Research Topics
Genomes and Genes | J Craig VenterSummaryAffiliation: Institute for Biological Energy Alternatives Country: USA Publications
| Collaborators
|
Detail Information
Publications
Metagenomics and the global ocean survey: what's in it for us, and why should we care?Kenneth H Nealson
University of Southern California, Department of Earth Sciences, Los Angeles, CA, USA
ISME J 1:185-7. 2007- Time 100 scientists & thinkers. J. Craig VenterRobin Cook
Time 171:80. 2008 - The dog genome: survey sequencing and comparative analysisEwen F Kirkness
The Institute for Genomic Research, Rockville, MD 20850, USA
Science 301:1898-903. 2003..A variety of polymorphic elements are identified that will be valuable for mapping the genetic basis of diseases and traits in the dog... - Assessing diversity and biogeography of aerobic anoxygenic phototrophic bacteria in surface waters of the Atlantic and Pacific Oceans using the Global Ocean Sampling expedition metagenomesNatalya Yutin
Biology Department, Technion Israel Institute of Technology, Haifa 32000, Israel
Environ Microbiol 9:1464-75. 2007..Our results support the notion that marine AAnP populations are complex and dynamic, and compose an important fraction of bacterioplankton assemblages in certain oceanic areas... - Evolution of genes and genomes on the Drosophila phylogenyAndrew G Clark
Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA
Nature 450:203-18. 2007..These may prove to underlie differences in the ecology and behaviour of these diverse species... - Environmental genome shotgun sequencing of the Sargasso SeaJ Craig Venter
Institute for Biological Energy Alternatives, 1901 Research Boulevard, Rockville, MD 20850, USA
Science 304:66-74. 2004..2 million previously unknown genes represented in these samples, including more than 782 new rhodopsin-like photoreceptors. Variation in species present and stoichiometry suggests substantial oceanic microbial diversity... - Massive parallelism, randomness and genomic advancesJ Craig Venter
The Center for the Advancement of Genomics, 1901 Research Blvd, Rockville, Maryland 20850, USA
Nat Genet 33:219-27. 2003..We highlight some key innovations that have come together to nurture the explosive growth that makes a new era of genomics a reality. We also document how these new approaches have fueled further innovations and discoveries... 
Creation of a bacterial cell controlled by a chemically synthesized genomeDaniel G Gibson
The J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
Science 329:52-6. 2010..The new cells have expected phenotypic properties and are capable of continuous self-replication...- Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytesMalcolm J Gardner
Institute for Genomic Research TIGR, 9712 Medical Center Drive, Rockville, MD 20850, USA
Science 309:134-7. 2005..Several biosynthetic pathways are incomplete or absent, suggesting substantial metabolic dependence on the host cell. One protein family that may generate parasite antigenic diversity is not telomere-associated... - Creating bacterial strains from genomes that have been cloned and engineered in yeastCarole Lartigue
J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
Science 325:1693-6. 2009..mycoides. These methods allow the construction of strains that could not be produced with genetic tools available for this bacterium... 
One-step assembly in yeast of 25 overlapping DNA fragments to form a complete synthetic Mycoplasma genitalium genomeDaniel G Gibson
The J Craig Venter Institute, Synthetic Biology Group, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 105:20404-9. 2008..The use of yeast recombination greatly simplifies the assembly of large DNA molecules from both synthetic and natural fragments...- Enzymatic assembly of DNA molecules up to several hundred kilobasesDaniel G Gibson
The J Craig Venter Institute, Synthetic Biology Group, Rockville, Maryland, USA
Nat Methods 6:343-5. 2009..This assembly method can be used to seamlessly construct synthetic and natural genes, genetic pathways and entire genomes, and could be a useful molecular engineering tool... - The diploid genome sequence of an individual humanSamuel Levy
J Craig Venter Institute, Rockville, Maryland, USA
PLoS Biol 5:e254. 2007..These data depict a definitive molecular portrait of a diploid human genome that provides a starting point for future genome comparisons and enables an era of individualized genomic information... - Genome sequence of the dissimilatory metal ion-reducing bacterium Shewanella oneidensisJohn F Heidelberg
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
Nat Biotechnol 20:1118-23. 2002.... - Complete chemical synthesis, assembly, and cloning of a Mycoplasma genitalium genomeDaniel G Gibson
J Craig Venter Institute, Rockville, MD 20850, USA
Science 319:1215-20. 2008..The methods described here will be generally useful for constructing large DNA molecules from chemically synthesized pieces and also from combinations of natural and synthetic DNA segments... - Genomic and functional adaptation in surface ocean planktonic prokaryotesShibu Yooseph
J Craig Venter Institute, Rockville, Maryland 20850, USA
Nature 468:60-6. 2010..Their genomic features also lead us to propose that one method used to avoid predation by viruses and/or bacterivores is by means of slow growth and the maintenance of low biomass... - Discovery of [NiFe] hydrogenase genes in metagenomic DNA: cloning and heterologous expression in Thiocapsa roseopersicinaGergely Maroti
J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
Appl Environ Microbiol 75:5821-30. 2009..It also provides a model for functionally analyzing novel enzymes from environmental microbes in a culture-independent manner... - Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoeliiJane M Carlton
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
Nature 419:512-9. 2002..This is the first genome sequence of a model eukaryotic parasite, and it provides insight into the use of such systems in the modelling of Plasmodium biology and disease... - Genome transplantation in bacteria: changing one species to anotherCarole Lartigue
J Craig Venter Institute, Rockville, MD 20850, USA
Science 317:632-8. 2007..These cells that result from genome transplantation are phenotypically identical to the M. mycoides LC donor strain as judged by several criteria... - The HuRef Browser: a web resource for individual human genomicsNelson Axelrod
J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
Nucleic Acids Res 37:D1018-24. 2009..The HuRef Browser is a unique and versatile tool for browsing genome assemblies and studying individual human sequence variation in a diploid context. The browser is available online at http://huref.jcvi.org... - Sequence of Plasmodium falciparum chromosomes 2, 10, 11 and 14Malcolm J Gardner
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
Nature 419:531-4. 2002..We report here the nucleotide sequences of chromosomes 10, 11 and 14, and a re-analysis of the chromosome 2 sequence. These chromosomes represent about 35% of the 23-megabase P. falciparum genome... - Characterization of Prochlorococcus clades from iron-depleted oceanic regionsDouglas B Rusch
J Craig Venter Institute, Rockville, MD 20855, USA
Proc Natl Acad Sci U S A 107:16184-9. 2010.... - The genome sequence of the malaria mosquito Anopheles gambiaeRobert A Holt
Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
Science 298:129-49. 2002..An expressed sequence tag analysis of genes regulated by blood feeding provided insights into the physiological adaptations of a hematophagous insect... - Genome sequence of the human malaria parasite Plasmodium falciparumMalcolm J Gardner
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
Nature 419:498-511. 2002..The genome sequence provides the foundation for future studies of this organism, and is being exploited in the search for new drugs and vaccines to fight malaria... - The Sorcerer II Global Ocean Sampling Expedition: metagenomic characterization of viruses within aquatic microbial samplesShannon J Williamson
J Craig Venter Institute, Rockville, Maryland, USA
PLoS ONE 3:e1456. 2008.... - A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomesSusanne M D Goldberg
J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 103:11240-5. 2006.... - A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genomeRichard J Mural
Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
Science 296:1661-71. 2002.... - The complete genome sequence of Chlorobium tepidum TLS, a photosynthetic, anaerobic, green-sulfur bacteriumJonathan A Eisen
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 99:9509-14. 2002..tepidum and many Archaeal species... - Whole-genome shotgun assembly and comparison of human genome assembliesSorin Istrail
Applied Biosystems, 45 West Gude Drive, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 101:1916-21. 2004..The Celera results provide more order and orientation, and the consortium sequence provides better coverage of exact and nearly exact repeats... - Application of the human genome to obstetrics and gynecologyTrevor Woodage
Celera Genomics, Rockville, Maryland 20850, USA
Clin Obstet Gynecol 45:711-29; discussion 730-2. 2002 - Genome sequences of the human body louse and its primary endosymbiont provide insights into the permanent parasitic lifestyleEwen F Kirkness
J Craig Venter Institute, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 107:12168-73. 2010..Thus, the body louse genome project offers unique information and tools to use in advancing understanding of coevolution among vectors, symbionts, and pathogens... - Sequence analysis of a complete 1.66 Mb Prochlorococcus marinus MED4 genome cloned in yeastChristian Tagwerker
Department of Synthetic Biology and Bioenergy, J Craig Venter Institute, 10355 Science Center Drive, San Diego, CA 92121, USA
Nucleic Acids Res 40:10375-83. 2012..We thus provide evidence of transformation, replication and maintenance of this 1.66 Mb intact bacterial genome in S. cerevisiae... - Essential genes of a minimal bacteriumJohn I Glass
Synthetic Biology Group, J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 103:425-30. 2006..Genes encoding proteins of unknown function constitute 28% of the essential protein-coding genes set. Disruption of some genes accelerated M. genitalium growth... - Cell-free cloning using phi29 DNA polymeraseClyde A Hutchison
Synthetic Biology Group, The J Craig Venter Institute, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 102:17332-6. 2005..These include environmental DNA samples that have proven difficult to clone and synthetic genes encoding toxic products. The method may also speed genome sequencing by eliminating the need for biological cloning... - Chemical synthesis of the mouse mitochondrial genomeDaniel G Gibson
The J Craig Venter Institute, Rockville, Maryland, USA
Nat Methods 7:901-3. 2010..As a demonstration of its simplicity and robustness, we synthesized the entire 16.3-kilobase mouse mitochondrial genome from 600 overlapping 60-mers... - Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell lineQi Zhao
J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 106:1886-91. 2009..This approach demonstrates that high-throughput transcriptome sequencing is an effective strategy for the characterization of genomic rearrangements in cancers... - Generating a synthetic genome by whole genome assembly: phiX174 bacteriophage from synthetic oligonucleotidesHamilton O Smith
Institute for Biological Energy Alternatives, 1901 Research Boulevard, Suite 600, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 100:15440-5. 2003..One such isolate had exactly the intended sequence. We propose to assemble larger genomes by joining separately assembled 5- to 6-kb segments; approximately 60 such segments would be required for a minimal cellular genome... - On the sequencing and assembly of the human genomeEugene W Myers
Celera Genomics, 45 W. Gude Drive, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 99:4145-6. 2002 - Plasmodium, human and Anopheles genomics and malariaStephen L Hoffman
Celera Genomics, 45 West Gude Drive, Rockville, Maryland 20850, USA
Nature 415:702-9. 2002.... - Taking metagenomic studies in contextKarin A Remington
Trends Microbiol 13:404. 2005 - It's all relative: ranking the diversity of aquatic bacterial communitiesAllison K Shaw
Department of Ecology and Evolutionary Biology, Brown University, Providence, RI 02912, USA
Environ Microbiol 10:2200-10. 2008..Finally, a subsampling analysis suggests that further sequencing from these particular clone libraries would not have substantially changed the richness rankings of the samples... - Human chromosome 7: DNA sequence and biologyStephen W Scherer
Department of Genetics and Genomic Biology, The Hospital for Sick Children, Toronto, Ontario, Canada, M5G 1X8
Science 300:767-72. 2003..This approach enabled the discovery of candidate genes for developmental diseases including autism... - Viral photosynthetic reaction center genes and transcripts in the marine environmentItai Sharon
Faculty of Biology, Technion Israel Institute of Technology, Haifa, Israel
ISME J 1:492-501. 2007..Furthermore, we show that different viral psbA genes are expressed in the environment... - A part of the human genome sequenceJ Craig Venter
Science 299:1183-4. 2003 - Genome sequence of the Brown Norway rat yields insights into mammalian evolutionRichard A Gibbs
Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, MS BCM226, One Baylor Plaza, Houston, Texas 77030, USA <http://www.hgsc.bcm.tmc.edu
Nature 428:493-521. 2004.... - Genomics: massively parallel sequencingYu-Hui Rogers
Nature 437:326-7. 2005 - Structural and functional diversity of the microbial kinomeNatarajan Kannan
Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California, United States of America
PLoS Biol 5:e17. 2007..We show that loss of a catalytic lysine in two families is compensated by distinct mechanisms both involving other key motifs. This diverse superfamily serves as a model for further structural and functional analysis of enzyme evolution... - Single-cell genomicsClyde A Hutchison
Nat Biotechnol 24:657-8. 2006 - The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein familiesShibu Yooseph
J Craig Venter Institute, Rockville, Maryland, United States of America
PLoS Biol 5:e16. 2007..Our analysis indicates that new families are being discovered at a rate that is linear or almost linear with the addition of new sequences, implying that we are still far from discovering all protein families in nature... - The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical PacificDouglas B Rusch
J Craig Venter Institute, Rockville, Maryland, United States of America
PLoS Biol 5:e77. 2007..Specific functional adaptations can be identified both within individual ribotypes and across the entire community, including proteorhodopsin spectral tuning and the presence or absence of the phosphate-binding gene PstS... - Survey sequencing and comparative analysis of the elephant shark (Callorhinchus milii) genomeByrappa Venkatesh
Institute of Molecular and Cell Biology, Singapore
PLoS Biol 5:e101. 2007..This study also demonstrates that a survey-sequencing approach can be applied productively for comparative analysis of distantly related vertebrate genomes... - Evolutionary and biomedical insights from the rhesus macaque genomeRichard A Gibbs
Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA
Science 316:222-34. 2007..The complete description of the macaque genome blueprint enhances the utility of this animal model for biomedical research and improves our understanding of the basic biology of the species... - Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatusNatalie D Fedorova
The J Craig Venter Institute, Rockville, Maryland, United States of America
PLoS Genet 4:e1000046. 2008.... - Time 100 scientists & thinkers. Svante PaaboJ Craig Venter
Time 169:116. 2007 - Sequence survey of receptor tyrosine kinases reveals mutations in glioblastomasVikki Rand
Department of Neurosurgery, Johns Hopkins University School of Medicine, 5200 Eastern Avenue, Baltimore, MD 21224, USA
Proc Natl Acad Sci U S A 102:14344-9. 2005..Our results demonstrate the utility of applying DNA sequencing technology to systematically assess the coding sequence of genes within cancer genomes...