Research reading and comparing genomes. Covers disease redefinition, pangenome-guided breeding, crop pathogens, and reference genomes for neuroscience.
The DOE JGI 2014 Community Science Program portfolio explores functional information from complex ecosystems, addressing energy and environmental challenges. The inaugural round of eight accepted proposals focus on carbon cycling and biofuels production.
The decoded kiwifruit genome shows significant genetic similarities with other plant species like potatoes and tomatoes, highlighting two major evolutionary events that occurred millions of years ago. The study provides valuable resources for kiwifruit research and breeding programs to improve fruit quality and disease resistance.
Researchers at UC San Diego School of Medicine developed a new approach to understand how master regulators read the genome and turn genes on and off. By analyzing DNA sequence differences affecting these proteins, they found that mutations impact neighboring transcription factors needed to make functional enhancers.
A new method called TGV (TALE-mediated Genome Visualization) allows researchers to observe the localization of specific DNA sequences inside the nucleus of living cells. This study tracked male and female genes after fertilization, revealing new prospects for understanding cell cycle dynamics, DNA behavior, and parent gene expression.
The UK is tackling the issue of food poisoning caused by Campylobacter coli through a new two-year study funded by the Food Standards Agency. Researchers will analyze 500 genomes from various sources to identify genetic markers that can help track the bacteria's presence in different environments.
Researchers have discovered an unprecedented change in the French-Canadian genomic signature over 400 years, with rare mutations accumulating at an alarming rate. This finding has significant implications for understanding population-specific diseases and conservation genetics.
Researchers discovered haloarchaea dominate Deep Lake's microbial community, exchanging DNA among species and genera. The microbes' ability to share genetic information enables specialization, coexistence, and adaptability.
Researchers have pinpointed a specific gene responsible for Prader-Willi syndrome, an imprinted disease affecting muscle tone, feeding difficulties, and intellectual disability. The study identified mutations in the MAGEL2 gene, which was found in three additional patients with similar symptoms.
Researchers have closed the genetic map of the fungal kingdom by sequencing the genome of Pyronema confluens, a basal filamentous ascomycete. The study reveals key differences between this species and higher ascomycetes, shedding light on the evolution of mating type genes and light-activated processes.
Researchers found nearly 200 genomic regions with similar genes in bats and dolphins, indicating convergent evolution of echolocation. The study used a massive genome-wide survey to identify genetic signatures consistent with convergence in 'hearing genes',
Researchers sequenced 147 Mycobacterium bovis genomes to track bovine TB outbreaks, revealing local transmission mechanisms drive the spread of the disease. The study provides unprecedented insight into how the disease spreads and will inform control methods.
Researchers used phylogenetics to analyze whole genome sequences of TB, revealing 39 new genes associated with elevated drug resistance. The findings suggest a multistep process for acquiring resistance and implications for targeted detection methods.
The CARRE Foundation has awarded a $100,000 grant to the Translational Genomics Research Institute (TGen) for an in-depth genomic investigation into MSA. TGen's research will utilize whole genome sequencing and family-based investigations to uncover novel genetic associations with MSA.
Researchers discover REVs originated in mammals and spread to birds through medical intervention, revealing an unusual evolutionary history. The study suggests REVs were introduced into poultry and subsequently into avian cell culture systems, impacting wild birds and domestic poultry.
Researchers have made a breakthrough in genome editing technology, enabling precise control over genetic changes in fruit flies. The CRISPR RNA/Cas9 system allows for targeted mutations and gene expression manipulation, opening up new possibilities for studying human diseases and developing gene therapies.
A single gene, called Shell, has been identified in the oil palm tree that controls its yield. The discovery allows breeders to boost palm oil yields by nearly one-third, providing a promising solution for agriculture and environmental concerns.
Scientists have mapped the genomes of two oil palm species and identified a critical gene for yield improvement. The discovery has implications for enhancing sustainable palm oil production while reducing pressure on wild rainforests, which account for nearly half of global edible vegetable oil.
Researchers at Columbia University Medical Center have identified a genetic mutation that causes congenital malformations of the kidney and urinary tract. The findings suggest that DSTYK mutations account for 2.2% of urinary tract defects in humans, providing a new diagnostic category for clinicians to make precise molecular diagnoses.
Researchers used single-cell genomics to identify 201 distinct microbial genomes, revealing unexpected metabolic features and resolving relationships within and between microbial phyla. The study provides a profound leap of understanding the microbial evolution on our planet.
A collaborative effort by Autism Speaks has found full genome sequencing examining the entire DNA code of individuals with autism spectrum disorder (ASD) and their family members. The study identified genetic variations associated with risk for ASD, including de novo, X-linked, and inherited DNA lesions in four new genes.
A new study published in mBio confirms that the cholera epidemic in Haiti was caused by a single introduction of Vibrio cholerae bacteria from Nepal, rather than repeated introductions. The strains have not acquired new genetic material since their introduction and have limited ability to acquire genes through transformation.
A major step forward in understanding plant gene regulation has been made with the creation of a genomic map that localizes regulatory regions in plant genomes. This map will help scientists identify key genomic regions controlling traits important to farmers.
A 700,000-year-old horse fossil found in the Yukon permafrost has provided new insight into equine evolution, revealing a genome that falls within a line of modern horses and Przewalski's Horses. The study also showed episodes of severe demographic fluctuations in horse populations linked to major climatic changes.
A 700,000 year old horse's genome has been sequenced, revealing major genomic changes over the last 700,000 years of evolution. The study provides unprecedented details on the genetic makeup of modern horses and sheds light on the origin of Przewalski's Horse population.
Research reveals that focusing on coding regions through high-depth coverage whole genome sequencing can accurately identify genetic variations behind CMT, outperforming exome sequencing. Exome sequencing offers greater sensitivity and fewer false positives due to its higher coverage, providing a superior approach for precision medicine.
Researchers at the University of Exeter Medical School have diagnosed a rare condition, MDP Syndrome, in Paralympic hopeful Tom Staniford through genetic sequencing. The discovery may help Tom's bid to participate in the Rio 2016 Paralympic Games and improve understanding of type 2 diabetes.
Researchers have sequenced the genome of Emiliania huxleyi, a microscopic plankton species that forms the chalky skeletons of the White Cliffs of Dover. The study reveals unexpected features in the algae's genetic code, which may hold secrets to producing nutritional supplements and biofuels.
The Ehux genome reveals variability that explains its ability to thrive in diverse ocean conditions, influencing global carbon cycling. The pan-genome analysis sheds light on the underlying mechanisms of physiological and morphological variations among isolates.
A team of Spanish researchers has sequenced the global deep ocean genome using over 2,000 samples of microorganisms collected from the Atlantic, Indian, and Pacific Oceans. This groundbreaking study reveals a vast unknown species of microorganisms with intense biological activity.
Researchers find genetic diversity as key to the species' adaptive potential, global distribution, and ability to thrive in various ocean environments. The study reveals a pan-genome with a core set of genes supplemented by region-specific genes, enabling the calcified alga to live almost everywhere at the ocean surface.
A recent study published in Nature Genetics reveals that self-fertilizing plants like Red Shepherd's Purse accumulate harmful mutations over time, reducing genetic diversity. This can lead to extinction, highlighting the importance of preserving crop genetic variation to avoid yield losses due to mutation accumulation.
Researchers have discovered a molecular mechanism that helps stabilize chromosome ends, preventing cell death. The 'telosome' protein complex, formed by sequence repeats and transcription factors, protects chromosomal ends through a VELCRO-like structure.
A recent genome study identified genetic markers that can lead to higher yielding cocoa plants with better taste. Researchers sequenced the genome of the most commonly cultivated cacao plant and found a gene involved in pod color variation, which can help improve the quality of cocoa beans.
Researchers found that white tigers owe their color to a variant of the SLC45A2 gene. This discovery may lead to reintroduction of white tigers into their wild habitat.
Scientists have mapped Norway spruce's massive genome, identifying 29,000 functional genes. The seven times larger genome is attributed to 'genome obesity' from repetitive DNA sequences, a challenge in conifers.
The DOE JGI has established new partnerships to develop emerging technologies in genomics and single-cell analysis, including scalable DNA synthesis and high-throughput sequencing. These collaborations aim to enhance the Institute's capabilities and support DOE missions related to clean energy and environmental characterization.
Researchers analyzed the genome of C. botulinum bacteria to understand how they acquired their deadly neurotoxin gene cluster. The study found that the bacteria picked up the cluster in a single event and discovered fragments of other toxin genes, suggesting a 'hotspot' for gene transfer.
A Texas A&M University research team has successfully sequenced the complete genome of a Scarlet macaw, providing new insights into avian evolution and conservation. The genome analysis revealed significant differences between the macaw and chickens, shedding light on genetic factors influencing longevity and intelligence.
Researchers at Sanford-Burnham Medical Research Institute discovered that three children with Congenital Disorders of Glycosylation had mutation-only in some cell types, raising questions about inheritance and genomic sequencing. The study highlights the importance of using multiple diagnostic tests to accurately diagnose rare diseases.
The sacred lotus genome sequencing reveals its close resemblance to the ancestor of all eudicots, a group including apple, cabbage, and soybean. The study found that duplicated genes related to wax formation and survival in mineral-starved habitats were retained, making lotus an ideal reference plant for studying other eudicots.
Researchers at the University of Arizona used a state-of-the-art DNA sequencing technique to determine the genetic mutations causing severe epilepsies in seven out of ten previously undiagnosed children. The study found 15 mutations in nine children, seven of which are known or likely to cause epilepsy.
The coelacanth genome provides valuable clues for biologists studying the evolution of vertebrates, with key genes involved in immunity, nitrogen excretion, and limb development implicated in evolutionary transitions. The study offers a comprehensive look at the coelacanth's place in our evolutionary history.
A team reconstructed the genome sequence of a Shiga-toxigenic E. coli outbreak strain using direct DNA sequencing from clinical specimens. The approach highlights the potential of metagenomics for identifying bacterial pathogens in outbreaks.
Researchers found genes in turtles that become more active in low-oxygen conditions, including one 130 times more active than in humans, which may improve oxygen-deprivation treatment. Turtles' long lifespan may come from silencing 'life-shortening' genes, similar to those present in humans.
Researchers used metagenomics to reconstruct genome sequence of Shiga-toxigenic E. coli outbreak strain, identifying pathogens without laboratory culture. The approach showed potential for rapid identification and characterization of bacterial pathogens in clinical specimens.
A team of SFU researchers has created a sequencing of the mountain pine beetle's genome, revealing large variations among individuals. The genome data will help scientists understand how the beetle causes damage and potentially stop its spread.
The western painted turtle genome shows a slow evolution rate compared to humans and pythons, with 19 brain genes and 23 heart genes expressed in low oxygen conditions. The study reveals potential insights into human health disorders related to anoxia and hypothermia.
The mountain pine beetle's genome has been sequenced, revealing genes involved in tree colonization and potential sex chromosomes. This knowledge could help develop more effective control methods for this devastating pest.
The complete genomes of three aye-aye lemur populations in Madagascar have been sequenced, revealing genetic diversity and historical separation. The research aims to prioritize conservation efforts for these critically endangered species, which are threatened by habitat loss and fragmentation.
The mountain pine beetle genome has been sequenced to understand its behavior and adaptability, revealing large genetic variation among individuals. The study also identified genes involved in detoxifying defense compounds and degrading plant cell walls, which could inform future management strategies.
Whole genome sequencing reveals that drug-resistant bacterial infections can be transmitted from animals to humans, highlighting the role of livestock as a potential reservoir of antibiotic-resistant bacteria. The study confirms animal-to-human transmission of MRSA, a disease-causing bacterium with resistance to methicillin.
Scientists have sequenced and analyzed three lemur populations to guide conservation efforts, revealing significant genetic distance between northern and eastern aye-ayes. The study also compared human and lemur genetic diversity, suggesting the aye-ayes were separated for an extended period by geographic barriers.
The peach genome offers a unique model for studying genes related to poplar trees, which could lead to improved biofuel crops. By analyzing the genetic makeup of peaches, researchers hope to develop methods for increasing plant biomass yield and improving sustainability.
Researchers mapped protein structures and organisms onto a timeline, revealing an 'hourglass' pattern where proteins folded faster over time. This discovery sheds light on the evolutionary drivers behind protein folding and has implications for understanding molecular functions, genetic engineering, and synthetic biology.
A team of scientists at EMBL has discovered how the genome is controlled by a series of multiple, interdependent regulatory elements. These elements are clustered together and control specific genes like Fgf8, which is crucial for limb growth and brain development.
Researchers sequenced primitively eusocial wasps' transcriptomes, finding workers have an active genetic profile while queens have a restricted one. This discovery sheds light on the evolution of sociality and the origin of alternative phenotypes.
The precise determination of genomic information is hindered by a lack of understanding of sequence variations. Interdisciplinary teams are needed to address the substantial uncertainty in interpreting genomic data for better application.
A study published in PLOS Medicine found that whole genome sequencing is more effective at tracing TB outbreaks than standard genotyping tests. The new test revealed that first outbreak isolates were falsely clustered by classical genotyping, providing valuable insights into the evolution of M. tuberculosis.
Researchers at the University of Montreal used genome-wide analysis to identify a previously unknown type of adrenal insufficiency in two children. The treatment regime eliminated the need for fludrocortisone treatment and reduced lifetime risk of hypertension, saving $10,000 per patient.
Plant biologists can now sequence hundreds of complete chloroplast genomes simultaneously, facilitating studies on molecular biology and evolution. This breakthrough allows researchers to reconstruct evolutionary relationships and diversifications with unprecedented precision.