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137 results for “land plants”
Linked collectors and determiners for: Early Land Plants Today: Index of Liverworts & Hornworts 2011 - 2012.
Natural history specimen data linked to collectors and determiners held within, "Early Land Plants Today: Index of Liverworts & Hornworts 2011 - 2012". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/0efa800a-ee0f-48a7-881b-910b67f170c1">https://bionomia.net/dataset/0efa800a-ee0f-48a7-881b-910b67f170c1</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/0efa800a-ee0f-48a7-881b-910b67f170c1">https://gbif.org/dataset/0efa800a-ee0f-48a7-881b-910b67f170c1</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Bureau of Land Management, Vale District (Oregon, USA) Vascular Plants.
Natural history specimen data linked to collectors and determiners held within, "Bureau of Land Management, Vale District (Oregon, USA) Vascular Plants". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/43a02b9b-e339-48ef-b811-882e1878079a">https://bionomia.net/dataset/43a02b9b-e339-48ef-b811-882e1878079a</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/43a02b9b-e339-48ef-b811-882e1878079a">https://gbif.org/dataset/43a02b9b-e339-48ef-b811-882e1878079a</a>. Formatted as a Frictionless Data package.
The Prairie State: Using Ecological Niche Modeling to Predict Distributions of Early Land Plants
<p>This data includes raw data of over 12,000 occurrences were downloaded from the<strong> Consortium of Bryophyte Herbaria (<a href="http://www.bryophyteportal.org/portal">www.bryophyteportal.org/portal</a>), </strong>that were listed to be in Illinois and included longitude and latitude data. This data set was screened and cleaned to investigate species distribution models as well as generate models of selected bryophytes investigating future changes in distribution across climate change scenarios.</p>
Multilevel analysis between Physcomitrium patens and Mortierella explores potential long-standing interaction among land plants and fungi
<p class="MsoNormal"><a name="_Hlk83717523"></a><span>The model moss species <em>Physcomitrium patens</em> has long been used for studying divergence and evolution of land plants spanning from bryophytes to angiosperms. In addition to its phylogenetic relationships, the limited number of differential tissues, and comparable morphology to the earliest embryophytes make it an ideal candidate for modeling plant terrestrialization 500 million years ago. Based on how plants and fungi interact today, it is predicted that early interactions may have aided in overcoming the barriers present for initial plant colonization on land. This may have manifested similar to present day, where fungi enabled easier uptake of nitrogen, phosphorous, micronutrients, and water retention in exchange for a reliable carbon source. However, identifiable fungal symbionts in <em>P. patens</em>, despite mutualistic interaction widespread among all present day embryophyte families, have remained elusive. To test modern representatives of early land fungal lineages, two Mortierella species (<em>Linnemannia elongata</em> and <em>Benniella eriona</em>), with strains lacking and containing endobacterial symbionts, were grown in coculture with <em>P. patens</em>. We illustrate the interaction between <em>P. patens </em>and Mortierella through high-throughput phenomics, microscopy, RNA-sequencing, differential expression profiling, gene ontology enrichment, and comparisons among 99 other <em>P. patens</em> transcriptomic studies. Our study provides insights into the earliest plant-fungal interactions may have looked like and ways <em>P. patens</em> and Mortierella communicate today.</span></p>
Data from: Plant richness, land use and temperature differently shape invertebrate leaf-chewing herbivory on plant functional groups
Open the record for dataset details and reuse information.
Planting native wildflowers improves vacant land as bee habitat in a post-industrial city
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Threats of land use to the global diversity of vascular plants
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Multilevel analysis between Physcomitrium patens and Mortierella explores potential long-standing interaction among land plants and fungi
Open the record for dataset details and reuse information.
American Residential Macrosystems - Presence/absence of plant species within land use groups in residential yards in six major metropolitan areas in the United States, 2017-2018
"This dataset includes presence/absence of plant species recorded in residential yards and nearby natural and interstitial areas (i.e.unmanaged vegetation areas in the residential/wildland interface) in six cities across the U.S. Baltimore, MD, Boston, MA, Los Angeles, CA, Miami, FL, Minneapolis-St. Paul, MN, and Phoenix, AZ. Yards were grouped in 4 categories based on fertilizer input frequency, landscaping style and their impact on hydrology: high-input lawns, low-input lawns, wildlife-certified yards and yards with low impact on hydrology (or rain gardens)."
The effects of land-use history and the contemporary landscape on non-native plant invasion at local and regional scales in the French Broad Watersheds, 2007
Determining what factors explain the distribution of non-native invasive plants that can spread in forest-dominated landscapes could advance understanding of the invasion process and identify forest areas most susceptible to invasion. The researchers conducted roadside surveys to determine the presence and abundance of 15 non-native plant species known to invade forests in western North Carolina, USA. Prior to sampling, the researchers identified 15 non-native invasive plant species that were of concern in the study region. Generalized linear models were used to examine how contemporary and historic land use, landscape context, and topography influenced presence and abundance of the species at local and regional scales.
Influence of climate, soil and land cover on plant species distribution in the European Alps
<p>Although the importance of edaphic factors and habitat structure for plant growth and survival is known, both are often neglected in favor of climatic drivers when investigating the spatial patterns of plant species and diversity. Yet, especially in mountain ecosystems with complex topography, missing edaphic and habitat components may be detrimental for a sound understanding of biodiversity distribution. Here, we compare the relative importance of climate, soil and land cover variables when predicting the distributions of 2'616 vascular plant species in the European Alps, representing approximately two thirds of all European Flora. Using presence-only data, we built point-process models (PPMs) to relate species observations to different combinations of covariates. We evaluated the PPMs through block cross-validations, and assessed the independent contributions of climate, soil and land cover covariates to predict plant species distributions using an innovative predictive partitioning approach. We found climate to be the most influential driver of spatial patterns in plant species with a relative influence of ~58.5% across all species, with decreasing importance from low to high elevations. Soil (~20.1%) and land cover (~21.4%), overall, were less influential than climate, but increased in importance along the elevation gradient. Furthermore, land cover showed strong local effects in lowlands, while the contribution of soil stabilized at mid-elevations. The decreasing influence of climate with elevation is explained by increasing endemism, and the fact that climate becomes more homogeneous as habitat diversity declines at higher altitudes. In contrast, soil predictors were found to follow the opposite trend. Additionally, at low elevations, human-mediated land cover effects appear to reduce the importance of climate predictors. We conclude that soil and land cover are, like climate, principal drivers of plant species distribution in the European Alps. While disentangling their effects remains a challenge, future studies can benefit markedly by including soil and land cover effects when predicting species distributions.</p>
Data from: Land-use intensity and relatedness to native plants promote exotic plant invasion in a tropical biodiversity hotspot
<p>Exotic plant invasions threaten biodiversity and are costly to farmers. Land use is a major pathway promoting the spread of exotic plant species; however, little is known about the processes underlying the success of exotic plants in tropical agricultural landscapes. Focussing on the heterogeneous smallholder landscapes of north-eastern Madagascar, we studied exotic plants of understorey communities across a land-use intensity gradient from unburned lands (old-growth forests, forest fragments, and forest-derived vanilla agroforests) to burned ones (fallow-derived vanilla agroforests, woody fallows, and herbaceous fallows). </p> <p>We quantified the absolute species richness, abundance, and cover of exotic plants across land-use types and their proportional contribution to community richness, abundance, and cover as indicators of exotic plant invasion. We tested for the effects of land-use parameters, namely land-use history, canopy closure, and landscape-level forest cover, on exotic plants. Additionally, we tested whether the phylogenetic relatedness between exotic and native species in the same plot affected invasion success, testing Darwin's naturalization and pre-adaptation hypotheses. </p> <p>All indicators of exotic plant invasion were lowest in old-growth forests and forest fragments and highest in fallow-derived vanilla agroforests, woody fallows, and herbaceous fallows. Absolute and proportional exotic richness was negatively affected by canopy closure, and landscapes with high forest cover had lower proportions of exotic plant richness. High phylogenetic relatedness between exotics and natives was associated with lower proportional richness but higher proportions of exotics in abundance and cover. However, individual exotic species showed contrasting responses to land-use parameters and relatedness to natives.</p> <p>Synthesis and applications: Our results indicate that maintaining unburned lands, land-use types with dense canopies, and landscapes with high forest cover prevents the spread of exotic plants within agricultural landscapes of north-eastern Madagascar. Supporting Darwin's pre-adaptation hypothesis, exotic plants phylogenetically closely related to native plants are more likely to become successful invaders in terms of abundance and cover. Nevertheless, individual species show different responses to land-use changes and phylogenetic relatedness. Therefore, land-use decisions and management choices can be tailored to limit the spread of exotic species and to preserve native plants in this global biodiversity hotspot.</p>
Unexpected cryptic species among streptophyte algae most distant to land plants
<p>Streptophytes are one of the major groups of the green lineage (Chloroplastida or Viridiplantae). During one-billion-years of evolution, streptophytes have radiated into an astounding diversity of uni- and multicellular green algae as well as land plants. Most divergent from land plants is a clade formed by Mesostigmatophyceae, Spirotaenia spp., and Chlorokybophyceae. All three lineages are species-poor and the Chlorokybophyceae consist of a single described species, Chlorokybus atmophyticus. In this study, we used phylogenomic analyses to shed light into the diversity within Chlorokybus using a sampling of isolates across its known distribution. We uncovered a consistent deep genetic structure within the Chlorokybus isolates, which prompted us to formally extend the Chlorokybophyceae by describing four new species. Gene expression differences among Chlorokybus species suggest certain constitutive variability that might influence their response to environmental factors. Failure to account for this diversity can hamper comparative genomic studies aiming to understand the evolution of stress response across streptophytes. Our data highlight that future studies on the evolution of plant form and function can tap into an unknown diversity at key deep branches of the streptophytes.</p>
Data from: Phylogenetic distribution and expression pattern analyses identified a divergent basal body assembly protein involved in land plant spermatogenesis
<pre>Data from: Phylogenetic distribution and expression pattern analyses identified a divergent basal body assembly protein involved in land plant spermatogenesis Author information Shizuka Koshimizu1, Naoki Minamino2, Tomoaki Nishiyama3, Emiko Yoro4, Mayuko Sato5, Mayumi Wakazaki5, Kiminori Toyooka5, Kazuo Ebine2,6, Keiko Sakakibara4, Takashi Ueda2,6, and Kentaro Yano1 1 School of Agriculture, Meiji University, Kawasaki 214-8571, Japan 2 Division of Cellular Dynamics, National Institute for Basic Biology, Okazaki 444-8585, Japan 3 Research Center for Experimental Modeling of Human Disease, Kanazawa University, Kanazawa 920-0934, Japan 4 Department of Life Science, Rikkyo University, Tokyo 171‐8501, Japan 5 RIKEN Center for Sustainable Resource Science, Yokohama 230-0045, Japan 6 Department of Basic Biology, SOKENDAI (The Graduate University for Advanced Studies), Okazaki 444-8585, Japan This directory contains 0_README (this file) 1_Marchantia_FL_data 2_Physcomitrella_FL_data 3_Physcomitrella_TEM_images 4_PAML 1_Marchantia_FL_data Raw image data using quantification of spermatid phenotypes in Marchantia. quantification.xlsx: Summary of quantification data. 211111 and 211210: Observation date. ∟Mpbld10-1, Mpbld10-2, and Tak-1: Observed lines. ∟raw data: *.lsm files are raw image data. ∟binary image: *.tif files are binarization images of the Hoechst33342 data. ∟DIC: *.tif files are maximum intensity projection images of the C2 channels (detection of DIC images) of the raw data. ∟Hoechst33342: *.tif files are maximum intensity projection images of the C1 channels (detection of Hoechst33342 signals) of the raw data. 2_Physcomitrella_FL_data Merged data of DIC and Hoechst33342 signal images using quantification of spermatid phenotypes in Physcomitrella. line22-*.png: The images of Ppbld10-22 mutant. line30-*.png: The images of Ppbld10-30 mutant. wt.png: The images of wild type. Number in the images 1: With flagella 2: Without flagella 3_Physcomitrella_TEM_images TEM images of spermatids in the Ppbld10-30 mutant, except for images shown in Supporting Information Fig. S11. 4_PAML Files using analysis by PALM. input.fasta: Input multi fasta file. species_tree.nwk: The gene tree file for the global clock model (rooted using chlorophytes as an outgroup). species_tree_marked.nwk: A gene tree file with marks specifying land plant stem and crown branches as category #1 (for a local clock model). clock1: A directory containing output files of a PAML run with the global clock model (clock = 1) clock2: A directory containing output files of a PAML run with a local clock model (clock = 2). The branches assumed to have a different rate (r1) than the default rate r0 are specified with #1 in species_tree_marked.nwk.</pre>
Data From: Evolution of woody plants to the land‐sea interface: The atypical genomic features of mangroves with atypical phenotypic adaptation
<p><span>How plants adapt and diverge in extreme environments is a key question of plant evolution and ecology. Mangrove invasion of intertidal environments is facilitated by adaptive phenotypes such as aerial roots, salt-secreting leaf, and viviparity, and genomic mechanisms including whole genome duplication and transposable element number reduction. However, a number of mangroves lack these typical phenotypes. The question we ask is whether these phenotypically atypical mangroves also have distinct genomic features? The sibling mangrove species <em>Lumnitzera littorea</em> and <em>Lumnitzera racemosa</em> provide a model to study this question. We sequenced and assembled their genomes to chromosome level, together with a closely related species <em>Combretum micranthum</em>. While most mangroves have small genomes, the genomes of both <em>Lumnitzera </em>species are large (1443 and 1317 Mb) and carry a high proportion of repeat sequences (~75%). Moreover, <em>Lumnitzera</em> species have not undergone post-gamma whole-genome duplications. Their genome size increased mainly due to the expansion of repeat sequences in their ancestors. However, <em>Lumnitzera </em>genomes have reduced transposable elements by constraining the proliferation of new LTR-RTs. Meanwhile, the two species have more gene families contracted than expanded, and some gene families with reversed size change may underlie their differentiation in root morphology and local distribution. We identified 86 chromosomal inversions, five of which are measured between 6.5 and 12.8 megabases. A number of genes located in these inversions function in pigment biosynthesis, a process likely involved in flower color differentiation between the <em>Lumnitzera </em>species. We conclude that the mangroves with atypical phenotypes also have atypical genomic evolution.</span></p>
High resolution ancient sedimentary DNA shows that alpine plant diversity is associated with human land use and climate change
<p>The European Alps are highly rich in species, but their future may be threatened by ongoing changes in human land use and climate. Here, we reconstructed vegetation, temperature, human impact and livestock over the past ~12,000 years from Lake Sulsseewli, based on sedimentary ancient plant and mammal DNA, pollen, spores, chironomids, and microcharcoal. We assembled a highly-complete local DNA reference library (PhyloAlps, 3,923 plant taxa), and used this to obtain an exceptionally rich <em>sed</em>aDNA record of 366 plant taxa. Vegetation mainly responded to climate during the early Holocene, while human activity had an additional influence on vegetation from 6 ka onwards. Land-use shifted from episodic grazing during the Neolithic and Bronze Age to agropastoralism in the Middle Ages. Associated human deforestation allowed the coexistence of plant species typically found at different elevational belts, leading to levels of plant richness that characterise the current high diversity of this region. Our findings indicate a positive association between low-intensity agropastoral activities and precipitation with the maintenance of the unique subalpine and alpine plant diversity of the European Alps.</p>
Figure 1 in Record of pestiferous land snail, Macrochlamys indica Godwin-Austen 1883 (Gastropoda: Ariophantidae), on citrus and guava plants in Punjab, India
Figure 1. Snail on Kinnow mandarin nursery plant.
Data from: Trophic level and basal resource use of soil animals are hardly affected by local plant associations in abandoned arable land
Stable isotope composition of plants and soil animals in abandoned arable land <p>Dataset provides raw data on stable isotope composition of C and N of plants and soil meso- and macrofauna. Dominating animal groups were collected in arable fallow systems 3 and 14-16 years after abandonment. Animals were sampled from the rhizosphere of three plant species of different functional groups: a legume (Medicaco sativa), a non-legume herb (Taraxacum officinale) and a grass (Bromus sterilis). More information can be found in the associated paper.</p>
Projected impacts of climate and land use changes on the habitat of Atlantic Forest plants in Brazil
<p>Aim:<b> </b>To provide novel evidence on the average impact of climate and land use changes on habitat suitability for tropical plants and to test previous conclusions on the relative importance of these two drivers in shaping future availability of habitat for tropical plant species.</p> <p>Location<b>: </b>Brazil's Atlantic Forest domain.</p> <p>Time period: Plant occurrences recorded between 1960 and 2014. Baseline climate from 1960-2000 and land use from 2015. Projected scenarios of climate for 2041-2060 and land use for 2050.</p> <p>Major taxa studied: Angiosperms.</p> <p>Results: Our results suggest that climate change alone will, surprisingly, have only a modest negative impact on the mean habitat suitability, decreasing it by 2% (median = -5% to -7%, variation associated with scenarios). Land use change alone had a more consistent negative impact on habitat suitability, causing mean and median reductions of 4% to 6%. When the effects of climate and land use are combined, the mean habitat suitability was reduced by 4% (median = -9% to -11%).</p> <p>Main conclusions: The combined impacts of climate and land use changes were substantial, although smaller than expected. Habitat suitability decreased for most species, but it increased substantially for some species, suggesting that the distribution of impacts across species is markedly right skewed. The impacts were typically detrimental to small-ranged species and neutral or beneficial to widespread species. Land use change rather than climate change will likely cause more losses to the habitat of Atlantic Forest plant species within the next several decades.</p>
Island area and remoteness shape plant and soil bacterial diversity through land use and biological invasion
<p>Biodiversity is declining dramatically due to human-driven land use change and biological invasion, but our knowledge of how such drivers influence plant and heterotroph diversity on island ecosystems remains limited. Historically island biogeography theory has focused solely on the direct effects of island size and remoteness on biodiversity, but these factors can also indirectly affect species gain and/or loss by impacting land use change and biological invasion. We built the structural equation model to explore the direct effects of island size and remoteness, and indirect effects of these factors via land use intensity and pinewood nematode invasion, on the diversity of plants and soil bacteria across 37 continental shelf islands in the largest land-bridge archipelago in eastern China.</p> <p>As expected we found that increasing island area directly promoted plant diversity. However, land use intensity increased with island area which also promoted plant diversity, and loss of pine forest by the pinewood nematode invasion increased with island remoteness which reduced plant diversity. Island remoteness only indirectly reduced plant diversity through increasing pine forest loss. Soil bacterial diversity was directly negatively impacted by island remoteness, and indirectly negatively impacted by island remoteness through increased soil electrical conductivity likely caused by greater salinity from sea spray. Furthermore, soil bacterial diversity was indirectly promoted by island area through increased plant diversity and decreased soil electrical conductivity, and indirectly reduced by pine forest loss through decreased plant diversity. Our findings highlight that island biogeography theory has relevance to understanding human impacts in the Anthropocene, and that there is a need to more explicitly recognize how island size and remoteness affect biodiversity not only directly, but also indirectly via their effects on human-induced drivers of biodiversity, such as land use change and biological invasion.</p>
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.