Mimulus
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA316724 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:About one third of all angiosperm species produce flowers with petals fused into a corolla tube. As an important element of the tremendous diversity of flower morphology, the corolla tube plays a critical role in many specialized interactions between plants and animal pollinators (e.g., beeflies, hawkmoths, hummingbirds, nectar bats), which in turn drives rapid plant speciation. Despite its clear significance in plant reproduction and evolution, the corolla tube remains one of the least understood plant structures from a developmental genetics perspective. Through mutant analyses and transgenic experiments, here we show that the tasiRNA-ARF pathway is required for corolla tube formation in the monkeyflower species Mimulus lewisii. Loss-of-function mutations in the M. lewisii orthologs of ARGONAUTE7 and SUPRESSOR OF GENE SILENCING 3 cause a dramatic decrease in tasiARF abundance and a moderate up-regulation of Auxin Response Factor 3 (ARF3) and ARF4, which lead to inhibition of lateral expansion of the bases of petal primordia and complete arrest of the upward growth of the inter-primordial regions, resulting in unfused corollas. Integrating our molecular and phenotypic analyses of the tasiRNA-ARF pathway in Mimulus with historical insights from morphological and anatomical studies in various sympetalous species, we propose a new conceptual model for the developmental genetic control of corolla tube formation.
2020-11-12 | GSE108530 | GEO
Project description:Small RNAs (21-24 nt) are pivotal regulators of gene expression that guide both transcriptional and post-transcriptional silencing mechanisms in diverse eukaryotes, including most if not all plants. MicroRNAs (miRNAs) and short interfering RNAs (siRNAs) are the two major types, both of which have a demonstrated and important role in plant development, stress responses and pathogen resistance. In this work, we used a deep sequencing approach (Sequencing-By-Synthesis, or SBS) to develop sequence resources of small RNAs from Mimulus guttatus tissues (including leaves, flowers and roots). The high depth of the resulting datasets enabled us to examine in detail critical small RNA features as size distribution, tissue-specific regulation and sequence conservation between different organs in this species. We also developed database resources and a dedicated website (http://smallrna.udel.edu/) with computational tools for allowing other users to identify new miRNAs or siRNAs involved in specific regulatory pathways, verify the degree of conservation of these sequences in other plant species and map small RNAs on genes or larger regions of the maize genome under study. Small RNA libraries were derived from leaves, flowers and roots of Mimulus guttatus, strain âIM62â. Total RNA was isolated using the Plant RNA Purification Reagent (Invitrogen), and submitted to Illumina (Hayward, CA, http://www.illumina.com) for small RNA library construction using approaches described in (Lu et al., 2007) with minor modifications. The small RNA libraries were sequenced with the Sequencing-By-Synthesis (SBS) technology by Illumina. PERL scripts were designed to remove the adapter sequences and determine the abundance of each distinct small RNA. We thank John Willis for providing the plant material as well as Kan Nobuta and Gayathri Mahalingam for assistance with the computational methods.
2011-05-09 | E-GEOD-28971 | biostudies-arrayexpress
Project description:Small RNAs (21-24 nt) are pivotal regulators of gene expression that guide both transcriptional and post-transcriptional silencing mechanisms in diverse eukaryotes, including most if not all plants. MicroRNAs (miRNAs) and short interfering RNAs (siRNAs) are the two major types, both of which have a demonstrated and important role in plant development, stress responses and pathogen resistance. In this work, we used a deep sequencing approach (Sequencing-By-Synthesis, or SBS) to develop sequence resources of small RNAs from Mimulus guttatus tissues (including leaves, flowers and roots). The high depth of the resulting datasets enabled us to examine in detail critical small RNA features as size distribution, tissue-specific regulation and sequence conservation between different organs in this species. We also developed database resources and a dedicated website (http://smallrna.udel.edu/) with computational tools for allowing other users to identify new miRNAs or siRNAs involved in specific regulatory pathways, verify the degree of conservation of these sequences in other plant species and map small RNAs on genes or larger regions of the maize genome under study.
2011-05-10 | GSE28971 | GEO
Project description:Here we identify and characterize a spontaneous mutant allele that disrupts the initiation and specification of the ovule integument in Mimulus nudatus. The mutant phenotype is characterized by the early arrest of the ovule integument or alternatively, the delayed development of a carpel-like structure in place of the integument. Additionally, medusa mutant ovule primordia fail to develop female gametophytic structures. Morphological analyses indicate that a nucellar domain is specified within the ovule and a megaspore-like cell is often specified, but that cell aborts before generating the female gametophyte. We mapped the position of the mutation to a location on Chromosome1. Mapping revealed a primary candidate gene that was a member of a family of MADS-domain containing transcription factors with sequence similarity to the Arabidopsis BEL1 gene (At5G41410) and is an orthologue of the Mimulus guttatus gene MgTOL.A0789.1. Analysis of the sequence of the Mimulus nudatus homolog (referred hereafter as MnBEL1) locus, revealed the insertion of a mitochondrial DNA genomic fragment within the MnBEL1 locus that segregated with the medusa mutant phenotype. The mitochondrial insertion sequence is predicted to disrupt the coding sequence of MnBEL1. RNA expression analysis revealed dramatically reduced levels of the expression of the MnBEL1 in gynoecia from medusa mutant plants relative to wild type sisters. RNA seq analysis revealed that the medusa mutant seedpods failed to express MnBEL1 at wildtype levels. RNA sequence data comparisons between wildtype and medusa mutant seedpods also identified a set of genes, that are expressed in wildtype seedpods, but that are expressed at very low levels or that are not detected in the medusa seed pods. Homologues of many of these genes have been previously shown to be strongly expressed in female gametophyte in Arabidopsis. This RNA seq analysis further indicates a strong developmental disruption and identifies sets of genes with expected roles in female gametophyte development in Mimulus species for further investigation. Our evidence strongly suggests that MnBEL1 is a true functional orthologue of AtBEL1. To the best of our knowledge, these studies provide the first mutational analysis of a BEL1 orthologue outside of Arabidopsis and indicate the functional conservation of this gene between Mimulus and Arabidopsis. This work also presents the first identification of a mutational event in Mimulus that is linked to an insertion of a mitochondrial sequence in the nuclear genome.
2025-06-01 | GSE297725 | GEO
Project description:Mimulus naiandinus line 105 and Mimulus luteus var. variegatus line RC6. Transcriptome
| PRJNA493242 | ENA
Project description:The seeds of angiosperms are comprised of three main tissues--the seed coat, embryo, and endosperm--whose coordinated development will enable the next generation to disperse with sufficient maternal resources and germinate when conditions are favorable. We use high-throughput RNA sequencing technology to characterize the developmental dynamics of gene expression in whole seeds resulting from a compatible cross between two species of the Mimulus guttatus complex.We find that development in ovules and seeds involves the activation of the majority of annotated genes in M. guttatus (64-67%), and the differential expression over time of 6,691 genes, including 424 transcription factors. Most of the genes we detected (69%) were expressed at all stages, from ovules to heart-stage embryo seeds. We also detected and validated four genes exhibiting paternally-biased expression (MDB13, ATXR5, DnaJ and BGAL11). Intriguingly, three of our validated PEGs are have imprinted homologues in other plant species, suggesting that these proteins perform a shared role in endosperm development among distantly related plant taxa. Additionally, the overlap in gene expression profiles between stages of development suggests that most genes fulfill multiple developmental and biological roles. Future analyses should examine whether different regions of the seed (embryo, endosperm, and seed coat) have unique patterns of gene expression, and the extent to which spatial coordination and regulation of gene expression may play a role in regulating seed development.
2019-09-27 | GSE123424 | GEO
Project description:Mimulus guttatus rhizosphere microbiome amplicon sequencing
| PRJNA451377 | ENA