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113 results for “Population trends”
Fig. 3 in Discovery of a new crocodile lizard population in Vietnam: Population trends, future prognoses and identification of key habitats for conservation
Fig. 3. Observed population structure of Vietnamese S. crocodilurus from 2010 to 2015. Photos M. van Schingen.
Fig. 2 in Discovery of a new crocodile lizard population in Vietnam: Population trends, future prognoses and identification of key habitats for conservation
Fig. 2. Population trends of S. crocodilurus in Vietnam from 2010 to 2015. (A) Estimated total population sizes in Vietnam. (B) Observed total subpopulation sizes. (C) Observed effective subpopulation sizes. Arrows indicate trend lines.
Monitoring wildlife population trends with sample counts: A case study on the Alpine ibex (Capra ibex)
<p><span>Monitoring population dynamics is of fundamental importance in conservation but assessing trends in abundance can be costly, especially in large and rough areas. Obtaining trend estimations from counts performed in only a portion of the total area (sample counts) can be a cost-effective method to improve the monitoring and conservation of species difficult to count. </span></p> <p><span>We tested the effectiveness of sample counts in monitoring population trends of wild animals, using as a model population the Alpine ibex (<em>Capra ibex</em>) in the Gran Paradiso National Park (Italy), both with computer simulations and using historical count data collected over the last 65 years. Despite sample counts failed to correctly estimate the true population abundance, sampling half of the target area could reliably monitor the trend of the target population. In case of strong changes in abundance, an even lower proportion of the total area could be sufficient to identify the direction of the population trend. However, when there is a high yearly trend variability, the required number of samples increases and even counting in the entire area can be ineffective to detect population trends. The effect of other parameters, such as which portion of the area is sampled and detectability, was lower, but these should be tested case by case. </span></p> <p><span>Sample counts could therefore constitute a viable alternative to assess population trends, allowing for important, cost-effective improvements in the monitoring of wild animals of conservation interest. </span></p>
Mixed population trends inside a California protected area: Evidence from long-term community science monitoring
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A framework for assessing the habitat correlates of spatially explicit population trends
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Monitoring wildlife population trends with sample counts: A case study on the Alpine ibex (Capra ibex)
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Imperfect detection in plant populations can cause misestimates of demographic rates and missed population trends: The case for Astragalus microcymbus Barneby
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Data from: Spatio-temporal trends in richness and persistence of bacterial communities in decline-phase water vole populations
<p><strong>ABSTRACT</strong><br> Understanding the driving forces that control vole population dynamics requires identifying bacterial parasites hosted by the voles and describing their dynamics at the community level. To this end, we used high-throughput DNA sequencing to identify bacterial parasites in cyclic populations of montane water voles that exhibited a population outbreak and decline in 2014-2018. An unexpectedly large number of 155 Operational Taxonomic Units (OTUs) representing at least 13 genera in 11 families was detected. Individual bacterial richness was higher during declines, and vole body condition was lower. Richness as estimated by Chao2 at the local population scale did not exhibit clear seasonal or cycle phase-related patterns, but at the vole meta-population scale, exhibited seasonal and phase-related patterns. Moreover, bacterial OTUs that were detected in the low density phase were geographically widespread and detected earlier in the outbreak; some were associated with each other. Our results demonstrate the complexity of bacterial community patterns with regard to host density variations, and indicate that investigations about how parasites interact with host populations must be conducted at several temporal and spatial scales: multiple times per year over multiple years, and at both local and long-distance dispersal scales for the host(s) under consideration.</p> <p><strong>FILE DESCRIPTION:</strong></p> <p><strong>Trapping, physical, and demographic data for the 1376 <em>Arvicola terrestris</em> included in sequencing runs 1 to 8</strong></p> <p>This XLSX file contains the following information concerning the 1376 animals included in the eight sequencing runs: location, session numbering, animal_id, trap_name, capture_date, species, sex (1=male, 2=female), weight (g), length_body (mm), length_tail (mm, testes (0=abdominal, 1=scrotal), testes_length (mm), testes_width (mm), nipples (0=small, 1=lactating), vagina (0=not perforate, 1=perforate), pub_symph (0=closed, 1=open), uterus_scars (#), embryos(#), lens_weight (g), lens_weight2 (g) and sequencing labels</p> <p>File name: Animal_details.xlsx</p> <p> </p> <p><strong>Information concerning the <em>Arvicola terrestris</em> samples and the positive and negative controls multiplexed in the 16Sv4 MiSeq sequencing runs 1 to 8</strong></p> <p>This XLSX file contains the Run IDs, Sample IDs, Sample types, Dates & Site names, DNA extraction kit, PCR IDs, PCR replicate numbers, numbers of reads before and after filtering and the fastq file names for the 6615 PCR products multiplexed in the eight different Illumina MiSeq runs.</p> <p>File name: Sample_and_sequencing_informations.xlsx</p> <p> </p> <p><strong>MiSeq raw sequences of the 16Sv4 rRNA gene from <em>Arvicola terrestris</em> samples (Run1)</strong></p> <p>This ZIP file contains the Run1 FASTQ files of the paired-end reads (R1: reads 1; R2: reads 2) produced for each <em>Arvicola terrestris</em> sample using the MiSeq platform. The 1570 multiplexed PCR products were indexed using both forward and reverse indices. The list of the multiplexed samples and positive & negative controls are provided in the following XLSX file titled: Sample_and_sequencing_informations.xlsx.</p> <p>File name: MiSeq_Reads_16S_Arvicola_terrestris_Run1.zip</p> <p> </p> <p><strong>MiSeq raw sequences of the 16Sv4 rRNA gene from <em>Arvicola terrestris</em> samples (Run2)</strong></p> <p>This ZIP file contains the Run2 FASTQ files of the paired-end reads (R1: reads 1; R2: reads 2) produced for each <em>Arvicola terrestris</em> sample using the MiSeq platform. The 1668 multiplexed PCR products were indexed using both forward and reverse indices. The list of the multiplexed samples and positive & negative controls are provided in the following XLSX file titled: Sample_and_sequencing_informations.xlsx.</p> <p>File name: MiSeq_Reads_16S_Arvicola_terrestris_Run2.zip</p> <p> </p> <p><strong>MiSeq raw sequences of the 16Sv4 rRNA gene from <em>Arvicola terrestris</em> samples (Run3)</strong></p> <p>This ZIP file contains the Run3 FASTQ files of the paired-end reads (R1: reads 1; R2: reads 2) produced for each <em>Arvicola terrestris</em> sample using the MiSeq platform. The 1646 multiplexed PCR products were indexed using both forward and reverse indices. The list of the multiplexed samples and positive & negative controls are provided in the following XLSX file titled: Sample_and_sequencing_informations.xlsx.</p> <p>File name: MiSeq_Reads_16S_Arvicola_terrestris_Run3.zip</p> <p> </p> <p><strong>MiSeq raw sequences of the 16Sv4 rRNA gene from <em>Arvicola terrestris</em> samples (Run4)</strong></p> <p>This ZIP file contains the Run4 FASTQ files of the paired-end reads (R1: reads 1; R2: reads 2) produced for each <em>Arvicola terrestris</em> sample using the MiSeq platform. The 1712 multiplexed PCR products were indexed using both forward and reverse indices. The list of the multiplexed samples and positive & negative controls are provided in the following XLSX file titled: Sample_and_sequencing_informations.xlsx.</p> <p>File name: MiSeq_Reads_16S_Arvicola_terrestris_Run4.zip</p> <p> </p> <p><strong>MiSeq raw sequences of the 16Sv4 rRNA gene from <em>Arvicola terrestris</em> samples (Run5)</strong></p> <p>This ZIP file contains the Run5 FASTQ files of the paired-end reads (R1: reads 1; R2: reads 2) produced for each <em>Arvicola terrestris</em> sample using the MiSeq platform. The 1680 multiplexed PCR products were indexed using both forward and reverse indices. The list of the multiplexed samples and positive & negative controls are provided in the following XLSX file titled: Sample_and_sequencing_informations.xlsx.</p> <p>File name: MiSeq_Reads_16S_Arvicola_terrestris_Run5.zip</p> <p> </p> <p><strong>MiSeq raw sequences of the 16Sv4 rRNA gene from <em>Arvicola terrestris</em> samples (Run6)</strong></p> <p>This ZIP file contains the Run6 FASTQ files of the paired-end reads (R1: reads 1; R2: reads 2) produced for each <em>Arvicola terrestris</em> sample using the MiSeq platform. The 1704 multiplexed PCR products were indexed using both forward and reverse indices. The list of the multiplexed samples and positive & negative controls are provided in the following XLSX file titled: Sample_and_sequencing_informations.xlsx.</p> <p>File name: MiSeq_Reads_16S_Arvicola_terrestris_Run6.zip</p> <p> </p> <p><strong>MiSeq raw sequences of the 16Sv4 rRNA gene from <em>Arvicola terrestris</em> samples (Run7)</strong></p> <p>This ZIP file contains the Run7 FASTQ files of the paired-end reads (R1: reads 1; R2: reads 2) produced for each <em>Arvicola terrestris</em> sample using the MiSeq platform. The 1620 multiplexed PCR products were indexed using both forward and reverse indices. The list of the multiplexed samples and positive & negative controls are provided in the following XLSX file titled: Sample_and_sequencing_informations.xlsx.</p> <p>File name: MiSeq_Reads_16S_Arvicola_terrestris_Run7.zip</p> <p> </p> <p><strong>MiSeq raw sequences of the 16Sv4 rRNA gene from <em>Arvicola terrestris</em> samples (Run8)</strong></p> <p>This ZIP file contains the Run8 FASTQ files of the paired-end reads (R1: reads 1; R2: reads 2) produced for each <em>Arvicola terrestris</em> sample using the MiSeq platform. The 1630 multiplexed PCR products were indexed using both forward and reverse indices. The list of the multiplexed samples and positive & negative controls are provided in the following XLSX file titled: Sample_and_sequencing_informations.xlsx.</p> <p>File name: MiSeq_Reads_16S_Arvicola_terrestris_Run8.zip</p> <p> </p> <p><strong>Raw abundance table of the 16v4 rRNA gene from <em>Arvicola terrestris samples before data filtering (Run1 to 8)</em></strong></p> <p>This CSV file contains the number of reads for each distinct variant (OTU) and each of the 6615 PCR products, including the <em>Arvicola terrestris</em> samples and the controls, sequenced in the MiSeq runs 1 to 8 before the data filtering.</p> <p>File name: Read_abundance_table_before_filtering.csv</p> <p> </p> <p><strong>Abundance table of the 16v4 rRNA gene from <em>Arvicola terrestris</em> samples after data filtering (Run1 to 8)</strong></p> <p>This CSV file contains the number of reads for each distinct variant (OTU) and each <em>Arvicola terrestris</em> sample sequenced in the MiSeq runs 1 to 8 after the data filtering.</p> <p>File name: Read_abundance_table_after_filtering.csv</p>
How butterflies keep their cool: physical and ecological traits influence thermoregulatory ability and population trends.
<p>Understanding which factors influence the ability of individuals to respond to changing temperatures is fundamental to species conservation under climate change.</p> <p>We investigated how a community of butterflies responded to fine-scale changes in air temperature, and whether species-specific responses were predicted by ecological or morphological traits.</p> <p>Using data collected across a UK reserve network, we investigated the ability of 29 butterfly species to buffer thoracic temperature against changes in air temperature. First, we tested whether differences were attributable to taxonomic family, morphology or habitat association. We then investigated the relative importance of two buffering mechanisms: behavioural thermoregulation versus fine-scale microclimate selection. Finally, we tested whether species' responses to changing temperatures predicted their population trends from a UK-wide dataset.</p> <p>We found significant interspecific variation in buffering ability, which varied between families and increased with wing length. We also found interspecific differences in the relative importance of the two buffering mechanisms, with species relying on microclimate selection suffering larger population declines over the last 40 years than those that could alter their temperature behaviourally.</p> <p>Our results highlight the importance of understanding how different species respond to fine-scale temperature variation, and the value of taking microclimate into account in conservation management to ensure favourable conditions are maintained for temperature-sensitive species.</p>
Common-garden experiment reveals clinal trends of bud phenology in black spruce populations from a latitudinal gradient in the boreal forest
<p>Climate warming is modifying the movement of air masses over Northern latitudes, producing warming and cooling events across the boreal regions. These new conditions changes may mismatch plant phenology from weather conditions, and affect the growing period of trees. Understanding the processes of local adaptation in bud phenology can help to predict the response of plants to these rapid and unexpected environmental changes.</p> <p>Our study monitored bud burst and bud set weekly during four growing seasons in black spruce [Picea mariana (Mill.) B.S.P.] saplings planted in a common garden and originating from five provenances representing the whole latitudinal distribution of the closed boreal forest in Quebec, Canada. We compared the variance in bud phenology among populations and years, and analyzed the relationships with the temperatures at the origin sites.</p> <p>Bud burst and bud set occurred in mid-May and mid-July, respectively, with a large variability among provenances and between the study years. A delayed bud phenology was observed in the provenances from warmer sites, with bud burst and bud set being 1.1 and 1.4 days later for every additional degree in mean annual temperature at the origin site, respectively. Populations with earlier bud bursts also showed earlier bud sets, thus the growing season was similar among provenances. The heritability of bud set was higher than that of bud burst, with estimates of 0.26 and 0.21, respectively. On average, variance in bud phenology among provenances reached 5.3%, which was higher than that within provenances (2.6%). The factor year explained 37.7-69.7% of the variance in bud phenology.</p> <p>Synthesis. Results demonstrate the plastic response of bud burst to changing temperatures and suggest the effects of endogenous factors on bud set. The earlier growth reactivation due to global warming occurring under higher frost risks in spring are expected to produce damage to the developing buds. Meanwhile, the ability of bud phenology to match the inter-annual variability in weather could help to cope with the changing environmental conditions expected in the future.</p>
Supplementary material 1 from: Virkkala R, Rajasärkkä A (2012) Preserving species populations in the boreal zone in a changing climate: contrasting trends of bird species groups in a protected area network. Nature Conservation 3: 1-20. https://doi.org/10.3897/natureconservation.3.3635
Mean densities and number of observations of species in 1981–1999 and in 2000–2009
Figure 1 in Is the global decline reflects local declines? A case of the population trend of Far Eastern Curlew Numenius madagascariensis in Banyuasin Peninsula, South Sumatra, Indonesia
Figure 1. Map of Banyuasin Peninsula, South Sumatra, Indonesia.
FIGURE 2 in Population Trends Of The Red Palm Mite, Raoiella Indica Hirst (Acari: Tenuipalpidae) And Associated Entomopathogenic Fungi In Trinidad, Antigua, St Kitts And Nevis And Dominica
FIGURE 2: Identified material from selected samples in the different islands evaluated. NB. For reference, the population density (mites/cm2) from Trinidad-Icacos (10.69), Trinidad (5.79), Antigua (3.38), St. Kitts and Nevis (6.17) and Dominica (4.94).
Dataset for study Long-term changes in urban bird populations: correspondence of the trends between urban and rural areas
<p>Dataset used for a study "Long-term changes in urban bird populations: correspondence of the trends between urban and rural areas"</p> <p>Data structure:</p> <p>Type = type of environment (R - rural, U - urban)<br> POID = unique identifier of each census point across all transects<br> Transect = unique identifier of a transect (each contains 20 census points)<br> Point = unique identifier of a point within one transect<br> Year = year of the count<br> Species = scientific name of bird species<br> Count = number of birds counted</p> <p>Each species has its own datafile.</p>
Common-garden experiment reveals clinal trends of bud phenology in black spruce populations from a latitudinal gradient in the boreal forest
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Data from: The end of an era? Trends in abundance and reproduction of Australian southern right whales (<em>Eubalaena australis</em>) suggest failure to re-establish pre-whaling population size
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How butterflies keep their cool: physical and ecological traits influence thermoregulatory ability and population trends.
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Distance sampling: Comparing walked transects and road transects for rock ptarmigan densities and population trends
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An accessible scheme for monitoring free-roaming cat population trends
Data and R scripts for article: "An accessible scheme for monitoring free-roaming cat population trends" published in Ecology and Evolution, Wiley.
Data from: Designing monitoring protocols to measure population trends of threatened insects: a case study of the cryptic, flightless grasshopper Brachaspis robustus
<p>Statistically robust monitoring of threatened populations is essential for effective conservation management because the population trend data that monitoring generates is often used to make decisions about when and how to take action. Despite representing the highest proportion of threatened animals globally, the development of best practice methods for monitoring populations of threatened insects is relatively uncommon. Traditionally, population trend data for the Nationally Endangered New Zealand grasshopper <em>Brachaspis robustus</em> has been determined by counting all adults and nymphs seen on a single ~1.5 km transect searched once annually. This method lacks spatial and temporal replication, both of which are essential to overcome detection errors in highly cryptic species like <em>B</em>. <em>robustus</em>. It also provides no information about changes in the grasshopper's distribution throughout its range. Here, we design and test new population density and site occupancy monitoring protocols by comparing a) comprehensive plot and transect searches at one site and b) transect searches at two sites representing two different habitats (gravel road and natural riverbed) occupied by the species across its remaining range. Using power analyses, we determined a) the number of transects, b) the number of repeated visits and c) the grasshopper demographic to count to accurately detect long term change in relative population density. To inform a monitoring protocol design to track trends in grasshopper distribution, we estimated the probability of detecting an individual with respect to a) search area, b) weather and c) the grasshopper demographic counted at each of the two sites. Density estimates from plots and transects did not differ significantly. Population density monitoring was found to be most informative when large adult females present in early summer were used to index population size. To detect a significant change in relative density with power > 0.8 at the gravel road habitat, at least seventeen spatial replicates (transects) and four temporal replicates (visits) were required. Density estimates at the natural braided river site performed poorly and likely require a much higher survey effort. Detection of grasshopper presence was highest (<em>p</em><sub><em>g</em></sub> > 0.6) using a 100 m x 1 m transect at both sites in February under optimal (no cloud) conditions. At least three visits to a transect should be conducted per season for distribution monitoring. Monitoring protocols that inform the management of threatened species are crucial for better understanding and mitigation of the current global trends of insect decline. This study provides an exemplar of how appropriate monitoring protocols can be developed for threatened insect species.</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.