Xia, Dong, Sanderson, Sanya J, Jones, Andrew R, Prieto, Judith H, Yates, John R, Bromley, Elizabeth, ...
Abstract Background Although the genomes of many of the most important human and animal pathogens have now been sequenced, our understanding of the actual proteins expressed by these genomes and how...
No abstract available.
Creating a honey bee consensus gene set (2007)
Elsik, Christine G, Mackey, Aaron J, Reese, Justin T, Milshina, Natalia V, Roos, David S, Weinstock, George M
Abstract Background We wished to produce a single reference gene set for honey bee ( Apis mellifera ). Our motivation was twofold. First, we wished to obtain an improved set of gene models with...
Cytoskeletal Components of an Invasion Machine—The Apical Complex of Toxoplasma gondii (2006)
Ke Hu, Jeff Johnson, Laurence Florens, Martin Fraunholz, Sapna Suravajjala, Camille DiLullo, ...
The apical complex of Toxoplasma gondii is widely believed to serve essential functions in both invasion of its host cells (including human cells), and in replication of the parasite. The...
The transcriptome of Toxoplasma gondii (2005)
Radke, Jay R, Behnke, Michael S, Mackey, Aaron J, Radke, Josh B, Roos, David S, White, Michael W
Abstract Background Toxoplasma gondii gives rise to toxoplasmosis, among the most prevalent parasitic diseases of animals and man. Transformation of the tachzyoite stage into the latent...
Nuclear-encoded proteins target to the plastid in Toxoplasma gondii and Plasmodium falciparum
Waller, Ross F., Keeling, Patrick J., Donald, Robert G. K., Striepen, Boris, Handman, Emanuela, Lang-Unnasch, Naomi, ...
A vestigial, nonphotosynthetic plastid has been identified recently in protozoan parasites of the phylum Apicomplexa. The apicomplexan plastid, or “apicoplast,” is indispensable, but the complete...
Daughter Cell Assembly in the Protozoan Parasite Toxoplasma gondii
Hu, Ke, Mann, Tara, Striepen, Boris, Beckers, Con J. M., Roos, David S., Murray, John M.
The phylum Apicomplexa includes thousands of species of obligate intracellular parasites, many of which are significant human and/or animal pathogens. Parasites in this phylum replicate by assembling...
Reynolds, Mary G., Oh, Jung, Roos, David S.
Pyrimethamine is a potent inhibitor of dihydrofolate reductase and is widely used in the treatment of opportunistic infections caused by the protozoan parasite Toxoplasma gondii. In order to assess...
Bahl, Amit, Brunk, Brian, Coppel, Ross L., Crabtree, Jonathan, Diskin, Sharon J., Fraunholz, Martin J., ...
PlasmoDB (http://PlasmoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. This resource incorporates finished and draft genome sequence data and annotation...
Swedlow, Jason R., Hu, Ke, Andrews, Paul D., Roos, David S., Murray, John M.
Toxoplasma gondii is an intracellular parasite that proliferates within most nucleated cells, an important human pathogen, and a model for the study of human and veterinary parasitic infections. We...
A plastid segregation defect in the protozoan parasite Toxoplasma gondii
He, Cynthia Y., Shaw, Michael K., Pletcher, Charles H., Striepen, Boris, Tilney, Lewis G., Roos, David S.
Apicomplexan parasites—including the causative agents of malaria (Plasmodium sp.) and toxoplasmosis (Toxoplasma gondii)—harbor a secondary endosymbiotic plastid, acquired by lateral genetic...
ToxoDB: accessing the Toxoplasma gondii genome
Kissinger, Jessica C., Gajria, Bindu, Li, Li, Paulsen, Ian T., Roos, David S.
ToxoDB (http://ToxoDB.org) provides a genome resource for the protozoan parasite Toxoplasma gondii. Several sequencing projects devoted to T. gondii have been completed or are in progress: an EST...
PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data
Bahl, Amit, Brunk, Brian, Crabtree, Jonathan, Fraunholz, Martin J., Gajria, Bindu, Grant, Gregory R., ...
PlasmoDB (http://PlasmoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. This resource incorporates the recently completed P. falciparum genome sequence and...
RAP1 controls rhoptry targeting of RAP2 in the malaria parasite Plasmodium falciparum
Baldi, Deborah L., Andrews, Katherine T., Waller, Ross F., Roos, David S., Howard, Randall F., Crabb, Brendan S., ...
Rhoptry associated protein 1 (RAP1) and 2 (RAP2), together with a poorly described third protein RAP3, form the low molecular weight complex within the rhoptries of Plasmodium falciparum. These...
ApiEST-DB: analyzing clustered EST data of the apicomplexan parasites
Li, Li, Crabtree, Jonathan, Fischer, Steve, Pinney, Deborah, Stoeckert, Christian J., Sibley, L. David, ...
ApiEST-DB (http://www.cbil.upenn.edu/paradbs-servlet/) provides integrated access to publicly available EST data from protozoan parasites in the phylum Apicomplexa. The database currently...
OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
Li, Li, Stoeckert, Christian J., Roos, David S.
The identification of orthologous groups is useful for genome annotation, studies on gene/protein evolution, comparative genomics, and the identification of taxonomically restricted sequences....
Harb, Omar S., Chatterjee, Bithi, Fraunholz, Martin J., Crawford, Michael J., Nishi, Manami, Roos, David S.
Most species of the protozoan phylum Apicomplexa harbor an endosymbiotic organelle—the apicoplast—acquired when an ancestral parasite engulfed a eukaryotic plastid-containing alga. Several...
Li, Li, Brunk, Brian P., Kissinger, Jessica C., Pape, Deana, Tang, Keliang, Cole, Robert H., ...
Large-scale EST sequencing projects for several important parasites within the phylum Apicomplexa were undertaken for the purpose of gene discovery. Included were several parasites of medical...
Dynamics of Toxoplasma gondii Differentiation†
Dzierszinski, Florence, Nishi, Manami, Ouko, Lillian, Roos, David S.
Parasite differentiation is commonly associated with transitions between complex life cycle stages and with long-term persistence in the host, and it is therefore critical for pathogenesis. In the...
Khan, Asis, Taylor, Sonya, Su, Chunlei, Mackey, Aaron J., Boyle, Jon, Cole, Robert, ...
Toxoplasma gondii is a highly successful protozoan parasite in the phylum Apicomplexa, which contains numerous animal and human pathogens. T.gondii is amenable to cellular, biochemical, molecular and...
The transcriptome of Toxoplasma gondii
Radke, Jay R, Behnke, Michael S, Mackey, Aaron J, Radke, Josh B, Roos, David S, White, Michael W
OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups
Chen, Feng, Mackey, Aaron J., Stoeckert, Christian J., Roos, David S.
The OrthoMCL database () houses ortholog group predictions for 55 species, including 16 bacterial and 4 archaeal genomes representing phylogenetically diverse lineages, and most currently available...
Cytoskeletal Components of an Invasion Machine—The Apical Complex of Toxoplasma gondii
Hu, Ke, Johnson, Jeff, Florens, Laurence, Fraunholz, Martin, Suravajjala, Sapna, DiLullo, Camille, ...
The apical complex of Toxoplasma gondii is widely believed to serve essential functions in both invasion of its host cells (including human cells), and in replication of the parasite. The...
Nuclear-encoded proteins target to the plastid in Toxoplasma gondii and Plasmodium falciparum
Waller, Ross F., Keeling, Patrick J., Donald, Robert G. K., Striepen, Boris, Handman, Emanuela, Lang-Unnasch, Naomi, ...
A vestigial, nonphotosynthetic plastid has been identified recently in protozoan parasites of the phylum Apicomplexa. The apicomplexan plastid, or “apicoplast,” is indispensable, but the complete...
Daughter Cell Assembly in the Protozoan Parasite Toxoplasma gondii
Hu, Ke, Mann, Tara, Striepen, Boris, Beckers, Con J. M., Roos, David S., Murray, John M.
The phylum Apicomplexa includes thousands of species of obligate intracellular parasites, many of which are significant human and/or animal pathogens. Parasites in this phylum replicate by assembling...
Reynolds, Mary G., Oh, Jung, Roos, David S.
Pyrimethamine is a potent inhibitor of dihydrofolate reductase and is widely used in the treatment of opportunistic infections caused by the protozoan parasite Toxoplasma gondii. In order to assess...
Bahl, Amit, Brunk, Brian, Coppel, Ross L., Crabtree, Jonathan, Diskin, Sharon J., Fraunholz, Martin J., ...
PlasmoDB (http://PlasmoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. This resource incorporates finished and draft genome sequence data and annotation...
Swedlow, Jason R., Hu, Ke, Andrews, Paul D., Roos, David S., Murray, John M.
Toxoplasma gondii is an intracellular parasite that proliferates within most nucleated cells, an important human pathogen, and a model for the study of human and veterinary parasitic infections. We...
A plastid segregation defect in the protozoan parasite Toxoplasma gondii
He, Cynthia Y., Shaw, Michael K., Pletcher, Charles H., Striepen, Boris, Tilney, Lewis G., Roos, David S.
Apicomplexan parasites—including the causative agents of malaria (Plasmodium sp.) and toxoplasmosis (Toxoplasma gondii)—harbor a secondary endosymbiotic plastid, acquired by lateral genetic...
ToxoDB: accessing the Toxoplasma gondii genome
Kissinger, Jessica C., Gajria, Bindu, Li, Li, Paulsen, Ian T., Roos, David S.
ToxoDB (http://ToxoDB.org) provides a genome resource for the protozoan parasite Toxoplasma gondii. Several sequencing projects devoted to T. gondii have been completed or are in progress: an EST...
PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data
Bahl, Amit, Brunk, Brian, Crabtree, Jonathan, Fraunholz, Martin J., Gajria, Bindu, Grant, Gregory R., ...
PlasmoDB (http://PlasmoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. This resource incorporates the recently completed P. falciparum genome sequence and...
RAP1 controls rhoptry targeting of RAP2 in the malaria parasite Plasmodium falciparum
Baldi, Deborah L., Andrews, Katherine T., Waller, Ross F., Roos, David S., Howard, Randall F., Crabb, Brendan S., ...
Rhoptry associated protein 1 (RAP1) and 2 (RAP2), together with a poorly described third protein RAP3, form the low molecular weight complex within the rhoptries of Plasmodium falciparum. These...
ApiEST-DB: analyzing clustered EST data of the apicomplexan parasites
Li, Li, Crabtree, Jonathan, Fischer, Steve, Pinney, Deborah, Stoeckert, Christian J., Sibley, L. David, ...
ApiEST-DB (http://www.cbil.upenn.edu/paradbs-servlet/) provides integrated access to publicly available EST data from protozoan parasites in the phylum Apicomplexa. The database currently...
OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
Li, Li, Stoeckert, Christian J., Roos, David S.
The identification of orthologous groups is useful for genome annotation, studies on gene/protein evolution, comparative genomics, and the identification of taxonomically restricted sequences....
Harb, Omar S., Chatterjee, Bithi, Fraunholz, Martin J., Crawford, Michael J., Nishi, Manami, Roos, David S.
Most species of the protozoan phylum Apicomplexa harbor an endosymbiotic organelle—the apicoplast—acquired when an ancestral parasite engulfed a eukaryotic plastid-containing alga. Several...
Li, Li, Brunk, Brian P., Kissinger, Jessica C., Pape, Deana, Tang, Keliang, Cole, Robert H., ...
Large-scale EST sequencing projects for several important parasites within the phylum Apicomplexa were undertaken for the purpose of gene discovery. Included were several parasites of medical...
Dynamics of Toxoplasma gondii Differentiation†
Dzierszinski, Florence, Nishi, Manami, Ouko, Lillian, Roos, David S.
Parasite differentiation is commonly associated with transitions between complex life cycle stages and with long-term persistence in the host, and it is therefore critical for pathogenesis. In the...
Khan, Asis, Taylor, Sonya, Su, Chunlei, Mackey, Aaron J., Boyle, Jon, Cole, Robert, ...
Toxoplasma gondii is a highly successful protozoan parasite in the phylum Apicomplexa, which contains numerous animal and human pathogens. T.gondii is amenable to cellular, biochemical, molecular and...
The transcriptome of Toxoplasma gondii
Radke, Jay R, Behnke, Michael S, Mackey, Aaron J, Radke, Josh B, Roos, David S, White, Michael W
OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups
Chen, Feng, Mackey, Aaron J., Stoeckert, Christian J., Roos, David S.
The OrthoMCL database () houses ortholog group predictions for 55 species, including 16 bacterial and 4 archaeal genomes representing phylogenetically diverse lineages, and most currently available...
Cytoskeletal Components of an Invasion Machine—The Apical Complex of Toxoplasma gondii
Hu, Ke, Johnson, Jeff, Florens, Laurence, Fraunholz, Martin, Suravajjala, Sapna, DiLullo, Camille, ...
The apical complex of Toxoplasma gondii is widely believed to serve essential functions in both invasion of its host cells (including human cells), and in replication of the parasite. The...
Boyle, Jon P., Rajasekar, Badri, Saeij, Jeroen P. J., Ajioka, James W., Berriman, Matthew, Paulsen, Ian, ...
Toxoplasma gondii, an obligate intracellular protozoan of the phylum Apicomplexa, is estimated to infect over a billion people worldwide as well as a great many other mammalian and avian hosts....
ApiDB: integrated resources for the apicomplexan bioinformatics resource center
Aurrecoechea, Cristina, Heiges, Mark, Wang, Haiming, Wang, Zhiming, Fischer, Steve, Rhodes, Philippa, ...
ApiDB () represents a unified entry point for the NIH-funded Apicomplexan Bioinformatics Resource Center (BRC) that integrates numerous database resources and multiple data types. The phylum...
Common inheritance of chromosome Ia associated with clonal expansion of Toxoplasma gondii
Khan, Asis, Böhme, Ulrike, Kelly, Krystyna A., Adlem, Ellen, Brooks, Karen, Simmonds, Mark, ...
Toxoplasma gondii is a globally distributed protozoan parasite that can infect virtually all warm-blooded animals and humans. Despite the existence of a sexual phase in the life cycle, T. gondii has...
Mining the Plasmodium genome database to define organellar function: what does the apicoplast do?
Roos, David S, Crawford, Michael J, Donald, Robert G K, Fraunholz, Martin, Harb, Omar S, He, Cynthia Y, ...
Apicomplexan species constitute a diverse group of parasitic protozoa, which are responsible for a wide range of diseases in many organisms. Despite differences in the diseases they cause, these...
Creating a honey bee consensus gene set
Elsik, Christine G, Mackey, Aaron J, Reese, Justin T, Milshina, Natalia V, Roos, David S, Weinstock, George M
A high-quality consensus gene set for the honey bee (Apis mellifera) created using a new algorithm (GLEAN) is described.
Assessing Performance of Orthology Detection Strategies Applied to Eukaryotic Genomes
Chen, Feng, Mackey, Aaron J., Vermunt, Jeroen K., Roos, David S.
Orthology detection is critically important for accurate functional annotation, and has been widely used to facilitate studies on comparative and evolutionary genomics. Although various methods are...
Toxoplasma gondii scavenges host-derived lipoic acid despite its de novo synthesis in the apicoplast
Crawford, Michael J, Thomsen-Zieger, Nadine, Ray, Manisha, Schachtner, Joachim, Roos, David S, Seeber, Frank
In contrast to other eukaryotes, which manufacture lipoic acid, an essential cofactor for several vital dehydrogenase complexes, within the mitochondrion, we show that the plastid (apicoplast) of the...
ToxoDB: an integrated Toxoplasma gondii database resource
Gajria, Bindu, Bahl, Amit, Brestelli, John, Dommer, Jennifer, Fischer, Steve, Gao, Xin, ...
ToxoDB (http://ToxoDB.org) is a genome and functional genomic database for the protozoan parasite Toxoplasma gondii. It incorporates the sequence and annotation of the T. gondii ME49 strain, as well...
Dzierszinski, Florence, Pepper, Marion, Stumhofer, Jason S., LaRosa, David F., Wilson, Emma H., Turka, Laurence A., ...
Challenge with the intracellular protozoan parasite Toxoplasma gondii induces a potent CD8+ T-cell response that is required for resistance to infection, but many questions remain about the factors...
The Plastid of Toxoplasma gondii Is Divided by Association with the Centrosomes
Striepen, Boris, Crawford, Michael J., Shaw, Michael K., Tilney, Lewis G., Seeber, Frank, Roos, David S.
Apicomplexan parasites harbor a single nonphotosynthetic plastid, the apicoplast, which is essential for parasite survival. Exploiting Toxoplasma gondii as an accessible system for cell biological...
A novel polymer of tubulin forms the conoid of Toxoplasma gondii
Hu, Ke, Roos, David S., Murray, John M.
Toxoplasma gondii is an obligatory intracellular parasite, an important human pathogen, and a convenient laboratory model for many other human and veterinary pathogens in the phylum Apicomplexa, such...
Secretory traffic in the eukaryotic parasite Toxoplasma gondii: less is more
Joiner, Keith A., Roos, David S.
Name a single-celled eukaryote that boasts a small genome size, is easily cultivated in haploid form, for which a wide variety of molecular genetic tools are available, and that exhibits a simple,...