Institution
United States Department of Energy
Government•Washington D.C., District of Columbia, United States•
About: United States Department of Energy is a government organization based out in Washington D.C., District of Columbia, United States. It is known for research contribution in the topics: Catalysis & Coal. The organization has 13656 authors who have published 14177 publications receiving 556962 citations. The organization is also known as: DOE & Department of Energy.
Topics: Catalysis, Coal, Combustion, Adsorption, Hydrogen
Papers published on a yearly basis
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TL;DR: It is established that biosynthesis of, and signaling dependent on, the foliar defense phytohormone salicylic acid is required to assemble a normal root microbiome, and selection from the available microbial communities to sculpt the root microbiome.
Abstract: Immune systems distinguish “self” from “nonself” to maintain homeostasis and must differentially gate access to allow colonization by potentially beneficial, nonpathogenic microbes. Plant roots grow within extremely diverse soil microbial communities but assemble a taxonomically limited root-associated microbiome. We grew isogenic Arabidopsis thaliana mutants with altered immune systems in a wild soil and also in recolonization experiments with a synthetic bacterial community. We established that biosynthesis of, and signaling dependent on, the foliar defense phytohormone salicylic acid is required to assemble a normal root microbiome. Salicylic acid modulates colonization of the root by specific bacterial families. Thus, plant immune signaling drives selection from the available microbial communities to sculpt the root microbiome.
797 citations
Monash University1, Kyoto University2, Kindai University3, United States Department of Energy4, Kobe University5, National Institute of Genetics6, Austrian Academy of Sciences7, Nara Institute of Science and Technology8, University of Osnabrück9, Universidad Veracruzana10, University of Cambridge11, CINVESTAV12, University of Oxford13, University of Tennessee14, Plant & Food Research15, Uppsala University16, Institut de recherche pour le développement17, University of Zurich18, University of Tokyo19, Nagoya University20, Okayama University21, National Institutes of Natural Sciences, Japan22, Tohoku University23, Gregor Mendel Institute24, University of Kentucky25, Tokyo University of Agriculture26, National Taiwan University27, Cold Spring Harbor Laboratory28, Autonomous University of Madrid29, University of Arizona30, Max Planck Society31, Tokyo Metropolitan University32, University of Minnesota33, Kumamoto University34, University of Ulm35, Saitama University36
TL;DR: Compared with other sequenced land plants, M. polymorpha exhibits low genetic redundancy in most regulatory pathways, with this portion of its genome resembling that predicted for the ancestral land plant.
774 citations
TL;DR: In this paper, the authors summarized numerical values of particle and gas dry deposition velocities and recommended a model developed by Sehmel and Hodgson for numerical prediction purposes, which was used for particle prediction purposes.
771 citations
TL;DR: An examination of in vivo metabolism has detected the hallmarks of milk oligosaccharide utilization via the central fermentative pathway using metabolomic and proteomic approaches and conservation of gene clusters in multiple isolates corroborates the genomic mechanism underlying milk utilization for this infant-associated phylotype.
Abstract: Following birth, the breast-fed infant gastrointestinal tract is rapidly colonized by a microbial consortium often dominated by bifidobacteria. Accordingly, the complete genome sequence of Bifidobacterium longum subsp. infantis ATCC15697 reflects a competitive nutrient-utilization strategy targeting milk-borne molecules which lack a nutritive value to the neonate. Several chromosomal loci reflect potential adaptation to the infant host including a 43 kbp cluster encoding catabolic genes, extracellular solute binding proteins and permeases predicted to be active on milk oligosaccharides. An examination of in vivo metabolism has detected the hallmarks of milk oligosaccharide utilization via the central fermentative pathway using metabolomic and proteomic approaches. Finally, conservation of gene clusters in multiple isolates corroborates the genomic mechanism underlying milk utilization for this infant-associated phylotype.
765 citations
University of California, Berkeley1, United States Department of Energy2, Nagoya University3, University of Texas at Austin4, Ulsan National Institute of Science and Technology5, National Institute of Genetics6, Hiroshima University7, Hokkaido University8, University of Tokyo9, Radboud University Nijmegen10, Salk Institute for Biological Studies11, Nagahama Institute of Bio-Science and Technology12, Yamagata University13, Okinawa Institute of Science and Technology14, Tokyo Institute of Technology15, University of Tokushima16, Harry Perkins Institute of Medical Research17, Rikkyo University18, University of Maryland, Baltimore19, Kitasato University20, University of Chicago21, National Institute of Advanced Industrial Science and Technology22, National Institutes of Natural Sciences, Japan23, Illumina24, University of Washington25, University of Virginia26, Niigata University27, University of Rochester28, Cincinnati Children's Hospital Medical Center29, University of Calgary30, University of Iowa31, University of Basel32, Graduate University for Advanced Studies33, National Institute of Informatics34
TL;DR: The Xenopus laevis genome is sequenced and it is estimated that the two diploid progenitor species diverged around 34 million years ago and combined to form an allotetraploid around 17–18 Ma, where more than 56% of all genes were retained in two homoeologous copies.
Abstract: To explore the origins and consequences of tetraploidy in the African clawed frog, we sequenced the Xenopus laevis genome and compared it to the related diploid X. tropicalis genome. We characterize the allotetraploid origin of X. laevis by partitioning its genome into two homoeologous subgenomes, marked by distinct families of 'fossil' transposable elements. On the basis of the activity of these elements and the age of hundreds of unitary pseudogenes, we estimate that the two diploid progenitor species diverged around 34 million years ago (Ma) and combined to form an allotetraploid around 17-18 Ma. More than 56% of all genes were retained in two homoeologous copies. Protein function, gene expression, and the amount of conserved flanking sequence all correlate with retention rates. The subgenomes have evolved asymmetrically, with one chromosome set more often preserving the ancestral state and the other experiencing more gene loss, deletion, rearrangement, and reduced gene expression.
761 citations
Authors
Showing all 13660 results
| Name | H-index | Papers | Citations |
|---|---|---|---|
| Martin White | 196 | 2038 | 232387 |
| Paul G. Richardson | 183 | 1533 | 155912 |
| Jie Zhang | 178 | 4857 | 221720 |
| Krzysztof Matyjaszewski | 169 | 1431 | 128585 |
| Yang Gao | 168 | 2047 | 146301 |
| David Eisenberg | 156 | 697 | 112460 |
| Marvin Johnson | 149 | 1827 | 119520 |
| Carlos Escobar | 148 | 1184 | 95346 |
| Joshua A. Frieman | 144 | 609 | 109562 |
| Paul Jackson | 141 | 1372 | 93464 |
| Greg Landsberg | 141 | 1709 | 109814 |
| J. Conway | 140 | 1692 | 105213 |
| Pushpalatha C Bhat | 139 | 1587 | 105044 |
| Julian Borrill | 139 | 387 | 102906 |
| Cecilia Elena Gerber | 138 | 1727 | 106984 |