Environmental Genome Shotgun Sequencing of the Sargasso Sea (2008)
Sargasso Sea, J. Craig Venter, Et Al, J. Craig Venter, Karin Remington, John F. Heidelberg, ...
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Jonathan A Eisen, John F Heidelberg, Owen White, Steven L Salzberg
for symmetric chromosomal inversions around the
Douglas B. Rusch, Aaron L. Halpern, Granger Sutton, Karla B. Heidelberg, Shannon Williamson, Shibu Yooseph, ...
The world's oceans contain a complex mixture of micro-organisms that are for the most part, uncharacterized both genetically and biochemically. We report here a metagenomic study of the marine...
Naomi Ward, Øivind Larsen, James Sakwa, Live Bruseth, Hoda Khouri, A. Scott Durkin, ...
Methanotrophs are bacteria that use methane as a sole carbon source. The genome sequence of Methylococcus capsulatus deepens our understanding of methanotroph biology and its relationship to global...
Naomi Ward, Øivind Larsen, James Sakwa, Live Bruseth, Hoda Khouri, A. Scott Durkin, ...
Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular,...
Ward, Naomi, Larsen, Øivind, Sakwa, James, Bruseth, Live, Khouri, Hoda, Durkin, A. Scott, ...
Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular,...
Ward, Naomi, Larsen, Øivind, Sakwa, James, Bruseth, Live, Khouri, Hoda, Durkin, A. Scott, ...
Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular,...
Evidence for symmetric chromosomal inversions around the replication origin in bacteria (2000)
Eisen, Jonathan A, Heidelberg, John F, White, Owen, Salzberg, Steven L
Abstract Background Whole-genome comparisons can provide great insight into many aspects of biology. Until recently, however, comparisons were mainly possible only between distantly related species....
Evidence for symmetric chromosomal inversions around the replication origin in bacteria (2000)
Eisen, Jonathan A., Heidelberg, John F., White, Owen, Salzberg, Steven L.
Background: Whole-genome comparisons can provide great insight into many aspects of biology. Until recently, however, comparisons were mainly possible only between distantly related species. Complete...
Evidence for symmetric chromosomal inversions around the replication origin in bacteria
Eisen, Jonathan A, Heidelberg, John F, White, Owen, Salzberg, Steven L
Complete genome sequence of Caulobacter crescentus
Nierman, William C., Feldblyum, Tamara V., Laub, Michael T., Paulsen, Ian T., Nelson, Karen E., Eisen, Jonathan, ...
The complete genome sequence of Caulobacter crescentus was determined to be 4,016,942 base pairs in a single circular chromosome encoding 3,767 genes. This organism, which grows in a dilute aquatic...
Dziejman, Michelle, Balon, Emmy, Boyd, Dana, Fraser, Clare M., Heidelberg, John F., Mekalanos, John J.
Historically, the first six recorded cholera pandemics occurred between 1817 and 1923 and were caused by Vibrio cholerae O1 serogroup strains of the classical biotype. Although strains of the El Tor...
Eisen, Jonathan A., Nelson, Karen E., Paulsen, Ian T., Heidelberg, John F., Wu, Martin, Dodson, Robert J., ...
The complete genome of the green-sulfur eubacterium Chlorobium tepidum TLS was determined to be a single circular chromosome of 2,154,946 bp. This represents the first genome sequence from the phylum...
Paulsen, Ian T., Seshadri, Rekha, Nelson, Karen E., Eisen, Jonathan A., Heidelberg, John F., Read, Timothy D., ...
The 3.31-Mb genome sequence of the intracellular pathogen and potential bioterrorism agent, Brucella suis, was determined. Comparison of B. suis with Brucella melitensis has defined a finite set of...
Complete genome sequence of the Q-fever pathogen Coxiella burnetii
Seshadri, Rekha, Paulsen, Ian T., Eisen, Jonathan A., Read, Timothy D., Nelson, Karen E., Nelson, William C., ...
The 1,995,275-bp genome of Coxiella burnetii, Nine Mile phase I RSA493, a highly virulent zoonotic pathogen and category B bioterrorism agent, was sequenced by the random shotgun method. This...
Haveman, Shelley A., Brunelle, Véronique, Voordouw, Johanna K., Voordouw, Gerrit, Heidelberg, John F., Rabus, Ralf
Comparison of the proteomes of the wild-type and Fe-only hydrogenase mutant strains of Desulfovibrio vulgaris Hildenborough, grown in lactate-sulfate (LS) medium, indicated the near absence of open...
Miller, Eric S., Heidelberg, John F., Eisen, Jonathan A., Nelson, William C., Durkin, A. Scott, Ciecko, Ann, ...
The complete genome sequence of the T4-like, broad-host-range vibriophage KVP40 has been determined. The genome sequence is 244,835 bp, with an overall G+C content of 42.6%. It encodes 386 putative...
Comparison of the genome of the oral pathogen Treponema denticola with other spirochete genomes
Seshadri, Rekha, Myers, Garry S. A., Tettelin, Hervé, Eisen, Jonathan A., Heidelberg, John F., Dodson, Robert J., ...
We present the complete 2,843,201-bp genome sequence of Treponema denticola (ATCC 35405) an oral spirochete associated with periodontal disease. Analysis of the T. denticola genome reveals factors...
Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath)
Ward, Naomi, Larsen, Øivind, Sakwa, James, Bruseth, Live, Khouri, Hoda, Durkin, A. Scott, ...
Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular,...
Dziejman, Michelle, Serruto, Davide, Tam, Vincent C., Sturtevant, Derek, Diraphat, Pornphan, Faruque, Shah M., ...
Non-O1, non-O139 Vibrio cholerae can cause gastroenteritis and extraintestinal infections, but, unlike O1 and O139 strains of V. cholerae, little is known about the virulence gene content of non-O1,...
Pukatzki, Stefan, Ma, Amy T., Sturtevant, Derek, Krastins, Bryan, Sarracino, David, Nelson, William C., ...
The bacterium Vibrio cholerae, like other human pathogens that reside in environmental reservoirs, survives predation by unicellular eukaryotes. Strains of the O1 and O139 serogroups cause cholera,...
Evidence for symmetric chromosomal inversions around the replication origin in bacteria
Eisen, Jonathan A, Heidelberg, John F, White, Owen, Salzberg, Steven L
Complete genome sequence of Caulobacter crescentus
Nierman, William C., Feldblyum, Tamara V., Laub, Michael T., Paulsen, Ian T., Nelson, Karen E., Eisen, Jonathan, ...
The complete genome sequence of Caulobacter crescentus was determined to be 4,016,942 base pairs in a single circular chromosome encoding 3,767 genes. This organism, which grows in a dilute aquatic...
Dziejman, Michelle, Balon, Emmy, Boyd, Dana, Fraser, Clare M., Heidelberg, John F., Mekalanos, John J.
Historically, the first six recorded cholera pandemics occurred between 1817 and 1923 and were caused by Vibrio cholerae O1 serogroup strains of the classical biotype. Although strains of the El Tor...
Eisen, Jonathan A., Nelson, Karen E., Paulsen, Ian T., Heidelberg, John F., Wu, Martin, Dodson, Robert J., ...
The complete genome of the green-sulfur eubacterium Chlorobium tepidum TLS was determined to be a single circular chromosome of 2,154,946 bp. This represents the first genome sequence from the phylum...
Paulsen, Ian T., Seshadri, Rekha, Nelson, Karen E., Eisen, Jonathan A., Heidelberg, John F., Read, Timothy D., ...
The 3.31-Mb genome sequence of the intracellular pathogen and potential bioterrorism agent, Brucella suis, was determined. Comparison of B. suis with Brucella melitensis has defined a finite set of...
Complete genome sequence of the Q-fever pathogen Coxiella burnetii
Seshadri, Rekha, Paulsen, Ian T., Eisen, Jonathan A., Read, Timothy D., Nelson, Karen E., Nelson, William C., ...
The 1,995,275-bp genome of Coxiella burnetii, Nine Mile phase I RSA493, a highly virulent zoonotic pathogen and category B bioterrorism agent, was sequenced by the random shotgun method. This...
Haveman, Shelley A., Brunelle, Véronique, Voordouw, Johanna K., Voordouw, Gerrit, Heidelberg, John F., Rabus, Ralf
Comparison of the proteomes of the wild-type and Fe-only hydrogenase mutant strains of Desulfovibrio vulgaris Hildenborough, grown in lactate-sulfate (LS) medium, indicated the near absence of open...
Miller, Eric S., Heidelberg, John F., Eisen, Jonathan A., Nelson, William C., Durkin, A. Scott, Ciecko, Ann, ...
The complete genome sequence of the T4-like, broad-host-range vibriophage KVP40 has been determined. The genome sequence is 244,835 bp, with an overall G+C content of 42.6%. It encodes 386 putative...
Comparison of the genome of the oral pathogen Treponema denticola with other spirochete genomes
Seshadri, Rekha, Myers, Garry S. A., Tettelin, Hervé, Eisen, Jonathan A., Heidelberg, John F., Dodson, Robert J., ...
We present the complete 2,843,201-bp genome sequence of Treponema denticola (ATCC 35405) an oral spirochete associated with periodontal disease. Analysis of the T. denticola genome reveals factors...
Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath)
Ward, Naomi, Larsen, Øivind, Sakwa, James, Bruseth, Live, Khouri, Hoda, Durkin, A. Scott, ...
Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular,...
Dziejman, Michelle, Serruto, Davide, Tam, Vincent C., Sturtevant, Derek, Diraphat, Pornphan, Faruque, Shah M., ...
Non-O1, non-O139 Vibrio cholerae can cause gastroenteritis and extraintestinal infections, but, unlike O1 and O139 strains of V. cholerae, little is known about the virulence gene content of non-O1,...
Pukatzki, Stefan, Ma, Amy T., Sturtevant, Derek, Krastins, Bryan, Sarracino, David, Nelson, William C., ...
The bacterium Vibrio cholerae, like other human pathogens that reside in environmental reservoirs, survives predation by unicellular eukaryotes. Strains of the O1 and O139 serogroups cause cholera,...
Genome sequence of Synechococcus CC9311: Insights into adaptation to a coastal environment
Palenik, Brian, Ren, Qinghu, Dupont, Chris L., Myers, Garry S., Heidelberg, John F., Badger, Jonathan H., ...
Coastal aquatic environments are typically more highly productive and dynamic than open ocean ones. Despite these differences, cyanobacteria from the genus Synechococcus are important primary...
Rusch, Douglas B, Halpern, Aaron L, Sutton, Granger, Heidelberg, Karla B, Williamson, Shannon, Yooseph, Shibu, ...
The world's oceans contain a complex mixture of micro-organisms that are for the most part, uncharacterized both genetically and biochemically. We report here a metagenomic study of the marine...
Genome Sequence of Aeromonas hydrophila ATCC 7966T: Jack of All Trades▿
Seshadri, Rekha, Joseph, Sam W., Chopra, Ashok K., Sha, Jian, Shaw, Jonathan, Graf, Joerg, ...
The complete genome of Aeromonas hydrophila ATCC 7966T was sequenced. Aeromonas, a ubiquitous waterborne bacterium, has been placed by the Environmental Protection Agency on the Contaminant Candidate...
Faruque, Shah M., Tam, Vincent C., Chowdhury, Nityananda, Diraphat, Pornphan, Dziejman, Michelle, Heidelberg, John F., ...
Cholera outbreaks in subSaharan African countries are caused by strains of the El Tor biotype of toxigenic Vibrio cholerae O1. The El Tor biotype is the causative agent of the current seventh cholera...
Widespread distribution of a unique marine protistan lineage
Cuvelier, Marie L, Ortiz, Alejandra, Kim, Eunsoo, Moehlig, Heike, Richardson, David E, Heidelberg, John F, ...
Unicellular eukaryotes (protists) are key components of marine food webs, yet knowledge of their diversity, distributions and respective ecologies is limited. We investigated uncultured protists...
Heidelberg, John F., Nelson, William C., Schoenfeld, Thomas, Bhaya, Devaki
CRISPR arrays and associated cas genes are widespread in bacteria and archaea and confer acquired resistance to viruses. To examine viral immunity in the context of naturally evolving microbial...