DOE Joint Genome Institute

  • COVID-19
  • About
  • Phones
  • Contacts
  • Our Science
    • DOE Mission Areas
    • Bioenergy Research Centers
    • Science Programs
    • Products
    • Science Highlights
    • Scientists
    Maize can produce a cocktail of antibiotics with a handful of enzymes. (Sam Fentress, CC BY-SA 2.0)
    How Maize Makes An Antibiotic Cocktail
    Zealexins are produced in every corn variety and protect maize by fending off fungal and microbial infections using surprisingly few enzymes.

    More

    The genome of the common fiber vase or Thelephora terrestris was among those used in the study. (Francis Martin)
    From Competition to Cooperation
    By comparing 135 fungal sequenced genomes, researchers were able to carry out a broader analysis than had ever been done before to look at how saprotrophs have transitioned to the symbiotic lifestyle.

    More

    Miscanthus grasses. (Roy Kaltschmidt/Berkeley Lab)
    A Grass Model to Help Improve Giant Miscanthus
    The reference genome for M. sinensis, and the associated genomic tools, allows Miscanthus to both inform and benefit from breeding programs of related candidate bioenergy feedstock crops such as sugarcane and sorghum.

    More

  • Our Projects
    • Search JGI Projects
    • DOE Metrics/Statistics
    • Approved User Proposals
    • Legacy Projects
    Poplar (Populus trichocarpa and P. deltoides) grow in the Advanced Plant Phenotyping Laboratory (APPL) at Oak Ridge National Laboratory in Tennessee. Poplar is an important biofuel feedstock, and Populus trichocarpa is the first tree species to have its genome sequenced — a feat accomplished by JGI. (Image courtesy of Oak Ridge National Laboratory, U.S. Dept. of Energy)
    Podcast: Xiaohan Yang on A Plantiful Future
    Building off plant genomics collaborations between the JGI and Oak Ridge National Laboratory, Xiaohan Yang envisions customizing plants for the benefit of human society.

    More:

    Expansin complex with cell wall in background. (Courtesy of Daniel Cosgrove)
    Synthesizing Microbial Expansins with Unusual Activities
    Expansin proteins from diverse microbes have potential uses in deconstructing lignocellulosic biomass for conversion to renewable biofuels, nanocellulosic fibers, and commodity biochemicals.

    Read more

    High oleic pennycress. (Courtesy of Ratan Chopra)
    Pennycress – A Solution for Global Food Security, Renewable Energy and Ecosystem Benefits
    Pennycress (Thlaspi arvense) is under development as a winter annual oilseed bioenergy crop. It could produce up to 3 billion gallons of seed oil annually while reducing soil erosion and fertilizer runoff.

    Read more

  • Data & Tools
    • IMG
    • Genome Portal
    • MycoCosm
    • PhycoCosm
    • Phytozome
    • GOLD
    Artistic interpretation of CheckV assessing virus genome sequences from environmental samples. (Rendered by Zosia Rostomian​, Berkeley Lab)
    An Automated Tool for Assessing Virus Data Quality
    CheckV can be broadly utilized by the research community to gauge virus data quality and will help researchers to follow best practices and guidelines for providing the minimum amount of information for an uncultivated virus genome.

    More

    Unicellular algae in the Chlorella genus, magnified 1300x. (Andrei Savitsky)
    A One-Stop Shop for Analyzing Algal Genomes
    The PhycoCosm data portal is an interactive browser that allows algal scientists and enthusiasts to look deep into more than 100 algal genomes, compare them, and visualize supporting experimental data.

    More

    Artistic interpretation of how microbial genome sequences from the GEM catalog can help fill in gaps of knowledge about the microbes that play key roles in the Earth's microbiomes. (Rendered by Zosia Rostomian​, Berkeley Lab)
    Podcast: A Primer on Genome Mining
    In Natural Prodcast: the basics of genome mining, and how JGI researchers conducted it in IMG/ABC on thousands of metagenome-derived genomes for a Nature Biotechnology paper.

    Read more

  • User Programs
    • Calls for User Proposals
    • Special Initiatives & Programs
    • User Support
    • Submit a Proposal
    Scanning electron micrographs of diverse diatoms. (Credits: Diana Sarno, Marina Montresor, Nicole Poulsen, Gerhard Dieckmann)
    Learn About the Approved 2021 Large-Scale CSP Proposals
    A total of 27 proposals have been approved through JGI's annual Community Science Program (CSP) call. For the first time, 63 percent of the accepted proposals come from researchers who have not previously been a principal investigator on an approved JGI proposal.

    Read more

    MiddleGaylor Michael Beman UC Merced
    How to Successfully Apply for a CSP Proposal
    Reach out to JGI staff for feedback before submitting a proposal. Be sure to describe in detail what you will do with the data.

    Read more

    Click on the image or go here to watch the video "Enriching target populations for genomic analyses using HCR-FISH" from the journal Microbiome describing the research.
    How to Target a Microbial Needle within a Community Haystack
    Enabled by the JGI’s Emerging Technologies Opportunity Program, researchers have developed, tested and deployed a pipeline to first target cells from communities of uncultivated microbes, and then efficiently retrieve and characterize their genomes.

    Read more

  • News & Publications
    • News
    • Blog
    • Podcasts
    • Publications
    • Scientific Posters
    • Newsletter
    • Logos and Templates
    • Photos
    Artistic interpretation of how microbial genome sequences from the GEM catalog can help fill in gaps of knowledge about the microbes that play key roles in the Earth's microbiomes. (Rendered by Zosia Rostomian​, Berkeley Lab)
    Uncovering Novel Genomes from Earth’s Microbiomes
    A public repository of 52,515 microbial draft genomes generated from environmental samples around the world, expanding the known diversity of bacteria and archaea by 44%, is now available .

    More

    Green millet (Setaria viridis) plant collected in the wild. (Courtesy of the Kellogg lab)
    Shattering Expectations: Novel Seed Dispersal Gene Found in Green Millet
    In Nature Biotechnology, a very high quality reference Setaria viridis genome was sequenced, and for the first time in wild populations, a gene related to seed dispersal was identified.

    More

    The Brachypodium distachyon-B. stacei-B. hybridum polyploid model complex. (Illustrations credits: Juan Luis Castillo)
    The More the Merrier: Making the Case for Plant Pan-genomes
    Crop breeders have harnessed polyploidy to increase fruit and flower size, and confer stress tolerance traits. Using a Brachypodium model system, researchers have sought to learn the origins, evolution and development of plant polyploids. The work recently appeared in Nature Communications.

    Read more

News & Publications
Home › News & Publications › Publications › 2008 Publications

2008 Publications

Alvarez Retuerto, A. I. et al. (2008) Association of common variants in the Joubert syndrome gene (AHI1) with autism. Hum Mol Genet 17(24), 3887-96. 10.1093/hmg/ddn291
More Details

Anderson, I. et al. (2008) Genome sequence of Thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction. Journal of Bacteriology 190(8), 2957-2965. Doi 10.1128/Jb.01949-07
More Details

Anderson, S. J. et al. (2008) Development of simple sequence repeat markers for the soybean rust fungus, Phakopsora pachyrhizi. Mol Ecol Resour 8(6), 1310-2. 10.1111/j.1755-0998.2008.02272.x
More Details

Angiuoli, S. V. et al. (2008) Toward an online repository of Standard Operating Procedures (SOPs) for (meta)genomic annotation. OMICS 12(2), 137-41. 10.1089/omi.2008.0017
More Details

Auger, S. et al. (2008) The genetically remote pathogenic strain NVH391-98 of the Bacillus cereus group is representative of a cluster of thermophilic strains. Applied and Environmental Microbiology 74(4), 1276-1280. Doi 10.1128/Aem.02242-07
More Details

Blow, M. J. et al. (2008) Identification of ancient remains through genomic sequencing. Genome Research 18(8), 1347-1353. DOI 10.1101/gr.076091.108
More Details

Bluhm, B. H. et al. (2008) Analyses of expressed sequence tags from the maize foliar pathogen Cercospora zeae-maydis identify novel genes expressed during vegetative, infectious, and reproductive growth. BMC Genomics 9, 523. 10.1186/1471-2164-9-523
More Details

Boore, J. L. et al. (2008) Beyond linear sequence comparisons: the use of genome-level characters for phylogenetic reconstruction. Philosophical Transactions of the Royal Society B-Biological Sciences 363(1496), 1445-1451. DOI 10.1098/rstb.2007.2234
More Details

Bowler, C. et al. (2008) The Phaeodactylum genome reveals the evolutionary history of diatom genomes. Nature 456(7219), 239-44. 10.1038/nature07410
More Details

Breznak, J. A. et al. (2008) Spirochaeta cellobiosiphila sp. nov., a facultatively anaerobic, marine spirochaete. Int J Syst Evol Microbiol 58(Pt 12), 2762-8. 10.1099/ijs.0.2008/001263-0
More Details

Cai, Z. Q. et al. (2008) Extensive Reorganization of the Plastid Genome of Trifolium subterraneum (Fabaceae) Is Associated with Numerous Repeated Sequences and Novel DNA Insertions. Journal of Molecular Evolution 67(6), 696-704. DOI 10.1007/s00239-008-9180-7
More Details

Chivian, D. et al. (2008) Environmental genomics reveals a single-species ecosystem deep within earth. Science 322(5899), 275-278. DOI 10.1126/science.1155495
More Details

Christiaen, L. et al. (2008) The transcription/migration interface in heart precursors of Ciona intestinalis. Science 320(5881), 1349-52. 10.1126/science.1158170
More Details

Coyne, R. S. et al. (2008) Refined annotation and assembly of the Tetrahymena thermophila genome sequence through EST analysis, comparative genomic hybridization, and targeted gap closure. Bmc Genomics 9. Artn 562Doi 10.1186/1471-2164-9-562
More Details

Dalevi, D. et al. (2008) Annotation of metagenome short reads using proxygenes. Bioinformatics 24(16), I7-I13. DOI 10.1093/bioinformatics/btn276
More Details

De Val, S. et al. (2008) Combinatorial Regulation of Endothelial Gene Expression by Ets and Forkhead Transcription Factors. Cell 135(6), 1053-1064. DOI 10.1016/j.cell.2008.10.049
More Details

Elkins, J. G. et al. (2008) A korarchaeal genome reveals insights into the evolution of the Archaea. Proc Natl Acad Sci U S A 105(23), 8102-7. 10.1073/pnas.0801980105
More Details

Field, D. et al. (2008) The minimum information about a genome sequence (MIGS) specification. Nature Biotechnology 26(5), 541-547. Doi 10.1038/Nbt1360
More Details

Field, D. et al. (2008) Foreword to the Special Issue on the Fifth Genomic Standards Consortium Workshop. Omics-a Journal of Integrative Biology 12(2), 99-99. DOI 10.1089/omi.2008.0013
More Details

Garcia, E. et al. (2008) Molecular characterization of L-413C, a P2-related plague diagnostic bacteriophage. Virology 372(1), 85-96. DOI 10.1016/j.virol.2007.10.032
More Details

Garrity, G. M. et al. (2008) Toward a standards-compliant genomic and metagenomic publication record. OMICS 12(2), 157-60. 10.1089/omi.2008.A2B2
More Details

Gomez, L. D. et al. (2008) Analysis of saccharification in Brachypodium distachyon stems under mild conditions of hydrolysis. Biotechnol Biofuels 1(1), 15. 10.1186/1754-6834-1-15
More Details

Grimson, A. et al. (2008) Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals. Nature 455(7217), 1193-7. 10.1038/nature07415
More Details

Haberle, R. C. et al. (2008) Extensive rearrangements in the chloroplast genome of Trachelium caeruleum are associated with repeats and tRNA genes. Journal of Molecular Evolution 66(4), 350-361. DOI 10.1007/s00239-008-9086-4
More Details

Hendrix, D. A. et al. (2008) Promoter elements associated with RNA Pol 11 stalling in the Drosophila embryo. Proceedings of the National Academy of Sciences of the United States of America 105(22), 7762-7767. DOI 10.1073/pnas.0802406105
More Details

Hess, M. et al. (2008) Thermoacidophilic proteins for biofuel production. Trends Microbiol 16(9), 414-9. 10.1016/j.tim.2008.06.001
More Details

Hess, M. et al. (2008) Extremely thermostable esterases from the thermoacidophilic euryarchaeon Picrophilus torridus. Extremophiles 12(3), 351-364. DOI 10.1007/s00792-008-0139-9
More Details

Hirschman, L. et al. (2008) Habitat-Lite: A GSC case study based on free text terms for environmental metadata. Omics-a Journal of Integrative Biology 12(2), 129-136. DOI 10.1089/omi.2008.0016
More Details

Holland, L. Z. et al. (2008) The amphioxus genome illuminates vertebrate origins and cephalochordate biology. Genome Research 18(7), 1100-1111. DOI 10.1101/gr.073676.107
More Details

Hooper, S. D. et al. (2008) A Molecular Study of Microbe Transfer between Distant Environments. Plos One 3(7). Artn E2607 Doi 10.1371/Journal.Pone.0002607
More Details

Horton, A. et al. (2008) Conservation of linkage and evolution of developmental function within the Tbx2/3/4/5 subfamily of T-box genes: implications for the origin of vertebrate limbs. Development Genes and Evolution 218(11-12), 613-628. DOI 10.1007/s00427-008-0249-5
More Details

Horton, A. C. et al. (2008) Conservation of linkage and evolution of developmental function within the Tbx2/3/4/5 subfamily of T-box genes: implications for the origin of vertebrate limbs. Dev Genes Evol 218(11-12), 613-28. 10.1007/s00427-008-0249-5
More Details

Hugenholtz, P. et al. (2008) Microbiology - Metagenomics. Nature 455(7212), 481-483. Doi 10.1038/455481a
More Details

Hwang, J. S. et al. (2008) Cilium evolution: Identification of a novel protein, nematocilin, in the mechanosensory cilium of Hydra nematocytes. Molecular Biology and Evolution 25(9), 2009-2017. DOI 10.1093/molbev/msn154
More Details

Isabel, S. et al. (2008) Divergence among Genes Encoding the Elongation Factor Tu of Yersinia Species. Journal of Bacteriology 190(22), 7548-7558. Doi 10.1128/Jb.01067-08
More Details

Isabel, S. et al. (2008) Divergence among Genes Encoding the Elongation Factor Tu of Yersinia Species. Journal of Bacteriology 190(22), 7548-7558. Doi 10.1128/Jb.01067-08
More Details

Ishoey, T. et al. (2008) Genomic sequencing of single microbial cells from environmental samples. Current Opinion in Microbiology 11(3), 198-204. DOI 10.1016/j.mib.2008.05.006
More Details

Kallimanis, A. et al. (2008) Identification of two 1-hydroxy-2-naphthoate dioxygenase genes in Arthrobacter sp strain Sphe3. Febs Journal 275, 409-409.
More Details

Kalyuzhnaya, M. G. et al. (2008) High-resolution metagenomics targets specific functional types in complex microbial communities. Nature Biotechnology 26(9), 1029-1034. Doi 10.1038/Nbt.1488
More Details

Katsaveli, K. et al. (2008) Microbial community shifts during the annual operation of Messolonghi solar saltern, Greece. Febs Journal 275, 282-282.
More Details

Katsaveli, K. et al. (2008) Microbial community shifts during the annual operation of Messolonghi solar saltern, Greece. Febs Journal 275, 282-282.
More Details

King, N. et al. (2008) The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans. Nature 451(7180), 783-788. Doi 10.1038/Nature06617
More Details

Kraaijeveld, K. et al. (2008) The evolution of sperm and non-sperm producing organs in male Drosophila. Biological Journal of the Linnean Society 94(3), 505-512. DOI 10.1111/j.1095-8312.2008.01030.x
More Details

Kunin, V. et al. (2008) A bacterial metapopulation adapts locally to phage predation despite global dispersal. Genome Research 18(2), 293-297. Doi 10.1101/Gr.6835308
More Details

Kunin, V. et al. (2008) Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial mat. Mol Syst Biol 4, 198. 10.1038/msb.2008.35
More Details

Kunin, V. et al. (2008) A bioinformatician's guide to metagenomics. Microbiol Mol Biol Rev 72(4), 557-78, Table of Contents. 10.1128/MMBR.00009-08
More Details

Labbe, J. et al. (2008) A genetic linkage map for the ectomycorrhizal fungus Laccaria bicolor and its alignment to the whole-genome sequence assemblies. New Phytol 180(2), 316-28. 10.1111/j.1469-8137.2008.02614.x
More Details

Lapidus, A. et al. (2008) Extending the Bacillus cereus group genomics to putative food-borne pathogens of different toxicity. Chem Biol Interact 171(2), 236-49. 10.1016/j.cbi.2007.03.003
More Details

Larroux, C. et al. (2008) Genesis and expansion of metazoan transcription factor gene classes. Mol Biol Evol 25(5), 980-96. 10.1093/molbev/msn047
More Details

Leary, R. J. et al. (2008) Integrated analysis of homozygous deletions, focal amplifications, and sequence alterations in breast and colorectal cancers. Proceedings of the National Academy of Sciences of the United States of America 105(42), 16224-16229. DOI 10.1073/pnas.0808041105
More Details

Lee, J. H. et al. (2008) Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth. BMC Genomics 9, 247. 10.1186/1471-2164-9-247
More Details

Liolios, K. et al. (2008) The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata. Nucleic Acids Res 36(Database issue), D475-9. 10.1093/nar/gkm884
More Details

Loh, Y. H. et al. (2008) Comparative analysis reveals signatures of differentiation amid genomic polymorphism in Lake Malawi cichlids. Genome Biol 9(7), R113. 10.1186/gb-2008-9-7-r113
More Details

Macey, J. R. et al. (2008) Socotra Island the forgotten fragment of Gondwana: Unmasking chameleon lizard history with complete mitochondrial genomic data. Molecular Phylogenetics and Evolution 49(3), 1015-1018. DOI 10.1016/j.ympev.2008.08.024
More Details

Mackelprang, R. et al. (2008) Paleontology. New tricks with old bones. Science 321(5886), 211-2. 10.1126/science.1161890
More Details

Marco, E. J. et al. (2008) ARHGEF9 disruption in a female patient is associated with X linked mental retardation and sensory hyperarousal. Journal of Medical Genetics 45(2), 100-105. DOI 10.1136/jmg.2007.052324
More Details

Markowitz, V. M. et al. (2008) IMG/M: a data management and analysis system for metagenomes. Nucleic Acids Research 36, D534-D538. Doi 10.1093/Nar/Gkm869
More Details

Markowitz, V. M. et al. (2008) The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions. Nucleic Acids Res 36(Database issue), D528-33. 10.1093/nar/gkm846
More Details

Martin, F. et al. (2008) The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis. Nature 452(7183), 88-U7. Doi 10.1038/Nature06556
More Details

Martinez, D. et al. (2008) Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina). Nat Biotechnol 26(5), 553-60. 10.1038/nbt1403
More Details

Masta, S. E. et al. (2008) Parallel evolution of truncated transfer RNA genes in arachnid mitochondrial genomes. Mol Biol Evol 25(5), 949-59. 10.1093/molbev/msn051
More Details

Mattes, T. E. et al. (2008) The genome of Polaromonas sp strain JS666: Insights into the evolution of a hydrocarbon- and xenobiotic-degrading bacterium, and features of relevance to biotechnology. Applied and Environmental Microbiology 74(20), 6405-6416. Doi 10.1128/Aem.00197-08
More Details

Mccoy, S. R. et al. (2008) The complete plastid genome sequence of Welwitschia mirabilis: an unusually compact plastome with accelerated divergence rates. Bmc Evolutionary Biology 8. Artn 130 Doi 10.1186/1471-2148-8-130
More Details

Merritt, W. M. et al. (2008) Dicer, Drosha, and outcomes in patients with ovarian cancer. N Engl J Med 359(25), 2641-50. 10.1056/NEJMoa0803785
More Details

Mueller, R. L. et al. (2008) Genome size, cell size, and the evolution of enucleated erythrocytes in attenuate salamanders. Zoology (Jena) 111(3), 218-30. 10.1016/j.zool.2007.07.010
More Details

Norton, J. M. et al. (2008) Complete genome sequence of Nitrosospira multiformis, an ammonia-oxidizing bacterium from the soil environment. Appl Environ Microbiol 74(11), 3559-72. 10.1128/AEM.02722-07
More Details

Oda, Y. et al. (2008) Multiple genome sequences reveal adaptations of a phototrophic bacterium to sediment microenvironments. Proc Natl Acad Sci U S A 105(47), 18543-8. 10.1073/pnas.0809160105
More Details

Opperman, C. H. et al. (2008) Sequence and genetic map of Meloidogyne hapla: A compact nematode genome for plant parasitism. Proc Natl Acad Sci U S A 105(39), 14802-7. 10.1073/pnas.0805946105
More Details

Peterson, S. B. et al. (2008) Environmental distribution and population biology of Candidatus Accumulibacter, a primary agent of biological phosphorus removal. Environ Microbiol 10(10), 2692-703. 10.1111/j.1462-2920.2008.01690.x
More Details

Pierce, E. et al. (2008) The complete genome sequence of Moorella thermoacetica (f. Clostridium thermoaceticum). Environ Microbiol 10(10), 2550-73. 10.1111/j.1462-2920.2008.01679.x
More Details

Pierce, E. et al. (2008) The complete genome sequence of Moorella thermoacetica (f. Clostridium thermoaceticum). Environ Microbiol 10(10), 2550-73. 10.1111/j.1462-2920.2008.01679.x
More Details

Podar, M. et al. (2008) A genomic analysis of the archaeal system Ignicoccus hospitalis-Nanoarchaeum equitans. Genome Biol 9(11), R158. 10.1186/gb-2008-9-11-r158
More Details

Podar, M. et al. (2008) A genomic analysis of the archaeal system Ignicoccus hospitalis-Nanoarchaeum equitans. Genome Biol 9(11), R158. 10.1186/gb-2008-9-11-r158
More Details

Prabhakar, S. et al. (2008) Human-specific gain of function in a developmental enhancer. Science 321(5894), 1346-50. 10.1126/science.1159974
More Details

Putnam, N. H. et al. (2008) The amphioxus genome and the evolution of the chordate karyotype. Nature 453(7198), 1064-71. 10.1038/nature06967
More Details

Quesada, T. et al. (2008) Comparative analysis of the transcriptomes of Populus trichocarpa and Arabidopsis thaliana suggests extensive evolution of gene expression regulation in angiosperms. New Phytol 180(2), 408-20. 10.1111/j.1469-8137.2008.02586.x
More Details

Ralph, S. G. et al. (2008) Analysis of 4,664 high-quality sequence-finished poplar full-length cDNA clones and their utility for the discovery of genes responding to insect feeding. Bmc Genomics 9. Artn 57Doi 10.1186/1471-2164-9-57
More Details

Rensing, S. A. et al. (2008) The Physcomitrella genome reveals evolutionary insights into the conquest of land by plants. Science 319(5859), 64-69. DOI 10.1126/science.1150646
More Details

Riley, M. et al. (2008) Genomics of an extreme psychrophile, Psychromonas ingrahamii. BMC Genomics 9, 210. 10.1186/1471-2164-9-210
More Details

Rodrigues, D. F. et al. (2008) Architecture of thermal adaptation in an Exiguobacterium sibiricum strain isolated from 3 million year old permafrost: a genome and transcriptome approach. BMC Genomics 9, 547. 10.1186/1471-2164-9-547
More Details

Romeo, S. et al. (2008) Genetic variation in PNPLA3 confers susceptibility to nonalcoholic fatty liver disease. Nat Genet 40(12), 1461-5. 10.1038/ng.257
More Details

Rubin, E. M. et al. (2008) Genomics of cellulosic biofuels. Nature 454(7206), 841-5. 10.1038/nature07190
More Details

Satou, Y. et al. (2008) Improved genome assembly and evidence-based global gene model set for the chordate Ciona intestinalis: new insight into intron and operon populations. Genome Biol 9(10), R152. 10.1186/gb-2008-9-10-r152
More Details

Schoenfeld, T. et al. (2008) Assembly of viral metagenomes from yellowstone hot springs. Appl Environ Microbiol 74(13), 4164-74. 10.1128/AEM.02598-07
More Details

Schwarz, J. A. et al. (2008) Coral life history and symbiosis: functional genomic resources for two reef building Caribbean corals, Acropora palmata and Montastraea faveolata. BMC Genomics 9, 97. 10.1186/1471-2164-9-97
More Details

Sela, D. A. et al. (2008) The genome sequence of Bifidobacterium longum subsp infantis reveals adaptations for milk utilization within the infant microbiome. Proceedings of the National Academy of Sciences of the United States of America 105(48), 18964-18969. DOI 10.1073/pnas.0809584105
More Details

Sela, D. A. et al. (2008) The genome sequence of Bifidobacterium longum subsp infantis reveals adaptations for milk utilization within the infant microbiome. Proceedings of the National Academy of Sciences of the United States of America 105(48), 18964-18969. DOI 10.1073/pnas.0809584105
More Details

Shoemaker, R. C. et al. (2008) Microsatellite discovery from BAC end sequences and genetic mapping to anchor the soybean physical and genetic maps. Genome 51(4), 294-302. 10.1139/G08-010
More Details

Sievert, S. M. et al. (2008) Genome of the epsilonproteobacterial chemolithoautotroph Sulfurimonas denitrificans. Applied and Environmental Microbiology 74(4), 1145-1156. Doi 10.1128/Aem.01844-07
More Details

Smith, D. R. et al. (2008) Rapid whole-genome mutational profiling using next-generation sequencing technologies. Genome Research 18(10), 1638-1642. DOI 10.1101/gr.077776.108
More Details

Smith, D. R. et al. (2008) Rapid whole-genome mutational profiling using next-generation sequencing technologies. Genome Research 18(10), 1638-1642. DOI 10.1101/gr.077776.108
More Details

Sorek, R. et al. (2008) CRISPR - a widespread system that provides acquired resistance against phages in bacteria and archaea. Nature Reviews Microbiology 6(3), 181-186. Doi 10.1038/Nrmicro1793
More Details

Srivastava, M. et al. (2008) The Trichoplax genome and the nature of placozoans. Nature 454(7207), 955-60. 10.1038/nature07191
More Details

Starkenburg, S. R. et al. (2008) Complete genome sequence of Nitrobacter hamburgensis X14 and comparative genomic analysis of species within the genus Nitrobacter. Appl Environ Microbiol 74(9), 2852-63. 10.1128/AEM.02311-07
More Details

Tanaka, S. et al. (2008) Atomic-level models of the bacterial carboxysome shell. Science 319(5866), 1083-6. 10.1126/science.1151458
More Details

Theofilopoulos, S. et al. (2008) Novel function of the human presqualene diphosphate phosphatase as a type II phosphatidate phosphatase in phosphatidylcholine and triacylglyceride biosynthesis pathways. Biochimica Et Biophysica Acta-Molecular and Cell Biology of Lipids 1781(11-12), 731-742. DOI 10.1016/j.bbalip.2008.09.001
More Details

Torriani, S. F. et al. (2008) Intraspecific comparison and annotation of two complete mitochondrial genome sequences from the plant pathogenic fungus Mycosphaerella graminicola. Fungal Genet Biol 45(5), 628-37. 10.1016/j.fgb.2007.12.005
More Details

Tringe, S. G. et al. (2008) A renaissance for the pioneering 16S rRNA gene. Curr Opin Microbiol 11(5), 442-6. 10.1016/j.mib.2008.09.011
More Details

Tringe, S. G. et al. (2008) The airborne metagenome in an indoor urban environment. PLoS One 3(4), e1862. 10.1371/journal.pone.0001862
More Details

Tringe, S. G. et al. (2008) A renaissance for the pioneering 16S rRNA gene. Curr Opin Microbiol 11(5), 442-6. 10.1016/j.mib.2008.09.011
More Details

Tsiamis, G. et al. (2008) Prokaryotic community profiles at different operational stages of a Greek solar saltern. Research in Microbiology 159(9-10), 609-627. DOI 10.1016/j.resmic.2008.09.007
More Details

Valdes, J. et al. (2008) Acidithiobacillus ferrooxidans metabolism: from genome sequence to industrial applications. BMC Genomics 9, 597. 10.1186/1471-2164-9-597
More Details

Valles, Y. et al. (2008) Group II introns break new boundaries: presence in a bilaterian's genome. PLoS One 3(1), e1488. 10.1371/journal.pone.0001488
More Details

Van Brabant, B. et al. (2008) Laying the foundation for a genomic rosetta stone: Creating information hubs through the use of consensus identifiers. Omics-a Journal of Integrative Biology 12(2), 123-127. DOI 10.1089/omi.2008.0020
More Details

Visel, A. et al. (2008) Ultraconservation identifies a small subset of extremely constrained developmental enhancers. Nat Genet 40(2), 158-60. 10.1038/ng.2007.55
More Details

Weiner, R. M. et al. (2008) Complete genome sequence of the complex carbohydrate-degrading marine bacterium, Saccharophagus degradans strain 2-40(T). Plos Genetics 4(5). ARTN e1000087 DOI 10.1371/journal.pgen.1000087
More Details

Wickett, N. J. et al. (2008) Functional gene losses occur with minimal size reduction in the plastid genome of the parasitic liverwort Aneura mirabilis. Mol Biol Evol 25(2), 393-401. 10.1093/molbev/msm267
More Details

Wilson, A. et al. (2008) A photoactive carotenoid protein acting as light intensity sensor. Proceedings of the National Academy of Sciences of the United States of America 105(33), 12075-12080. DOI 10.1073/pnas.0804636105
More Details

Wrighton, K. C. et al. (2008) A novel ecological role of the Firmicutes identified in thermophilic microbial fuel cells. Isme Journal 2(11), 1146-1156. DOI 10.1038/ismej.2008.48
More Details

Wu, M. et al. (2008) A simple, fast, and accurate method of phylogenomic inference. Genome Biol 9(10), R151. 10.1186/gb-2008-9-10-r151
More Details

Yan, H. et al. (2008) Intergenic locations of rice centromeric chromatin. PLoS Biol 6(11), e286. 10.1371/journal.pbio.0060286
More Details

Yang, X. H. et al. (2008) The F-Box Gene Family Is Expanded in Herbaceous Annual Plants Relative to Woody Perennial Plants. Plant Physiology 148(3), 1189-1200. DOI 10.1104/pp.108.121921
More Details

Yeates, T. O. et al. (2008) Protein-based organelles in bacteria: carboxysomes and related microcompartments. Nat Rev Microbiol 6(9), 681-91. 10.1038/nrmicro1913
More Details

Yin, T. et al. (2008) Genome structure and emerging evidence of an incipient sex chromosome in Populus. Genome Res 18(3), 422-30. 10.1101/gr.7076308
More Details

  • 2020 Publications
  • 2019 Publications
  • 2018 Publications
  • 2017 Publications
  • 2016 Publications
  • 2015 Publications
  • 2014 Publications
  • 2013 Publications
  • 2012 Publications
  • 2011 Publications
  • 2010 Publications
  • 2009 Publications
  • 2008 Publications
  • 2007 Publications
  • 2006 Publications
  • 2005 Publications
  • 2004 Publications
  • 2003 Publications

More topics:

  • COVID-19 Status
  • News
  • Science Highlights
  • Blog
  • Podcasts
  • CSP Plans
  • Featured Profiles
  • Careers
  • Contact Us
  • Events
  • User Meeting
  • MGM Workshops
  • Internal
  • Disclaimer
  • Credits
  • Emergency Info
  • Accessibility / Section 508 Statement
  • RSS feed
  • Flickr
  • LinkedIn
  • Twitter
  • YouTube
Lawrence Berkeley National Lab Biosciences Area
A project of the US Department of Energy, Office of Science

JGI is a DOE Office of Science User Facility managed by Lawrence Berkeley National Laboratory

© 1997-2021 The Regents of the University of California