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Monkeying around with gene shuffling

The iconic monkey flower’s genome harbors “hot spots” of genetic exchange The Science By analyzing the genomes of a wild population of Mimulus guttatus, also known as the monkey flower, researchers were able to pinpoint “hot spots” in the plant’s DNA code (http://www.jgi.doe.gov/News/news_13_11_18.html with high rates of gene-shuffling recombination. They also provided a reference genome… [Read More]

On the hunt for industrial enzymes

Researchers mined DOE JGI’s database of fungal genomes for candidate enzymes for use in a variety of industrial processes. The Science By screening genomes of fungi made publicly available by the DOE Joint Genome Institute researchers identified new versions of enzymes called lipases and sterol esterases. To further study the most promising enzymes, they created… [Read More]

New tool helps find gene markers in microorganisms

Researchers have devised a novel method to exploit relationships between bacteria and archaea for a new set of gene markers The Science The researchers developed a new way to identify gene markers in bacteria and the primitive microorganisms classified in the kingdom known as Archaea. Dubbed, PhyEco (for phylogenetic and phylogenetic ecology) this strategy can… [Read More]

Lost in symbiosis: genes dropped in piggy-backing bacterial strain

A genome comparison of two strains of a bacterium reveals gene loss as a result of a symbiotic relationship with a protist host. The Science The researchers sequenced the complete genome for a symbiotic strain of the bacterium, Polynucleobacter necessarius. They then compared the symbiont’s genome with the free-living strain in order to understand how… [Read More]

Root-dwelling denizen of Sheoak trees characterized

The complete genome of a novel nitrogen-fixing bacterium has been recently sequenced and analyzed. The Science The researchers isolated and sequenced the complete genome of a species of Micromonospora, bacteria that play a role in promoting plant growth and breaking down plant cell walls, from root nodules of Sheoak trees (Casuarina equisetifolia). The Impact Although… [Read More]

The heat is on – microbial mat communities in Hot Lake

Diverse underwater communities of cyanobacteria and other microorganisms are capable of withstanding drastic changes in salinity. The Science The microbial mat communities—multi-layered sheets of bacteria and archaea that grow at the interface between submerged, moist or even desiccated surfaces—in a remote lake near the border with Canada are relatively stable, despite weathering a 10-fold increase… [Read More]

Combining profiling and genomics yields novel metabolites

Cyanobacteria’s ability to capture solar energy and fix CO2 holds promise for biotech applications The Science Researchers studied 10 different cyanobacteria to identify their secondary metabolites (compounds produced during normal cellular metabolism not directly involved in cell growth, that may play an important role in interactions outside the cell) and the genes linked to those… [Read More]

DOE JGI Science Highlight: The inner workings of cyanobacteria carbon fixation

New research upholds theoretical structure for cyanobacteria carboxysomes. The Science Researchers described the structure of a protein critical to the outer shell of carboxysomes, the organelle-like structure that cyanobacteria use for carbon fixation. The Impact The structure and interaction of the proteins that make up the carboxysome’s outer shell aren’t clearly understood. A detailed study… [Read More]

Analyzing the Role of DNA Methylation in a Bioremediation Bacterium

Characterizing functional roles in a microbe with bioremediation applications a first step toward similar studies for other prokaryotes The Science Researchers studied the role of DNA methylation on gene expression and other processes in the heavy-metal reducing bacterium Shewanella oneidensis MR-1 with the help of next-generation Single-Molecule Real Time (SMRT) sequencers from Pacific Biosciences. The… [Read More]

Beetle gut microbes bore through woody tissues

Profile of wood-boring beetle’s midgut microbial community identifies candidate genes involved in processes including lignin degradation The Science Metagenomics allowed researchers to conduct a functional analysis of the midgut microbial community in the Asian longhorned beetle (Anoplophora glabripennis), an invasive insect that feeds on lignin in deciduous trees such as poplars and willows. The Impact… [Read More]