Search

Your search keyword '"Obornik, M"' showing total 14 results
Start Over Author "Obornik, M" Database OAIster
14 results on '"Obornik, M"'

1. The cell wall polysaccharides of a photosynthetic relative of apicomplexans, Chromera velia

Author

Kroth, P, Tortorelli, G, Pettolino, F, Lai, D-H, Tomcala, A, Bacic, A, Obornik, M, Lukes, J, McFadden, G, Kroth, P, Tortorelli, G, Pettolino, F, Lai, D-H, Tomcala, A, Bacic, A, Obornik, M, Lukes, J, and McFadden, G

Abstract

Chromerids are a group of alveolates, found in corals, that show peculiar morphological and genomic features. These organisms are evolutionary placed in-between symbiotic dinoflagellates and parasitic apicomplexans. There are two known species of chromerids: Chromera velia and Vitrella brassicaformis. Here, the biochemical composition of the C. velia cell wall was analyzed. Several polysaccharides adorn this structure, with glucose being the most abundant monosaccharide (approx. 80%) and predominantly 4-linked (approx. 60%), suggesting that the chromerids cell wall is mostly cellulosic. The presence of cellulose was cytochemically confirmed with calcofluor white staining of the algal cell. The remaining wall polysaccharides, assuming structures are similar to those of higher plants, are indicative of a mixture of galactans, xyloglucans, heteroxylans, and heteromannans. The present work provides, for the first time, insights into the outermost layers of the photosynthetic alveolate C. velia.

Published
2021

2. Chromerid genomes reveal the evolutionary path from photosynthetic algae to obligate intracellular parasites

Author

Woo, YH, Ansari, H, Otto, TD, Klinger, CM, Kolisko, M, Michalek, J, Saxena, A, Shanmugam, D, Tayyrov, A, Veluchamy, A, Ali, S, Bernal, A, del Campo, J, Cihlar, J, Flegontov, P, Gornik, SG, Hajduskova, E, Horak, A, Janouskovec, J, Katris, NJ, Mast, FD, Miranda-Saavedra, D, Mourier, T, Naeem, R, Nair, M, Panigrahi, AK, Rawlings, ND, Padron-Regalado, E, Ramaprasad, A, Samad, N, Tomcala, A, Wilkes, J, Neafsey, DE, Doerig, C, Bowler, C, Keeling, PJ, Roos, DS, Dacks, JB, Templeton, TJ, Waller, RF, Lukes, J, Obornik, M, Pain, A, Woo, YH, Ansari, H, Otto, TD, Klinger, CM, Kolisko, M, Michalek, J, Saxena, A, Shanmugam, D, Tayyrov, A, Veluchamy, A, Ali, S, Bernal, A, del Campo, J, Cihlar, J, Flegontov, P, Gornik, SG, Hajduskova, E, Horak, A, Janouskovec, J, Katris, NJ, Mast, FD, Miranda-Saavedra, D, Mourier, T, Naeem, R, Nair, M, Panigrahi, AK, Rawlings, ND, Padron-Regalado, E, Ramaprasad, A, Samad, N, Tomcala, A, Wilkes, J, Neafsey, DE, Doerig, C, Bowler, C, Keeling, PJ, Roos, DS, Dacks, JB, Templeton, TJ, Waller, RF, Lukes, J, Obornik, M, and Pain, A

Abstract

The eukaryotic phylum Apicomplexa encompasses thousands of obligate intracellular parasites of humans and animals with immense socio-economic and health impacts. We sequenced nuclear genomes of Chromera velia and Vitrella brassicaformis, free-living non-parasitic photosynthetic algae closely related to apicomplexans. Proteins from key metabolic pathways and from the endomembrane trafficking systems associated with a free-living lifestyle have been progressively and non-randomly lost during adaptation to parasitism. The free-living ancestor contained a broad repertoire of genes many of which were repurposed for parasitic processes, such as extracellular proteins, components of a motility apparatus, and DNA- and RNA-binding protein families. Based on transcriptome analyses across 36 environmental conditions, Chromera orthologs of apicomplexan invasion-related motility genes were co-regulated with genes encoding the flagellar apparatus, supporting the functional contribution of flagella to the evolution of invasion machinery. This study provides insights into how obligate parasites with diverse life strategies arose from a once free-living phototrophic marine alga.

Published
2015

3. The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Bowler, C, Allen, A, Badger, J, Grimwood, J, Jabbari, K, Kuo, A, Maheswari, U, Martens, C, Maumus, F, Otillar, R, Rayko, E, Salamov, A, Vandepoele, K, Beszteri, B, Gruber, A, Heijde, M, Katinka, M, Mock, T, Valentin, K, Verret, F, Berges, J, Brownlee, C, Cadoret, Jean-paul, Chiovitti, A, Choi, C, Coesel, S, De Martino, A, Detter, J, Durkin, C, Falciatore, A, Fournet, J, Haruta, M, Huysman, M, Jenkins, B, Jiroutova, K, Jorgensen, R, Joubert, Y, Kaplan, A, Kroger, N, Kroth, P, La Roche, J, Lindquist, E, Lommer, M, Martin Jezequel, V, Lopez, P, Lucas, S, Mangogna, M, Mcginnis, K, Medlin, L, Montsant, A, Oudot Le Secq, M, Napoli, C, Obornik, M, Parker, M, Petit, J, Porcel, B, Poulsen, N, Robison, M, Rychlewski, L, Rynearson, T, Schmutz, J, Shapiro, H, Siaut, M, Stanley, M, Sussman, M, Taylor, A, Vardi, A, Von Dassow, P, Vyverman, W, Willis, A, Wyrwicz, L, Rokhsar, D, Weissenbach, J, Armbrust, E, Green, B, Van De Peer, Y, Grigoriev Iv, Bowler, C, Allen, A, Badger, J, Grimwood, J, Jabbari, K, Kuo, A, Maheswari, U, Martens, C, Maumus, F, Otillar, R, Rayko, E, Salamov, A, Vandepoele, K, Beszteri, B, Gruber, A, Heijde, M, Katinka, M, Mock, T, Valentin, K, Verret, F, Berges, J, Brownlee, C, Cadoret, Jean-paul, Chiovitti, A, Choi, C, Coesel, S, De Martino, A, Detter, J, Durkin, C, Falciatore, A, Fournet, J, Haruta, M, Huysman, M, Jenkins, B, Jiroutova, K, Jorgensen, R, Joubert, Y, Kaplan, A, Kroger, N, Kroth, P, La Roche, J, Lindquist, E, Lommer, M, Martin Jezequel, V, Lopez, P, Lucas, S, Mangogna, M, Mcginnis, K, Medlin, L, Montsant, A, Oudot Le Secq, M, Napoli, C, Obornik, M, Parker, M, Petit, J, Porcel, B, Poulsen, N, Robison, M, Rychlewski, L, Rynearson, T, Schmutz, J, Shapiro, H, Siaut, M, Stanley, M, Sussman, M, Taylor, A, Vardi, A, Von Dassow, P, Vyverman, W, Willis, A, Wyrwicz, L, Rokhsar, D, Weissenbach, J, Armbrust, E, Green, B, Van De Peer, Y, and Grigoriev Iv

Abstract

Diatoms are photosynthetic secondary endosymbionts found throughout marine and freshwater environments, and are believed to be responsible for around one- fifth of the primary productivity on Earth(1,2). The genome sequence of the marine centric diatom Thalassiosira pseudonana was recently reported, revealing a wealth of information about diatom biology(3-5). Here we report the complete genome sequence of the pennate diatom Phaeodactylum tricornutum and compare it with that of T. pseudonana to clarify evolutionary origins, functional significance and ubiquity of these features throughout diatoms. In spite of the fact that the pennate and centric lineages have only been diverging for 90 million years, their genome structures are dramatically different and a substantial fraction of genes (similar to 40%) are not shared by these representatives of the two lineages. Analysis of molecular divergence compared with yeasts and metazoans reveals rapid rates of gene diversification in diatoms. Contributing factors include selective gene family expansions, differential losses and gains of genes and introns, and differential mobilization of transposable elements. Most significantly, we document the presence of hundreds of genes from bacteria. More than 300 of these gene transfers are found in both diatoms, attesting to their ancient origins, and many are likely to provide novel possibilities for metabolite management and for perception of environmental signals. These findings go a long way towards explaining the incredible diversity and success of the diatoms in contemporary oceans.

Published
2008
Full Text
View/download PDF

4. The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Bowler, C, Allen, A, Badger, J, Grimwood, J, Jabbari, K, Kuo, A, Maheswari, U, Martens, C, Maumus, F, Otillar, R, Rayko, E, Salamov, A, Vandepoele, K, Beszteri, B, Gruber, A, Heijde, M, Katinka, M, Mock, T, Valentin, K, Verret, F, Berges, J, Brownlee, C, Cadoret, Jean-paul, Chiovitti, A, Choi, C, Coesel, S, De Martino, A, Detter, J, Durkin, C, Falciatore, A, Fournet, J, Haruta, M, Huysman, M, Jenkins, B, Jiroutova, K, Jorgensen, R, Joubert, Y, Kaplan, A, Kroger, N, Kroth, P, La Roche, J, Lindquist, E, Lommer, M, Martin Jezequel, V, Lopez, P, Lucas, S, Mangogna, M, Mcginnis, K, Medlin, L, Montsant, A, Oudot Le Secq, M, Napoli, C, Obornik, M, Parker, M, Petit, J, Porcel, B, Poulsen, N, Robison, M, Rychlewski, L, Rynearson, T, Schmutz, J, Shapiro, H, Siaut, M, Stanley, M, Sussman, M, Taylor, A, Vardi, A, Von Dassow, P, Vyverman, W, Willis, A, Wyrwicz, L, Rokhsar, D, Weissenbach, J, Armbrust, E, Green, B, Van De Peer, Y, Grigoriev Iv, Bowler, C, Allen, A, Badger, J, Grimwood, J, Jabbari, K, Kuo, A, Maheswari, U, Martens, C, Maumus, F, Otillar, R, Rayko, E, Salamov, A, Vandepoele, K, Beszteri, B, Gruber, A, Heijde, M, Katinka, M, Mock, T, Valentin, K, Verret, F, Berges, J, Brownlee, C, Cadoret, Jean-paul, Chiovitti, A, Choi, C, Coesel, S, De Martino, A, Detter, J, Durkin, C, Falciatore, A, Fournet, J, Haruta, M, Huysman, M, Jenkins, B, Jiroutova, K, Jorgensen, R, Joubert, Y, Kaplan, A, Kroger, N, Kroth, P, La Roche, J, Lindquist, E, Lommer, M, Martin Jezequel, V, Lopez, P, Lucas, S, Mangogna, M, Mcginnis, K, Medlin, L, Montsant, A, Oudot Le Secq, M, Napoli, C, Obornik, M, Parker, M, Petit, J, Porcel, B, Poulsen, N, Robison, M, Rychlewski, L, Rynearson, T, Schmutz, J, Shapiro, H, Siaut, M, Stanley, M, Sussman, M, Taylor, A, Vardi, A, Von Dassow, P, Vyverman, W, Willis, A, Wyrwicz, L, Rokhsar, D, Weissenbach, J, Armbrust, E, Green, B, Van De Peer, Y, and Grigoriev Iv

Abstract

Diatoms are photosynthetic secondary endosymbionts found throughout marine and freshwater environments, and are believed to be responsible for around one- fifth of the primary productivity on Earth(1,2). The genome sequence of the marine centric diatom Thalassiosira pseudonana was recently reported, revealing a wealth of information about diatom biology(3-5). Here we report the complete genome sequence of the pennate diatom Phaeodactylum tricornutum and compare it with that of T. pseudonana to clarify evolutionary origins, functional significance and ubiquity of these features throughout diatoms. In spite of the fact that the pennate and centric lineages have only been diverging for 90 million years, their genome structures are dramatically different and a substantial fraction of genes (similar to 40%) are not shared by these representatives of the two lineages. Analysis of molecular divergence compared with yeasts and metazoans reveals rapid rates of gene diversification in diatoms. Contributing factors include selective gene family expansions, differential losses and gains of genes and introns, and differential mobilization of transposable elements. Most significantly, we document the presence of hundreds of genes from bacteria. More than 300 of these gene transfers are found in both diatoms, attesting to their ancient origins, and many are likely to provide novel possibilities for metabolite management and for perception of environmental signals. These findings go a long way towards explaining the incredible diversity and success of the diatoms in contemporary oceans.

Published
2008
Full Text
View/download PDF

5. The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Cadoret, J.-P., Bowler, C., Allan, A. E., Badger, J. H., Grimwood, J., Jabbari, K., Kuo, A., Maheshwari, U., Martens, C., Maumus, F., Otillar, R. P., Rayko, E., Salamov, A., Vandepoele, K., Beszeri, B., Gruber, A., Heijde, M., Katinka, M., Mock, Thomas, Valentin, Klaus-Ulrich, Verret, F., Berges, J. A., Brownlee, C., Chiovitti, A., Jae Choi, C., Coesel, S., De Martino, A., Detter, J. C., Durkin, C., Falciatore, A., Fournet, J., Haruta, M., Huysman, M. J. J., Jenkins, B. D., Jiroutova, K., Jorgensen, R. E., Joubert, Y., Kaplan, A., Kröger, N., Kroth, P. G., La Roche, J., Lindquiste, E., Lommer, M., Martin-Jézéquel, V., Lopez, P. J., Lucas, S., Mangogna, M., McGinnis, K., Medlin, Linda, Monsant, A., Oudot-Le Secq, M.-P., Napoli, C., Obornik, M., Petit, J.-L., Porcel, B. M., Poulsen, N., Robison, M., Rychlewski, L., Rynearson, T. A., Schmutz, J., Schnitzler Parker, M., Shapiro, H., Siaur, M., Stanley, M., Sussman, M. J., Taylor, A. R., Vardi, A., von Dassow, P., Vyverman, W., Willis, A., Wyrwicz, L. S., Rokhsar, D. S., Weissenbach, J., Armbrust, E. V., Green, B. R., Van de Peer, Y., Grigoriev, I. V., Cadoret, J.-P., Bowler, C., Allan, A. E., Badger, J. H., Grimwood, J., Jabbari, K., Kuo, A., Maheshwari, U., Martens, C., Maumus, F., Otillar, R. P., Rayko, E., Salamov, A., Vandepoele, K., Beszeri, B., Gruber, A., Heijde, M., Katinka, M., Mock, Thomas, Valentin, Klaus-Ulrich, Verret, F., Berges, J. A., Brownlee, C., Chiovitti, A., Jae Choi, C., Coesel, S., De Martino, A., Detter, J. C., Durkin, C., Falciatore, A., Fournet, J., Haruta, M., Huysman, M. J. J., Jenkins, B. D., Jiroutova, K., Jorgensen, R. E., Joubert, Y., Kaplan, A., Kröger, N., Kroth, P. G., La Roche, J., Lindquiste, E., Lommer, M., Martin-Jézéquel, V., Lopez, P. J., Lucas, S., Mangogna, M., McGinnis, K., Medlin, Linda, Monsant, A., Oudot-Le Secq, M.-P., Napoli, C., Obornik, M., Petit, J.-L., Porcel, B. M., Poulsen, N., Robison, M., Rychlewski, L., Rynearson, T. A., Schmutz, J., Schnitzler Parker, M., Shapiro, H., Siaur, M., Stanley, M., Sussman, M. J., Taylor, A. R., Vardi, A., von Dassow, P., Vyverman, W., Willis, A., Wyrwicz, L. S., Rokhsar, D. S., Weissenbach, J., Armbrust, E. V., Green, B. R., Van de Peer, Y., and Grigoriev, I. V.

Published
2008

6. The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Bowler, C, Allen, A, Badger, J, Grimwood, J, Jabbari, K, Kuo, A, Maheswari, U, Martens, C, Maumus, F, Otillar, R, Rayko, E, Salamov, A, Vandepoele, K, Beszteri, B, Gruber, A, Heijde, M, Katinka, M, Mock, T, Valentin, K, Verret, F, Berges, J, Brownlee, C, Cadoret, Jean-paul, Chiovitti, A, Choi, C, Coesel, S, De Martino, A, Detter, J, Durkin, C, Falciatore, A, Fournet, J, Haruta, M, Huysman, M, Jenkins, B, Jiroutova, K, Jorgensen, R, Joubert, Y, Kaplan, A, Kroger, N, Kroth, P, La Roche, J, Lindquist, E, Lommer, M, Martin Jezequel, V, Lopez, P, Lucas, S, Mangogna, M, Mcginnis, K, Medlin, L, Montsant, A, Oudot Le Secq, M, Napoli, C, Obornik, M, Parker, M, Petit, J, Porcel, B, Poulsen, N, Robison, M, Rychlewski, L, Rynearson, T, Schmutz, J, Shapiro, H, Siaut, M, Stanley, M, Sussman, M, Taylor, A, Vardi, A, Von Dassow, P, Vyverman, W, Willis, A, Wyrwicz, L, Rokhsar, D, Weissenbach, J, Armbrust, E, Green, B, Van De Peer, Y, Grigoriev Iv, Bowler, C, Allen, A, Badger, J, Grimwood, J, Jabbari, K, Kuo, A, Maheswari, U, Martens, C, Maumus, F, Otillar, R, Rayko, E, Salamov, A, Vandepoele, K, Beszteri, B, Gruber, A, Heijde, M, Katinka, M, Mock, T, Valentin, K, Verret, F, Berges, J, Brownlee, C, Cadoret, Jean-paul, Chiovitti, A, Choi, C, Coesel, S, De Martino, A, Detter, J, Durkin, C, Falciatore, A, Fournet, J, Haruta, M, Huysman, M, Jenkins, B, Jiroutova, K, Jorgensen, R, Joubert, Y, Kaplan, A, Kroger, N, Kroth, P, La Roche, J, Lindquist, E, Lommer, M, Martin Jezequel, V, Lopez, P, Lucas, S, Mangogna, M, Mcginnis, K, Medlin, L, Montsant, A, Oudot Le Secq, M, Napoli, C, Obornik, M, Parker, M, Petit, J, Porcel, B, Poulsen, N, Robison, M, Rychlewski, L, Rynearson, T, Schmutz, J, Shapiro, H, Siaut, M, Stanley, M, Sussman, M, Taylor, A, Vardi, A, Von Dassow, P, Vyverman, W, Willis, A, Wyrwicz, L, Rokhsar, D, Weissenbach, J, Armbrust, E, Green, B, Van De Peer, Y, and Grigoriev Iv

Abstract

Diatoms are photosynthetic secondary endosymbionts found throughout marine and freshwater environments, and are believed to be responsible for around one- fifth of the primary productivity on Earth(1,2). The genome sequence of the marine centric diatom Thalassiosira pseudonana was recently reported, revealing a wealth of information about diatom biology(3-5). Here we report the complete genome sequence of the pennate diatom Phaeodactylum tricornutum and compare it with that of T. pseudonana to clarify evolutionary origins, functional significance and ubiquity of these features throughout diatoms. In spite of the fact that the pennate and centric lineages have only been diverging for 90 million years, their genome structures are dramatically different and a substantial fraction of genes (similar to 40%) are not shared by these representatives of the two lineages. Analysis of molecular divergence compared with yeasts and metazoans reveals rapid rates of gene diversification in diatoms. Contributing factors include selective gene family expansions, differential losses and gains of genes and introns, and differential mobilization of transposable elements. Most significantly, we document the presence of hundreds of genes from bacteria. More than 300 of these gene transfers are found in both diatoms, attesting to their ancient origins, and many are likely to provide novel possibilities for metabolite management and for perception of environmental signals. These findings go a long way towards explaining the incredible diversity and success of the diatoms in contemporary oceans.

Published
2008
Full Text
View/download PDF

7. The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Cadoret, J.-P., Bowler, C., Allan, A. E., Badger, J. H., Grimwood, J., Jabbari, K., Kuo, A., Maheshwari, U., Martens, C., Maumus, F., Otillar, R. P., Rayko, E., Salamov, A., Vandepoele, K., Beszeri, B., Gruber, A., Heijde, M., Katinka, M., Mock, Thomas, Valentin, Klaus-Ulrich, Verret, F., Berges, J. A., Brownlee, C., Chiovitti, A., Jae Choi, C., Coesel, S., De Martino, A., Detter, J. C., Durkin, C., Falciatore, A., Fournet, J., Haruta, M., Huysman, M. J. J., Jenkins, B. D., Jiroutova, K., Jorgensen, R. E., Joubert, Y., Kaplan, A., Kröger, N., Kroth, P. G., La Roche, J., Lindquiste, E., Lommer, M., Martin-Jézéquel, V., Lopez, P. J., Lucas, S., Mangogna, M., McGinnis, K., Medlin, Linda, Monsant, A., Oudot-Le Secq, M.-P., Napoli, C., Obornik, M., Petit, J.-L., Porcel, B. M., Poulsen, N., Robison, M., Rychlewski, L., Rynearson, T. A., Schmutz, J., Schnitzler Parker, M., Shapiro, H., Siaur, M., Stanley, M., Sussman, M. J., Taylor, A. R., Vardi, A., von Dassow, P., Vyverman, W., Willis, A., Wyrwicz, L. S., Rokhsar, D. S., Weissenbach, J., Armbrust, E. V., Green, B. R., Van de Peer, Y., Grigoriev, I. V., Cadoret, J.-P., Bowler, C., Allan, A. E., Badger, J. H., Grimwood, J., Jabbari, K., Kuo, A., Maheshwari, U., Martens, C., Maumus, F., Otillar, R. P., Rayko, E., Salamov, A., Vandepoele, K., Beszeri, B., Gruber, A., Heijde, M., Katinka, M., Mock, Thomas, Valentin, Klaus-Ulrich, Verret, F., Berges, J. A., Brownlee, C., Chiovitti, A., Jae Choi, C., Coesel, S., De Martino, A., Detter, J. C., Durkin, C., Falciatore, A., Fournet, J., Haruta, M., Huysman, M. J. J., Jenkins, B. D., Jiroutova, K., Jorgensen, R. E., Joubert, Y., Kaplan, A., Kröger, N., Kroth, P. G., La Roche, J., Lindquiste, E., Lommer, M., Martin-Jézéquel, V., Lopez, P. J., Lucas, S., Mangogna, M., McGinnis, K., Medlin, Linda, Monsant, A., Oudot-Le Secq, M.-P., Napoli, C., Obornik, M., Petit, J.-L., Porcel, B. M., Poulsen, N., Robison, M., Rychlewski, L., Rynearson, T. A., Schmutz, J., Schnitzler Parker, M., Shapiro, H., Siaur, M., Stanley, M., Sussman, M. J., Taylor, A. R., Vardi, A., von Dassow, P., Vyverman, W., Willis, A., Wyrwicz, L. S., Rokhsar, D. S., Weissenbach, J., Armbrust, E. V., Green, B. R., Van de Peer, Y., and Grigoriev, I. V.

Published
2008

8. The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Bowler, C, Allen, A, Badger, J, Grimwood, J, Jabbari, K, Kuo, A, Maheswari, U, Martens, C, Maumus, F, Otillar, R, Rayko, E, Salamov, A, Vandepoele, K, Beszteri, B, Gruber, A, Heijde, M, Katinka, M, Mock, T, Valentin, K, Verret, F, Berges, J, Brownlee, C, Cadoret, Jean-paul, Chiovitti, A, Choi, C, Coesel, S, De Martino, A, Detter, J, Durkin, C, Falciatore, A, Fournet, J, Haruta, M, Huysman, M, Jenkins, B, Jiroutova, K, Jorgensen, R, Joubert, Y, Kaplan, A, Kroger, N, Kroth, P, La Roche, J, Lindquist, E, Lommer, M, Martin Jezequel, V, Lopez, P, Lucas, S, Mangogna, M, Mcginnis, K, Medlin, L, Montsant, A, Oudot Le Secq, M, Napoli, C, Obornik, M, Parker, M, Petit, J, Porcel, B, Poulsen, N, Robison, M, Rychlewski, L, Rynearson, T, Schmutz, J, Shapiro, H, Siaut, M, Stanley, M, Sussman, M, Taylor, A, Vardi, A, Von Dassow, P, Vyverman, W, Willis, A, Wyrwicz, L, Rokhsar, D, Weissenbach, J, Armbrust, E, Green, B, Van De Peer, Y, Grigoriev Iv, Bowler, C, Allen, A, Badger, J, Grimwood, J, Jabbari, K, Kuo, A, Maheswari, U, Martens, C, Maumus, F, Otillar, R, Rayko, E, Salamov, A, Vandepoele, K, Beszteri, B, Gruber, A, Heijde, M, Katinka, M, Mock, T, Valentin, K, Verret, F, Berges, J, Brownlee, C, Cadoret, Jean-paul, Chiovitti, A, Choi, C, Coesel, S, De Martino, A, Detter, J, Durkin, C, Falciatore, A, Fournet, J, Haruta, M, Huysman, M, Jenkins, B, Jiroutova, K, Jorgensen, R, Joubert, Y, Kaplan, A, Kroger, N, Kroth, P, La Roche, J, Lindquist, E, Lommer, M, Martin Jezequel, V, Lopez, P, Lucas, S, Mangogna, M, Mcginnis, K, Medlin, L, Montsant, A, Oudot Le Secq, M, Napoli, C, Obornik, M, Parker, M, Petit, J, Porcel, B, Poulsen, N, Robison, M, Rychlewski, L, Rynearson, T, Schmutz, J, Shapiro, H, Siaut, M, Stanley, M, Sussman, M, Taylor, A, Vardi, A, Von Dassow, P, Vyverman, W, Willis, A, Wyrwicz, L, Rokhsar, D, Weissenbach, J, Armbrust, E, Green, B, Van De Peer, Y, and Grigoriev Iv

Abstract

Diatoms are photosynthetic secondary endosymbionts found throughout marine and freshwater environments, and are believed to be responsible for around one- fifth of the primary productivity on Earth(1,2). The genome sequence of the marine centric diatom Thalassiosira pseudonana was recently reported, revealing a wealth of information about diatom biology(3-5). Here we report the complete genome sequence of the pennate diatom Phaeodactylum tricornutum and compare it with that of T. pseudonana to clarify evolutionary origins, functional significance and ubiquity of these features throughout diatoms. In spite of the fact that the pennate and centric lineages have only been diverging for 90 million years, their genome structures are dramatically different and a substantial fraction of genes (similar to 40%) are not shared by these representatives of the two lineages. Analysis of molecular divergence compared with yeasts and metazoans reveals rapid rates of gene diversification in diatoms. Contributing factors include selective gene family expansions, differential losses and gains of genes and introns, and differential mobilization of transposable elements. Most significantly, we document the presence of hundreds of genes from bacteria. More than 300 of these gene transfers are found in both diatoms, attesting to their ancient origins, and many are likely to provide novel possibilities for metabolite management and for perception of environmental signals. These findings go a long way towards explaining the incredible diversity and success of the diatoms in contemporary oceans.

Published
2008
Full Text
View/download PDF

9. The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Bowler, C., Allen, A.E., Badger, J.H., Grimwood, J., Jabbari, K., Kup, A., Maheswari, U., Martens, C., Maumus, F., Ottilar, R.P., Rayko, E., Salamov, A., Vandepoele, K., Beszteri, B., Gruber, A., Heijde, M., Katinka, M., Mock, T., Valentin, K., Verret, F., Berges, J.A., Brownlee, C., Cadoret, J.-P., Chiovitti, A., Choi, C.J., Coesel, S., De Martino, A., Detter, J.C., Durkin, C., Falciatore, A., Fournet, J., Haruta, M., Huysmann, M., Jenkins, B.D., Jiroutova, K., Jorgensen, R.E., Joubert, Y., Kaplan, A., Kroeger, N., Kroth, P., LaRoche, Julie, Lindquist, E., Lommer, Markus, Martin-Jezequel, V., Lopez, P.J., Lucas, S., Mangogna, M., McGinnis, K., Medlin, L.K., Montsant, A., Oudot-Le Secq, M.-P., Napoli, C., Obornik, M., Petit, J.-L., Porcel, B.M., Poulsen, N., Robison, M., Rychlewski, L., Rynearson, T.A., Schmutz, J., Schnitzler Parker, M., Shapiro, H., Siaut, M., Stanley, M., Sussmann, M.J., Taylor, A., Vardi, A., von Dassow, P., Vyverman, W., Willis, A., Wyrwicz, L.S., Rokhsar, D.S., Weissenbach, J., Armbrust, E.V., Green, B.R., Van de Peer, Y., Grigoriev, I.V., Bowler, C., Allen, A.E., Badger, J.H., Grimwood, J., Jabbari, K., Kup, A., Maheswari, U., Martens, C., Maumus, F., Ottilar, R.P., Rayko, E., Salamov, A., Vandepoele, K., Beszteri, B., Gruber, A., Heijde, M., Katinka, M., Mock, T., Valentin, K., Verret, F., Berges, J.A., Brownlee, C., Cadoret, J.-P., Chiovitti, A., Choi, C.J., Coesel, S., De Martino, A., Detter, J.C., Durkin, C., Falciatore, A., Fournet, J., Haruta, M., Huysmann, M., Jenkins, B.D., Jiroutova, K., Jorgensen, R.E., Joubert, Y., Kaplan, A., Kroeger, N., Kroth, P., LaRoche, Julie, Lindquist, E., Lommer, Markus, Martin-Jezequel, V., Lopez, P.J., Lucas, S., Mangogna, M., McGinnis, K., Medlin, L.K., Montsant, A., Oudot-Le Secq, M.-P., Napoli, C., Obornik, M., Petit, J.-L., Porcel, B.M., Poulsen, N., Robison, M., Rychlewski, L., Rynearson, T.A., Schmutz, J., Schnitzler Parker, M., Shapiro, H., Siaut, M., Stanley, M., Sussmann, M.J., Taylor, A., Vardi, A., von Dassow, P., Vyverman, W., Willis, A., Wyrwicz, L.S., Rokhsar, D.S., Weissenbach, J., Armbrust, E.V., Green, B.R., Van de Peer, Y., and Grigoriev, I.V.

Abstract

Diatoms are photosynthetic secondary endosymbionts found throughout marine and freshwater environments, and are believed to be responsible for around one-fifth of the primary productivity on Earth1, 2. The genome sequence of the marine centric diatom Thalassiosira pseudonana was recently reported, revealing a wealth of information about diatom biology3, 4, 5. Here we report the complete genome sequence of the pennate diatom Phaeodactylum tricornutum and compare it with that of T. pseudonana to clarify evolutionary origins, functional significance and ubiquity of these features throughout diatoms. In spite of the fact that the pennate and centric lineages have only been diverging for 90 million years, their genome structures are dramatically different and a substantial fraction of genes (approx40%) are not shared by these representatives of the two lineages. Analysis of molecular divergence compared with yeasts and metazoans reveals rapid rates of gene diversification in diatoms. Contributing factors include selective gene family expansions, differential losses and gains of genes and introns, and differential mobilization of transposable elements. Most significantly, we document the presence of hundreds of genes from bacteria. More than 300 of these gene transfers are found in both diatoms, attesting to their ancient origins, and many are likely to provide novel possibilities for metabolite management and for perception of environmental signals. These findings go a long way towards explaining the incredible diversity and success of the diatoms in contemporary oceans.

Published
2008
Full Text
View/download PDF

10. The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Bowler, C., Allen, A.E., Badger, J.H., Grimwood, J., Jabbari, K., Kup, A., Maheswari, U., Martens, C., Maumus, F., Ottilar, R.P., Rayko, E., Salamov, A., Vandepoele, K., Beszteri, B., Gruber, A., Heijde, M., Katinka, M., Mock, T., Valentin, K., Verret, F., Berges, J.A., Brownlee, C., Cadoret, J.-P., Chiovitti, A., Choi, C.J., Coesel, S., De Martino, A., Detter, J.C., Durkin, C., Falciatore, A., Fournet, J., Haruta, M., Huysmann, M., Jenkins, B.D., Jiroutova, K., Jorgensen, R.E., Joubert, Y., Kaplan, A., Kroeger, N., Kroth, P., LaRoche, Julie, Lindquist, E., Lommer, Markus, Martin-Jezequel, V., Lopez, P.J., Lucas, S., Mangogna, M., McGinnis, K., Medlin, L.K., Montsant, A., Oudot-Le Secq, M.-P., Napoli, C., Obornik, M., Petit, J.-L., Porcel, B.M., Poulsen, N., Robison, M., Rychlewski, L., Rynearson, T.A., Schmutz, J., Schnitzler Parker, M., Shapiro, H., Siaut, M., Stanley, M., Sussmann, M.J., Taylor, A., Vardi, A., von Dassow, P., Vyverman, W., Willis, A., Wyrwicz, L.S., Rokhsar, D.S., Weissenbach, J., Armbrust, E.V., Green, B.R., Van de Peer, Y., Grigoriev, I.V., Bowler, C., Allen, A.E., Badger, J.H., Grimwood, J., Jabbari, K., Kup, A., Maheswari, U., Martens, C., Maumus, F., Ottilar, R.P., Rayko, E., Salamov, A., Vandepoele, K., Beszteri, B., Gruber, A., Heijde, M., Katinka, M., Mock, T., Valentin, K., Verret, F., Berges, J.A., Brownlee, C., Cadoret, J.-P., Chiovitti, A., Choi, C.J., Coesel, S., De Martino, A., Detter, J.C., Durkin, C., Falciatore, A., Fournet, J., Haruta, M., Huysmann, M., Jenkins, B.D., Jiroutova, K., Jorgensen, R.E., Joubert, Y., Kaplan, A., Kroeger, N., Kroth, P., LaRoche, Julie, Lindquist, E., Lommer, Markus, Martin-Jezequel, V., Lopez, P.J., Lucas, S., Mangogna, M., McGinnis, K., Medlin, L.K., Montsant, A., Oudot-Le Secq, M.-P., Napoli, C., Obornik, M., Petit, J.-L., Porcel, B.M., Poulsen, N., Robison, M., Rychlewski, L., Rynearson, T.A., Schmutz, J., Schnitzler Parker, M., Shapiro, H., Siaut, M., Stanley, M., Sussmann, M.J., Taylor, A., Vardi, A., von Dassow, P., Vyverman, W., Willis, A., Wyrwicz, L.S., Rokhsar, D.S., Weissenbach, J., Armbrust, E.V., Green, B.R., Van de Peer, Y., and Grigoriev, I.V.

Abstract

Diatoms are photosynthetic secondary endosymbionts found throughout marine and freshwater environments, and are believed to be responsible for around one-fifth of the primary productivity on Earth1, 2. The genome sequence of the marine centric diatom Thalassiosira pseudonana was recently reported, revealing a wealth of information about diatom biology3, 4, 5. Here we report the complete genome sequence of the pennate diatom Phaeodactylum tricornutum and compare it with that of T. pseudonana to clarify evolutionary origins, functional significance and ubiquity of these features throughout diatoms. In spite of the fact that the pennate and centric lineages have only been diverging for 90 million years, their genome structures are dramatically different and a substantial fraction of genes (approx40%) are not shared by these representatives of the two lineages. Analysis of molecular divergence compared with yeasts and metazoans reveals rapid rates of gene diversification in diatoms. Contributing factors include selective gene family expansions, differential losses and gains of genes and introns, and differential mobilization of transposable elements. Most significantly, we document the presence of hundreds of genes from bacteria. More than 300 of these gene transfers are found in both diatoms, attesting to their ancient origins, and many are likely to provide novel possibilities for metabolite management and for perception of environmental signals. These findings go a long way towards explaining the incredible diversity and success of the diatoms in contemporary oceans.

Published
2008
Full Text
View/download PDF

11. The genome of the diatom Thalassiosira pseudonana: Ecology, evolution, and metabolism

Author

Ambrust, E.V., Ambrust, E.V., Berges, J., Bowler, C., Green, B., Martinez, D., Putnam, N., Zhou, S., Allen, A., Apt, K., Bechner, M., Brzezinski, M., Chaal, B., Chiovitti, A., Davis, A., Goodstein, D., Hadi, M., Hellsten, U., Hildebrand, M., Jenkins, B., Jurka, J., Kapitonov, V., Kroger, N., Lau, W., Lane, T., Larimer, F., Lippmeier, J., Lucas, S., Medina, M., Montsant, A., Obornik, M., Parker, M. Schnitzler, Palenik, B., Pazour, G., Richardson, P., Rynearson, T., Saito, M., Schwartz, D., Thamatrakoln, K., Valentin, K., Vardi, A., Wilkerson, F., Rokhsar, D., Wilkerson, F.P., Rokhsar, D.S., Ambrust, E.V., Ambrust, E.V., Berges, J., Bowler, C., Green, B., Martinez, D., Putnam, N., Zhou, S., Allen, A., Apt, K., Bechner, M., Brzezinski, M., Chaal, B., Chiovitti, A., Davis, A., Goodstein, D., Hadi, M., Hellsten, U., Hildebrand, M., Jenkins, B., Jurka, J., Kapitonov, V., Kroger, N., Lau, W., Lane, T., Larimer, F., Lippmeier, J., Lucas, S., Medina, M., Montsant, A., Obornik, M., Parker, M. Schnitzler, Palenik, B., Pazour, G., Richardson, P., Rynearson, T., Saito, M., Schwartz, D., Thamatrakoln, K., Valentin, K., Vardi, A., Wilkerson, F., Rokhsar, D., Wilkerson, F.P., and Rokhsar, D.S.

Published
2004

12. The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism

Author

Armbrust, E. V., Berges, J. A., Bowler, C., Green, B. R., Martinez, D., Putnam, N. H., Zhou, S., Allen, A. E., Apt, K. E., Bechner, M., Brzezinski, M. A., Chaal, B. K., Chiovitti, A., Davis, A. K., Demarest, M. S., Detter, J. C., Glavina, T., Goodstein, D., Hadi, M. Z., Hellsten, U., Hildebrand, M., Jenkins, B. D., Jurka, J., Kapitonov, V. V., Kroeger, N., Lau, W. W., Lane, T. W., Larimer, F. W., Lippmeier, J. C., Lucas, S., Medina, M., Montsant, A., Obornik, M., Parker, M. S., Palenik, B., Pazour, G. J., Richardson, P. M., Rynearson, T. A., Saito, M. A., Schwartz, D. C., Thamatrakoln, K., Valentin, Klaus-Ulrich, Vardi, A., Wilkerson, F. P., Rokhsar, D. S., Armbrust, E. V., Berges, J. A., Bowler, C., Green, B. R., Martinez, D., Putnam, N. H., Zhou, S., Allen, A. E., Apt, K. E., Bechner, M., Brzezinski, M. A., Chaal, B. K., Chiovitti, A., Davis, A. K., Demarest, M. S., Detter, J. C., Glavina, T., Goodstein, D., Hadi, M. Z., Hellsten, U., Hildebrand, M., Jenkins, B. D., Jurka, J., Kapitonov, V. V., Kroeger, N., Lau, W. W., Lane, T. W., Larimer, F. W., Lippmeier, J. C., Lucas, S., Medina, M., Montsant, A., Obornik, M., Parker, M. S., Palenik, B., Pazour, G. J., Richardson, P. M., Rynearson, T. A., Saito, M. A., Schwartz, D. C., Thamatrakoln, K., Valentin, Klaus-Ulrich, Vardi, A., Wilkerson, F. P., and Rokhsar, D. S.

Published
2004

13. The genome of the diatom Thalassiosira pseudonana: Ecology, evolution, and metabolism

Author

Ambrust, E.V., Ambrust, E.V., Berges, J., Bowler, C., Green, B., Martinez, D., Putnam, N., Zhou, S., Allen, A., Apt, K., Bechner, M., Brzezinski, M., Chaal, B., Chiovitti, A., Davis, A., Goodstein, D., Hadi, M., Hellsten, U., Hildebrand, M., Jenkins, B., Jurka, J., Kapitonov, V., Kroger, N., Lau, W., Lane, T., Larimer, F., Lippmeier, J., Lucas, S., Medina, M., Montsant, A., Obornik, M., Parker, M. Schnitzler, Palenik, B., Pazour, G., Richardson, P., Rynearson, T., Saito, M., Schwartz, D., Thamatrakoln, K., Valentin, K., Vardi, A., Wilkerson, F., Rokhsar, D., Wilkerson, F.P., Rokhsar, D.S., Ambrust, E.V., Ambrust, E.V., Berges, J., Bowler, C., Green, B., Martinez, D., Putnam, N., Zhou, S., Allen, A., Apt, K., Bechner, M., Brzezinski, M., Chaal, B., Chiovitti, A., Davis, A., Goodstein, D., Hadi, M., Hellsten, U., Hildebrand, M., Jenkins, B., Jurka, J., Kapitonov, V., Kroger, N., Lau, W., Lane, T., Larimer, F., Lippmeier, J., Lucas, S., Medina, M., Montsant, A., Obornik, M., Parker, M. Schnitzler, Palenik, B., Pazour, G., Richardson, P., Rynearson, T., Saito, M., Schwartz, D., Thamatrakoln, K., Valentin, K., Vardi, A., Wilkerson, F., Rokhsar, D., Wilkerson, F.P., and Rokhsar, D.S.

Published
2004

14. The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism

Author

Armbrust, E. V., Berges, J. A., Bowler, C., Green, B. R., Martinez, D., Putnam, N. H., Zhou, S., Allen, A. E., Apt, K. E., Bechner, M., Brzezinski, M. A., Chaal, B. K., Chiovitti, A., Davis, A. K., Demarest, M. S., Detter, J. C., Glavina, T., Goodstein, D., Hadi, M. Z., Hellsten, U., Hildebrand, M., Jenkins, B. D., Jurka, J., Kapitonov, V. V., Kroeger, N., Lau, W. W., Lane, T. W., Larimer, F. W., Lippmeier, J. C., Lucas, S., Medina, M., Montsant, A., Obornik, M., Parker, M. S., Palenik, B., Pazour, G. J., Richardson, P. M., Rynearson, T. A., Saito, M. A., Schwartz, D. C., Thamatrakoln, K., Valentin, Klaus-Ulrich, Vardi, A., Wilkerson, F. P., Rokhsar, D. S., Armbrust, E. V., Berges, J. A., Bowler, C., Green, B. R., Martinez, D., Putnam, N. H., Zhou, S., Allen, A. E., Apt, K. E., Bechner, M., Brzezinski, M. A., Chaal, B. K., Chiovitti, A., Davis, A. K., Demarest, M. S., Detter, J. C., Glavina, T., Goodstein, D., Hadi, M. Z., Hellsten, U., Hildebrand, M., Jenkins, B. D., Jurka, J., Kapitonov, V. V., Kroeger, N., Lau, W. W., Lane, T. W., Larimer, F. W., Lippmeier, J. C., Lucas, S., Medina, M., Montsant, A., Obornik, M., Parker, M. S., Palenik, B., Pazour, G. J., Richardson, P. M., Rynearson, T. A., Saito, M. A., Schwartz, D. C., Thamatrakoln, K., Valentin, Klaus-Ulrich, Vardi, A., Wilkerson, F. P., and Rokhsar, D. S.

Published
2004

Catalog

Books, media, physical & digital resources
See catalog results