Articles tagged with Genome Sequencing
A biologist at Binghamton University has developed a new method to uncover the parent species of hybrid plants and animals. By examining genomic patterns within these hybrids, researchers can identify distinct ancestries and determine the order in which chromosomes were inherited from their progenitor species.
Researchers found that giraffes on either side of the rift have not interbred for over 1,000 years, with females showing no signs of migration. The study suggests that Masai giraffes are more endangered than previously thought, requiring separate but coordinated conservation efforts.
International researchers have identified nutrient-rich black rice varieties with improved agronomic traits, including shorter stem length and early maturity. These findings provide important resources for crop bioengineers to improve pigmented rice for human health and sustainable agriculture.
CHOP researchers used deep sequencing to discover several previously undescribed genetic variants in vascular anomalies, capturing low-frequency mutations that were missed by conventional methods. The study found significant improvements in symptoms for over 63% of patients, enabling targeted therapies and improved quality of life.
A recent study has identified the specific gut bacteria that pose a threat to neonatal babies, particularly those with necrotising enterocolitis. Researchers analyzed genomic similarities in Clostridium perfringens and found a set of strains with lower disease-causing capacity, lacking genes responsible for toxin production.
Researchers have cloned the wheat rust resistance genes Lr9 and Sr43, revealing that they encode unusual kinase fusion proteins. This breakthrough enables new options for addressing disease resistance in bread wheat and could lead to heat-resistant versions of the Sr43 gene to adapt to climate change.
Three Amazonian Morpho butterfly species have been sequenced for the first time, revealing genetic differences that maintain reproductive isolation despite sympatry. The study found Z-chromosome rearrangements and genetic divergence among gene copies, suggesting a role in speciation.
Researchers at Michigan State University have created the first annotated Montmorency tart cherry genome, revealing the genetic code behind its complex structure. The discovery provides a foundation for studying bloom time and identifying genes associated with specific fruit traits.
A cutting-edge study in Mozambique found that the beta variant of SARS-CoV-2 was transmitted through regional migration from South Africa, while the delta variant entered mainly from the UK and India. The analysis also revealed that most introductions did not contribute to local spread.
Researchers at York University found more pathogens and parasites in urban bee populations, leading to inbreeding and reduced genetic diversity. Conservation efforts focused on green spaces and habitat connectors can help mitigate these effects.
Two NYGC research teams have been selected as grant recipients under the NIH Common Fund SMaHT Network. The first team will generate a high-quality somatic variant catalog leveraging three core sequencing assays, while the second team will develop innovative tools for studying somatic mosaicism using a single-cell multi-omics approach.
A new study led by Mass General Brigham researchers found that 88% of rare disease experts agree on the benefits of genomic sequencing in newborn screening. The experts recommended screening for over 600 genetic conditions, including those associated with hemophilia and retinoblastoma.
Researchers have identified 11 somatic mutations in the RAS/MAPK pathway that contribute to treatment-resistant adult epilepsy, suggesting the potential for repurposed anti-cancer agents as new treatments. This study provides insight into the genetic mechanisms underlying this form of epilepsy and opens up new avenues for targeted ther...
A climate-resilient bean genome unveiled potential to boost food security in drought-prone regions through improved genetic diversity and productivity. The sequencing of the hyacinth bean provides opportunities for targeted breeding to reduce anti-nutritional properties and increase its cultivation.
Researchers have identified mechanisms behind the emergence of new and contagious coronavirus variants by analyzing over three million genome sequences. The study found that concordant substitutions occurring at other sites influence the likelihood of a substitution occurring at a specific site, leading to unexpected variant emergence.
Scientists have found a rare yeast pathogen, Lodderomyces elongisporus, causing neonatal outbreaks in India despite strong disinfectant bleach. The fungus is rapidly evolving and has been linked to hospital equipment and apples treated with fungicides.
The study of Balto's genome provides new insights into the genetics of working dogs, revealing they were more genetically diverse and healthier than modern breeds. The analysis also identified beneficial adaptations in genes related to physical traits such as weight and skin thickness.
GPMeta accelerates pathogen detection in metagenomic sequencing (mNGS) tests, achieving higher accuracy while significantly reducing processing time. The approach uses a succinct hash index scheme and multi-GPU support to handle massive data sets.
Researchers have sequenced the genomes of two hornet species, revealing clues to their invasive success. The study found rapid genome evolution and genes related to communication and smell, which may help explain why hornets are successful as invasive species across the globe.
Two contagious cancers, devil facial tumour 1 (DFT1) and 2 (DFT2), affecting Tasmanian devils have been tracked to understand their origins and evolution. Researchers found DFT2 is a faster-growing cancer with rapid mutations, posing a significant threat to the species.
A new review paper highlights the potential of fungal biotechnology to advance various industries. By manipulating fungal genomes, researchers can develop bioinformatic tools and create sustainable biomaterials, such as machine learning algorithms for predicting mycological patterns or fungal batteries.
A recent study reveals the first high-quality nuclear genome sequence and assembly of Babesia duncani, a neglected species until now. The parasite's evolution and mechanism of virulence have been identified, providing leads for the development of effective therapies.
A nationwide UK research study has diagnosed around 5,500 children with severe developmental disorders, identifying the genetic cause of their condition. The Deciphering Developmental Disorders study used genomic sequencing technology to provide diagnoses for families from across the UK and Ireland.
A team led by Bill Ballard has published a new study in GigaScience to propose Cooinda, an Alpine dingo, as the model specimen to represent a typical dingo. The study presents genomic and brain imaging data that sheds light on the evolutionary history of dingoes and their domestication process.
The giant faba bean genome has been successfully sequenced, providing a wealth of information on its genetic makeup. This breakthrough will facilitate varietal selection for traits related to protein content and yield potential, addressing global demand for plant-based proteins.
The study sheds light on Beethoven's health problems, including progressive hearing loss and chronic gastrointestinal complaints. Genetic risk factors for liver disease were identified, and evidence of a hepatitis B virus infection was found in the composer's final months.
An international research team analyzed over 400 Omnitrophota genomes, uncovering details about their biology and behavior. The study found that Omnitrophota are hyperactive with high metabolic rates, possibly as predators or parasites of other microorganisms.
Dr. Nara Sobreira has developed innovative tools like GeneMatcher and VariantMatcher to aid in rare disease diagnosis, earning her the 2023 Watson Genetic Medicine Innovation Award. She continues to work on expanding genome analysis accessibility through education and research initiatives.
A new snake family, Micrelapidae, was identified through an international study led by Tel Aviv University researcher Prof. Shai Meiri. The family includes only three species, two in Africa and one in Israel, and diverged from the rest of the evolutionary tree about 50 million years ago.
A new study by Institut Pasteur reveals that the 'bony-tongues' and 'eels' are genetically linked, shedding light on the evolutionary history of teleost fishes. The researchers sequenced genomes of several species and reconstructed relationships between different fish groups.
Researchers have created detailed genetic maps of green and leatherback sea turtle genomes, providing insights into their unique adaptations and evolutionary history. The study reveals that genetic differences between the two species are mainly found on microchromosomes, which may hold the key to each species' survival.
Lichen-forming fungi have evolved unique gene clusters to produce orange 'sunscreen' pigments, allowing them to thrive in sunny environments. The discovery of a critical ABC transporter gene within the pigment gene cluster provides a potential hypothesis for toxicity avoidance in these organisms.
A study published in JAMA Network Open found that single-locus genetic diseases were the most common cause of infant mortality, accounting for 41% of deaths. The research suggests that diagnostic whole genome sequencing may have prevented some deaths and that treatments for these conditions are available for 30% of cases.
A research group at Nagoya University has sequenced 95.6% of the Nicotiana benthamiana genome using next-generation sequencing technology. The findings provide insight into the plant's ability to perform grafting, a rare phenomenon in plants.
Researchers used unconventional methods to study fruit fly phenotypes, finding that loss of epigenetic mark led to changes in behavior, gene expression, metabolism, and offspring production. This knowledge can aid in predicting ecological patterns of change in wild animal populations.
An analysis of cases in Beijing found that two existing Omicron sub-variants, BA.5.2 and BF.7, accounted for more than 90% of local infections between November 14 and December 20, 2022. The study suggests these variants are chiefly responsible for the current surge in Beijing, likely China as a whole.
A new study found that E. coli K-12 has accumulated numerous genetic changes compared to its original isolated bacteria, making it less suitable as a model organism. This discovery highlights the rapid evolution of bacterial genomes and challenges the long-standing use of a single strain in research.
A transnational collaboration led to the characterization of Physostegia chlorotic mottle virus (PhCMoV), a plant disease first identified in Austria in 2018. The study revealed that PhCMoV can infect at least nine plant species, causing severe fruit symptoms on economically important crops.
A University of Maryland-led team deciphered the first comprehensive genome for a parasite responsible for transmitting Lyme disease and other serious infections. The researchers identified thousands of novel genes and new protein functions, including proteins associated with tick immunity and disease transmission.
Using genetically modified Aspergillus fungi, researchers have successfully converted polyethylene plastics into pharmacologically active compounds. The process breaks down the plastics quickly and efficiently, producing commercially viable yields of asperbenzaldehyde, citreoviridin, and mutilin.
Scientists from BGI Genomics successfully generated a gapless genome assembly for the East Asian finless porpoise, which is approximately 2.5 Gb in size and has 22,814 protein-coding genes. The study provides new resources for comparative genomics of cetaceans and conservation biology of threatened species.
Hiroshima University researchers have generated a high-quality genome assembly of red perilla, allowing scientists to harness its abundance of potentially useful bioactive chemicals. The study enables targeted gene editing for enhanced phytochemical production, paving the way for new medical applications.
A new Legionella species, Legionella bononiensis, has been identified in a hotel facility in northern Italy. The discovery was made by researchers from the University of Bologna using genetic sequencing and mass spectroscopy techniques.
Researchers from prominent institutions discuss hepatocellular carcinoma's pathogenesis, genomic heterogeneity, and targeted therapy options. The review aims to characterize HCC's complexities and develop clinically relevant biomarkers for better management.
Researchers sequenced the genomes of two endangered sharks, finding low genetic diversity and signs of inbreeding in great hammerheads. In contrast, shortfin makos showed higher genetic diversity and limited inbreeding, offering a glimmer of hope for conservation efforts.
A study published in Scientific Data reveals MGI's DNBSEQ-T7* as a promising platform for metagenomic sequencing, achieving excellent accuracy and throughput. The platform was found to be particularly effective in analyzing complex microbial communities with high stability and accuracy.
Researchers found that wooded areas, cropland, roads, and housing developments are obstacles to snake relocation. Reconnecting fragmented populations through strategic habitat changes could help restore the species to a thriving state.
Researchers at Rutgers University have developed a novel genome assembly tool called Bact-Builder that creates an improved genome map of Mycobacterium tuberculosis. This breakthrough enables the identification of new genes and gene fragments missing in current reference sequences, which could lead to better treatments and vaccines.
A global study reveals that antimicrobial resistance genes in bacteria are driven by various factors, including geographic regions and hosts. The research identifies key genes conferring resistance to critically important drugs, shedding light on the mechanisms of transmission and the need for collaborative interventions.
A recent study found that Denisovan DNA sequences near immune-related genes in modern Papuans regulate their activity, affecting how people respond to infections. The research suggests that Denisovan DNA contributed to the adaptation of early modern humans living in New Guinea and nearby islands.
A recent study published in Molecular Psychiatry reveals a genetic link between attention-deficit/hyperactivity disorder (ADHD) and Alzheimer's disease in older adults. Researchers used a polygenic risk score to analyze the relationship between ADHD genetic predisposition and cognitive decline, finding a higher risk of developing Alzhe...
A study found that 'harmless' Listeria innocua strains are developing resistance to temperature, pH, dehydration and other stresses, as well as hypervirulence similar to pathogenic L. monocytogenes. The strains were collected from raw, dried and processed meats at commercial food processing facilities in South Africa.
Researchers at Hokkaido University discovered a novel sex-determination mechanism in the Amami spiny rat, a species lacking the Y chromosome and Sry gene. The mechanism involves the upregulation of Sox9 gene on chromosome 3, induced by a new regulatory element similar to Enh14.
Researchers have uncovered a common ancestor among 600 disparate fungi, revealing a long-forgotten branch in the fungal family tree. The discovery sheds light on the evolutionary history of these unusual organisms and their unique characteristics.
UVA researchers developed a new tool to analyze genetic data, reducing noise and bias in cancer diagnosis. The tool uses mathematical modeling to identify patterns in chromatin, helping scientists detect tiny numbers of disease cells.
A comprehensive genomic analysis of over 200 patients with metastatic urothelial carcinomas identified potential treatment options for nearly 70% of patients. The study found that integrating clinical and molecular features could predict response to immunotherapies, offering hope for personalized treatment approaches.
A new web-based tool called Taxonium is helping scientists track the evolution of SARS-CoV-2 and other viruses by analyzing massive genetic datasets. The analysis reveals that COVID-19 variants worldwide are repeatedly evolving the same mutations, suggesting a convergent evolutionary process.
Researchers from SickKids have uncovered new genes and genetic changes associated with autism spectrum disorder, including 134 linked genes and gene copy number variations. The study offers a better understanding of the 'genomic architecture' underlying this disorder.
Researchers from OIST have sequenced the genome of pearl oysters, finding key differences between chromosome pairs that could impact immunity and pearl production. The study aims to identify resilient strains for aquaculture, addressing declining pearl production in Japan.
A new study has revealed the genetic basis of argonaut octopus characteristics, including its unusual eggcase structure and adaptations for a pelagic lifestyle. The smallest known cephalopod genome was found in Argonauta argo, with significant differences in Hox gene arrangements and reflectin and tyrosinase gene clusters.