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Monitoring water content variations from seismic noise in a controlled laboratory experiment: PART 2 [Dataset]
<p>This dataset has been obtained with an original laboratory experiment aimed at assessing the sensitivity of passive seismic interferometry imaging (PII) to controlled fluctuations in water content. Multiple controlled cycles of water imbibition and draining at the base of the sandbox produce significant variations in the seismic wavefield and especially in dominant surface waves. PART 2: seismic measurements from 1501 to 2700minutes</p>
Monitoring water content variations from seismic noise in a controlled laboratory experiment: PART 1 [Dataset]
<p>This dataset has been obtained with an original laboratory experiment aimed at assessing the sensitivity of passive seismic interferometry imaging (PII) to controlled fluctuations in water content. Multiple controlled cycles of water imbibition and draining at the base of the sandbox produce significant variations in the seismic wavefield and especially in dominant surface waves. PART 1: seismic measurements from 0001 to 1500minutes</p>
TABLE 1 in Description of the complete larval development of Lysmata amboinensis (De Man) (Decapoda: Lysmatidae) reared under laboratory conditions
<p><b>TABLE 1.</b> Comparison of selected morphological zoeal stages characters of <i>Lysmata</i> sp. Z—Zoea. Decap.—Decapodite. ZI, ZII, etc.—First zoea, second zoea, etc. Pl—Plumose seta. Si—Simple setae. NA —Not Available. a In ZV it wasn’t yet; b In ZIV it had almost reached it.</p><table><tbody><tr><th>Morphological feature</th><th><i>L. amboinensis</i></th><th><i>L. amboinensis</i></th><th><i>L. ensirostris</i></th><th><i>L. vittata</i></th><th><i>L. galapagensis</i></th></tr></tbody><tbody><tr><th></th><td>Present study</td><td>Wunsch 1996</td><td>Bensam&Kartha 1967; Pillai 1974</td><td>Yang&Kim 1999</td><td>Bartilotti <i>et al.</i> 2012</td></tr><tr><th></th><td>10 Z +1 decap.</td><td>11 Z</td><td>9 Z+1 decap.</td><td>9 Z</td><td>7 Z</td></tr><tr><th></th><td>Indian Ocean, Indo-Pacific, South Pacific Ocean, Mozambique Channel</td><td>Indo-Pacific, Red Sea, Atlantic Ocean</td><td>Indo-Pacific</td><td>Indo-Pacific</td><td>E Pacific</td></tr><tr><th>ZI, Total length, mm</th><td>2.8–2.98</td><td>2.70–2.80</td><td>1.89–2.23</td><td>NA</td><td>2.46–2.89</td></tr><tr><th>ZI, carapace length, mm</th><td>0.9–1</td><td>NA</td><td>NA</td><td>0.33–0.37</td><td>0.92–1.00</td></tr><tr><th>ZIV, carapace length, mm</th><td>0.64–1</td><td>NA</td><td>1.01</td><td>0.44</td><td>1.61–2.15</td></tr><tr><th>ZVII, carapace length, mm</th><td>0.84–1.42</td><td>NA</td><td>1.40–1.41</td><td>0.62–0.68</td><td>4.08–4.32</td></tr><tr><th>Last Z, carapace length, mm</th><td>ZX: 2.81–4.35</td><td>ZXI: NA</td><td>ZIX: 3.5</td><td>ZIX: 0.784–0.832</td><td>-</td></tr><tr><th>First Zoea:</th><td></td><td></td><td></td><td></td><td></td></tr><tr><th>Carapace: Pterigostomian spine</th><td>Present</td><td>Present</td><td>Present</td><td>Present</td><td>Present</td></tr><tr><th>Number of marginal denticles</th><td>3–5</td><td>3–4</td><td>3</td><td>3</td><td>4</td></tr><tr><th>Eyes sessile</th><td>Present</td><td>Present</td><td>Present</td><td>Present</td><td>Present</td></tr><tr><th>Antennule: peduncle and exopod</th><td>Entire</td><td>Entire</td><td>Entire</td><td>Entire</td><td>Entire</td></tr><tr><th>Antennal exopod: 5–6 articles</th><td>11Pl + 1Si</td><td>12Pl + 1Si</td><td>9Pl</td><td>10Pl + 1Si</td><td>11Pl + 1Si</td></tr><tr><th>Pair of dorsal spines on 5th pleomere</th><td>Present</td><td>Present</td><td>Present</td><td>Present</td><td>Present</td></tr><tr><th>Pleopods</th><td>Absent</td><td>Absent</td><td>Absent</td><td>Absent</td><td>Absent</td></tr><tr><th>Uropods</th><td>Absent</td><td>Absent</td><td>Absent</td><td>Absent</td><td>Absent</td></tr><tr><th>Older Zoeas:</th><td></td><td></td><td></td><td></td><td></td></tr><tr><th>Eyes stalked and pedunculate</th><td>ZII</td><td>ZII</td><td>ZII</td><td>ZII</td><td>ZII</td></tr><tr><th>Carapace without marginal denticles</th><td>ZVII</td><td>ZVII</td><td>ZV</td><td>ZIX</td><td>ZV</td></tr><tr><th>Carapace with cervical carinae</th><td>Absent</td><td>Absent</td><td>Absent</td><td>Absent</td><td>Absent</td></tr><tr><th>Rostrum first dorsal spine</th><td>ZVII</td><td>ZVI</td><td>ZIV</td><td>ZIII</td><td>ZII</td></tr><tr><th>Antennal exopod entire</th><td>ZIV</td><td>ZIV</td><td>ZV</td><td>ZIV</td><td>ZIV</td></tr><tr><th>First pereiopod:</th><td></td><td></td><td></td><td></td><td></td></tr><tr><th>Biramous bud</th><td>ZII (small bud: ZI)</td><td>ZII</td><td>ZII</td><td>ZII</td><td>ZI</td></tr><tr><th></th><td>Present study</td><td>Wunsch 1996</td><td>Bensam&Kartha 1967; Pillai 1974</td><td>Yang&Kim 1999</td><td>Bartilotti <i>et al.</i> 2012</td></tr><tr><th></th><td>10 Z +1 decap.</td><td>11 Z</td><td>9 Z+1 decap.</td><td>9 Z</td><td>7 Z</td></tr><tr><th></th><td>Indian Ocean, Indo-Pacific, South Pacific Ocean, Mozambique Channel</td><td>Indo-Pacific, Red Sea, Atlantic Ocean</td><td>Indo-Pacific</td><td>Indo-Pacific</td><td>E Pacific</td></tr><tr><th>Functional</th><td>ZIII</td><td>ZIII</td><td>ZIII</td><td>ZIII</td><td>ZII</td></tr><tr><th>Second pereiopod:</th><td></td><td></td><td></td><td></td><td></td></tr><tr><th>Biramous bud</th><td>ZIV</td><td>ZIV</td><td>ZIII</td><td>ZIII</td><td>ZIII</td></tr><tr><th>Functional</th><td>ZV</td><td>ZV</td><td>ZIV</td><td>ZV</td><td>ZIV</td></tr><tr><th>Third pereiopod:</th><td></td><td></td><td></td><td></td><td></td></tr><tr><th>Biramous bud</th><td>ZV</td><td>ZV</td><td>ZIV</td><td>ZIV (unir. rud)</td><td>ZV</td></tr><tr><th>Functional</th><td>ZVI</td><td>ZVI</td><td>ZV</td><td>ZVII</td><td>ZVI</td></tr><tr><th>Fourth pereiopod:</th><td></td><td></td><td></td><td></td><td></td></tr><tr><th>Biramous bud</th><td>ZVI</td><td>ZVI</td><td>ZV</td><td>ZIV (unir. rud)</td><td>ZV</td></tr><tr><th>Functional</th><td>ZVII</td><td>ZVII</td><td>ZVI</td><td>ZVIII</td><td>ZVI</td></tr><tr><th>Fifth pereiopod:</th><td></td><td></td><td></td><td></td><td></td></tr><tr><th>Uniramous bud</th><td>ZIII (small bud: ZII)</td><td>ZIII</td><td>ZIII</td><td>ZIII</td><td>ZI</td></tr><tr><th>Functional</th><td>ZIV</td><td>ZIV</td><td>ZIV</td><td>ZV</td><td>ZII</td></tr><tr><th>Pereiopods with paddled-like propodus</th><td><b>3</b> <b>rd</b><b>, 4</b> <b>th</b> <b>and 5</b> <b>th</b></td><td><b>3</b> <b>rd</b><b>, 4</b> <b>th</b> <b>and 5</b> <b>th</b></td><td>5th</td><td>5th</td><td>5th</td></tr><tr><th>5th pleomere without dorso-lat spines</th><td>ZVIII</td><td>ZIII</td><td>NA</td><td>ZV</td><td>NA</td></tr><tr><th>3rd pleomere with curved spine</th><td>Absent</td><td>Absent</td><td>Absent</td><td>Absent</td><td><b>Present</b></td></tr><tr><th>Pleopods:</th><td></td><td></td><td></td><td></td><td></td></tr><tr><th>Small buds</th><td>ZVIII</td><td>NA</td><td>-</td><td>ZV</td><td>ZVI</td></tr><tr><th>Biramous buds</th><td>ZIX</td><td>ZIX (day 40)</td><td>ZVII</td><td>ZVII</td><td>-</td></tr><tr><th>Differentiated protopod</th><td>ZX</td><td>ZX (day 80)</td><td>ZVIII</td><td>ZIX</td><td>ZVII</td></tr><tr><th>With <i>appendix interna</i></th><td>-</td><td>ZXI (day 120)</td><td>ZIX</td><td>-</td><td>NA</td></tr><tr><th>Telson margins laterally parallel</th><td>ZV</td><td>ZV</td><td>ZV</td><td>ZVII</td><td>ZV</td></tr></tbody></table><p>......continued on the next page</p><p>TABLE 1. (Continued)</p><p>......continued on the next page</p>
Recreating giants impacts in the laboratory: Shock compression of MgSiO3 bridgmanite to 14 Mbar
<p>Understanding giant impacts requires accurate description of how extreme pressures and temperatures affect the physical properties of the constituent materials. Here, we report shock experiments on two polymorphs of MgSiO<sub>3</sub>: enstatite and bridgmanite (perovskite) crystals. We obtain pressure-density shock equation of state to 14 Mbar and more than 9 g/cm<sup>3</sup> a 40 % increase in density from previous data on MgSiO<sub>3</sub>. Density-functional-theory molecular dynamics (DFT-MD) simulations provide predictions for the shock Hugoniot curves for bridgmanite and enstatite and suggest that the Gruneisen parameter decreases with increasing density. The good agreement between the simulations and the experimental data, including for the shock temperature along the enstatite Hugoniot reveals that DFT-MD simulations reproduce well the behavior of dense fluid MgSiO<sub>3</sub>. We also reveal a high optical reflectance indicative of a metal-like electrical conductivity which supports the hypothesis that magma oceans may contribute to planetary magnetic field generation.</p>
Data from: Host species and environmental effects on bacterial communities associated with Drosophila in the laboratory and in the natural environment
The fruit fly Drosophila is a classic model organism to study adaptation as well as the relationship between genetic variation and phenotypes. Although associated bacterial communities might be important for many aspects of Drosophila biology, knowledge about their diversity, composition, and factors shaping them is limited. We used 454-based sequencing of a variable region of the bacterial 16S ribosomal RNA gene to characterize the bacterial communities associated with wild and laboratory Drosophila isolates. In order to specifically investigate effects of food source and host species on bacterial communities, we analyzed samples from wild Drosophila melanogaster and D. simulans collected from a variety of natural substrates, as well as from adults and larvae of nine laboratory-reared Drosophila species. We find no evidence for host species effects in lab-reared flies; instead, lab of origin and stochastic effects, which could influence studies of Drosophila phenotypes, are pronounced. In contrast, the natural Drosophila–associated microbiota appears to be predominantly shaped by food substrate with an additional but smaller effect of host species identity. We identify a core member of this natural microbiota that belongs to the genus Gluconobacter and is common to all wild-caught flies in this study, but absent from the laboratory. This makes it a strong candidate for being part of what could be a natural D. melanogaster and D. simulans core microbiome. Furthermore, we were able to identify candidate pathogens in natural fly isolates.
Data from: Coffee berry borer (Hypothenemus hampei) (Coleoptera: Curculionidae) development across an elevational gradient on Hawai'i Island: applying laboratory degree-day predictions to natural field populations
Coffee berry borer (CBB, Hypothenemus hampei) (Coleoptera: Curculionidae: Scolytinae) is the most destructive pest of coffee worldwide. Information on CBB development times can be used to predict the initiation of new infestation cycles early in the coffee-growing season and thus inform the timing of insecticide applications. While laboratory estimates of CBB development under constant conditions exist, they have not been applied under the heterogeneous environmental conditions that characterize many coffee-growing regions. We measured CBB development times and abundance in commercial coffee farms across an elevational gradient on Hawai'i Island and applied thermal accumulation models from previous laboratory studies to test their fit to field data. Artificial lures were used to infest coffee berries at five farms ranging in elevation from 279-792 m, and weather variables were monitored at macro (farm-level) and micro (branch-level) scales. CBB development was followed in the field from the time of initial berry infestation by the founding female through the development of F1 mature adults. Mean development time from egg to adult across all sites was 38.5 ± 3.46 days, while the mean time required for the completion of a full life cycle (from time of infestation to presence of mature F1 females) was 50.9 ± 3.35 days. Development time increased with increasing elevation and decreasing temperature. Using macro-scale temperature data and two different estimates for the lower temperature threshold (14.9°C and 13.9°C), we estimated a mean requirement of 332 ± 14 degree-days and 386 ± 16 degree-days, respectively, from the time of berry infestation to the initiation of a new reproductive cycle in mature coffee berries. Similar estimates were obtained using micro-scale temperature data, indicating that macro-scale temperature monitoring is sufficient for life-cycle prediction. We also present a model relating elevation to number of CBB generations per month. Our findings suggest that CBB development times from laboratory studies are generally applicable to field conditions on Hawai'i Island and can be used as a decision support tool to improve IPM strategies for this worldwide pest of coffee.
Data from: The effect of pollination mode on seed performance of Gentiana lutea: a laboratory evaluation of seed germinability
Gentiana lutea L. (yellow gentian, Gentianaceae) is a protected orophyte of central and southern Europe, mainly threatened by the uncontrolled collection of its rhizome, used in traditional medicine and for liquor production. The species is self-compatible, but outcrossing mediated by pollinators is needed to obtain a viable progeny. In this study, we considered five natural populations belonging to the four subspecies of G. lutea. We performed controlled pollinations in the field (self- versus cross-pollination) followed by seed germination tests in laboratory conditions, adding a solution of gibberellic acid, in order to evaluate the seed performance. A cumulative index of inbreeding depression was calculated considering maternal reproductive output as well as seed performance traits. Seed weight and seed germination performance was similar between seeds resulting from naturally pollinated and pollen-augmented flowers and higher compared to selfed flowers, highlighting a disadvantage of selfing and the importance of cross-pollen transfer in natural conditions. However, in the small and isolated population of G. lutea subsp. symphyandra on Mt Grande we found a general reduction in seed germination rate, likely due to increased selfing or mating among close relatives as a consequence of a severe bottleneck. We discuss our results with regards to implications for conservation practices.
Data from: A comprehensive assessment of inbreeding and laboratory adaptation in Aedes aegypti mosquitoes
Modified Aedes aegypti mosquitoes reared in laboratories are being released around the world to control wild mosquito populations and the diseases they transmit. Several efforts have failed due to poor competitiveness of the released mosquitoes. We hypothesized that colonized mosquito populations could suffer from inbreeding depression and adapt to laboratory conditions, reducing their performance in the field. We established replicate populations of Ae. aegypti mosquitoes collected from Queensland, Australia, and maintained them in the laboratory for twelve generations at different census sizes. Mosquito colonies maintained at small census sizes (≤100 individuals) suffered from inbreeding depression due to low effective population sizes which were only 25% of the census size as estimated by SNP markers. Populations that underwent full-sib mating for 9 consecutive generations had greatly reduced performance across all traits measured. We compared the established laboratory populations with their ancestral population resurrected from quiescent eggs for evidence of laboratory adaptation. The overall performance of laboratory populations maintained at a large census size (400 individuals) increased, potentially reflecting adaptation to artificial rearing conditions. However most individual traits were unaffected, and patterns of adaptation were not consistent across populations. Differences between replicate populations may indicate that founder effects and drift affect experimental outcomes. Though we find limited evidence of laboratory adaptation, mosquitoes maintained at low population sizes can clearly suffer fitness costs, compromising the success of "rear and release" strategies for arbovirus control.
Figure 7 in Life history of Subulina octona (Brugüière) (Gastropoda: Pulmonata: Subulinidae) based on four-year laboratory observations and a comparative histological analysis of egg-retaining and ovoviviparous subulinids
Figure 7. Egg production of Subulina octona. (a) Mean number of eggs per reproductive event; (b) mean shell height and mean number of eggs produced.
Figure 3 in Life history of Subulina octona (Brugüière) (Gastropoda: Pulmonata: Subulinidae) based on four-year laboratory observations and a comparative histological analysis of egg-retaining and ovoviviparous subulinids
Figure 3. Histological sections of the free-oviduct of the subulinid species Subulina octona (a,b); Allopeas gracile (c); Allopeas micra (d) and Leptinaria unilamellata (e,f). Black asterisk, oviduct lumen; white asterisk: underlying connective tissue.
Figure 4 in Life history of Subulina octona (Brugüière) (Gastropoda: Pulmonata: Subulinidae) based on four-year laboratory observations and a comparative histological analysis of egg-retaining and ovoviviparous subulinids
Figure 4. Histological sections showing the bursa copulatrix and prostate of the subulinid species Allopeas gracile (a–c); Subulina octona (d–f); and Leptinaria unilamellata (g,h). Black asterisk, bursa copulatrix lumen; white asterisk: prostate.
Figure 1 in Life history of Subulina octona (Brugüière) (Gastropoda: Pulmonata: Subulinidae) based on four-year laboratory observations and a comparative histological analysis of egg-retaining and ovoviviparous subulinids
Figure 1. Morphology of the reproductive system of Subulina octona. (a) Shelled embryo; (b) prostate; (c) free-oviduct; (d) epithelia and basal membrane of the free-oviduct; (e) eggshell; (f,g) bursa copulatrix; (h) general view of the reproductive apparatus; (i, j) general view of the body, showing the spermoviduct which occupies the body whorl and the penultimate whorl of the shell. es, egg shell; eg, egg; se, shelled embryo; sov, spermoviduct; pr, prostate; bc, bursa copulatrix; fo, free-oviduct; pc, penial complex.
Figure 2 in Life history of Subulina octona (Brugüière) (Gastropoda: Pulmonata: Subulinidae) based on four-year laboratory observations and a comparative histological analysis of egg-retaining and ovoviviparous subulinids
Figure 2. Histological sections of the spermoviduct and egg of the subulinid species Allopeas micra (a,b); Allopeas gracile (c–e); Leptinaria unilamellata (f) and Subulina octona (g,h). SC, secretory cells; black arrow, calcified egg shell; black asterisk, secretory cells; white asterisk, egg with non-calcified egg shell.
Figure 5 in Life history of Subulina octona (Brugüière) (Gastropoda: Pulmonata: Subulinidae) based on four-year laboratory observations and a comparative histological analysis of egg-retaining and ovoviviparous subulinids
Figure 5. Histological sections showing the spermatheca (indicated by black arrows) of the subulinid species Allopeas micra (a); Subulina octona (b); Allopeas gracile (c) and Leptinaria unilamellata (d).
Figure 6 in Life history of Subulina octona (Brugüière) (Gastropoda: Pulmonata: Subulinidae) based on four-year laboratory observations and a comparative histological analysis of egg-retaining and ovoviviparous subulinids
Figure 6. Growth and mortality of Subulina octona during juvenile, adult and senescent stages. (a) Mean shell height; (b) survival. (c) growth rate.
Figure 16 in The complete larval development of the lobster shrimp Boasaxius princeps Boas, 1880 (Decapoda: Axiidea: Axiidae) obtained in the laboratory
Figure 16. Boasaxius princeps, megalopa. (A) First maxilliped; (B) second maxilliped; (C) third maxilliped; (D) pereiopod 1, left; (E) pereiopod 1, right; (F) pereiopod 2; (G) pereiopod 3; (H) pereiopod 4; (I) pereiopod 5; (J) pleopod; (K) telson with uropods, dorsal view.
Figure 9 in The complete larval development of the lobster shrimp Boasaxius princeps Boas, 1880 (Decapoda: Axiidea: Axiidae) obtained in the laboratory
Figure 9. Boasaxius princeps, sixth zoea. (A) Complete larva, dorsal view; (B) same, lateral view; (C) antennule; (D) antenna; (E) mandibles; (F) maxillule; (G) maxilla.
Figure 12 in The complete larval development of the lobster shrimp Boasaxius princeps Boas, 1880 (Decapoda: Axiidea: Axiidae) obtained in the laboratory
Figure 12. Boasaxius princeps, seventh zoea. (A) First maxilliped; (B) second maxilliped; (C) third maxilliped; (D) pereiopod 1; (E) pereiopod 2; (F) pereiopod 3; (G) pereiopod 4; (H) pereiopod 5; (I) telson with uropods, dorsal view.
Figure 6 in The complete larval development of the lobster shrimp Boasaxius princeps Boas, 1880 (Decapoda: Axiidea: Axiidae) obtained in the laboratory
Figure 6. Boasaxius princeps, fourth zoea. (A) First maxilliped; (B) second maxilliped; (C) third maxilliped; (D) pereiopod 1; (E) pereiopod 2; (F) pereiopod 3; (G) pereiopod 4; (H) pereiopod 5; (I) telson, with uropods, ventral view.
Figure 5 in The complete larval development of the lobster shrimp Boasaxius princeps Boas, 1880 (Decapoda: Axiidea: Axiidae) obtained in the laboratory
Figure 5. Boasaxius princeps, fourth zoea. (A) Complete larva, dorsal view; (B) same, lateral view; (C) antennule; (D) antenna; (E) mandibles; (F) maxillule; (G) maxilla.
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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.