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:Whole Genome Metabolism of "Physcomitrella patens subsp. patens"
This is a whole genome metabolism model of Physcomitrella patens subsp. patens.
This model has been automatically generated by the SuBliMinaL Toolbox
and libAnnotationSBML using information coming from from KEGG (release 66, April 2013, accessed via the resource's web services interface) and, where relevant, augmented with metabolic pathway information extracted from MetaCyc (version 17.0, March 2013).
This model has been produced by the path2models
project and is currently hosted on BioModels Database
and identified by: BMID000000140910
Other models with the same genus include BMID000000002700 BMID000000002701 BMID000000002702 BMID000000002703 BMID000000002704 BMID000000002705 BMID000000002706 BMID000000002707 BMID000000002708 BMID000000002709 BMID000000002710 BMID000000002711 BMID000000002712 BMID000000002713 BMID000000002714 BMID000000002715 BMID000000002716 BMID000000002717 BMID000000002718 BMID000000002719 BMID000000002720 BMID000000002721 BMID000000002722 BMID000000002723 BMID000000002724 BMID000000002725 BMID000000002726 BMID000000002727 BMID000000002728 BMID000000002729 BMID000000038961 BMID000000038962 BMID000000038963 BMID000000038964 BMID000000038965 BMID000000038966 BMID000000038967 BMID000000038968 BMID000000038969 BMID000000038970 BMID000000038971 BMID000000038972 BMID000000038973 BMID000000038974 BMID000000038975 BMID000000038976 BMID000000038977 BMID000000038978 BMID000000038979 BMID000000038980 BMID000000038981 BMID000000038982 BMID000000038983 BMID000000038984 BMID000000038985 BMID000000038986 BMID000000038987 BMID000000038988 BMID000000038989 BMID000000038990 BMID000000038991 BMID000000038992 BMID000000038993 BMID000000038994 BMID000000038995 BMID000000038996 BMID000000038997 BMID000000038998 BMID000000038999 BMID000000039000 BMID000000039001 BMID000000039002 BMID000000039003 BMID000000039004 BMID000000039005 BMID000000039006 BMID000000039007 BMID000000039008 BMID000000039009 BMID000000039010 BMID000000039011 BMID000000039012 BMID000000039013 BMID000000039014 BMID000000039015 BMID000000039016 BMID000000039017 BMID000000039018 BMID000000039019 BMID000000039020 BMID000000039021 BMID000000039022 BMID000000039023 BMID000000039024 BMID000000039025 BMID000000039026 BMID000000039027 BMID000000039028 BMID000000039029 BMID000000039030 BMID000000039031 BMID000000039032 BMID000000039033 BMID000000039034 BMID000000039035 BMID000000039036 BMID000000039037 BMID000000039038 BMID000000039039 BMID000000039040 BMID000000039041 BMID000000039042 BMID000000039043 BMID000000039044 BMID000000039045 BMID000000039046 BMID000000039047 BMID000000039048 BMID000000039049 BMID000000039050 .
To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication
for more information.
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.