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Anne Dekas
California Institute of Technology
Network
Followed Articles
- AOM (4)
- Bacterial Sulfate Reduction (12)
- Evolution/Speciation (1)
- Friends/Colleagues (1)
- Generally Significant/Interesting (12)
- Immunolocalization (0)
- Methane (3)
- Microbe-Mineral Interactions (2)
- Microbial Ecology/Oceanography (3)
- My Publications (8)
- N2 Fix Organismal Level (2)
- Nitrogen Budget/Cycling (3)
- Orphan Lab publications (5)
Activity Feed
- is following 1 new article in Microbe-Mineral InteractionsDo photosynthetic bacteria have a protective mechanism against carbonate precipitation at their surfaces?. Martinez Raul E. (2010) Geochimica et Cosmochimica Acta.March 6, 2010Login or register to post comments
- is following 3 new articles in MethaneExtensive Methane Venting to the Atmosphere from Sediments of the East Siberian Arctic Shelf. Shakhova N. (2010) Science.How Stable Is the Methane Cycle?. Heimann M. (2010) Science.Large-scale controls of methanogenesis inferred from methane and gravity spaceborne data. Bloom AA (2010) Science.March 4, 2010Login or register to post comments
- is following 1 new article in Microbial Ecology/OceanographyMetabolic streamlining in an open-ocean nitrogen-fixing cyanobacterium. Tripp H. James (2010) Nature.March 3, 2010Login or register to post comments
- is following 2 new articles in AOMAnaerobic methane oxidation by archaea/sulfate-reducing bacteria aggregates: 2. Isotopic constraints. Alperin M. J. (2009) American Journal of Science.Anaerobic methane oxidation by archaea/sulfate-reducing bacteria aggregates: 1. Thermodynamic and physical constraints. Alperin M. J. (2009) American Journal of Science.March 1, 2010Login or register to post comments
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FYI, the first author of a paper we read several weeks ago is giving a talk in the Biology department about that study today. Here are the details: Thursday, February 25, 2010, General Biology Seminar, 4:00 PM, Norman Davidson Hall, 119 Kerckhoff, Jeffrey Barrick ,Department of Microbiology and Molecular Genetics
Michigan State University "Genome dynamics during a 20-year Evolution Experiment with E. coli" - is following 1 new article in Microbial Ecology/OceanographyElectric currents couple spatially separated biogeochemical processes in marine sediment. Nielsen Lars Peter (2010) Nature.February 24, 2010Login or register to post comments
- is following 1 new article in Caltech Ge/Bi 246: Environmental Viruses: Interesting Virus-Related Articles Found by Group MembersBacteriophages encode factors required for protection in a symbiotic mutualism. Oliver KM (2009) Science.Login or register to post commentsThis paper offers a new perspective on viruses, not as agents of disease or destruction, but as a critical part of an inter-domain symbiosis. The significance of the role environmental viruses play in global ecology -- not just the microbial world -- seems potentially large and yet currently under-appreciated. - Anne Dekas (Caltech) January 26, 2010 Comment deletedThis looks like a good article to read for group meeting. - Victoria Orphan (Caltech) February 12, 2010 Comment deleted
- is following 1 new article in Caltech Geobiology : Discussion PapersRespiratory Mechanisms and the Metazoan Fossil Record. RAFF RUDOLF A. (1970) Nature.February 3, 2010Login or register to post comments
- is following 1 new article in Caltech Geobiology : Discussion PapersWas the Archaean biosphere upside down?. Walker James C. G. (1987) Nature.January 27, 2010Login or register to post comments
- is following 1 new article in Generally Significant/InterestingFoot strike patterns and collision forces in habitually barefoot versus shod runners. Lieberman Daniel E (2010) Nature.Login or register to post commentsI've been waiting for someone to do this study for years! - John M. Delacruz (Caltech) January 27, 2010 Comment deleted
- is following 1 new article in Caltech Ge/Bi 246: Environmental Viruses: Interesting Virus-Related Articles Found by Group MembersPhotosystem I gene cassettes are present in marine virus genomes. Sharon Itai (2009) Nature.Login or register to post commentsI mentioned this paper in seminar yesterday in the context of how different the Prochlorococcus host and phage photosystem II genes and proteins are (described by Lindell et al Nature 2005). In this more recent paper (2009), the authors look at photosystem I gene cassettes. By modeling the structures of viral and host proteins, they conclude that the viral form is significantly structurally and potentially functionally different. Calling this "phage gene innovation," the authors suggest that "the oceanic virome could be an almost unlimited source of naturally bioengineered gene cassettes." - Anne Dekas (Caltech) January 26, 2010 Comment deleted
- is following 1 new article in Microbe-Mineral InteractionsIron-silica crystallite nucleation by bacteria in a geothermal sediment. Ferris F. G. (1986) Nature.January 21, 2010Login or register to post comments
- is following 5 new articles in Caltech Ge/Bi 246: Environmental Viruses: Seminar Additional ReadingGenome Transplantation in Bacteria: Changing One Species to Another. Lartigue C. (2007) Science.Genome-Wide Experimental Determination of Barriers to Horizontal Gene Transfer. Sorek R. (2007) Science.Virus Population Dynamics and Acquired Virus Resistance in Natural Microbial Communities. Andersson A. F. (2008) Science.Herpesvirus latency confers symbiotic protection from bacterial infection. Barton Erik S. (2007) Nature.Viruses of the Archaea: a unifying view. Prangishvili David (2006) Nat Rev Micro.January 21, 2010Login or register to post comments
- is following 13 new articles in Caltech Ge/Bi 246: Environmental Viruses: Seminar Discussion ArticlesViruses manipulate the marine environment. Rohwer Forest (2009) Nature.Microbiology. Variety--the splice of life--in microbial communities. Banfield JF (2009) Science.Virus movement maintains local virus population diversity. Snyder J. C. (2007) Proceedings of the National Academy of Sciences.Major viral impact on the functioning of benthic deep-sea ecosystems. Danovaro Roberto (2008) Nature.Germ warfare in a microbial mat community: CRISPRs provide insights into the co-evolution of host and viral genomes. Heidelberg JF (2009) PLoS One.The ancient Virus World and evolution of cells. Koonin EV (2006) Biol Direct.Viral Glycosphingolipids Induce Lytic Infection and Cell Death in Marine Phytoplankton. Vardi A. (2009) Science.The Concept of Virus. Lwoff A. (1957) Microbiology.Infection Paradox: High Abundance but Low Impact of Freshwater Benthic Viruses. Filippini M. (2006) Applied and Environmental Microbiology.Herpesvirus latency confers symbiotic protection from bacterial infection. Barton Erik S. (2007) Nature.Photosynthesis genes in marine viruses yield proteins during host infection. Lindell Debbie (2005) Nature.Prophages in marine bacteria: dangerous molecular time bombs or the key to survival in the seas?. Paul John H (2008) ISME J.The virophage as a unique parasite of the giant mimivirus. La Scola Bernard (2008) Nature.January 21, 2010Login or register to post comments
- created the Caltech Ge/Bi 246: Environmental Viruses journal club.January 21, 2010
- is following 1 new article in Evolution/SpeciationPhylogenies reveal new interpretation of speciation and the Red Queen. Venditti Chris (2010) Nature.January 20, 2010Login or register to post comments
- is following 1 new article in Microbial Ecology/OceanographyArchaea and bacteria with surprising microdiversity show shifts in dominance over 1,000-year time scales in hydrothermal chimneys. Brazelton WJ (2010) Proc Natl Acad Sci U S A.January 20, 2010Login or register to post comments
- created an event in Caltech GeobiologyLogin or register to post commentsThursday, December 17, 2009 - 8:00am at Chandler Dining Hall
Sorry for the late notice, but yes, there will be breakfast tomorrow at journal club! We have a special pre-winter break breakfast, so be there a few minutes early to take advantage.
A "silent" polymorphism in the MDR1 gene changes substrate specificity. Kimchi-Sarfaty C (2007) Science. - joined the The Life Scientists journal club.December 16, 2009
- is following 1 new article in Friends/ColleaguesProbabilistic assessment of sea level during the last interglacial stage. Kopp Robert E (2009) Nature.December 16, 2009Login or register to post comments
- created an event in Caltech GeobiologyLogin or register to post commentsThursday, December 10, 2009 - 8:00am at Chandler Dining HallDid an ancient chlamydial endosymbiosis facilitate the establishment of primary plastids?. Huang Jinling (2007) Genome Biol.
- created an event in Caltech GeobiologyLogin or register to post commentsThursday, December 3, 2009 - 8:00am at Chandler Dining Hall
We will have breakfast this week.
Gene Transfer and Diversification of Microbial Eukaryotes. Andersson Jan O. (2009) Annu. Rev. Microbiol.. - created an event in Caltech GeobiologyLogin or register to post commentsThursday, November 12, 2009 - 8:00am at Chandler Dining Hall
No breakfast this week.
Experimental evolution of bet hedging. Beaumont HJ (2009) Nature. I'm still thinking about how fitness was measured in the paper we discussed morning (Barrick et al 2009). I still haven't found an explanation for how they did it, but I did read an interesting approach for measuring fitness in the paper from Chris Marx's lab I just posted. They actually pitted two strains against each other in the same culture to see which could out compete the other: "Briefly, after one round of acclimation, test strains and a reference strain expressing the yellow fluorescent protein Venus were mixed by a 1:1 volume ratio, diluted 1:64 into 9.6 ml of fresh media which were incubated under the conditions described above. The ratios of non-fluorescent cells in mixed populations were measured by passing population sample ... read more
Login or register to post commentsHow much variance exists in the kinetic parameters for growth curves? - Woody Fischer (Caltech) November 9, 2009 Comment deleted- is following 1 new article in N2 Fix Organismal LevelMolecular characterization of potential nitrogen fixation by anaerobic methane oxidizing archaea in the methane-seep sediments at the No. 8 Kumano Knoll in the Kumano Basin, off shore of Japan. Miyazaki J (2009) Appl Environ Microbiol.November 6, 2009Login or register to post comments
- is following 1 new article in Caltech Geobiology : Related PapersFast Growth Increases the Selective Advantage of a Mutation Arising Recurrently during Evolution under Metal Limitation. Chou Hsin-Hung (2009) PLoS Genet.Login or register to post commentsFrom the author's summary: "Effects of mutations can change under different genetic backgrounds or environmental factors, also known as epistasis and genotype-by-environment interactions (G×E), respectively. Though epistasis and G×E are traditionally treated as distinct phenomena, our study of a beneficial mutation highlights their commonality." - Anne Dekas (Caltech) November 5, 2009 Comment deleted
- is following 1 new article in Nitrogen Budget/CyclingStructural basis of inter-protein electron transfer for nitrite reduction in denitrification. Nojiri Masaki (2009) Nature.November 4, 2009Login or register to post comments
- is following 1 new article in My PublicationsDeep-sea archaea fix and share nitrogen in methane-consuming microbial consortia. Dekas AE (2009) Science.November 3, 2009Login or register to post comments
- created an event in Caltech GeobiologyLogin or register to post commentsThursday, November 5, 2009 - 8:00am at Chandler Dining Hall
This week we will discuss a paper comparing six E. coli genomes sampled during a 40,000 generation (20 year!) laboratory culture, offering a unique opportunity to investigate genomic evolution and organismal adaptation.
We will have bagels for breakfast courtesy of the GSC.
Genome evolution and adaptation in a long-term experiment with Escherichia coli. Barrick Jeffrey E (2009) Nature. - is following 1 new article in Caltech Geobiology : Discussion PapersGenome evolution and adaptation in a long-term experiment with Escherichia coli. Barrick Jeffrey E (2009) Nature.October 30, 2009Login or register to post comments