ABSTRACT: Small RNA-seq from 10 day-old wild-type Physcomitrella patens was performed using 5 biological replicates. Replicates were grown in three batches at different times. Batch 1 had one replicate from strain "old WT", Batch 2 had two replicates from strain "old WT", and batch 3 had two replicates from strain "2009 WT". Old WT and 2009 WT were collected from Gransden wood, England; "old" has been in lab cultivation for at least 10 years, while "2009" was more recently collected from the wild (in 2009.) Annotation and quantification of small RNA-producing genes in Physcomitrella patens
Project description:Transcription profiling of Physcomitrella patens Reute strain gametophore, mature sporophyte and spore stage. These samples are part of an large-scale expression data set for the model moss Physcomitrella patens.
Project description:High-throughput sequencing of endogenous small RNAs from the moss Physcomitrella patens. This dataset encompasses microRNAs and other small RNAs of ~20-24 nucleotides expressed in the moss P. patens. SAMPLES UPDATED JULY 9, 2007 TO INCLUDE DATA ON SEQUENCED SMALL RNAS THAT DO NOT MATCH THE P. PATENS GENOME Keywords: High throughput small RNA sequencing Overall design: Small RNA cDNA libraries derived from polyacrylamide gel electrophoresis (PAGE) fractionated total RNA, adapter ligation, reverse transcription, and pyrosequencing was used for microRNA and endogenous siRNA discovery in wild-type tissues of the moss Physcomitrella patens. See Axtell et al. (2006) A two-hit trigger for siRNA biogenesis in plants. Cell 127: 565-577. for details.
Project description:7 days old protonema of Physcomitrella patens Wildtype and two transgenic lines, ΔPpcmt line 281 (Noy-Malka et al. 2014; IMSC accession 40738) and ΔPpmet line 5 (Yaari et al. 2015; IMSC accession 40758) grown on BCDAT solid medium.
Project description:Physcomitrella patens reproductive organs (archegonia and antheridia) were mechanically isolated for transcriptome profiling. Comparison between wt and Ppglr1/2, a glutamate receptor double knock-out mutant, was done to identify deferentially expressed genes. A custom designed NimbleGene microarray based on genome version 1.6 was used for this study.
Project description:This project aimed to discover genes that regulate the transition from 2D to 3D growth in the moss Physcomitrella patens. Mutants were generated that failed to initiate 3D growth. Bulk segregant analysis was conducted to identify the causative genes. This experiment contains four samples - GdGFP, VxmCherry, WT-pool, Mt-pool.