Index Catalog // ScholarsArchive@OSU

Genome-Wide Profiling and Analysis of Arabidopsis siRNAs

Creator:: Kasschau, Kristin D., Fahlgren, Noah, Chapman, Elisabeth J., Sullivan, Christopher M., Cumbie, Jason S., Givan, Scott A., and Carrington, James C.
Abstract:: Eukaryotes contain a diversified set of small RNA-guided pathways that control genes, repeated sequences, and viruses at the transcriptional and posttranscriptional levels. Genome-wide profiles and analyses of small RNAs, particularly the large class of 24-nucleotide (nt) short interfering RNAs (siRNAs), were done for wild-type Arabidopsis thaliana and silencing pathway mutants...
Resource Type:: Article
Full Text:: siRNAs Kristin D. Kasschau 1,2 , Noah Fahlgren 1,2,3 , Elisabeth J. Chapman 1,2,3 , Christopher M

Genome-wide profiling of Populus small RNAs

Creator:: Klevebring, Daniel, Street, Nathaniel R., Fahlgren, Noah, Kasschau, Krisitin D., Carrington, James C., Lundeberg, Joakim, and Jansson, Stefan
Abstract:: Background: Short RNAs, and in particular microRNAs, are important regulators of gene expression both within defined regulatory pathways and at the epigenetic scale. We investigated the short RNA (sRNA) population (18-24 nt) of the transcriptome of green leaves from the sequenced Populus trichocarpa using a concatenation strategy in combination with...
Resource Type:: Article
Full Text:: ; Nathaniel R Street - nathaniel.street@plantphys.umu.se; Noah Fahlgren - fahlgren@cgrb.oregonstate.edu

Identification of MIR390a precursor processing defective mutants in Arabidopsis by direct genome sequencing

Creator:: Cuperus, Josh T., Montgomery, Taiowa A., Fahlgren, Noah, Burke, Russell T., Townsend, Tiffany, Sullivan, Christopher M., and Carrington, James C.
Abstract:: Transacting siRNA (tasiRNA) biogenesis in Arabidopsis is initiated by microRNA (miRNA) –guided cleavage of primary transcripts. In the case of TAS3 tasiRNA formation, ARGONAUTE7 (AGO7)– miR390 complexes interact with primary transcripts at two sites, resulting in recruitment of RNA-DEPENDENT RNA POLYMERASE6 for dsRNA biosynthesis. An extensive screen for Arabidopsis mutants...
Resource Type:: Article
Full Text:: . Montgomerya,b, Noah Fahlgrena,b, Russell T. Burkeb, Tiffany Townsendb, Christopher M. Sullivanb,c, and James C

Garcia-RuizHernanBotanyPlantPathologyRolesProgramming_SupportingInformation.zip

Creator:: Garcia-Ruiz, Hernan, Carbonell, Alberto, Hoyer, J. Steen, Fahlgren, Noah, Takeda, Atsushi, Giampetruzzi, Annalisa, Lowery, Nicholas, Carrington, James C., and et al.
Abstract:: In eukaryotes, ARGONAUTE proteins (AGOs) associate with microRNAs (miRNAs), short interfering RNAs (siRNAs), and other classes of small RNAs to regulate target RNA or target loci. Viral infection in plants induces a potent and highly specific antiviral RNA silencing response characterized by the formation of virus-derived siRNAs. Arabidopsis thaliana has...

Garcia-RuizHernanBotanyPlantPathologyRolesProgramming.pdf

Creator:: Garcia-Ruiz, Hernan, Carbonell, Alberto, Hoyer, J. Steen, Fahlgren, Noah, Takeda, Atsushi, Giampetruzzi, Annalisa, Lowery, Nicholas, Carrington, James C., and et al.
Abstract:: In eukaryotes, ARGONAUTE proteins (AGOs) associate with microRNAs (miRNAs), short interfering RNAs (siRNAs), and other classes of small RNAs to regulate target RNA or target loci. Viral infection in plants induces a potent and highly specific antiviral RNA silencing response characterized by the formation of virus-derived siRNAs. Arabidopsis thaliana has...
Full Text:: ., Fahlgren, N., Gilbert, K. B., Takeda, A., ... & Carrington, J. C. (2015). Roles and Programming of

Functional Analysis of Three Arabidopsis ARGONAUTES Using Slicer-Defective Mutants

Creator:: Carbonell, Alberto, Fahlgren, Noah, Garcia-Ruiz, Hernan, Gilbert, Kerrigan B., Montgomery, Taiowa A., Nguyen, Tammy, Cuperus, Josh T., and Carrington, James C.
Abstract:: In RNA-directed silencing pathways, ternary complexes result from small RNA-guided ARGONAUTE (AGO) associating with target transcripts. Target transcripts are often silenced through direct cleavage (slicing), destabilization through slicer-independent turnover mechanisms, and translational repression. Here, wild-type and active-site defective forms of several Arabidopsis thaliana AGO proteins involved in posttranscriptional silencing were...
Resource Type:: Article
Full Text:: ARGONAUTES Using Slicer-Defective MutantsW OA Alberto Carbonell,a Noah Fahlgren,a Hernan Garcia-Ruiz,a

The ERI-6/7 Helicase Acts at the First Stage of an siRNA Amplification Pathway That Targets Recent Gene Duplications

Creator:: Fischer, Sylvia E. J., Montgomery, Taiowa A., Zhang, Chi, Fahlgren, Noah, Breen, Peter C., Hwang, Alexia, Sullivan, Christopher M., Carrington, James C., and Ruvkun, Gary
Abstract:: Endogenous small interfering RNAs (siRNAs) are a class of naturally occuring regulatory RNAs found in fungi, plants, and animals. Some endogenous siRNAs are required to silence transposons or function in chromosome segregation; however, the specific roles of most endogenous siRNAs are unclear. The helicase gene eri-6/7 was identified in the...
Resource Type:: Article
Full Text:: A. Montgomery1, Chi Zhang1, Noah Fahlgren2, Peter C. Breen1, Alexia Hwang1, Christopher M

FoxSamuelBotanyPlantPathologyParallelAnalysisRNA.pdf

Creator:: Jeong, Dong-Hoon, Schmidt, Skye A., Rymarquis, Linda A., Park, Sunhee, Ganssmann, Matthias, German, Marcelo A., Accerbi, Monica, Zhai, Jixian, Fahlgren, Noah, Fox, Samuel E., Garvin, David F., Mockler, Todd C., Carrington, James C., Meyers, Blake C., and Green, Pamela J.
Abstract:: BACKGROUND: The wild grass Brachypodium distachyon has emerged as a model system for temperate grasses and biofuel plants. However, the global analysis of miRNAs, molecules known to be key for eukaryotic gene regulation, has been limited in B. distachyon to studies examining a few samples or that rely on computational...
Full Text:: Ganssmann1,6, Marcelo A German1,7, Monica Accerbi1, Jixian Zhai1, Noah Fahlgren2, Samuel E Fox3,8, David F

FoxSamuelBotanyPlantPathologyParallelAnalysisRNA_TableS1.pdf

Creator:: Jeong, Dong-Hoon, Schmidt, Skye A., Rymarquis, Linda A., Park, Sunhee, Ganssmann, Matthias, German, Marcelo A., Accerbi, Monica, Zhai, Jixian, Fahlgren, Noah, Fox, Samuel E., Garvin, David F., Mockler, Todd C., Carrington, James C., Meyers, Blake C., and Green, Pamela J.
Abstract:: BACKGROUND: The wild grass Brachypodium distachyon has emerged as a model system for temperate grasses and biofuel plants. However, the global analysis of miRNAs, molecules known to be key for eukaryotic gene regulation, has been limited in B. distachyon to studies examining a few samples or that rely on computational...
Full Text:: 2004,14:787. 6. Xie Z, Allen E, Fahlgren N, Clamar A, Givan SA, Carrington JC: Expression of Arabidopsis

FoxSamuelBotanyPlantPathologyParallelAnalysisRNA_FigureS1.pdf

Creator:: Jeong, Dong-Hoon, Schmidt, Skye A., Rymarquis, Linda A., Park, Sunhee, Ganssmann, Matthias, German, Marcelo A., Accerbi, Monica, Zhai, Jixian, Fahlgren, Noah, Fox, Samuel E., Garvin, David F., Mockler, Todd C., Carrington, James C., Meyers, Blake C., and Green, Pamela J.
Abstract:: BACKGROUND: The wild grass Brachypodium distachyon has emerged as a model system for temperate grasses and biofuel plants. However, the global analysis of miRNAs, molecules known to be key for eukaryotic gene regulation, has been limited in B. distachyon to studies examining a few samples or that rely on computational...

ScholarsArchive@OSU

Genome-Wide Profiling and Analysis of Arabidopsis siRNAs

Genome-wide profiling of Populus small RNAs

Identification of MIR390a precursor processing defective mutants in Arabidopsis by direct genome sequencing

Garcia-RuizHernanBotanyPlantPathologyRolesProgramming_SupportingInformation.zip

Garcia-RuizHernanBotanyPlantPathologyRolesProgramming.pdf

Functional Analysis of Three Arabidopsis ARGONAUTES Using Slicer-Defective Mutants

The ERI-6/7 Helicase Acts at the First Stage of an siRNA Amplification Pathway That Targets Recent Gene Duplications

FoxSamuelBotanyPlantPathologyParallelAnalysisRNA.pdf

FoxSamuelBotanyPlantPathologyParallelAnalysisRNA_TableS1.pdf

FoxSamuelBotanyPlantPathologyParallelAnalysisRNA_FigureS1.pdf

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