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276 results for “Plant Biology”
Kellogg Biological Station site, station Treatment SF, old field successional community, never tilled, study of plant species richness in units of numberPerMeterSquared on a yearly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from Kellogg Biological Station (KBS) contains plant species richness measurements in numberPerMeterSquared units and were aggregated to a yearly timescale.
Local plant diversity and soybean biological control 2011 Aphid and Enemy Surveys:Biodiversity II: Effects of Plant Biodiversity on Population and Ecosystem Processes
Biodiversity II (E120) is designed to determine how the number of plant species affects the dynamics of ecological processes at the population, community, and ecosystem levels. By experimentally manipulating the number of species and the kinds of species, the amount of plant growth and the change from year to year, that result can be examined. Plots are large (9m x 9m actively maintained) and well-replicated, allowing responses of plant pathogens, insect herbivores, seed predators, soil parameters, invasive plant species and other variables to also be studied. Plots were seeded in May 1994 to have 1, 2, 4, 8, or 16 species, with roughly 30 replicates of each diversity level. The species composition of each plot was chosen by random draw from a pool of 18 grassland perennials that included four warm-season (C4) grasses, four cool-season (C3) grasses, four legumes, four non-legume forbs, and two woody species. All species occur in monoculture allowing comparison of responses of each species in monoculture to combinations of these same species. The experiment was established in 1994 by the lead investigators David Tilman, Peter Reich, Johannes Knops, and David Wedin. Experiment 120 is similar to Experiment 123, but it uses larger plots to provide a large capacity for long-term subexperiments.
Local plant diversity and soybean biological control 2012 Enemy Surveys:Biodiversity II: Effects of Plant Biodiversity on Population and Ecosystem Processes
Biodiversity II (E120) is designed to determine how the number of plant species affects the dynamics of ecological processes at the population, community, and ecosystem levels. By experimentally manipulating the number of species and the kinds of species, the amount of plant growth and the change from year to year, that result can be examined. Plots are large (9m x 9m actively maintained) and well-replicated, allowing responses of plant pathogens, insect herbivores, seed predators, soil parameters, invasive plant species and other variables to also be studied. Plots were seeded in May 1994 to have 1, 2, 4, 8, or 16 species, with roughly 30 replicates of each diversity level. The species composition of each plot was chosen by random draw from a pool of 18 grassland perennials that included four warm-season (C4) grasses, four cool-season (C3) grasses, four legumes, four non-legume forbs, and two woody species. All species occur in monoculture allowing comparison of responses of each species in monoculture to combinations of these same species. The experiment was established in 1994 by the lead investigators David Tilman, Peter Reich, Johannes Knops, and David Wedin. Experiment 120 is similar to Experiment 123, but it uses larger plots to provide a large capacity for long-term subexperiments.
Dataset used for the submitted manuscript "The hump-shaped effect of plant functional diversity on the biological control of a multi-species pest community"
<p>Dataset</p>
Nitrogen economy of alpine plants on the north Tibetan Plateau: nitrogen conservation by resorption rather than open sources through biological symbiotic fixation
<p>Nitrogen (N) is one of the most important factors limiting plant productivity, and N fixation by legume species is an important source of N input into ecosystems. Meanwhile, N resorption from senescent plant tissues conserves nutrients taken up in the current season, which may alleviate ecosystem N limitation. N fixation was assessed by the <sup>15</sup>N dilution technique in four types of alpine grasslands along the precipitation and soil nutrient gradients. The N resorption efficiency (NRE) was also measured in these alpine grasslands. The aboveground biomass in the alpine meadow was 4–6 times higher than in the alpine meadow-steppe, alpine steppe, and alpine desert-steppe. However, the proportion of legume species to community biomass in the alpine steppe and the alpine desert steppe was significantly higher than the proportion in the alpine meadow. N fixation by the legume plants in the alpine meadow was 0.236 g N m<sup>-2</sup>, which was significantly higher than N fixation in other alpine grasslands (0.041 to 0.089 g N m<sup>-2</sup>). The NRE in the alpine meadows was lower than in the other three alpine grasslands. Both the aboveground biomass and N fixation of the legume plants showed decreasing trends with the decline of precipitation and soil N gradients from east to west, while the NRE of alpine plants showed increasing trends along the gradients, which indicates that alpine plants enhance the NRE to adapt to the increasing droughts and nutrient-poor environments. The opposite trends of N fixation and NRE along the precipitation and soil nutrient gradients indicate that alpine plants adapt to precipitation and soil nutrient limitation by promoting NRE (conservative nutrient use by alpine plants) rather than biological N fixation (open sources by legume plants) on the north Tibetan Plateau.</p>
A systems biology approach to identify essential epigenetic regulators for specific biological processes in plants
<p>Supplemental Files for McCoy et al "A systems biology approach to identify essential epigenetic regulators for specific biological processes in plants"</p>
Field-based ecological studies to assess prospective biological control agents for invasive alien plants: an example from giant rat's tail grass
<p>1. Biological control (biocontrol) of invasive alien plants is a widely utilised weed management tool. Prospective biocontrol agents are typically assessed through host-specificity testing and pre-release efficacy studies performed in quarantine. However, rearing of the potential biocontrol agents and/or test plants is often difficult or impossible under quarantine conditions. Moreover, practitioners may attain laboratory-artefacts in quarantine, which may result in the potential agent being needlessly rejected. Field-based studies in the weed's indigenous distribution could overcome these issues.</p> <p>2. Sporobolus pyramidalis and Sporobolus natalensis (giant rat's tail grass; Poaceae) are indigenous in Africa but have become problematic invasive alien plants in Australia. A previous biocontrol programme was terminated because the candidate agent could not be reared and tested in quarantine. We performed field-based host-specificity and efficacy studies for prospective biocontrol agents in South Africa (indigenous distribution). Forty-seven non-target grass species were sampled during host-specificity assessments. Candidate agent efficacy was estimated based on damage to the target weeds, for each host-specific candidate individually and in combination with other host-specific candidates.</p> <p>3. Three species of endophagous wasps were deemed host-specific. Efficacy assessments identified an undescribed stem-boring wasp (Tetramesa sp.) species as the most damaging candidate. A second Tetramesa species was much less damaging alone but had a cumulative impact on the plant in combination with the more damaging Tetramesa species. Both Tetramesa species are recommended for importation into quarantine in Australia for confirmatory host-specificity testing with a significantly reduced test plant list.</p> <p>4. Synthesis and applications: Similar field-based assessments in the indigenous distribution of weeds targeted for biocontrol could be included in future programmes. Where rearing of potential agents and/or test plants is difficult or impossible under quarantine conditions, our field-based method provides an alternative. Where quarantine-based testing is feasible, this method ensures that only candidates that have passed an ecologically realistic host-specificity and potential efficacy screening are imported into quarantine. This may reduce the number of agents that are imported and the length of time each agent is kept in quarantine. This is advantageous because quarantine space is highly valuable and is usually a limiting factor in pre-release assessments of biocontrol agents.</p>
Data from: Evidence for rapid evolutionary change in an invasive plant in response to biological control
We present evidence that populations of an invasive plant species that have become re-associated with a specialist herbivore in the exotic range through biological control have rapidly evolved increased anti-herbivore defences compared to populations not exposed to biocontrol. We grew half-sib families of the invasive plant Lythrum salicaria sourced from 17 populations near Ottawa, Canada, that differed in their history of exposure to a biocontrol agent, the specialist beetle Neogalerucella calmariensis. In a greenhouse experiment, we manipulated larval and adult herbivory to examine whether a population's history of biocontrol influenced plant defence and growth. Plants sourced from populations with a history of biocontrol suffered lower defoliation than naïve, previously unexposed populations, strongly suggesting they had evolved higher resistance. Plants from biocontrol-exposed populations were also larger and produced more branches in response to herbivory, regrew faster even in the absence of herbivory, and were better at compensating for the impacts of herbivory on growth (i.e., they exhibited increased tolerance). Furthermore, resistance and tolerance were positively correlated among genotypes with a history of biocontrol but not among naïve genotypes. Our findings suggest that biocontrol can rapidly select for increased defences in an invasive plant, and may favour a mixed defence strategy of resistance and tolerance without an obvious cost to plant vigour. While rarely studied, such evolutionary responses in the target species have important implications for the long-term efficacy of biocontrol programmes.
Data from: Manipulating two olfactory cues causes a biological control beetle to shift to non-target plant species
Olfactory cues can determine the host preferences of herbivorous insects, but their role in host shifting is unclear. Host specificity and the potential for host shifts are important criteria for screening and post-release evaluation of biological control agents for invasive plants. However, the role of olfactory cues in mediating host shifts in biological control agents is not well understood. To investigate the role of olfactory cues in host selection of a reportedly monophagous flea beetle (Agasicles hygrophila), an important biocontrol agent for invasive alligator weed (Alternanthera philoxeroides), we extracted and analysed the volatiles produced by the host-plant A. philoxeroides and the non-host plants Alternanthera sessilis, Beta vulgaris and Amaranthus mangostanus. Moreover, we used electrophysiological techniques, behavioural bioassays and field trials to test the antennal responses and behavioural preferences of A. hygrophila to combinations of different plant volatiles and treatments, and pure compounds in different dosages and combinations. We show that A. hygrophila female beetles indeed use olfactory cues to select plants for feeding and oviposition and that the survivorship of larvae on the second preferred non-host plant A. sessilis, a close relative of the first preferred host plant A. philoxeroides, was over 75% in a field trail. Although female beetles responded to many volatile compounds from host and non-host plants, (E)-4,8-dimethyl-1,3,7-nonatriene (DMNT) positively encouraged the beetle's feeding and oviposition preferences, whereas (Z)-3-hexenol displayed repellent effect. Remarkably, complementation assays with (Z)-3-hexenol on host plant or DMNT on non-host plants significantly shifted A. hygrophila host preferences to non-host plants and resulted in oviposition and egg hatching on the non-host plant A. sessilis in field trials. Synthesis. We demonstrate an olfactory mechanism by which a specialized herbivorous beetle uses the ratio of two common plant volatiles, (E)-4,8-dimethyl-1,3,7-nonatriene and (Z)-3-hexenol, to discriminate between its host and non-host plants in nature. This study highlights an important mechanism by which olfactory cues could lead to undesired host range expansion in biocontrol agent, thus representing an important warning of the potential for a host shift and development of invasiveness in a common biocontrol agent, the flea beetle.
Data from: Varying the spatial arrangement of synthetic herbivore-induced plant volatiles and companion plants to improve conservation biological control
1.Conservation biological control aims to control pests by promoting wild populations of natural enemies. One challenge is to attract and retain efficient natural enemies in crop fields, which often are a suboptimal environment. Towards this goal, the attract-and-reward strategy relies on combining attractive synthetically produced herbivore-induced plant volatiles (HIPVs) with companion plants (non-crop plants which provide alternative resources to the targeted natural enemies). Although severely overlooked, the spatial arrangement of HIPV dispensers and rewards inside crop fields may strongly influence the foraging behaviour and persistence of natural enemies and thus the success of this pest management strategy. 2.We tested the impact of two contrasting spatial arrangements of HIPV dispensers and rewards, alternatively inside and around a block of target apple trees, on the efficacy of the biological control of Aphis citricola populations by the common predatory ladybird Propylea japonica in apple orchards in northern China. We used synthetic methyl salicylate (MeSA) as an attractant and the companion plant Calendula officinalis as a reward. To better understand how the spatial arrangement of MeSA dispensers and companion plants affected the attraction and foraging behaviour of adult ladybirds, we conducted indoor experiments in a flight mill, an olfactometer and a wind-tunnel. 3.Blocks of target trees treated with MeSA dispensers inside and companion plants around provided the most efficient pest control in orchards, compared with the opposite spatial arrangement. 4.The synthetic MeSA dispenser and the companion plant synergistically attracted ladybirds in the olfactometer and enhanced their flight activity in the flight mill. In the wind-tunnel, MeSA served as a spatial cue for ladybirds to find nearby prey, while companion plants were sought in the absence of prey. 5.Synthesis and applications. The present study will help further improvements of aphid control in apple orchards through a careful spatial arrangement of herbivore-induced plant volatiles dispensers (HIPVs) and rewards (companion plants) in optimized attract-and-reward strategies. Without such assessment, these strategies may be hazardous even with well-identified targeted natural enemies. Associated lab experiments highlight that HIPVs and companion plants interactively influence ladybird foraging pattern, and that their spatial arrangement can modulate the ability of such key predators to find their prey.
Data from: Density dependence, precipitation, and biological control agent herbivory influence landscape-scale dynamics of the invasive Eurasian plant Linaria dalmatica
1. Resource availability and natural enemies are among the most commonly cited mechanisms affecting competitive ability of invasive plants, but their simultaneous effects on plant dynamics are seldom evaluated in the field. Understanding how endogenous and exogenous factors affect invasive plant abundance is essential when evaluating the impact of classical weed biological control agents because misinterpretations of the mechanisms regulating plant demography may bias inference of herbivore impact. 2. In this study we report results from a citizen-science monitoring program initiated to evaluate the effects of the stem–mining weevil Mecinus janthiniformis on the Eurasian invasive weed Dalmatian toadflax Linaria dalmatica. We used a discrete model of population dynamics to evaluate the relative importance of endogenous and exogenous processes affecting changes in ramet density of L. dalmatica at 38 spatially replicated sites in Idaho, USA. 3. Analysis of per capita population growth rates based on ramet density indicated the presence of direct density dependence, which was most likely due to intraspecific competition. Changes in ramet density were not influenced by the abundance of the resident plant community. 4. Precipitation had a strong, positive effect on ramet density of L. dalmatica while the abundance of M. janthiniformis had a weaker, but significant, negative effect after accounting for the density dependence. There was no support for an interactive effect between precipitation and herbivory. 5. Synthesis and applications. Our results indicate that biological control is an important factor affecting weed population growth at the landscape scale, but they also suggest that biological control impact may vary considerably on local infestations due to site-specific variation in rainfall and density-dependent processes. We recommend that invasive plant management strategies integrate precipitation and biological control agent monitoring into their programs to estimate expected biological control efficacy. Alternative control methods should be prioritized in areas where herbivore impact is expected to be low.
Data from: Fungal symbionts as manipulators of plant reproductive biology
Symbioses have shaped the evolution of life, most notably through the fixation of heritable symbionts into organelles. The inheritance of symbionts promotes mutualism and fixation by coupling partner fitness. However, conflicts arise if symbionts are transmitted through only one sex and can shift host resources toward the sex through which they propagate. Such reproductive manipulators have been documented in animals with separate sexes but not in other phyla or sexual systems. Here we investigated whether the investment in male relative to female reproduction differed between hermaphroditic host plants with versus without a maternally inherited fungal symbiont. Plants with the fungus produced more seeds and less pollen than plants lacking the fungus, resulting in an ∼40% shift in functional gender and a switch from male-biased to female-biased sex allocation. Given the ubiquity of endophytes in plants, reproductive manipulators of hermaphrodites may be widespread in nature.
FIGURE 7. Biological aspects. A in First descriptions of immatures for Megistops (Boheman) (Coleoptera, Chrysomelidae, Galerucinae) in a new host-plant family, with notes on life history and redescription of M. vandepolli Duvivier *
FIGURE 7. Biological aspects. A, host plant Buddleja stachyoides, general view; B, damage of larvae with some larvae inside the leaf; C, detail of adult and larvae damage; D, adult; E, adult ovipositing; F, egg (not visible) covered by excretory material; G, larva; H, pupal chamber with pupae; I, pupa.
FIGURE 1. Dracaena spp. food plants. 1, D in Observations on the Biology of Afrotropical Hesperiidae (Lepidoptera). Part 8. Hesperiinae incertae sedis: Dracaena Feeders
FIGURE 1. Dracaena spp. food plants. 1, D. steudneri (or near), Misuku Forest, north Malawi, 20 May 2004; 2, typical D. laxissima, in cultivation; 3, D. camerooniana, in cultivation; 4, D. afromontana in cultivation.
FIGURE 28. Celaenorrhinus galenus biseriata food plants. 1 in Observations on the biology of Afrotropical Hesperiidae (Lepidoptera) principally from Kenya. Part 3. Pyrginae: Celaenorrhinini
FIGURE 28. Celaenorrhinus galenus biseriata food plants. 1, Hypoestes forskaolii (identified as H. verticillaris white flower form), Shimba Hills (transplanted to Nairobi) 91.10.9. 2, H. forskaolii (identified as H. sp.?verticillaris pink flower form), Marere waterworks, Shimba Hills, 13 Dec 1990.
Raw data for "Application of biological early warning systems in wastewater treatment plants: Introducing a promising approach to monitor changing wastewater composition"
Open the record for dataset details and reuse information.
SI-B for "Application of biological early warning systems in wastewater treatment plants: Introducing a promising approach to monitor changing wastewater composition"
Open the record for dataset details and reuse information.
FIGURE 1 in Type specimens of vascular plants in the herbarium of the National Institute of Biological Resources (II)
FIGURE 1. Type specimens in the herbarium of the National Institute of Biological Resources. 1. Asplenium ×bimixtum, 2. Asplenium ×uiryeongse, 3. Anemone pendulisepala, 4. Broussonetia ×hanjiana, 5. Pseudostellaria baekdusanensis, 6. Pseudostellaria ×bohyeonsanensis, 7. Pseudostellaria palibiniana var. gageodoensis, 8. Pseudostellaria ×segeolsanensis, 9. Viola breviflora.
Aphid conservation biological control in arable crops via flower strips: the predominant role of plant resources over diversity effects
<p>Dataset and R code</p>
Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations
<p>Input structures for a manuscript, along with selected output data and structures. This directory structure contains a cut-down copy of the directories used to generate the simulation data and the analysis. In order to make this fit into the 50GB Zenodo limit, it was constructed with the following tar command: tar -zcvf terpenoidpermeability.tar.gz --exclude="*BAK" --exclude="*#" --exclude="*log" --exclude="*xsc" --exclude="*coor" --exclude="*vel" --exclude="*[0-9].out" --exclude="*old" --exclude="*dcd" --exclude="*tmp" --exclude="*ppm" --exclude="*png" --exclude="*pdf" --exclude="*catchy*" --exclude="*svg" --exclude="*restart*" --exclude="*history" --exclude="core.*" --exclude="FFTW_NAMD*" --exclude="*avi" --exclude="*mp4" Terpenoid-Permeability, which intentionally excludes large files. The full dataset that includes trajectories is available upon request.</p> <p>The data is split into two directories initially "<strong>build</strong>" and "<strong>Simulations</strong>"</p> <ul> <li>"<strong>build</strong>" directory is the part where initial system for unbiased and biased simulation were build using "<strong>resolvate.tcl</strong>" and "<strong>smd-single-build-system.tcl</strong>" respectively.</li> <li>"<strong>Simulations</strong>" directory has the different namd files for running unbiased simulation, steered molecular dynamics and replica exchange umbrella sampling.</li> </ul> <p>The folder structure was generated using "<strong>gendirs*.py</strong>".<br> The unbiased simulations were run using "<strong>run.namd</strong>".<br> Steered molecular dynamics namd files were with name "<strong>step*.namd</strong>" and colvars configuration file are named "<strong>step*.conf</strong>".<br> <br> Replica exchange moleuclar dynamics (REUS) system was generated using "<strong>buildreplicas.tcl</strong>".<br> Replica windows size and force constant were written into a namd configuration file using "<strong>reus-genscript.py</strong>".<br> REUS general configuration file containing the parameters and forcefield is named as "<strong>base.namd</strong>".<br> Colvars for REUS are in "<strong>replicadistZcolvars.conf</strong>".<br> Umbrella sampling is performed with "<strong>umbrella.namd</strong>".</p>
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.