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2. Roadmap for naming uncultivated Archaea and Bacteria

Author

Murray, Alison E, Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T, Lane, Christopher E, Papke, R Thane, Parks, Donovan H, Rossello-Mora, Ramon, Stott, Matthew B, Sutcliffe, Iain C, Thrash, J Cameron, Venter, Stephanus N, Whitman, William B, Acinas, Silvia G, Amann, Rudolf I, Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J, Barco, Roman A, Bode, Helge B, Boyd, Eric S, Brady, Carrie L, Carini, Paul, Chain, Patrick SG, Colman, Daniel R, DeAngelis, Kristen M, de los Rios, Maria Asuncion, Estrada-de los Santos, Paulina, Dunlap, Christopher A, Eisen, Jonathan A, Emerson, David, Ettema, Thijs JG, Eveillard, Damien, Girguis, Peter R, Hentschel, Ute, Hollibaugh, James T, Hug, Laura A, Inskeep, William P, Ivanova, Elena P, Klenk, Hans-Peter, Li, Wen-Jun, Lloyd, Karen G, Löffler, Frank E, Makhalanyane, Thulani P, Moser, Duane P, Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedrós-Alió, Carlos, Probst, Alexander J, Smits, Theo HM, Steen, Andrew D, Steenkamp, Emma T, Spang, Anja, Stewart, Frank J, Tiedje, James M, Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Yarza, Pablo, Hedlund, Brian P, and Reysenbach, Anna-Louise

Subjects
Microbiology, Biological Sciences, Ecology, Archaea, Bacteria, DNA, Bacterial, Metagenome, Phylogeny, Prokaryotic Cells, Sequence Analysis, DNA, Terminology as Topic, Medical Microbiology
Abstract

The assembly of single-amplified genomes (SAGs) and metagenome-assembled genomes (MAGs) has led to a surge in genome-based discoveries of members affiliated with Archaea and Bacteria, bringing with it a need to develop guidelines for nomenclature of uncultivated microorganisms. The International Code of Nomenclature of Prokaryotes (ICNP) only recognizes cultures as 'type material', thereby preventing the naming of uncultivated organisms. In this Consensus Statement, we propose two potential paths to solve this nomenclatural conundrum. One option is the adoption of previously proposed modifications to the ICNP to recognize DNA sequences as acceptable type material; the other option creates a nomenclatural code for uncultivated Archaea and Bacteria that could eventually be merged with the ICNP in the future. Regardless of the path taken, we believe that action is needed now within the scientific community to develop consistent rules for nomenclature of uncultivated taxa in order to provide clarity and stability, and to effectively communicate microbial diversity.

Published
2020

3. A concept for international societally relevant microbiology education and microbiology knowledge promulgation in society

Author

Timmis, Kenneth N. [0000-0002-0066-4670], Hallsworth, John E. [0000-0001-6797-9362], McGenity, Terry J. [0000-0002-1497-8822], Armstrong, Rachel [0000-0002-3516-6815], Colom, María Francisca [0000-0002-8672-5429], Karahan, Z. Ceren [0000-0001-7727-3363], Chavarría, Max [0000-0001-5901-3576], Bernal, Patricia [0000-0002-6228-0496], Boyd, Eric S. [0000-0003-4436-5856], Ramos, Juan L. [0000-0002-8731-7435], Kaltenpoth, Martin [0000-0001-9450-0345], Pruzzo, Carla [0000-0002-1280-4677], Clarke, Gerard [0000-0001-9771-3979], López-García, Purificación [0000-0002-0927-0651], Yakimov, Michail M. [0000-0003-1418-363X], Perlmutter, Jessamyn [0000-0002-9789-4674], Greening, Chris [0000-0001-7616-0594], Eloe-Fadrosh, Emiley [0000-0002-8162-1276], Verstraete, Willy [0000-0002-3140-3713], Nunes, Olga [0000-0003-4742-2537], Kotsyurbenko, Oleg R. [0000-0002-4748-3017], Nikel, Pablo I. [0000-0002-9313-7481], Scavone, Paola [0000-0002-8840-3757], Häggblom, Max M. [0000-0001-6307-7863], Lavigne, Rob [0000-0001-7377-1314], Le Roux, Frédérique [0000-0002-9112-6199], Timmis, James Kenneth [0000-0002-7773-0859], Parro, Victor [0000-0003-3738-0724], Michán, Carmen [0000-0003-2921-0987], García, José Luis [0000-0002-9238-2485], Casadevall, A. [0000-0002-9402-9167], Payne, Shelley M. [0000-0003-3112-4340], Frey, Joachim [0000-0001-9133-0280], Koren, Omry [0000-0002-7738-1337], Prosser, James I. [0000-0003-1757-5102], Lal, Rup [0000-0001-8364-8547], Anand, S. [0000-0001-7852-3512], Sood, U [0000-0002-0886-0107], Offre, Pierre [0000-0002-3660-2164], Bryce, Casey C. [0000-0002-1132-5201], Mswaka, Allen Y. [0000-0003-4868-1530], Jores, Jörg [0000-0003-3790-5746], Kaçar, Betül [0000-0002-0482-2357], Blank, Lars M. [0000-0003-0961-4976], Pope, Phillip B. [0000-0002-2067-4059], Banciu, Horia L. [0000-0002-6563-3226], Armitage, Judith [0000-0003-4983-9731], Lee, Sang Yup [0000-0003-0599-3091], Wang, Feng-Ping [0000-0002-0376-6947], Makhalanyane, Thulani P. [0000-0002-8173-1678], Gilbert, Jack A. [0000-0001-7920-7001], Wood, Thomas K. [0000-0002-6258-529X], Vasiljevic, Branka [0000-0002-2315-3590], Soberón, Mario [0000-0002-1593-9227], Udaondo, Zulema [0000-0003-3445-6842], Rojo, Fernando [0000-0003-1848-7745], Giraud, Tatiana [0000-0002-2685-6478], Ropars, Jeanne [0000-0002-3740-9673], Ezeji, T. C. [0000-0002-8384-895X], Müller, Volker [0000-0001-7955-5508], Averhoff, Beate [0000-0003-1460-3649], Sessitsch, Angela [0000-0003-0137-930X], Partida-Martinez, Laila Pamela [0000-0001-8037-2856], Huang, Wei [0000-0003-1302-6528], Molin, Søren [0000-0002-7973-2639], Junier, Pilar [0000-0002-8618-3340], Amils, Ricardo [0000-0002-7560-1033], Wu, Xiao-Lei [0000-0002-9897-6903], Ron, Eliora [0000-0003-2615-8685], Erten, Hüseyin [0000-0003-1537-2416], De Martinis, E.C.P. [0000-0002-6089-6238], Rapoport, Alexander [0000-0002-6185-0039], Öpik, Maarja [0000-0001-8025-7460], Pokatong, W. Donald R. [0009-0009-6692-9879], Stairs, Courtney W. [0000-0001-6650-0970], Amoozegar, Mohammad Ali [0000-0002-9638-0532], Gil-Serna, Jessica [0000-0002-2113-1830], Timmis, Kenneth N., Hallsworth, John E., McGenity, Terry J., Armstrong, Rachel, Colom, María Francisca, Karahan, Z. Ceren, Chavarría, Max, Bernal, Patricia, Boyd, Eric S., Ramos, Juan L., Kaltenpoth, Martin, Pruzzo, Carla, Clarke, Gerard, López-García, Purificación, Yakimov, Michail M., Perlmutter, Jessamyn, Greening, Chris, Eloe-Fadrosh, Emiley, Verstraete, Willy, Nunes, Olga, Kotsyurbenko, Oleg R., Nikel, Pablo I., Scavone, Paola, Häggblom, Max M., Lavigne, Rob, Le Roux, Frédérique, Timmis, James Kenneth, Parro, Victor, Michán, Carmen, García, José Luis, Casadevall, A., Payne, Shelley M., Frey, Joachim, Koren, Omry, Prosser, James I., Lal, Rup, Anand, S., Sood, U, Offre, Pierre, Bryce, Casey C., Mswaka, Allen Y., Jores, Jörg, Kaçar, Betül, Blank, Lars M., Pope, Phillip B., Banciu, Horia L., Armitage, Judith, Lee, Sang Yup, Wang, Feng-Ping, Makhalanyane, Thulani P., Gilbert, Jack A., Wood, Thomas K., Vasiljevic, Branka, Soberón, Mario, Udaondo, Zulema, Rojo, Fernando, Giraud, Tatiana, Ropars, Jeanne, Ezeji, T. C., Müller, Volker, Averhoff, Beate, Sessitsch, Angela, Huang, Wei, Molin, Søren, Junier, Pilar, Amils, Ricardo, Wu, Xiao-Lei, Ron, Eliora, Erten, Hüseyin, De Martinis, E.C.P., Rapoport, Alexander, Öpik, Maarja, Pokatong, W. Donald R., Stairs, Courtney W., Amoozegar, Mohammad Ali, Gil-Serna, Jessica, Timmis, Kenneth N. [0000-0002-0066-4670], Hallsworth, John E. [0000-0001-6797-9362], McGenity, Terry J. [0000-0002-1497-8822], Armstrong, Rachel [0000-0002-3516-6815], Colom, María Francisca [0000-0002-8672-5429], Karahan, Z. Ceren [0000-0001-7727-3363], Chavarría, Max [0000-0001-5901-3576], Bernal, Patricia [0000-0002-6228-0496], Boyd, Eric S. [0000-0003-4436-5856], Ramos, Juan L. [0000-0002-8731-7435], Kaltenpoth, Martin [0000-0001-9450-0345], Pruzzo, Carla [0000-0002-1280-4677], Clarke, Gerard [0000-0001-9771-3979], López-García, Purificación [0000-0002-0927-0651], Yakimov, Michail M. [0000-0003-1418-363X], Perlmutter, Jessamyn [0000-0002-9789-4674], Greening, Chris [0000-0001-7616-0594], Eloe-Fadrosh, Emiley [0000-0002-8162-1276], Verstraete, Willy [0000-0002-3140-3713], Nunes, Olga [0000-0003-4742-2537], Kotsyurbenko, Oleg R. [0000-0002-4748-3017], Nikel, Pablo I. [0000-0002-9313-7481], Scavone, Paola [0000-0002-8840-3757], Häggblom, Max M. [0000-0001-6307-7863], Lavigne, Rob [0000-0001-7377-1314], Le Roux, Frédérique [0000-0002-9112-6199], Timmis, James Kenneth [0000-0002-7773-0859], Parro, Victor [0000-0003-3738-0724], Michán, Carmen [0000-0003-2921-0987], García, José Luis [0000-0002-9238-2485], Casadevall, A. [0000-0002-9402-9167], Payne, Shelley M. [0000-0003-3112-4340], Frey, Joachim [0000-0001-9133-0280], Koren, Omry [0000-0002-7738-1337], Prosser, James I. [0000-0003-1757-5102], Lal, Rup [0000-0001-8364-8547], Anand, S. [0000-0001-7852-3512], Sood, U [0000-0002-0886-0107], Offre, Pierre [0000-0002-3660-2164], Bryce, Casey C. [0000-0002-1132-5201], Mswaka, Allen Y. [0000-0003-4868-1530], Jores, Jörg [0000-0003-3790-5746], Kaçar, Betül [0000-0002-0482-2357], Blank, Lars M. [0000-0003-0961-4976], Pope, Phillip B. [0000-0002-2067-4059], Banciu, Horia L. [0000-0002-6563-3226], Armitage, Judith [0000-0003-4983-9731], Lee, Sang Yup [0000-0003-0599-3091], Wang, Feng-Ping [0000-0002-0376-6947], Makhalanyane, Thulani P. [0000-0002-8173-1678], Gilbert, Jack A. [0000-0001-7920-7001], Wood, Thomas K. [0000-0002-6258-529X], Vasiljevic, Branka [0000-0002-2315-3590], Soberón, Mario [0000-0002-1593-9227], Udaondo, Zulema [0000-0003-3445-6842], Rojo, Fernando [0000-0003-1848-7745], Giraud, Tatiana [0000-0002-2685-6478], Ropars, Jeanne [0000-0002-3740-9673], Ezeji, T. C. [0000-0002-8384-895X], Müller, Volker [0000-0001-7955-5508], Averhoff, Beate [0000-0003-1460-3649], Sessitsch, Angela [0000-0003-0137-930X], Partida-Martinez, Laila Pamela [0000-0001-8037-2856], Huang, Wei [0000-0003-1302-6528], Molin, Søren [0000-0002-7973-2639], Junier, Pilar [0000-0002-8618-3340], Amils, Ricardo [0000-0002-7560-1033], Wu, Xiao-Lei [0000-0002-9897-6903], Ron, Eliora [0000-0003-2615-8685], Erten, Hüseyin [0000-0003-1537-2416], De Martinis, E.C.P. [0000-0002-6089-6238], Rapoport, Alexander [0000-0002-6185-0039], Öpik, Maarja [0000-0001-8025-7460], Pokatong, W. Donald R. [0009-0009-6692-9879], Stairs, Courtney W. [0000-0001-6650-0970], Amoozegar, Mohammad Ali [0000-0002-9638-0532], Gil-Serna, Jessica [0000-0002-2113-1830], Timmis, Kenneth N., Hallsworth, John E., McGenity, Terry J., Armstrong, Rachel, Colom, María Francisca, Karahan, Z. Ceren, Chavarría, Max, Bernal, Patricia, Boyd, Eric S., Ramos, Juan L., Kaltenpoth, Martin, Pruzzo, Carla, Clarke, Gerard, López-García, Purificación, Yakimov, Michail M., Perlmutter, Jessamyn, Greening, Chris, Eloe-Fadrosh, Emiley, Verstraete, Willy, Nunes, Olga, Kotsyurbenko, Oleg R., Nikel, Pablo I., Scavone, Paola, Häggblom, Max M., Lavigne, Rob, Le Roux, Frédérique, Timmis, James Kenneth, Parro, Victor, Michán, Carmen, García, José Luis, Casadevall, A., Payne, Shelley M., Frey, Joachim, Koren, Omry, Prosser, James I., Lal, Rup, Anand, S., Sood, U, Offre, Pierre, Bryce, Casey C., Mswaka, Allen Y., Jores, Jörg, Kaçar, Betül, Blank, Lars M., Pope, Phillip B., Banciu, Horia L., Armitage, Judith, Lee, Sang Yup, Wang, Feng-Ping, Makhalanyane, Thulani P., Gilbert, Jack A., Wood, Thomas K., Vasiljevic, Branka, Soberón, Mario, Udaondo, Zulema, Rojo, Fernando, Giraud, Tatiana, Ropars, Jeanne, Ezeji, T. C., Müller, Volker, Averhoff, Beate, Sessitsch, Angela, Huang, Wei, Molin, Søren, Junier, Pilar, Amils, Ricardo, Wu, Xiao-Lei, Ron, Eliora, Erten, Hüseyin, De Martinis, E.C.P., Rapoport, Alexander, Öpik, Maarja, Pokatong, W. Donald R., Stairs, Courtney W., Amoozegar, Mohammad Ali, and Gil-Serna, Jessica

Abstract

The biosphere of planet Earth is a microbial world: a vast reactor of countless microbially driven chemical transformations and energy transfers that push and pull many planetary geochemical processes, including the cycling of the elements of life, mitigate or amplify climate change (e.g., Nature Reviews Microbiology, 2019, 17, 569) and impact the well-being and activities of all organisms, including humans. Microbes are both our ancestors and creators of the planetary chemistry that allowed us to evolve (e.g., Life's engines: How microbes made earth habitable, 2023). To understand how the biosphere functions, how humans can influence its development and live more sustainably with the other organisms sharing it, we need to understand the microbes. In a recent editorial (Environmental Microbiology, 2019, 21, 1513), we advocated for improved microbiology literacy in society. Our concept of microbiology literacy is not based on knowledge of the academic subject of microbiology, with its multitude of component topics, plus the growing number of additional topics from other disciplines that become vitally important elements of current microbiology. Rather it is focused on microbial activities that impact us–individuals/communities/nations/the human world–and the biosphere and that are key to reaching informed decisions on a multitude of issues that regularly confront us, ranging from personal issues to crises of global importance. In other words, it is knowledge and understanding essential for adulthood and the transition to it, knowledge and understanding that must be acquired early in life in school. The 2019 Editorial marked the launch of the International Microbiology Literacy Initiative, the IMiLI.

Published
2024

10. Author Correction: Roadmap for naming uncultivated Archaea and Bacteria

Author

Murray, Alison E., Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R. Thane, Parks, Donovan H., Rossello-Mora, Ramon, Stott, Matthew B., Sutcliffe, Iain C., Thrash, J. Cameron, Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf I., Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S. G., Colman, Daniel R., DeAngelis, Kristen M., de los Rios, Maria Asuncion, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J. G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans-Peter, Li, Wen-Jun, Lloyd, Karen G., Löffler, Frank E., Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedrós-Alió, Carlos, Probst, Alexander J., Smits, Theo H. M., Steen, Andrew D., Steenkamp, Emma T., Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Yarza, Pablo, Hedlund, Brian P., and Reysenbach, Anna-Louise

Published
2021
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11. Synthesis and electrochemical properties of graphene/MnO2 composites

Author

ZHOU Long-fei, QIU Hong-mei, XU Mei, LU Yan-zhen, HU Jian-ling, WANG Zi-ya, and WANG Feng-ping

Subjects
manganese dioxide, graphene, hydrothermal synthesis, supercapacitors, Mining engineering. Metallurgy, TN1-997, Environmental engineering, TA170-171
Abstract

Accordion-like MnO2-coated graphene composites were successfully prepared by a facile hydrothermal method at 160℃. The as-products were characterized by field emission scanning electron microscopy, transmission electron microscopy, X-ray dif-fraction, energy dispersive spectrometry, BET and Raman spectroscopy. The high capacitance of 138 F·g-1 at 0.2 A·g-1 is achieved with MnO2/graphene composites as a supercapacitor electrode, much higher than that of a single MnO2 or graphene electrode. The ex-cellent electrochemical performance is attributed to the uniform MnO2 nanosheet morphology, large surface area of graphene and stable chemical bonding of MnO2 on the graphene substrate.

Published
2016
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20. Correction: Roadmap for naming uncultivated Archaea and Bacteria

Author

Murray, Alison E., Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R.T., Parks, Donovan H., Rossello-Mora, Ramon, Stott, Matthew B., Sutcliffe, Iain C., Thrash, J.C., Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf I., Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S.G., Colman, Daniel R., DeAngelis, Kristen M., de los Rios, Maria Asuncion, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J.G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans Peter, Li, Wen Jun, Lloyd, Karen G., Löffler, Frank E., Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedrós-Alió, Carlos, Probst, Alexander J., Smits, Theo H.M., Steen, Andrew D., Steenkamp, Emma T., Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng Ping, Yarza, Pablo, Hedlund, Brian P., Reysenbach, Anna Louise, Murray, Alison E., Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R.T., Parks, Donovan H., Rossello-Mora, Ramon, Stott, Matthew B., Sutcliffe, Iain C., Thrash, J.C., Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf I., Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S.G., Colman, Daniel R., DeAngelis, Kristen M., de los Rios, Maria Asuncion, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J.G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans Peter, Li, Wen Jun, Lloyd, Karen G., Löffler, Frank E., Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedrós-Alió, Carlos, Probst, Alexander J., Smits, Theo H.M., Steen, Andrew D., Steenkamp, Emma T., Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng Ping, Yarza, Pablo, Hedlund, Brian P., and Reysenbach, Anna Louise

Published
2021

21. Uncovering the Core Microbiome and Distribution of Palmerolide in Synoicum adareanum Across the Anvers Island Archipelago, Antarctica

Author

Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos, Lane, Christopher, Papke, R. Thane, Parks, Donovan, Rossello-Mora, Ramon, Stott, Matthew, Sutcliffe, Iain, Thrash, J. Cameron, Venter, Stephanus, Whitman, William, Acinas, Silvia, Amann, Rudolf, Anantharaman, Karthik, Armengaud, Jean, Baker, Brett, Barco, Roman, Bode, Helge, Boyd, Eric, Brady, Carrie, Carini, Paul, Chain, Patrick, Colman, Daniel, DeAngelis, Kristen, de los Rios, Maria Asuncion, Estrada-De Los Santos, Paulina, Dunlap, Christopher, Eisen, Jonathan, Emerson, David, Ettema, Thijs, Girguis, Peter, Hentschel, Ute, Hollibaugh, James, Hug, Laura, Inskeep, William, Ivanova, Elena, Klenk, Hans-Peter, Li, Wen-Jun, Lloyd, Karen, Löffler, Frank, Makhalanyane, Thulani, Moser, Duane, Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedrós-Alió, Carlos, Probst, Alexander, Smits, Theo, Steen, Andrew, Steenkamp, Emma, Spang, Anja, Stewart, Frank, Tiedje, James, Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Hedlund, Brian, Reysenbach, Anna-Louise, Murray, Alison, Avalon, Nicole, Bishop, Lucas, Davenport, Karen, Delage, Erwan, Dichosa, Armand E.K., Eveillard, Damien, Higham, Mary, Kokkaliari, Sofia, Lo, Chien-Chi, Riesenfeld, Christian, Young, Ryan, Chain, Patrick S.G., Baker, Bill, Metacohorts Consortium, Department of Energy / Joint Genome Institute (DOE), Los Alamos National Laboratory (LANL), Laboratoire des Sciences du Numérique de Nantes (LS2N), Université de Nantes - UFR des Sciences et des Techniques (UN UFR ST), Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT), Combinatoire et Bioinformatique (COMBI), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université de Nantes - UFR des Sciences et des Techniques (UN UFR ST), Biologie Moléculaire du Gène chez les Extrêmophiles (BMGE), Institut Pasteur [Paris], University of Queensland [Brisbane], Justus-Liebig-Universität Gießen (JLU), Louisiana State University (LSU), Botanical and Environmental Consultant, Institute of Marine Sciences / Institut de Ciències del Mar [Barcelona] (ICM), Consejo Superior de Investigaciones Científicas [Spain] (CSIC), Max Planck Institute for Marine Microbiology, Max-Planck-Gesellschaft, Laboratoire de Biochimie des Systèmes Perturbés (LBSP), Commissariat à l'énergie atomique et aux énergies alternatives (CEA), University of Texas at Austin [Austin], Buchmann Institute for Molecular Life Sciences [Frankfurt am Main] (BMLS), Goethe-Universität Frankfurt am Main, ISAO [Bologna, Italy], Universidad Nacional Autónoma de México (UNAM), Bigelow Laboratory for Ocean Sciences, Uppsala University, Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU), Montana State University (MSU), Laboratoire de l'intégration, du matériau au système (IMS), Université Sciences et Technologies - Bordeaux 1-Institut Polytechnique de Bordeaux-Centre National de la Recherche Scientifique (CNRS), Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH / Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures (DSMZ), School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China. Yunnan Institute of Microbiology, Yunnan University, Kunming 650091, China, Physikalisch-Technische Bundesanstalt [Braunschweig] (PTB), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), Department of Earth and Planetary Science [UC Berkeley] (EPS), University of California [Berkeley], University of California-University of California, Royal Netherlands Institute for Sea Research (NIOZ), The Center for Microbial Ecology, Department of Microbiology and Molecular Genetics, Michigan State University [East Lansing], Michigan State University System-Michigan State University System, Universiteit Gent [Ghent], Hochschule Aalen, Institut für Angewandte Forschung, Hochschule Aalen, Martin-Luther-University Halle-Wittenberg, Université de Nantes - Faculté des Sciences et des Techniques, and Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université de Nantes - Faculté des Sciences et des Techniques

Subjects
Range (biology), ascidian, [INFO.INFO-OH]Computer Science [cs]/Other [cs.OH], Antarctic Regions, microbiome, Pharmaceutical Science, Biology, Genome, Article, Polyketide, 03 medical and health sciences, RNA, Ribosomal, 16S, co-occurrence, Drug Discovery, Animals, Marine ecosystem, Urochordata, 14. Life underwater, Microbiome, palmerolide A, Gene, lcsh:QH301-705.5, Pharmacology, Toxicology and Pharmaceutics (miscellaneous), ComputingMilieux_MISCELLANEOUS, 030304 developmental biology, Islands, Whole genome sequencing, 0303 health sciences, geography, geography.geographical_feature_category, Phylum, 030306 microbiology, Microbiota, Bacterioplankton, 15. Life on land, 16S ribosomal RNA, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], Holobiont, Taxon, lcsh:Biology (General), Evolutionary biology, microbial diversity, Archipelago, Antarctica, Macrolides, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDV.EE.IEO]Life Sciences [q-bio]/Ecology, environment/Symbiosis
Abstract

Polar marine ecosystems hold the potential for bioactive compound biodiscovery, based on their untapped macro- and microorganism diversity. Characterization of polar benthic marine invertebrate-associated microbiomes is limited to few studies. This study was motivated by our interest in better understanding the microbiome structure and composition of the ascidian, Synoicum adareanum, in which palmerolide A (PalA), a bioactive macrolide with specificity against melanoma, was isolated. PalA bears structural resemblance to a hybrid nonribosomal peptide-polyketide that has similarities to microbially-produced macrolides. We conducted a spatial survey to assess both PalA levels and microbiome composition in S. adareanum in a region of the Antarctic Peninsula near Anvers Island (64&deg, 46'S, 64&deg, 03'W). PalA was ubiquitous and abundant across a collection of 21 ascidians (3 subsamples each) sampled from seven sites across the Anvers Island Archipelago. The microbiome composition (V3&ndash, V4 16S rRNA gene sequence variants) of these 63 samples revealed a core suite of 21 bacterial amplicon sequence variants (ASVs)&mdash, 20 of which were distinct from regional bacterioplankton. ASV co-occurrence analysis across all 63 samples yielded subgroups of taxa that may be interacting biologically (interacting subsystems) and, although the levels of PalA detected were not found to correlate with specific sequence variants, the core members appeared to occur in a preferred optimum and tolerance range of PalA levels. These results, together with an analysis of the biosynthetic potential of related microbiome taxa, describe a conserved, high-latitude core microbiome with unique composition and substantial promise for natural product biosynthesis that likely influences the ecology of the holobiont.

Published
2020

22. Stability and Infectivity of Allochthonous Viruses in Deep Sea: A Long-Term High Pressure Simulation Experiment

Author

Tian, Yuan, Cai, Lanlan, Xu, Yongle, Luo, Tingwei, Zhao, Zhao, Wang, Qiong, Liu, Lu, Xiao, Xiang, Wang, Feng Ping, Jiao, Nianzhi, Zhang, Rui, Tian, Yuan, Cai, Lanlan, Xu, Yongle, Luo, Tingwei, Zhao, Zhao, Wang, Qiong, Liu, Lu, Xiao, Xiang, Wang, Feng Ping, Jiao, Nianzhi, and Zhang, Rui

Abstract

The bathypelagic zone is a large, dark, cold, high-pressure environment that undergoes extensive material and energy exchanges with the upper ocean and the deep biosphere. Viruses are important parts of the deep ocean, and transportation of surface viruses has been considered as an important source of deep-sea viruses. However, limited information is available about the activity and decay of surface viruses in the deep-sea ecosystem. Therefore, this study investigated the stability of representative viral isolates of three morphological types with different sizes infecting autotrophic and heterotrophic bacteria by incubation in the dark under high hydrostatic pressure (HHP) of 30 MPa (corresponding to the pressure at a depth of about 3000 m) and 4 °C for two years. Cyanophage S-CBP1 and two roseophages, RDCBΦ1 and vB_DshS-R4C, were able to infect their hosts after long-term incubation under HHP. However, cyanophages S-CBWM1 and S-SCSM1, as well as roseophages RDCBΦ3 and vB_DshP-R2C, decayed and/or inactivated completely. The sensitivity of viral isolates to HHP might be related to their morphological characteristics, especially their capsid sizes. In addition, HHP treatment of environmental viral populations showed 92.2% reduction of low-fluorescence viruses and total loss of high-fluorescence viruses. The first experimental evidence from this study showed a large variability in the pressure effects on the stability and infectivity of different viruses and suggests that viruses isolated from the ocean's surface may survive under deep-sea conditions.

Published
2020

23. Roadmap for naming uncultivated Archaea and Bacteria

Author

Murray, Alison E., Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R. Thane, Parks, Donovan H., Rossello-Mora, Ramon, Stott, Matthew B., Sutcliffe, Iain C., Thrash, J. Cameron, Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf, I, Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S. G., Colman, Daniel R., DeAngelis, Kristen M., de los Rios, Maria Asuncion, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J. G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans-Peter, Li, Wen-Jun, Lloyd, Karen G., Löffler, Frank E., Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedros-Alio, Carlos, Probst, Alexander J., Smits, Theo H. M., Steen, Andrew D., Steenkamp, Emma T., Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Hedlund, Brian P., Reysenbach, Anna-Louise, Murray, Alison E., Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R. Thane, Parks, Donovan H., Rossello-Mora, Ramon, Stott, Matthew B., Sutcliffe, Iain C., Thrash, J. Cameron, Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf, I, Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S. G., Colman, Daniel R., DeAngelis, Kristen M., de los Rios, Maria Asuncion, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J. G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans-Peter, Li, Wen-Jun, Lloyd, Karen G., Löffler, Frank E., Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedros-Alio, Carlos, Probst, Alexander J., Smits, Theo H. M., Steen, Andrew D., Steenkamp, Emma T., Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Hedlund, Brian P., and Reysenbach, Anna-Louise

Abstract

The assembly of single-amplified genomes (SAGs) and metagenome-assembled genomes (MAGs) has led to a surge in genome-based discoveries of members affiliated with Archaea and Bacteria, bringing with it a need to develop guidelines for nomenclature of uncultivated microorganisms. The International Code of Nomenclature of Prokaryotes (ICNP) only recognizes cultures as 'type material', thereby preventing the naming of uncultivated organisms. In this Consensus Statement, we propose two potential paths to solve this nomenclatural conundrum. One option is the adoption of previously proposed modifications to the ICNP to recognize DNA sequences as acceptable type material; the other option creates a nomenclatural code for uncultivated Archaea and Bacteria that could eventually be merged with the ICNP in the future. Regardless of the path taken, we believe that action is needed now within the scientific community to develop consistent rules for nomenclature of uncultivated taxa in order to provide clarity and stability, and to effectively communicate microbial diversity. In this Consensus Statement, the authors discuss the issue of naming uncultivated prokaryotic microorganisms, which currently do not have a formal nomenclature system due to a lack of type material or cultured representatives, and propose two recommendations including the recognition of DNA sequences as type material.

Published
2020
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24. Author correction : roadmap for naming uncultivated archaea and bacteria

Author

Murray, Alison E., Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R. Thane, Parks, Donovan H., Rossello-Mora, Ramon, Stott, Matthew B., Sutcliffe, Iain C., Thrash, J. Cameron, Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf I., Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S. G., Colman, Daniel R., DeAngelis, Kristen M., de los Rios, Maria Asuncion, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J. G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans-Peter, Li, Wen-Jun, Lloyd, Karen G., Löffler, Frank E., Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedrós-Alió, Carlos, Probst, Alexander J., Smits, Theo, Steen, Andrew D., Steenkamp, Emma T., Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Yarza, Pablo, Hedlund, Brian P., Reysenbach, Anna-Louise, Murray, Alison E., Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R. Thane, Parks, Donovan H., Rossello-Mora, Ramon, Stott, Matthew B., Sutcliffe, Iain C., Thrash, J. Cameron, Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf I., Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S. G., Colman, Daniel R., DeAngelis, Kristen M., de los Rios, Maria Asuncion, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J. G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans-Peter, Li, Wen-Jun, Lloyd, Karen G., Löffler, Frank E., Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro, Victor, Pedrós-Alió, Carlos, Probst, Alexander J., Smits, Theo, Steen, Andrew D., Steenkamp, Emma T., Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Yarza, Pablo, Hedlund, Brian P., and Reysenbach, Anna-Louise

Abstract

Correction to: Nature Microbiology https://doi.org/10.1038/s41564-020-0733-x , published online 8 June 2020. In the version of this Consensus Statement originally published, Pablo Yarza was mistakenly not included in the author list. Also, in Supplementary Table 1, Alexander Jaffe was missing from the list of endorsees. These errors have now been corrected and the updated Supplementary Table 1 is available online.

Published
2020

25. Roadmap for naming uncultivated Archaea and Bacteria

Author

National Science Foundation (US), Agencia Estatal de Investigación (España), Murray, Alison, Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R. Thane, Parks, Donovan H., Rosselló-Mora, Ramón, Stott, Matthew B., Sutcliffe, Iain, Thrash, J. Cameron, Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf, Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S.G., Colman, Daniel R., DeAngelis, Kristen M., Ríos, Asunción de los, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J.G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans Peter, Li, Wen-Jun, Lloyd, Karen G., Löffler, Frank, Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro-García, Víctor, Pedrós-Alió, Carlos, Probst, Alexander J., Smits, Theo H.M., Steen, Andrew D., Steenkamp, Emma, Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Yarza, Pablo, Hedlund, Brian P., Reysenbach, A. L., National Science Foundation (US), Agencia Estatal de Investigación (España), Murray, Alison, Freudenstein, John, Gribaldo, Simonetta, Hatzenpichler, Roland, Hugenholtz, Philip, Kämpfer, Peter, Konstantinidis, Konstantinos T., Lane, Christopher E., Papke, R. Thane, Parks, Donovan H., Rosselló-Mora, Ramón, Stott, Matthew B., Sutcliffe, Iain, Thrash, J. Cameron, Venter, Stephanus N., Whitman, William B., Acinas, Silvia G., Amann, Rudolf, Anantharaman, Karthik, Armengaud, Jean, Baker, Brett J., Barco, Roman A., Bode, Helge B., Boyd, Eric S., Brady, Carrie L., Carini, Paul, Chain, Patrick S.G., Colman, Daniel R., DeAngelis, Kristen M., Ríos, Asunción de los, Estrada-de los Santos, Paulina, Dunlap, Christopher A., Eisen, Jonathan A., Emerson, David, Ettema, Thijs J.G., Eveillard, Damien, Girguis, Peter R., Hentschel, Ute, Hollibaugh, James T., Hug, Laura A., Inskeep, William P., Ivanova, Elena P., Klenk, Hans Peter, Li, Wen-Jun, Lloyd, Karen G., Löffler, Frank, Makhalanyane, Thulani P., Moser, Duane P., Nunoura, Takuro, Palmer, Marike, Parro-García, Víctor, Pedrós-Alió, Carlos, Probst, Alexander J., Smits, Theo H.M., Steen, Andrew D., Steenkamp, Emma, Spang, Anja, Stewart, Frank J., Tiedje, James M., Vandamme, Peter, Wagner, Michael, Wang, Feng-Ping, Yarza, Pablo, Hedlund, Brian P., and Reysenbach, A. L.

Abstract

The assembly of single-amplified genomes (SAGs) and metagenome-assembled genomes (MAGs) has led to a surge in genome-based discoveries of members affiliated with Archaea and Bacteria, bringing with it a need to develop guidelines for nomenclature of uncultivated microorganisms. The International Code of Nomenclature of Prokaryotes (ICNP) only recognizes cultures as ‘type material’, thereby preventing the naming of uncultivated organisms. In this Consensus Statement, we propose two potential paths to solve this nomenclatural conundrum. One option is the adoption of previously proposed modifications to the ICNP to recognize DNA sequences as acceptable type material; the other option creates a nomenclatural code for uncultivated Archaea and Bacteria that could eventually be merged with the ICNP in the future. Regardless of the path taken, we believe that action is needed now within the scientific community to develop consistent rules for nomenclature of uncultivated taxa in order to provide clarity and stability, and to effectively communicate microbial diversity

Published
2020

26. Author Correction: Roadmap for naming uncultivated Archaea and Bacteria

Author

Murray, Alison E., primary, Freudenstein, John, additional, Gribaldo, Simonetta, additional, Hatzenpichler, Roland, additional, Hugenholtz, Philip, additional, Kämpfer, Peter, additional, Konstantinidis, Konstantinos T., additional, Lane, Christopher E., additional, Papke, R. Thane, additional, Parks, Donovan H., additional, Rossello-Mora, Ramon, additional, Stott, Matthew B., additional, Sutcliffe, Iain C., additional, Thrash, J. Cameron, additional, Venter, Stephanus N., additional, Whitman, William B., additional, Acinas, Silvia G., additional, Amann, Rudolf I., additional, Anantharaman, Karthik, additional, Armengaud, Jean, additional, Baker, Brett J., additional, Barco, Roman A., additional, Bode, Helge B., additional, Boyd, Eric S., additional, Brady, Carrie L., additional, Carini, Paul, additional, Chain, Patrick S. G., additional, Colman, Daniel R., additional, DeAngelis, Kristen M., additional, de los Rios, Maria Asuncion, additional, Estrada-de los Santos, Paulina, additional, Dunlap, Christopher A., additional, Eisen, Jonathan A., additional, Emerson, David, additional, Ettema, Thijs J. G., additional, Eveillard, Damien, additional, Girguis, Peter R., additional, Hentschel, Ute, additional, Hollibaugh, James T., additional, Hug, Laura A., additional, Inskeep, William P., additional, Ivanova, Elena P., additional, Klenk, Hans-Peter, additional, Li, Wen-Jun, additional, Lloyd, Karen G., additional, Löffler, Frank E., additional, Makhalanyane, Thulani P., additional, Moser, Duane P., additional, Nunoura, Takuro, additional, Palmer, Marike, additional, Parro, Victor, additional, Pedrós-Alió, Carlos, additional, Probst, Alexander J., additional, Smits, Theo H. M., additional, Steen, Andrew D., additional, Steenkamp, Emma T., additional, Spang, Anja, additional, Stewart, Frank J., additional, Tiedje, James M., additional, Vandamme, Peter, additional, Wagner, Michael, additional, Wang, Feng-Ping, additional, Yarza, Pablo, additional, Hedlund, Brian P., additional, and Reysenbach, Anna-Louise, additional

Published
2020
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29. Mo/SiO2 multilayers for soft x-ray optical applications

Author

Wang, Feng-Ping, Wang, Pei-Xuan, Lu, Kun-Quan, Fang, Zheng-Zhi, Gao, Min, Duan, Xiao-Feng, Cui, Ming-Qi, Ma, Hong-Ji, and Jiang, Xiao-Ming

Subjects
X-rays -- Research, Radiography -- Research, Molybdenum -- Research, Silicon compounds -- Research, Oxides -- Research, Reflectance -- Research, Optics -- Research, Physics
Abstract

Keen research interest has ben focused on the production of x-ray multilayers for short wavelength range because of the potential applications of such multilayers in a variety of technologies. A study was therefore conducted to investigate the microstructure and profiles of Mo/SiO2 multilayers. Among other results, it was found that MoSiO2 multilayers with very good composition modulation structures and smooth/acute interfaces between Mo and SiO2 may form by magnetron sputtering.

Published
1999

39. Mo/SiO...multilayers for soft x-ray optical applications.

Author

Wang, Feng-ping and Wang, Pei-xuan

Subjects
*MOLYBDENUM, *SILICA, *MICROSTRUCTURE
Abstract

Examines the microstructure and composition profiles of molybdenum and silicon dioxide (Mo/SiO2) multilayers (ML). Major requirements for materials of X-ray ML; Result of low-angle x-ray diffraction; High resolution electron microscopy analysis; Profiling of Auger electron spectroscopy.

Published
1999
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40. Complete Genome Sequence of the Obligate Piezophilic Hyperthermophilic Archaeon Pyrococcus yayanosii CH1▿

Author

Wang Feng-ping, Xu Jun, Liu Lupeng, Philippe Oger, Xu Minjuan, Mohamed Jebbar, Xiao Xiang, State Key Laboratory of Microbial Metabolism, Shanghai Jiao Tong University [Shanghai], School Life Science and Biotechnology, Key Laboratory of Systems Biomedecine, Laboratoire de Géologie de Lyon - Terre, Planètes, Environnement (LGL-TPE), École normale supérieure de Lyon (ENS de Lyon)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut national des sciences de l'Univers (INSU - CNRS)-Université Jean Monnet - Saint-Étienne (UJM)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de microbiologie des environnements extrêmophiles (LM2E), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Géologie de Lyon - Terre, Planètes, Environnement [Lyon] (LGL-TPE), Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-École normale supérieure - Lyon (ENS Lyon), and Centre National de la Recherche Scientifique (CNRS)-Université de Brest (UBO)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)

Subjects
Genetics, Whole genome sequencing, 0303 health sciences, Pyrococcus, biology, Strain (chemistry), Obligate, 030306 microbiology, Pyrococcus yayanosii, Ridge (biology), Hydrostatic pressure, Molecular Sequence Data, biology.organism_classification, Microbiology, Thermococcales, Genome Announcements, 03 medical and health sciences, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, ABYSSI, Genome, Archaeal, Molecular Biology, FURIOSUS, 030304 developmental biology
Abstract

Pyrococcus yayanosii CH1 is the first obligate piezophilic hyperthermophilic archaeon isolated from the deep-sea hydrothermal site Ashadze on the mid-Atlantic ridge at a depth of 4,100 m. This organism grows within a temperature range of 80 to 108°C and a hydrostatic pressure range of 20 to 120 MPa, with optima at 98°C and 52 MPa, respectively. Here, we report the complete genome sequence (1,716,817 bp, with a G+C content of 51.6%) of the type strain P. yayanosii CH1 T (= JCM 16557). This genomic information reveals a systematic view of the piezoadaptation strategy and evolution scenario of metabolic pathways in Thermococcales .

Published
2011

41. A new cytotoxic metabolite from a deep sea derived fungus, Phialocephala sp

Author

Chen Li, Dehai Li, Cai Sheng-xin, Wang Feng-ping, Xiao Xiang, and Gu Qian-qun

Subjects
Inhibitory Concentration 50, Mice, Ascomycota, Molecular Structure, Cell Survival, Leukemia P388, Cell Line, Tumor, Animals, Humans, Antineoplastic Agents, K562 Cells, Hydroquinones
Abstract

A new sesquiterpene hydroquinone (1) was isolated from a deep sea sediment derived fungus, Phialocephala sp.. Its structure and stereochemistry were established on the basis of spectroscopic data and optical rotation. This compound was tested for cytotoxicity against P388 (murine leukemia cell) and K562 (human leukemia cell) cell lines, and displayed strong cytotoxic effects with IC50 value of 0.16 and 0.05 micromol x L(-1), separately.

Published
2011

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