A5090212973- Plant Molecular Biology Research
- Plant Reproductive Biology
- Photosynthetic Processes and Mechanisms
- Bryophyte Studies and Records
- Light effects on plants
- Plant nutrient uptake and metabolism
- Plant Genetic and Mutation Studies
- Plant tissue culture and regeneration
- CRISPR and Genetic Engineering
- Protist diversity and phylogeny
- Microtubule and mitosis dynamics
- Lichen and fungal ecology
- Marine and coastal plant biology
- Chromosomal and Genetic Variations
- Plant biochemistry and biosynthesis
- Plant Stress Responses and Tolerance
- Plant Pathogens and Resistance
- Genomics and Phylogenetic Studies
- Plant and Biological Electrophysiology Studies
- Calpain Protease Function and Regulation
- Plant Virus Research Studies
- Botany and Plant Ecology Studies
- Peatlands and Wetlands Ecology
- Plant and animal studies
- Biocrusts and Microbial Ecology
Institut Jean-Pierre Bourgin
2021-2024
AgroParisTech
2021-2024
Université Paris-Saclay
2021-2024
Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
2021-2024
Philipps University of Marburg
2016-2023
Washington University in St. Louis
2008-2017
Lawrence Livermore National Laboratory
2007
Joint Genome Institute
2007
Kanazawa University
2007
Advanced Science Research Center
2007
We report the draft genome sequence of model moss Physcomitrella patens and compare its features with those flowering plants, from which it is separated by more than 400 million years, unicellular aquatic algae. This comparison reveals genomic changes concomitant evolutionary movement to land, including a general increase in gene family complexity; loss genes associated environments (e.g., flagellar arms); acquisition for tolerating terrestrial stresses variation temperature water...
The draft genome of the moss model, Physcomitrella patens, comprised approximately 2000 unordered scaffolds. In order to enable analyses structure and evolution we generated a chromosome-scale assembly using genetic linkage as well (end) sequencing long DNA fragments. We find that 57% comprises transposable elements (TEs), some which may be actively transposing during life cycle. Unlike in flowering plant genomes, gene- TE-rich regions show an overall even distribution along chromosomes....
We show in bryophytes that abscisic acid (ABA) pretreatment of moss (Physcomitrella patens) cells confers desiccation tolerance. In angiosperms, both ABA and the transcriptional regulator ABSCISIC ACID INSENSITIVE 3 (ABI3) are required to protect seed during desiccation. was not able stable deletion lines ABI3 (DeltaPpabi3). Hence, has same functional link between ABA, ABI3, tolerance phenotype is found angiosperms. Furthermore, we identified 22 genes were induced wild-type lines. When their...
High-throughput RNA sequencing (RNA-seq) has recently become the method of choice to define and analyze transcriptomes. For model moss Physcomitrella patens, although this been used help specific perturbations, no overall reference dataset yet established. In framework Gene Atlas project, Joint Genome Institute selected P. patens as a flagship genome, opening way generate first comprehensive transcriptome for moss. The round described here is composed 99 independent libraries spanning 34...
Physcomitrella patens is a bryophyte model plant that often used to study evolution and development. Its resources are of great importance for comparative genomics evo-devo approaches. However, expression data from were so far generated using different gene annotation versions three platforms: CombiMatrix NimbleGen microarrays RNA sequencing. The currently available P. distributed across tools with visualization methods access the data. Here, we introduce an interactive atlas, Expression...
Abstract Gene functional descriptions offer a crucial line of evidence for candidate genes underlying trait variation. Conversely, plant responses to environmental cues represent important resources decipher gene function and subsequently provide molecular targets improvement through editing. However, biological roles large proportions across the phylogeny are poorly annotated. Here we describe Joint Genome Institute (JGI) Plant Atlas, an updateable data resource consisting transcript...
INTRODUCTION The moss Physcomitrella patens has been used as an experimental organism for more than 80 years. Within the last 15 years, its use a model to explore plant functions increased enormously. ability gene targeting and RNA interference methods study function, availability of many tools comparative functional genomics (including sequenced assembled genome, physical genetic maps, 250,000 expressed sequence tags [ESTs]), dominant haploid phase that allows direct forward analysis have...
INTRODUCTION This article includes a series of methods for culturing the moss Physcomitrella patens at all stages its life cycle. Gametophytes are axenically cultured on solid agar-based media and in shaken liquid cultures. For long-term storage gametophytes, cultures maintained medium 10°C very short day. Cryopreservation may also be used. Finally, sporophytes generated by self-fertilization sexual crossing.
Summary Orientation of cell division is critical for plant morphogenesis. This evident in the formation and function meristems morphogenetic transitions. Mosses undergo such transitions: from two‐dimensional tip‐growing filaments (protonema) to generation three‐dimensional leaf‐like structures (gametophores). The Defective Kernel 1 ( DEK 1) protein plays a key role perception and/or response positional cues that specify epidermal layer developing seeds flowering plants. moss P hyscomitrella...
Since its discovery and first applications for genome editing in plants, the clustered regularly interspaced short palindromic repeats (CRISPR)-Cas9 technology has revolutionized plant research precision crop breeding. Although classical CRISPR-Cas9 system is a highly efficient tool disruptive targeted mutagenesis, this mostly inefficient introduction of precise predictable nucleotide substitutions. Recently, Prime Editing been developed, allowing simultaneous generation transitions...
• The sequencing of the Physcomitrella patens genome, combined with high frequency gene targeting in this species, makes it ideal for reverse genetic studies. For forward studies, experimental crosses and analysis progeny are essential. Since P. is monoicous, producing both male female gametes on same gametophore, undergoing self-fertilization at a frequency, identification crossed sporophytes difficult. Usually spores from many mixed culture must be tested production recombinant progeny....
Novel developmental programs often evolve via cooption of existing genetic networks. To understand this process, we explored the TAS3 tasiRNA pathway in moss Physcomitrella patens. We find an ancestral function for repeatedly redeployed spatial regulation a conserved set Auxin Response Factors. In moss, results stochastic patterning filamentous protonemal tissue. Through modeling and experimentation, demonstrate that confers sensitivity robustness onto auxin response. Increased parallels...
Abstract Calpains are cysteine proteases that control cell fate transitions whose loss of function causes severe, pleiotropic phenotypes in eukaryotes. Although mainly considered as modulatory proteases, human calpain targets directed to the N-end rule degradation pathway. Several such transcription factors, hinting at a gene-regulatory role. Here, we analyze networks moss Physcomitrium patens and characterize regulons misregulated mutants DEFECTIVE KERNEL1 (DEK1). Predicted cleavage...
Abstract: RNAi is a powerful method for generating loss of function mutants, especially targeting genes belonging to large gene families. We have recently shown that functions in the moss Physcomitrella patens. obtained stable lines show constitutive silencing nuclearly localized GFP:GUS fusion protein (NLS:GFP:GUS). However, display do not necessarily reduced transcript levels. Therefore, system has been developed silences NLS:GFP:GUS reporter construct at same time as it interest. Gateway™...
Abstract When the actin related protein 2/3 (Arp2/3) complex member arpc4 was deleted in Physcomitrella patens (moss), resulting null mutant (Δ ) viable and revealed no gross changes during morphogenesis of filaments into gametophores. However, we observed a striking reduction filamentous tip growth, smaller, denser colonies. Although polar responses Δ to unilateral white light were unaffected, these defective their response polarized light. These observations strongly suggest specific role...
When BRK1, a member of the Wave/SCAR complex, is deleted in Physcomitrella patens (Deltabrk1), we report striking reduction filament growth resulting smaller and fewer cells with misplaced cross walls compared normal protonemal cells. Using an inducible green fluorescent protein-talin to detect actin living tissue, characteristic broad accumulation observed at tip wild-type apical cells, whereas Deltabrk1, smaller, more distinct foci are present. Insertion brk1-yfp into Deltabrk1 rescues...
Abstract The bryophytes are a morphologically and ecologically diverse group of plants that have recently emerged as major model systems for variety biological processes. In particular, the genome sequence moss, P hyscomitrella patens , has significantly enhanced our understanding evolution developmental processes in land plants. However, to fully explore diversity within bryophytes, we need additional genomic resources. Here, describe analyses transcriptomes male female isolate C eratodon...
Abstract DEFECTIVE KERNEL1 (DEK1) of higher plants plays an essential role in position-dependent signaling and consists a large transmembrane domain (MEM) linked to protease catalytic regulatory domain. Here, we show that the postulated sensory Loop MEM important developmental regulation DEK1 activity moss Physcomitrella patens. Compared with P. patens lacking (∆dek1), dek1∆loop mutant correctly positions division plane bud apical cell. In contrast early arrest ∆dek1 buds, develops aberrant...
Summary Defects in flagella/cilia are often associated with infertility and disease. Motile male gametes (sperm cells) an ancestral eukaryotic trait that has been lost several lineages like flowering plants. Here, we made use of a phenotypic fertility difference between two moss ( Physcomitrella patens ) ecotypes to explore spermatozoid function. We compare genetic epigenetic variation as well expression profiles the Gransden Reute ecotype identify set candidate genes infertility. generated...
Introduction Physcomitrium patens (Hedw.) Mitten (previously known as Physcomitrella patens) was collected by H.L.K. Whitehouse in Gransden Wood (Huntingdonshire, UK) 1962 and distributed across the globe starting 1974. Hence, accession has been cultured vitro laboratories for half a century. Today, there are more than 13 different pedigrees derived from original accession. Additionally, accessions other sites worldwide were during last decades. Methods results In this study 250 high...
The DEFECTIVE KERNEL1 (DEK1) calpain is a conserved 240-kD key regulator of three-dimensional body patterning in land plants acting via mitotic cell plane positioning. activity the cytosolic C-terminal protease regulated by membrane-anchored DEK1 MEM, which connected to 600-amino acid residue Linker. Similar and MEM domains, Linker highly plant lineage, similarity dropping sharply compared with orthologous charophyte sequences. Using site-directed mutagenesis, we studied effect on...
Abstract CRISPR and TALENs are efficient systems for gene editing in many organisms including plants. In cases the CRISPR–Cas or TALEN modules expressed plant cell only transiently. Theoretically, transient expression of should limit unexpected effects compared to stable transformation. However, very few studies have measured off-target unpredicted strategies on genome, none them these two major systems. We conducted, Physcomitrium patens , a comprehensive genome-wide investigation mutations...