Ontology highlight
ABSTRACT:
PROVIDER: PRJNA811740 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Rhizosphere microbial communities of aquatic plants
| PRJNA1057169 | ENA
Project description:Rhizosphere microbial communities of aquatic plants
| PRJNA1057173 | ENA
Project description:Endophytic fungal diversity in three aquatic plants
| PRJNA736183 | ENA
Project description:The Lemnaceae (duckweeds) are the world’s smallest but fastest growing flowering plants, with a drastically reduced morphology and predominant clonal reproductive habit capable of continuous exponential growth. Here, we present assemblies of 10 Lemna chromosome sets by single molecule nanopore sequencing and chromosome conformation capture. Dynamics of genome evolution in the family are revealed by syntenic comparisons with Wolffia and Spirodela, and diversification of these genera was found to coincide with the “Azolla event”, in which blooms of aquatic macrophytes reduced atmospheric CO2 from greenhouse levels found in the Eocene to those of the current ice age. Orthologous gene comparisons with other aquatic and terrestrial plants uncovered candidate genes for the unique metabolic and developmental features of the family, such as frequent hybrid polyploidy, lack of stomatal closure in high CO2, and accumulation of calcium oxalate, a promising candidate for carbon sequestration. Loss of a spermine-triggered gene network accounts for drastic reduction in stature and preferentially adaxial stomata, a feature of floating aquatic plants. Strikingly, Lemnaceae genomes have selectively lost some of the genes required for RNA interference, including Argonaute genes required for post-zygotic reproductive isolation (the triploid block) and reduced gamete formation. Triploid hybrids arise commonly among Lemna, presumably by hybridization with unreduced gametes, and we have found mutations in highly-conserved ZMM crossover pathway genes that could support polyploid meiosis. Rapid but stable clonal propagation makes Lemna an ideal platform for protein and starch micro-cropping, and for sequestration of dissolved nutrients and atmospheric CO2. Facile regeneration of transgenic fronds from tissue culture, aided by reduced epigenetic silencing, makes Lemna a powerful biotechnological platform, as exemplified by our recent engineering of high-oil Lemna lines that out-perform with oil seed crops.
2023-12-12 | GSE238134 | GEO
Project description:The Streptophyta include unicellular and multicellular charophyte green algae and land plants. Colonization of the terrestrial habitat by land plants was a major evolutionary event that has transformed our planet. So far lack of genome information on unicellular charophyte algae hinders our understanding of the origin and the evolution from unicellular to multicellular life in Streptophyta. This work reports the high-quality reference genome and transcriptome of Mesostigma viride, a single-celled charophyte alga with a position at the base of Streptophyta. There are abundant segmental duplications and transposable elements in M. viride, which contribute to a relatively large genome with high gene content compared to other algae and early diverging land plants. This work identifies the origin of genetic tools that multicellular Streptophyta have inherited and key genetic innovations required for evolution of land plants from unicellular aquatic ancestors. The findings shed light on the age-old questions of the evolution of multicellularity and the origin of land plants.
2019-11-21 | GSE123850 | GEO
Project description:The Streptophyta include unicellular and multicellular charophyte green algae and land plants. Colonization of the terrestrial habitat by land plants was a major evolutionary event that has transformed our planet. So far lack of genome information on unicellular charophyte algae hinders our understanding of the origin and the evolution from unicellular to multicellular life in Streptophyta. This work reports the high-quality reference genome and transcriptome of Mesostigma viride, a single-celled charophyte alga with a position at the base of Streptophyta. There are abundant segmental duplications and transposable elements in M. viride, which contribute to a relatively large genome with high gene content compared to other algae and early diverging land plants. This work identifies the origin of genetic tools that multicellular Streptophyta have inherited and key genetic innovations required for evolution of land plants from unicellular aquatic ancestors. The findings shed light on the age-old questions of the evolution of multicellularity and the origin of land plants.
2019-11-21 | GSE123851 | GEO
Project description:Rapid phenotypic changes in adaptive traits are crucial for organisms to thrive in changing environments. Alternanthera philoxeroides, originally a terrestrial plant from South America, has become an invasive weed in Asia, capable of colonizing both aquatic and terrestrial habitats. The mechanism by which this invasive habitat is rapidly achieved without genetic variation remains unknown. Here, we demonstrate that miRNA activity in A. philoxeroides plays a significant role in its high invasive capacity. Our results highlight that an intact miRNA pathway is essential for the survival of A.philoxeroides in aquatic habitats. We identified one key miRNA, Aph-miR162, that promotes rapid elongation of stem in aquatic environments. Upon water submergence, the levels of miR162 significantly increased in stems from 3 hours to 24 hours. TRV based VIGS-mediated knockdown of Aph-miR162 significantly disrupted stem elongation in water submergence condition, ultimately resulting in a failure of plants protruding from the water surface. Interestingly, miR162 was not up-regulated in the non-invasive sibling species Alternanthera pungens, which also originates from South America but has retained its original terrestrial habitats in Asia. More importantly, delivering the antisense RNA oligos complementary to Aph-miR162 via the nanoparticle method significantly impaired stem elongation upon water submergence, causing A. philoxeroides to wither after 2-3 weeks. Thus, our findings reveal that the miRNA pathway can drive rapid phenotypic variation, facilitating adaptation to aquatic environments. Importantly, miR162 has the potential as a bio-pesticide for controlling the invasive capacity of A. philoxeroides.
2025-06-18 | GSE283087 | GEO