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… a novel approach to better understand microbial communities by looking at protein function within them. The work was led … the process hinges on referencing to existing genome sequences.  Some of these proteins are what the scientists … artificial intelligence to decode the language of protein sequences and obtain hints of their possible functions. Yet …

… measuring cyclic di-GMP in bacteria through work enabled by the JGI’s Community Science Program (CSP) . The Impact … Ec YcgR, within the Nano-lantern scaffold. They then mined sequence databases for homologous YcgR proteins and chose a … These 92 homologues were synthesized as codon optimized sequences and cloned into the Nano-lantern scaffold. Because …

… and floods. The planet’s resources are being stretched by a growing human population and increasing demand for … conventional food crops. For that reason, its genome was sequenced by the JGI in 2009 and it is considered to be … diseases are well known to be partially due to the DNA sequence that makes up an individual’s genome. The genes of …

… recent study  published in the journal  Nature , a team led by researchers at the U.S. Department of Energy (DOE) Joint … genomes of uncultivated giant viruses from environmental sequences across the globe, then using these sequences to make inferences about the biogeographic …

… Schmutz is the Plant Program Lead at the JGI. Sarah:  Why is a resource like this important to the field of plant … difficult. Our Plant Gene Atlas resource addresses that by providing standardized experimental conditions, tissue … internode time course data from 4 different genotypes by Dr. John Mullet; Dr. Tom Juenger and his postdoc Xiaoyu …

… relied on the E. grandis reference genome published in 2014 by a team led by University of Pretoria scientists with help … using advanced technologies to reconstruct the complete sequences of individual chromosomes. The team describes the … hypothesizes the difference might not be due to repeated sequences, but rather the more accurate assembly of regions …

… community able to not just analyze but also create DNA sequences mimicking an array of microbial life. By leveraging massive user-generated datasets at the JGI … is capable of discovering and modelling complex biological sequences such as biosynthetic gene cluster structures. …

… however they do so under strong constraints exerted by viruses. Research in the viral genomics group aims at … involved in virus:host interaction and host cell take-over by viruses, and attempts to evaluate ecosystem-level impacts … to address this question in natural soil ecosystems by combining metagenomics with other omics approaches, …

… The disease is known more commonly as Sudden Oak Death or by its acronym, SOD. Of the dozens of Phytophthora species, … subsequent comparative analysis of these two pathogens, led by the JGI and Virginia Polytechnic Institute State … of millions of trees in California alone. With the genome sequence in hand, the UC team led the charge to develop …

… under laboratory conditions, their genomes can’t be sequenced using traditional approaches. Identifying and … expanding the known diversity of bacteria and archaea by 44%, is now available and  described November 9, 2020 in  … of metagenome-assembled genomes (MAGs) directly from sequenced environmental samples without needing to cultivate …

… summarizing the field of viral metagenomics, authored by JGI researchers Lee Call,  Stephen Nayfach and  Nikos … Data Science . The following guest piece was written by Call, a postdoctoral fellow in the JGI Microbiome Data … hydrothermal vents – and computationally identifying which sequences represent viruses that were present in the sample. …

… undergraduate students and eight graduate students, hosted by 18 JGI staff. One of the mentors, postdoc Yumary Vasquez, … and Identification of Mitochondrial Plasmids from DNA Sequence Moitrish Majumdar Mentors: Bikash Shrestha, Crysten Blaby-Haas Project:  Intermolecular isopeptide bond detection …