Assessing the conservation value of waterbodies: the example of the Loire floodplain (France)

In recent decades, two of the main management tools used to stem biodiversity erosion have been biodiversity monitoring and the conservation of natural areas. However, socio-economic pressure means that it is not usually possible to preserve the entire landscape, and so the rational prioritisation of sites has become a crucial issue. In this context, and because floodplains are one of the most threatened ecosystems, we propose a statistical strategy for evaluating conservation value, and used it to prioritise 46 waterbodies in the Loire floodplain (France). We began by determining a synthetic conservation index of fish communities (Q) for each waterbody. This synthetic index includes a conservation status index, an origin index, a rarity index and a richness index. We divided the waterbodies into 6 clusters with distinct structures of the basic indices. One of these clusters, with high Q median value, indicated that 4 waterbodies are important for fish biodiversity conservation. Conversely, two clusters with low Q median values included 11 waterbodies where restoration is called for. The results picked out high connectivity levels and low abundance of aquatic vegetation as the two main environmental characteristics of waterbodies with high conservation value. In addition, assessing the biodiversity and conservation value of territories using our multi-index approach plus an a posteriori hierarchical classification methodology reveals two major interests: (i) a possible geographical extension and (ii) a multi-taxa adaptation

Are Amphipod invaders a threat to the regional biodiversity? Conservation prospects for the Loire River

The impact of invasions on local biodiversity is well established, but their impact on regional biodiversity has so far been only sketchily documented. To address this question, we studied the impact at various observation scales (ranging from the microhabitat to the whole catchment) of successive arrivals of non-native amphipods on the amphipod assemblage of the Loire River basin in France. Amphipod assemblages were studied at 225 sites covering the whole Loire catchment. Non-native species were dominant at all sites in the main channel of the Loire River, but native species were still present at most of the sites. We found that the invaders have failed to colonize most of tributaries of the Loire River. At the regional scale, we found that since the invaders first arrived 25 years ago, the global amphipod diversity has increased by 33% (from 8 to 12 species) due to the arrival of non-native species. We discuss the possibility that the lack of any loss of biodiversity may be directly linked to the presence of refuges at the microhabitat scale in the Loire channel and in the tributaries, which invasive species have been unable to colonize. The restoration of river quality could increase the number of refuges for native species, thus reducing the impact of invader

Prioritization of fish communities with a view to conservation and restoration on a large scale European basin, the Loire (France)

The hierarchical organization of important sites for the conservation or the restoration of fish communities is a great challenge for managers, especially because of financial or time constraints. In this perspective, we developed a methodology, which is easy to implement in different locations. Based on the fish assemblage characteristics of the Loire basin (France), we created a synthetic conservation value index including the rarity, the conservation status and the species origin. The relationship between this new synthetic index and the Fish-Based Index allowed us to establish a classification protocol of the sites along the Loire including fish assemblages to be restored or conserved. Sites presenting disturbed fish assemblages, a low rarity index, few threatened species, and a high proportion of non-native species were considered as important for the restoration of fish biodiversity. These sites were found mainly in areas where the assemblages are typical of the bream zone, e.g. with a higher number of eurytopic and limnophilic species. On the contrary, important sites for conservation were defined as having an important conservation potential (high RI, a lot of threatened species, and few nonnatives fish species) and an undisturbed fish assemblage similar to the expected community if habitats are undisturbed. Important sites for conservation were found in the Loire basin’s medium reaches which host assemblages typical for the grayling and the barbell zones, e.g. with a higher number of rheophilic species. The synthetic conservation value index could be adapted and completed with other criteria according to management priorities and capacities

The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome.

Many insects carry an ancient X chromosome - the Drosophila Muller element F - that likely predates their origin. Interestingly, the X has undergone turnover in multiple fly species (Diptera) after being conserved for more than 450 MY. The long evolutionary distance between Diptera and other sequenced insect clades makes it difficult to infer what could have contributed to this sudden increase in rate of turnover. Here, we produce the first genome and transcriptome of a long overlooked sister-order to Diptera: Mecoptera. We compare the scorpionfly Panorpa cognata X-chromosome gene content, expression, and structure, to that of several dipteran species as well as more distantly-related insect orders (Orthoptera and Blattodea). We find high conservation of gene content between the mecopteran X and the dipteran Muller F element, as well as several shared biological features, such as the presence of dosage compensation and a low amount of genetic diversity, consistent with a low recombination rate. However, the two homologous X chromosomes differ strikingly in their size and number of genes they carry. Our results therefore support a common ancestry of the mecopteran and ancestral dipteran X chromosomes, and suggest that Muller element F shrank in size and gene content after the split of Diptera and Mecoptera, which may have contributed to its turnover in dipteran insects

Photoluminescent diamond nanoparticles for cell labeling: study of the uptake mechanism in mammalian cells

Diamond nanoparticles (nanodiamonds) have been recently proposed as new labels for cellular imaging. For small nanodiamonds (size <40 nm) resonant laser scattering and Raman scattering cross-sections are too small to allow single nanoparticle observation. Nanodiamonds can however be rendered photoluminescent with a perfect photostability at room temperature. Such a remarkable property allows easier single-particle tracking over long time-scales. In this work we use photoluminescent nanodiamonds of size <50 nm for intracellular labeling and investigate the mechanism of their uptake by living cells . By blocking selectively different uptake processes we show that nanodiamonds enter cells mainly by endocytosis and converging data indicate that it is clathrin mediated. We also examine nanodiamonds intracellular localization in endocytic vesicles using immunofluorescence and transmission electron microscopy. We find a high degree of colocalization between vesicles and the biggest nanoparticles or aggregates, while the smallest particles appear free in the cytosol. Our results pave the way for the use of photoluminescent nanodiamonds in targeted intracellular labeling or biomolecule deliver

Gaia Data Release 3: G_RVS photometry from the RVS spectra

Gaia Data Release 3 (DR3) contains the first release of magnitudes estimated from the integration of Radial Velocity Spectrometer (RVS) spectra for a sample of about 32.2 million stars brighter than G_RVS~14 mag (or G~15 mag). In this paper, we describe the data used and the approach adopted to derive and validate the G_RVS magnitudes published in DR3. We also provide estimates of the G_RVS passband and associated G_RVS zero-point. We derived G_RVS photometry from the integration of RVS spectra over the wavelength range from 846 to 870 nm. We processed these spectra following a procedure similar to that used for DR2, but incorporating several improvements that allow a better estimation of G_RVS. These improvements pertain to the stray-light background estimation, the line spread function calibration, and the detection of spectra contaminated by nearby relatively bright sources. We calibrated the G_RVS zero-point every 30 hours based on the reference magnitudes of constant stars from the Hipparcos catalogue, and used them to transform the integrated flux of the cleaned and calibrated spectra into epoch magnitudes. The G_RVS magnitude of a star published in DR3 is the median of the epoch magnitudes for that star. We estimated the G_RVS passband by comparing the RVS spectra of 108 bright stars with their flux-calibrated spectra from external spectrophotometric libraries. The G_RVS magnitude provides information that is complementary to that obtained from the G, G_BP, and G_RP magnitudes, which is useful for constraining stellar metallicity and interstellar extinction. The median precision of G_RVS measurements ranges from about 0.006 mag for the brighter stars (i.e. with 3.5 < G_RVS < 6.5 mag) to 0.125 mag at the faint end. The derived G_RVS passband shows that the effective transmittance of the RVS is approximately 1.23 times better than the pre-launch estimate.Comment: 16 pages, 18 figures. Accepted for publication in A&

Gaia Data Release 3

CONTEXT: Gaia Data Release 3 (Gaia DR3) contains the second release of the combined radial velocities. It is based on the spectra collected during the first 34 months of the nominal mission. The longer time baseline and the improvements of the pipeline made it possible to push the processing limit from GRVS = 12 in Gaia DR2 to GRVS = 14 mag. AIMS: We describe the new functionalities implemented for Gaia DR3, the quality filters applied during processing and post-processing, and the properties and performance of the published velocities. METHODS: For Gaia DR3, several functionalities were upgraded or added to the spectroscopic pipeline. The calibrations were improved in order to better model the temporal evolution of the straylight and of the instrumental point spread function (PSF). The overlapped spectra, which were mostly discarded in Gaia DR2, are now handled by a dedicated module. The hot star template mismatch, which prevented publication of hot stars in Gaia DR2, is largely mitigated now, down to GRVS = 12 mag. The combined radial velocity of stars brighter than or equal to GRVS = 12 mag is calculated in the same way as in Gaia DR2, that is, as the median of the epoch radial velocity time series. The combined radial velocity of the fainter stars is measured from the average of the cross-correlation functions. RESULTS: Gaia DR3 contains the combined radial velocities of 33 812 183 stars. With respect to Gaia DR2, the temperature interval has been expanded from Teff ∈ [3600, 6750] K to Teff ∈ [3100, 14 500] K for the bright stars (GRVS ≤ 12 mag) and [3100, 6750] K for the fainter stars. The radial velocities sample a significant part of the Milky Way: they reach a few kiloparsecs beyond the Galactic centre in the disc and up to about 10−15 kpc vertically into the inner halo. The median formal precision of the velocities is 1.3 km s−1 at GRVS = 12 and 6.4 km s−1 at GRVS = 14 mag. The velocity zeropoint exhibits a small systematic trend with magnitude that starts around GRVS = 11 mag and reaches about 400 m s−1 at GRVS = 14 mag. A correction formula is provided that can be applied to the published data. The Gaia DR3 velocity scale agrees satisfactorily with APOGEE, GALAH, GES, and RAVE; the systematic differences mostly remain below a few hundred m s−1. The properties of the radial velocities are also illustrated with specific objects: open clusters, globular clusters, and the Large Magellanic Cloud. For example, the precision of the data allows mapping the line-of-sight rotational velocities of the globular cluster 47 Tuc and of the Large Magellanic Cloud

Gaia Early Data Release 3 Acceleration of the Solar System from Gaia astrometry

Context. Gaia Early Data Release 3 (Gaia EDR3) provides accurate astrometry for about 1.6 million compact (QSO-like) extragalactic sources, 1.2 million of which have the best-quality five-parameter astrometric solutions. Aims. The proper motions of QSO-like sources are used to reveal a systematic pattern due to the acceleration of the solar systembarycentre with respect to the rest frame of the Universe. Apart from being an important scientific result by itself, the acceleration measured in this way is a good quality indicator of the Gaia astrometric solution. Methods. Theeffect of the acceleration was obtained as a part of the general expansion of the vector field of proper motions in vector spherical harmonics (VSH). Various versions of the VSH fit and various subsets of the sources were tried and compared to get the most consistent result and a realistic estimate of its uncertainty. Additional tests with the Gaia astrometric solution were used to get a better idea of the possible systematic errors in the estimate. Results. Our best estimate of the acceleration based on Gaia EDR3 is (2.32 +/- 0.16) x 10(-10) m s(-2) (or 7.33 +/- 0.51 km s(-1) Myr-1) towards alpha = 269.1 degrees +/- 5.4 degrees, delta = -31.6 degrees +/- 4.1 degrees, corresponding to a proper motion amplitude of 5.05 +/- 0.35 mu as yr(-1). This is in good agreement with the acceleration expected from current models of the Galactic gravitational potential. We expect that future Gaia data releases will provide estimates of the acceleration with uncertainties substantially below 0.1 mu as yr(-1).Peer reviewe

Metal nanoparticles for microscopy and spectroscopy

Metal nanoparticles interact strongly with light due to a resonant response of their free electrons. These ‘plasmon’ resonances appear as very strong extinction and scattering for particular wavelengths, and result in high enhancements of the local field compared to the incident electric field. In this chapter we introduce the reader to the optical properties of single plasmon particles as well as finite clusters and periodic lattices, and discuss several applications

Gaia Data Release 2 Mapping the Milky Way disc kinematics

Context. The second Gaia data release (Gaia DR2) contains high-precision positions, parallaxes, and proper motions for 1.3 billion sources as well as line-of-sight velocities for 7.2 million stars brighter than G(RVS) = 12 mag. Both samples provide a full sky coverage. Aims. To illustrate the potential of Gaia DR2, we provide a first look at the kinematics of the Milky Way disc, within a radius of several kiloparsecs around the Sun. Methods. We benefit for the first time from a sample of 6.4 million F-G-K stars with full 6D phase-space coordinates, precise parallaxes (sigma((omega) over bar)/(omega) over bar Results. Gaia DR2 allows us to draw 3D maps of the Galactocentric median velocities and velocity dispersions with unprecedented accuracy, precision, and spatial resolution. The maps show the complexity and richness of the velocity field of the galactic disc. We observe streaming motions in all the components of the velocities as well as patterns in the velocity dispersions. For example, we confirm the previously reported negative and positive galactocentric radial velocity gradients in the inner and outer disc, respectively. Here, we see them as part of a non-axisymmetric kinematic oscillation, and we map its azimuthal and vertical behaviour. We also witness a new global arrangement of stars in the velocity plane of the solar neighbourhood and in distant regions in which stars are organised in thin substructures with the shape of circular arches that are oriented approximately along the horizontal direction in the U - V plane. Moreover, in distant regions, we see variations in the velocity substructures more clearly than ever before, in particular, variations in the velocity of the Hercules stream. Conclusions. Gaia DR2 provides the largest existing full 6D phase-space coordinates catalogue. It also vastly increases the number of available distances and transverse velocities with respect to Gaia DR1. Gaia DR2 offers a great wealth of information on the Milky Way and reveals clear non-axisymmetric kinematic signatures within the Galactic disc, for instance. It is now up to the astronomical community to explore its full potential.Peer reviewe