Global discovery and characterization of small non-coding RNAs in marine microalgae

[1]  Jaysheel D. Bhavsar,et al.  Insights into the role of DNA methylation in diatoms by genome-wide profiling in Phaeodactylum tricornutum , 2013, Nature Communications.

[2]  A. Salamov,et al.  Pan genome of the phytoplankton Emiliania underpins its global distribution , 2013, Nature.

[3]  N. Polacek,et al.  tRNA-Derived Fragments Target the Ribosome and Function as Regulatory Non-Coding RNA in Haloferax volcanii , 2012, Archaea.

[4]  Sean R. Eddy,et al.  Rfam 11.0: 10 years of RNA families , 2012, Nucleic Acids Res..

[5]  A. Cayota,et al.  Hints of tRNA-Derived Small RNAs Role in RNA Silencing Mechanisms , 2012, Genes.

[6]  Ulrich C. Klostermeier,et al.  Genome and low-iron response of an oceanic diatom adapted to chronic iron limitation , 2012, Genome Biology.

[7]  Matthew B. Stocks,et al.  The UEA sRNA workbench: a suite of tools for analysing and visualizing next generation sequencing microRNA and small RNA datasets , 2012, Bioinform..

[8]  Sebastian D. Mackowiak,et al.  miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades , 2011, Nucleic acids research.

[9]  Trina M. Norden-Krichmar,et al.  Characterization of the Small RNA Transcriptome of the Diatom, Thalassiosira pseudonana , 2011, PloS one.

[10]  C. Bowler,et al.  Stemming Epigenetics in Marine Stramenopiles , 2011, Current genomics.

[11]  Guangce Wang,et al.  Identification and characterization of microRNAs from Phaeodactylum tricornutum by high-throughput sequencing and bioinformatics analysis , 2011, BMC Genomics.

[12]  N. Sonenberg,et al.  Structural basis for 5′-nucleotide base-specific recognition of guide RNA by human AGO2 , 2010, Nature.

[13]  S. Goldenberg,et al.  A population of tRNA-derived small RNAs is actively produced in Trypanosoma cruzi and recruited to specific cytoplasmic granules. , 2010, Molecular and biochemical parasitology.

[14]  G. Barton,et al.  Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs. , 2009, RNA.

[15]  A. Malhotra,et al.  A novel class of small RNAs: tRNA-derived RNA fragments (tRFs). , 2009, Genes & development.

[16]  R. Parker,et al.  Stressing Out over tRNA Cleavage , 2009, Cell.

[17]  Debashish Bhattacharya,et al.  Genomic Footprints of a Cryptic Plastid Endosymbiosis in Diatoms , 2009, Science.

[18]  A. Falciatore,et al.  Gene silencing in the marine diatom Phaeodactylum tricornutum , 2009, Nucleic acids research.

[19]  Leszek Rychlewski,et al.  The Phaeodactylum genome reveals the evolutionary history of diatom genomes , 2008, Nature.

[20]  Nicole Poulsen,et al.  Diatoms-from cell wall biogenesis to nanotechnology. , 2008, Annual review of genetics.

[21]  V. Moulton,et al.  Deep sequencing of tomato short RNAs identifies microRNAs targeting genes involved in fruit ripening. , 2008, Genome research.

[22]  Ira Ben Shir,et al.  In situ observation of the internal structure and composition of biomineralized Emiliania huxleyi calcite by solid-state NMR Spectroscopy. , 2008, Journal of the American Chemical Society.

[23]  Janet Kelso,et al.  PatMaN: rapid alignment of short sequences to large databases , 2008, Bioinform..

[24]  Peter F. Stadler,et al.  Small ncRNA transcriptome analysis from Aspergillus fumigatus suggests a novel mechanism for regulation of protein synthesis , 2008, Nucleic acids research.

[25]  Thomas Mock,et al.  Whole-genome expression profiling of the marine diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses , 2008, Proceedings of the National Academy of Sciences.

[26]  D. Baulcombe,et al.  miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii , 2007, Nature.

[27]  William Stafford Noble,et al.  Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project , 2007, Nature.

[28]  Peter F. Hallin,et al.  RNAmmer: consistent and rapid annotation of ribosomal RNA genes , 2007, Nucleic acids research.

[29]  N. Rajewsky,et al.  The evolution of gene regulation by transcription factors and microRNAs , 2007, Nature Reviews Genetics.

[30]  E. Ullu,et al.  An unusual Dicer-like1 protein fuels the RNA interference pathway in Trypanosoma brucei. , 2006, RNA.

[31]  N. Sonenberg,et al.  Translational control in stress and apoptosis , 2005, Nature Reviews Molecular Cell Biology.

[32]  Nicholas H. Putnam,et al.  The Genome of the Diatom Thalassiosira Pseudonana: Ecology, Evolution, and Metabolism , 2004, Science.

[33]  Paul G. Falkowski,et al.  The Evolution of Modern Eukaryotic Phytoplankton , 2004, Science.

[34]  E. Finnegan,et al.  The small RNA world , 2003, Journal of Cell Science.

[35]  M. Carmell,et al.  Posttranscriptional Gene Silencing in Plants , 2006 .

[36]  J. Randerson,et al.  Primary production of the biosphere: integrating terrestrial and oceanic components , 1998, Science.

[37]  C. Brown,et al.  Coccolithophorid blooms in the global ocean , 1994 .

[38]  A. Pavesi,et al.  Identification of new eukaryotic tRNA genes in genomic DNA databases by a multistep weight matrix analysis of transcriptional control regions. , 1994, Nucleic acids research.

[39]  M. Fiala,et al.  Light-temperature interactions on the growth of Antarctic diatoms , 1990, Polar Biology.

[40]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[41]  Nancy Knowlton,et al.  Climate change impacts on marine ecosystems. , 2012, Annual review of marine science.

[42]  Kevin V. Morris,et al.  Non-coding RNAs and epigenetic regulation of gene expression : drivers of natural selection , 2012 .

[43]  S. López-Gomollón.  Detecting sRNAs by Northern blotting. , 2011, Methods in molecular biology.

[44]  B. Berkhout,et al.  A miRNA-tRNA mix-up: tRNA origin of proposed miRNA. , 2010, RNA biology.

[45]  M. Furnas.  In situ growth rates of marine phytoplankton: approaches to measurement, community and species growth rates , 1990 .

[46]  V. Smetácek.  Role of sinking in diatom life-history cycles: ecological, evolutionary and geological significance , 1985 .