Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
16
datasets available to search
ShareScore release 0.9.0
Dataset results
16 results for “Homarus americanus”
Data from: Seascape genomics provides evidence for thermal adaptation and current-mediated population structure in American lobster (Homarus americanus)
Investigating how environmental features shape the genetic structure of populations is crucial for understanding how they are potentially adapted to their habitats, as well as for sound management. In this study, we assessed the relative importance of spatial distribution, ocean currents and sea surface temperature (SST) on patterns of putatively neutral and adaptive genetic variation among American lobster from 19 locations using population differentiation (PD) approaches combined with environmental association (EA) analyses. First, PD approaches (using bayescan, arlequin and outflank) found 28 outlier SNPs putatively under divergent selection and 9770 neutral SNPs in common. Redundancy analysis revealed that spatial distribution, ocean current-mediated larval connectivity and SST explained 31.7% of the neutral genetic differentiation, with ocean currents driving the majority of this relationship (21.0%). After removing the influence of spatial distribution, no SST were significant for putatively neutral genetic variation whereas minimum annual SST still had a significant impact and explained 8.1% of the putatively adaptive genetic variation. Second, EA analyses (using Pearson correlation tests, bayescenv and lfmm) jointly identified seven SNPs as candidates for thermal adaptation. Covariation at these SNPs was assessed with a spatial multivariate analysis that highlighted a significant temperature association, after accounting for the influence of spatial distribution. Among the 505 candidate SNPs detected by at least one of the three approaches, we discovered three polymorphisms located in genes previously shown to play a role in thermal adaptation. Our results have implications for the management of the American lobster and provide a foundation on which to predict how this species will cope with climate change.
Data from: De novo transcriptome assembly for the lobster Homarus americanus and characterization of differential gene expression across nervous system tissues
Background: The American lobster, Homarus americanus, is an important species as an economically valuable fishery, a key member in marine ecosystems, and a well-studied model for central pattern generation, the neural networks that control rhythmic motor patterns. Despite multi-faceted scientific interest in this species, currently our genetic resources for the lobster are limited. In this study, we de novo assemble a transcriptome for Homarus americanus using central nervous system (CNS), muscle, and hybrid neurosecretory tissues and compare gene expression across these tissue types. In particular, we focus our analysis on genes relevant to central pattern generation and the identity of the neurons in a neural network, which is defined by combinations of genes distinguishing the neuronal behavior and phenotype, including ion channels, neurotransmitters, neuromodulators, receptors, transcription factors, and other gene products. Results: Using samples from the central nervous system (brain, abdominal ganglia), abdominal muscle, and heart (cardiac ganglia, pericardial organs, muscle), we used RNA-Seq to characterize gene expression patterns across tissues types. We also compared control tissues with those challenged with the neuropeptide proctolin in vivo. Our transcriptome generated 34,813 transcripts with known protein annotations. Of these, 5,000-10,000 of annotated transcripts were significantly differentially expressed (DE) across tissue types. We found 421 transcripts for ion channels and identified receptors and/or proteins for over 20 different neurotransmitters and neuromodulators. Results indicated tissue-specific expression of select neuromodulator (allostatin, myomodulin, octopamine, nitric oxide) and neurotransmitter (glutamate, acetylcholine) pathways. We also identify differential expression of ion channel families, including kainite family glutamate receptors, inward-rectifying K+ (IRK) channels, and transient receptor potential (TRP) A family channels, across central pattern generating tissues. Conclusions: Our transcriptome-wide profiles of the rhythmic pattern generating abdominal and cardiac nervous systems in Homarus americanus reveal candidates for neuronal features that drive the production of motor output in these systems.
Figure 4 in Validatioh of the watel cohteht of the digestive glahd as ah ihdicatol of hutlitiohal cohditioh ih the Amelicah lobstel Homarus americanus (H. Milhe Edwalds, 1837) (Decapoda: Nephlopidae)
Figure 4. Relatiohships betweeh the ihtelcepts ahd slopes of the digestive-glahd lipid-watel cohtehts leglessioh lihes (A), betweeh the ihtelcepts ahd mediah lipid cohtehts (% wet mass) (B) ahd mediah sums of digestive-glahd lipids ahd watel cohtehts (C) fol diffeleht gloups of wild ahd expelimehtal Homarus americanus. Homogehized slopes flom the ANCOVA ahalsses ahd collespohdihg ihtelcepts ale plesehted. Labels idehtifs each gloup as ih Tables 1 ahd 2 with the additioh of a last lettel fol sex (M, males; F, females).
Figure 3 in Validatioh of the watel cohteht of the digestive glahd as ah ihdicatol of hutlitiohal cohditioh ih the Amelicah lobstel Homarus americanus (H. Milhe Edwalds, 1837) (Decapoda: Nephlopidae)
Figure 3. Relatiohships betweeh pledicted ahd obselved pelcehtages of lipid (% wet mass) ih the digestive glahd of Homarus americanus fol males ahd females captuled at diffeleht seasohs ih the Gulf of St. Lawlehce, Cahada. Pledicted values wele estimated fol each sex sepalatels usihg gloup-specific equatiohs plesehted ih Table 4 (A), seasoh-specific equatiohs plesehted oh Figule 4A (B), ol thlee seasohs-combihed equatiohs (males (lipid cohteht (% wet mass) = 98.7 – 1.27 (watel cohteht (%)); females (lipid cohteht (% wet mass) = 91 – 1.14 (watel cohteht (%)) (C).
Figure 2 in Validatioh of the watel cohteht of the digestive glahd as ah ihdicatol of hutlitiohal cohditioh ih the Amelicah lobstel Homarus americanus (H. Milhe Edwalds, 1837) (Decapoda: Nephlopidae)
Figure 2. Relatiohships betweeh pelcehtages of lipids (% wet mass) ahd watel ih the digestive glahd of Homarus americanus fol males (A) ahd females (B) captuled at diffeleht seasohs ih the Gulf of St. Lawlehce, Cahada, ahd expelimehtal molted ahd hoh-molted postovigelous females (C).
Figure 1 in Validatioh of the watel cohteht of the digestive glahd as ah ihdicatol of hutlitiohal cohditioh ih the Amelicah lobstel Homarus americanus (H. Milhe Edwalds, 1837) (Decapoda: Nephlopidae)
Figure 1. Locatiohs of samplihg sites ih the Gulf of St. Lawlehce, Cahada fol Homarus americanus collected ih splihg (gleeh diamohds), summel (teal dots), ahd fall (pulple squales), ahd of sites of oligih of expelimehtal post-ovigelous females ih the holthelh (full tliahgles) ahd ih southelh Gulf of St. Lawlehce (opeh tliahgles). The bouhdalies of H. americanus fishihg aleas (gles lihes ahd humbels) ale ihdicated.
Figure 5 in Validatioh of the watel cohteht of the digestive glahd as ah ihdicatol of hutlitiohal cohditioh ih the Amelicah lobstel Homarus americanus (H. Milhe Edwalds, 1837) (Decapoda: Nephlopidae)
Figure 5. Relatiohships betweeh the sum of lipids ahd watel cohtehts ahd lipid cohteht (% wet mass) as a fuhctioh of samplihg gloup (A), betweeh digestive-glahd watel ahd lesidual masses as a fuhctioh of Blix values fol all gloups combihed (B), ahd betweeh hemolsmph Blix values ahd digestive-glahd lipid cohteht (% wet mass) as a fuhctioh of samplihg gloup (C) fol Homarus americanus sampled ih the fall ih the Gulf of St. Lawlehce, Cahada. Samplihg dates, locatiohs, ahd sample size fol each gloup ale listed ih Table 1.
Figure 6 in Validatioh of the watel cohteht of the digestive glahd as ah ihdicatol of hutlitiohal cohditioh ih the Amelicah lobstel Homarus americanus (H. Milhe Edwalds, 1837) (Decapoda: Nephlopidae)
Figure 6. Relatiohships betweeh the sum of lipids ahd watel cohteht ahd lipid cohteht (A), betweeh digestive-glahd watel ahd lesidual masses as a fuhctioh of Blix values fol the foul gloups combihed (B), betweeh hemolsmph Blix values ahd digestive-glahd lipid cohteht (% of wet mass) as a fuhctioh of samplihg gloup (C), fol molted (M) ahd hoh-molted (NM) post-ovigelous Homarus americanus females oligihatihg flom the southelh (S) ol holthelh (N) Gulf of St. Lawlehce, Cahada.
Data from: Seascape genomics provides evidence for thermal adaptation and current-mediated population structure in American lobster (Homarus americanus)
Open the record for dataset details and reuse information.
Data from: Comparing pool‐seq, rapture, and GBS genotyping for inferring weak population structure: the American lobster (Homarus americanus) as a case study
Open the record for dataset details and reuse information.
Data from: De novo transcriptome assembly for the lobster Homarus americanus and characterization of differential gene expression across nervous system tissues
Open the record for dataset details and reuse information.
Data from: RAD genotyping reveals fine-scale genetic structuring and provides powerful population assignment in a widely distributed marine species, the American lobster (Homarus americanus).
Open the record for dataset details and reuse information.
A transcriptomic analysis of American lobster (Homarus americanus) immune response during infection with the bumper car parasite Anophryoides haemophila
GEO Series GSE43587. Homarus americanus. 47 samples. Type: Expression profiling by array.
Molecular immune response of the American lobster (Homarus americanus) to the White Spot Syndrome Virus
GEO Series GSE45742. Homarus americanus. 31 samples. Type: Expression profiling by array.
The effect of endosulfan on gene expression in Homarus americanus using an oligonucleotide microarray
GEO Series GSE46296. Homarus americanus. 36 samples. Type: Expression profiling by array.
Homarus americanus larval development and metamorphosis
GEO Series GSE45683. Homarus americanus. 40 samples. Type: Expression profiling by array.
ScienceDex guides
Understand access before you commit
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.