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Content Tagged "microbial genomics"

Making Science’s Insights of the Decade list – twice

The December 17 issue of Science includes a special feature called “Insights of the Decade” and two of them feature work done by DOE JGI researchers. (Note: Free registration is required to read the articles online.) Genome research features prominently in Science’s Insights of the Decade list. (DNA helix image by DS from Flickr via… [Read More]

100 Rhizobium Genomes Project on INRA’s MyCorWeb page

A joint venture has been established between the Centre for Rhizobium Studies (CRS) led by Dr Wayne Reeve at Murdoch University (Australia) and the Joint Genome Institute (JGI, USA) led by the Head of the Microbial Program Dr Nikos Kyrpides to completely decipher the genetic code for 100 geographically distinct root nodule rhizobial strains.’ Read more on the… [Read More]

Iowa colleges team with DOE JGI to Interpret-A-Genome

Augustana and two other Quad-City higher education institutions—Eastern Iowa Community College District and Black Hawk Community College—have partnered together to adopt the microbe Meiothermus ruber and join the Interpret a Genome project through the U.S. Department of Energy-Joint Genome Institute (DOE-JGI).   Read more at the Aledo Times Record. [Read More]

JGI-Murdoch University rhizobial project

Rhizobia are soil bacteria that can form a symbiotic relationship with legumes such as common domesticated crops such as peas, beans or clovers. These symbiotic bacteria fix atmospheric nitrogen inside nodules formed on the legume roots contributing around 65% of the nitrogen currently used in agricultural production. A joint venture has been established between the… [Read More]

Bacterial lessons in rare metal recovery

One of the goals of the DOE’s Genomics:GTL Program is understanding how microbes and microbial communities perform the functions that have helped them thrive in a wide variety of environments and which have applications in the DOE mission areas of bioenergy, carbon cycling and biogeochemistry. British scientists applied information gleaned from Desulfovibrio genomes sequenced by… [Read More]

GenePRIMP QC tool on PhysOrg

“There are a lot of different tools used for predicting genes in prokaryotes,” Kyrpides said. “The major problem we have is that they all produce very variable results. This impedes our ability to compare genomes sequenced and annotated from various sources, as they use different tools for gene prediction. GenePRIMP is not substituting any of… [Read More]

GenePRIMP QC tool on redOrbit

“With GenePRIMP we have achieved a major breakthrough in the improvement of the quality of structural annotations such as gene predictions,” said Genome Biology Program head and study senior author Nikos Kyrpides. He pointed out that using GenePRIMP offers researchers three major advantages: high quality results with reduced errors; an approach that can be used… [Read More]

GenePRIMP QC tool on ScienceDaily

Pati said GenePRIMP significantly reduces the amount of time scientists spend checking the whole genome by specifically highlighting errors that need to be manually corrected.  Read more on ScienceDaily. [Read More]

GenePRIMP QC tool on Medical News Today

More than a thousand microbial genomes have been sequenced at various sequencing centers in the past 15 years to better understand their roles in tasks ranging from bioenergy to health to environmental cleanup.  Read more on Medical News Today. [Read More]

GenePRIMP QC tool on EurekAlert

To assist in checking the quality of the microbial genomic DNA sequences generated before they are submitted to the federally funded public archive GenBank, the U.S. Department of Energy (DOE) Joint Genome Institute (JGI) has introduced a quality control tool known as the Gene Prediction IMprovement Pipeline or GenePRIMP. GenePRIMP is described in a paper… [Read More]