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277 results for “invasion genetics”
Data from: Population genomic analysis suggests strong influence of river network on spatial distribution of genetic variation in invasive saltcedar across the southwestern US
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Data from: Genetic uniformity and long-distance clonal dispersal in the invasive androgenetic Corbicula clams
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Data from: Adaptive and non-adaptive evolution of trait means and genetic trait correlations for herbivory resistance and performance in an invasive plant
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Data from: Invasive species and postglacial colonization: their effects on the genetic diversity of a Patagonian fish
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Data from: Population structure and genetic diversity of native and invasive populations of Solanum rostratum (Solanaceae)
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Data from: How much do phenotypic plasticity and local genetic variation contribute to phenotypic divergences along environmental gradients in widespread invasive plants? A meta-analysis
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Data from: Population genetic analysis of a parasitic mycovirus to infer the invasion history of its fungal host
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Data from: Genetic admixture accelerates invasion via provisioning rapid adaptive evolution
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Data from: The genomic ancestry, landscape genetics, and invasion history of introduced mice in New Zealand
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Single cell RNA-seq revealed critical genetic programs of invasive fibroblasts for pulmonary fibrosis
GEO Series GSE137026. Homo sapiens. 16 samples. Type: Expression profiling by high throughput sequencing.
The retinoblastoma protein regulates hypoxia-inducible genetic programs, tumor cell invasiveness and neuroendocrine differentiation in prostate cancer cells
GEO Series GSE78245. Homo sapiens. 12 samples. Type: Expression profiling by array.
A genetic program boosts mitochondrial function to power macrophage tissue invasion
GEO Series GSE167134. Drosophila melanogaster. 20 samples. Type: Expression profiling by high throughput sequencing.
Data from: Global mtDNA genetic structure and hypothesized invasion history of a major pest of citrus, Diaphorina citri (Hemiptera: Liviidae)
The Asian citrus psyllid Diaphorina citri Kuwayama, is a key pest of citrus as the vector of the bacterium causing the 'huanglongbing' disease (HLB). To assess the global mtDNA population genetic structure, and possible dispersal history of the pest, we investigated genetic variation at the COI gene collating newly collected samples with all previously published data. Our dataset consists of 356 colonies from 106 geographic sites worldwide. High haplotype diversity (H-mean = 0.702 ± 0.017), low nucleotide diversity (π-mean = 0.003), and significant positive selection (Ka/Ks = 32.92) were observed. Forty-four haplotypes (Hap) were identified, clustered into two matrilines: Both occur in southeastern and southern Asia, North and South America, and Africa; Lineages A and B also occur in eastern and western Asia, respectively. The most abundant haplotypes were Hap4 in lineage A (35.67%), and Hap9 in lineage B (41.29%). The haplotype network identified them as the ancestral haplotypes within their respective lineages. Analysis of molecular variance showed significant genetic structure (FST = 0.62, p < 0.0001) between the lineages, and population genetic analysis suggests geographic structuring. We hypothesize a southern and/or southeastern Asia origin, three dispersal routes, and parallel expansions of two lineages. The hypothesized first route involved the expansion of lineage B from southern Asia into North America via West Asia. The second, the expansion of some lineage A individuals from Southeast Asia into East Asia, and the third involved both lineages from Southeast Asia spreading westward into Africa and subsequently into South America. To test these hypotheses and gain a deeper understanding of the global history of D. citri more data-rich approaches will be necessary from the ample toolkit of next generation sequencing (NGS). However, the current paper may serve to guide such sampling and in the development of biological control programs against the global pest D. citri.
Data from: Genetic identification of Iberian rodent species using both mitochondrial and nuclear loci: application to non-invasive sampling
Species identification through non-invasive sampling is increasingly used in animal conservation genetics, given that it obviates the need to handle free-living individuals. Non-invasive sampling is particularly valuable for elusive and small species such as rodents. Although rodents are not usually assumed to be the most obvious target for conservation, of the 21 species or near-species present in Iberia, three are considered endangered and declining while several others are poorly studied. Here we develop a genetic tool for identifying all rodent species in Iberia by non-invasive genetic sampling. To achieve this purpose we selected one mitochondrial gene (cytochrome b – cyt-b) and one nuclear gene (interphotoreceptor retinoid-binding protein – IRBP), which we first sequenced using tissue samples. Both genes allow for the phylogenetic distinction of all species except the sibling species Microtus lusitanicus and M. duodecimcostatus. Overall, cyt-b showed higher resolution than IRBP, revealing a clear barcoding gap. To allow these markers to be applied to non-invasive samples, we selected a short highly-diagnostic fragment from each gene, which we used to obtain sequences from faeces and bones from owl pellets. Amplification success for the cyt-b and IRBP fragment was 85% and 43% in faecal and 88% and 64% in owl-pellet DNA extractions, respectively. The method allows the unambiguous identification of the great majority of Iberian rodent species from non-invasive samples, with application in studies of distribution, spatial ecology and population dynamics, and for conservation.
Data from: The devil is in the details: genetic variation in introduced populations and its contributions to invasion
The influence of genetic variation on invasion success has captivated researchers since the start of the field of invasion genetics 50 years ago. We review the history of work on this question and conclude that genetic variation—as surveyed with molecular markers—appears to shape invasion rarely. Instead, there is a significant disconnect between marker assays and ecologically relevant genetic variation in introductions. We argue that the potential for adaptation to facilitate invasion will be shaped by the details of genotypes affecting phenotypes, and we highlight three areas in which we see opportunities to make powerful new insights. (i) The genetic architecture of adaptive variation. Traits shaped by large-effect alleles may be strongly impacted by founder events yet more likely to respond to selection when genetic drift is strong. Large-effect loci may be especially relevant for traits involved in biotic interactions. (ii) Cryptic genetic variation exposed during invasion. Introductions have strong potential to uncover masked variation due to alterations in genetic and ecological environments. (iii) Genetic interactions during admixture of multiple source populations. As divergence among sources increases, positive followed by increasingly negative effects of admixture should be expected. Although generally hypothesized to be beneficial during invasion, admixture is most often reported among sources of intermediate divergence, supporting the possibility that incompatibilities among divergent source populations might be limiting their introgression. Finally, we note that these details of invasion genetics can be coupled with comparative demographic analyses to link genetic changes to the evolution of invasiveness itself.
Data from: Biogeography of a plant invasion: genetic variation and plasticity in latitudinal clines for traits related to herbivory
The juxtaposition of plant-species invasions with latitudinal gradients in herbivore pressure is an important yet mostly unexplored issue in invasion biology. Latitudinal clines in defense and palatability to herbivores are expected to exist in native plant species but the evolution of these clines may lag behind for invasive plant species resulting in non-parallel latitudinal clines that may impact invasion success. Our study focused on a native and European invasive lineages of the common reed Phragmites australis in North America. Using native and invasive genotypes of P. australis collected across a 17° latitudinal range, we performed experiments in replicate northern and southern common gardens to investigate whether these two lineages exhibited different genetically based latitudinal clines in defenses, nutritional condition and palatability to their herbivores, the aphid Hyalopterus pruni and the fall armyworm Spodoptera frugiperda. We also tested whether invasive genotypes are more phenotypically plastic than native genotypes and whether plasticity varies with latitude. Although invasive genotypes did not exhibit higher defense levels (leaf toughness, phenolics, % carbon), they were considerably less palatable to their herbivores than native genotypes. Genetic-based latitudinal clines were evident for both native and invasive P. australis and for all defenses, nutrients and at least one palatability trait for each herbivore. In 36% of the cases where clines were evident, they were non-parallel between the two lineages. These data suggest that clines in the invasive genotypes of P. australis evolved within the past ~100 years. Moreover, our study showed that the occurrence and direction of latitudinal clines in plant traits were commonly dependent on where the study was conducted (north or south), indicating strong phenotypic plasticity in these genetic-based clines. Finally, traits for invasive genotypes of P. australis were 2.5 times more plastic than traits for native genotypes. Interestingly, plasticity for native but not invasive genotypes was strongly dependent on latitude of origin. Such spatial heterogeneity within and between the native and invasive lineages of P. australis with respect to their interactions with herbivores can generate substantial spatial variability in biotic resistance that can have important implications for the establishment and spread of invasive genotypes and species.
Genetic Susceptibility to Tumor Recurrence and Progression in Patients With Non-Muscle Invasive Bladder Cancer
ClinicalTrials.gov study NCT00582387. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Gemcitabine and Cisplatin Without Cystectomy for Patients With Muscle Invasive Bladder Urothelial Cancer and Select Genetic Alterations
ClinicalTrials.gov study NCT03609216. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Non Invasive Prenatal Test of Rare Genetic Diseases: Application to Rare Intellectual Disabilities
ClinicalTrials.gov study NCT03688594. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Molecular Genetic Basis of Invasive Breast Cancer Risk Associated With Lobular Carcinoma in Situ
ClinicalTrials.gov study NCT00581750. IPD Sharing: Not stated. Countries: 1. Publications: 0.
ScienceDex guides
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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.