducing variability and improving the accuracy of these scores. By running algorithms multiple times and paying attention to variable elements, companies can improve the quality of scores delivered to customers.
The study's results provide key insights into the genetic factors behind wheat's adaptability and diversity. The researchers found that chromosome fragments from wild grasses were cross-hybridized with wheat, leading to differences in immune receptors and enabling the crop to adapt to regional climate conditions.
Kansas State University researchers and international partners have completed the genome sequencing of 15 wheat varieties, representing breeding programs worldwide. This valuable resource will improve global wheat production by unlocking genetic potential for disease resistance and quality improvement.
Researchers have sequenced multiple wheat and barley genomes, revealing hidden genetic variation that can be used to breed more productive and resilient crop varieties. The project aims to increase global wheat production by over 50% by 2050 to meet future food demands.
Researchers discover endogenous viral elements from giant viruses are common in chlorophyte green algae, suggesting a potential beneficial relationship between hosts and their viruses. The findings challenge current understanding of host-virus interactions and may shed light on the early evolution of plants.
A new study by CSIRO and partners found that most COVID-19 genome data lacks relevant patient information, hindering the fight against the virus. The researchers developed a standardised data collection template to capture critical patient data, enabling scientists and clinicians to build a more complete picture of COVID-19's impact on...
A massive international study of bird genomes has revealed new details on genomic diversity and evolution. The Bird 10,000 Genome Project has sequenced genomic resources for 363 bird species, including 267 new genomes, which have improved resolution on genomic evolution analyses.
The study provides a comprehensive genomic resource for the world's birds, enabling researchers to explore evolutionary relationships and traits. More than 92% of the world's avian families are represented in the dataset, which will aid in the conservation of threatened species.
A public repository of 52,515 microbial draft genomes has been made available, revealing 44% new bacterial and archaeal diversity. The GEM catalog provides a valuable resource for understanding the biology and diversity of uncultivated microbes.
A team of researchers has developed a model for acid-tolerant yeast that can produce succinic acid, a precursor for industrial polymer production. The model uses gene editing and computational tools to identify the optimal genetic modifications required to maximize succinic acid production.
Researchers analyzed over 5,085 strains of the virus, finding that a specific protein mutation became dominant during the second wave, causing increased transmissibility. The study also discovered a correlation between patients with this mutation and younger demographics, lower median incomes, and less severe symptoms.
Researchers assembled full genomes for domesticated apple and two wild progenitors, giving breeders detailed information to improve crop traits. The study provides a detailed genomic roadmap for building better apples with improved flavor, texture and disease resistance.
Researchers report the goldfish genome sequence, identifying regions subjected to strong artificial selection for aesthetic features. The analysis sheds light on the evolutionary origin and domestication history of goldfish, providing a model for examining natural mutations and artificial selection.
A study of over 5,000 COVID-19 patients in Houston found that the virus is accumulating genetic mutations, one of which, D614G, may have made it more contagious. This mutation was prevalent in 71% of initial cases and reached 99.9% prevalence during the second wave.