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1. Indices quantifying the functional aspect of biodiversity are essential in understanding relationships between biodiversity, ecosystem functioning and environmental constraints. Many indices of functional diversity have been published but we lack consensus about what indices quantify, how redundant they are and which ones are recommended. 2. This study aims to build a typology of functional diversity indices from artificial data sets encompassing various community structures (different assembly rules, various species richness levels) and to identify a set of independent indices able to discriminate community assembly rules. 3. Our results confirm that indices can be divided into three main categories, each of these corresponding to one aspect of functional diversity: functional richness, functional evenness and functional divergence. Most published indices are highly correlated and quantify functional richness while quadratic entropy (Q) represents a mix between functional richness and functional divergence. Conversely, two indices (FEve and FDiv respectively quantifying functional evenness and functional divergence) are rather independent to all the others. The power analysis revealed that some indices efficiently detect assembly rules while others performed poorly. 4. To accurately assess functional diversity and establish its relationships with ecosystem functioning and environmental constraints, we recommend investigating each functional component separately with the appropriate index. Guidelines are provided to help choosing appropriate indices given the issue being investigated. 5. This study demonstrates that functional diversity indices have the potential to reveal the processes that structure biological communities. Combined with complementary methods (phylogenetic and taxonomic diversity), the multifaceted framework of functional diversity will help improve our understanding of how biodiversity interacts with ecosystem processes and environmental constraints.

Among the biological phenomena that fall within the emerging field of \"quantum biology\" is the suggestion that magnetically sensitive chemical reactions are responsible for the magnetic compass of migratory birds. It has been proposed that transient radical pairs are formed by photo-induced electron transfer reactions in cryptochrome proteins and that their coherent spin dynamics are influenced by the geomagnetic field leading to changes in the quantum yield of the signaling state of the protein. Despite a variety of supporting evidence, it is still not clear whether cryptochromes have the properties required to respond to magnetic interactions orders of magnitude weaker than the thermal energy, kBT. Here we demonstrate that the kinetics and quantum yields of photo-induced flavin—tryptophan radical pairs in cryptochrome are indeed magnetically sensitive. The mechanistic origin of the magnetic field effect is clarified, its dependence on the strength of the magnetic field measured, and the rates of relevant spin-dependent, spin-independent, and spin-decoherence processes determined. We argue that cryptochrome is fit for purpose as a chemical magnetoreceptor.

Pantherine felids (‘big cats’) include the largest living cats, apex predators in their respective ecosystems. They are also the earliest diverging living cat lineage, and thus are important for understanding the evolution of all subsequent felid groups. Although the oldest pantherine fossils occur in Africa, molecular phylogenies point to Asia as their region of origin. This paradox cannot be reconciled using current knowledge, mainly because early big cat fossils are exceedingly rare and fragmentary. Here, we report the discovery of a fossil pantherine from the Tibetan Himalaya, with an age of Late Miocene–Early Pliocene, replacing African records as the oldest pantherine. A ‘total evidence’ phylogenetic analysis of pantherines indicates that the new cat is closely related to the snow leopard and exhibits intermediate characteristics on the evolutionary line to the largest cats. Historical biogeographic models provide robust support for the Asian origin of pantherines. The combined analyses indicate that 75% of the divergence events in the pantherine lineage extended back to the Miocene, up to 7 Myr earlier than previously estimated. The deeper evolutionary origin of big cats revealed by the new fossils and analyses indicate a close association between Tibetan Plateau uplift and diversification of the earliest living cats.

Increasing catch rates are considered the main impact of dynamic fisheries practices on marine ecosystems, but other effects can be equally important and are often ignored. Here we quantify a major, previously unknown source of shark mortality: entanglement in drifting fish aggregating devices, now widely used in the global tropical tuna purse-seine fishery. Using satellite tagging and underwater observational data, we developed two novel, independent, and complementary approaches, which quantify and highlight the scale of this problem. Entanglement mortality of silky sharks ( Carcharhinus falciformis ) in the Indian Ocean was 5-10 times that of the known bycatch of this imperiled species from the region's purse-seine fleet. More importantly, these estimates from a single ocean (480 000-960 000 silky sharks) mirror those from all world fisheries combined (400 000-2 million silky sharks), a situation that clearly requires immediate management intervention and extensive monitoring.

Higher cognitive function depends on accurate detection and processing of subtle features of sensory stimuli. Such precise computations require neural circuits to be modulated over rapid timescales, yet this modulation is poorly understood. Brain-derived steroids (neurosteroids) can act as fast signaling molecules in the vertebrate central nervous system and could therefore modulate sensory processing and guide behavior, but there is no empirical evidence for this possibility. Here we report that acute inhibition of estrogen production within a cortical-like region involved in complex auditory processing disrupts a songbird's ability to behaviorally respond to song stimuli. Identical manipulation of local estrogen levels rapidly changes burst firing of single auditory neurons. This acute estrogen-mediated modulation targets song and not other auditory stimuli, possibly enabling discrimination among species-specific signals. Our results demonstrate a crucial role for neuroestrogen synthesis among vertebrates for enhanced sensory encoding. Cognitive impairments associated with estrogen depletion, including verbal memory loss in humans, may therefore stem from compromised moment-by-moment estrogen actions in higher-order cortical circuits.

In the course of the 20th century, migratory birds have shown rapid phenological changes in response to climate change. However, the spatial variability of phenological changes, as well as their intraspecific consistency, remains largely unexplored. Here we analysed 672 estimates of change in first arrival dates of migratory birds and 289 estimates of mean/median arrival dates, based on time series with a minimum duration of 15 yr, collected across Europe from 1960 to 2006. There were highly significant advances in arrival date, significantly more so for first than mean arrival date. Change in arrival dates significantly varied among species, implying that response to climate change is a species-specific feature, and showed substantial phylogenetic effects, since ca. 50% of the variation in the observed trends was attributable to differences among species. The advance in first arrival date was weaker at extreme latitudes and stronger at intermediate latitudes, while geographic variation in mean arrival dates was less pronounced. Both first and mean arrival dates advanced the most for short- compared to long-distance migrants. These findings emphasize the reliability of estimates of phenological trends of avian species, which are therefore suitable to be included in comparative analyses aimed at identifying species-specific traits that favour adaptation to climatic changes. In addition, our results suggest that analyses of factors that have affected phenological responses to climate change should take into account spatial variation in the response, which could be due to spatial differences in the strength of climate change.

Weather-based simulation models were developed in the present study to characterise late blight of potato in the Lower Gangetic Plains using AI-based machine learning and multiple linear regression approaches. Weather variables considered in this study were, daily maximum temperature, minimum temperature, rainfall, morning relative humidity, evening relative humidity, wind speed, and solar radiation, observed during the potato crop growing period, along with the disease parameter — crop age at first appearance of disease (CAFAD) — from 2006 to 2020 (15 years). A total of 56 simple and weighted weather-based indices were developed which served as inputs for the model development and validation. Simulation models were developed using machine learning approaches like LASSO, SVM, and multiple linear regression technique SMLR, along with two hybrid models like LASSO-SVM and SMLR-SVM under early, normal, late, and all (pooled data) planting conditions in lower Gangetic plains. Out of all the AI-based machine learning and multiple linear regression models developed, based on the overall standardised Ranking Performance Index (sRPI), the SMLR model was considered to be the best to simulate crop age at first appearance of the disease under early and normal planting conditions, whereas SVM and LASSO were the best under late and all planting conditions, respectively. The developed models can be used in decision support systems to predict potato late blight and can also be extended to develop similar models for other locations.

The sulfonylureas and imidazolinones are potent commercial herbicide families. They are among the most popular choices for farmers worldwide, because they are nontoxic to animals and highly selective. These herbicides inhibit branched-chain amino acid biosynthesis in plants by targeting acetohydroxyacid synthase (AHAS, EC 2.2.1.6 1). This report describes the 3D structure of Arabidopsis thaliana AHAS in complex with five sulfonylureas (to 2.5 angstrom resolution) and with the imidazolinone, imazaquin (IQ; 2.8 angstrom). Neither class of molecule has a structure that mimics the substrates for the enzyme, but both inhibit by blocking a channel through which access to the active site is gained. The sulfonylureas approach within 5 angstrom of the catalytic center, which is the C2 atom of the cofactor thiamin diphosphate, whereas IQ is at least 7 angstrom from this atom. Ten of the amino acid residues that bind the sulfonylureas also bind IQ. Six additional residues interact only with the sulfonylureas, whereas there are two residues that bind IQ but not the sulfonylureas. Thus, the two classes of inhibitor occupy partially overlapping sites but adopt different modes of binding. The increasing emergence of resistant weeds due to the appearance of mutations that interfere with the inhibition of AHAS is now a worldwide problem. The structures described here provide a rational molecular basis for understanding these mutations, thus allowing more sophisticated AHAS inhibitors to be developed. There is no previously described structure for any plant protein in complex with a commercial herbicide.

Purse seine fishing on fish aggregating devices (FADs) has expanded considerably during the last 15 yr in tropical tuna purse seine fisheries, and FADs currently account for about 70% of their reported tuna catches. The scientific community has expressed concern over the consequences of this fishing practice in terms of yield per recruit and suspected detrimental effects on FAD-associated tunas. To explore possible detrimental effects, we compared stomach fullness, fish plumpness, growth rate, and migration behaviour between free school and drifting FAD-associated tunas for skipjack tunaKatsuwonus pelamisand yellowfin tunaThunnus albacarescaught in the Atlantic and Indian Oceans. Significant differences in fish plumpness and individual growth rates were found, suggesting that individuals associated with drifting FADs were less healthy than those in free schools. Since stomach fullness indicated that tunas associated with FADs eat less than those in free schools, the difference in growth rate and condition could be the consequence of altered feeding patterns. For each species, significant changes in migratory direction and displacement rates were observed in the presence of drifting FADs. These findings support the hypothesis that FADs act as a super-stimulus, misleading tunas to make inappropriate habitat selection. However, further studies are required to investigate the long-term effect of FADs on the entire life cycle of tunas.

The olive tree lacks dormancy and is low temperature sensitive, with differences in cold tolerance and oil quality among genotypes. The oil is produced in the drupe, and the unsaturated fatty acids contribute to its quality. The aim of the present research was to investigate the relationship among development, cold response, expression of fatty acid desaturase (FAD) genes, and unsaturated fatty acid composition in drupes belonging to genotypes differing in leaf cold tolerance, but producing good oil (i.e. the non-hardy Moraiolo, the semi-hardy Frantoio, and the hardy Canino). In all genotypes, cold sensitivity, evaluated by cold-induced transient increases in cytosolic calcium, was high in the epi-mesocarp cells before oil body formation, and decreased during oil biogenesis. However, genotype-dependent differences in cold sensitivity appeared at the end of oil production. Genotype-dependent differences in FAD2.1, FAD2.2, FAD6, and FAD7 expression levels occurred in the epi-mesocarp cells during the oleogenic period. However, FAD2.1 and FAD7 were always the highest in the first part of this period. FAD2.2 and FAD7 increased after cold applications during oleogenesis, independently of the genotype. Unsaturated fatty acids increased in the drupes of the non-hardy genotype, but not in those of the hardy one, after cold exposure at the time of the highest FAD transcription. The results show a direct relationship between FAD expression and lipid desaturation in the drupes of the cold-sensitive genotype, and an inverse relationship in those of the cold-resistant genotype, suggesting that drupe cold acclimation requires a fine FAD post-transcriptional regulation. Hypotheses relating FAD desaturation to storage and membrane lipids, and genotype cold hardiness are discussed.