Selected Model Species Research Articles

Multiple independent losses of crossover interference during yeast evolutionary history.

Meiotic recombination is essential for the accurate chromosome segregation and the generation of genetic diversity through crossover and gene conversion events. Although this process has been studied extensively in a few selected model species, understanding how its properties vary across species remains limited. For instance, the ancestral ZMM pathway that generates interference-dependent crossovers has undergone multiple losses throughout evolution, suggesting variations in the regulation of crossover formation. In this context, we first characterized the meiotic recombination landscape and properties of the Kluyveromyces lactis budding yeast. We then conducted a comprehensive analysis of 29,151 recombination events (19, 212 COs and 9, 939 NCOs) spanning 577 meioses in the five budding yeast species Saccharomyces cerevisiae, Saccharomyces paradoxus, Lachancea kluyveri, Lachancea waltii and K. lactis. Eventually, we found that the Saccharomyces yeasts displayed higher recombination rates compared to the non-Saccharomyces yeasts. In addition, bona fide crossover interference and associated crossover homeostasis were detected in the Saccharomyces species only, adding L. kluyveri and K. lactis to the list of budding yeast species that lost crossover interference. Finally, recombination hotspots, although highly conserved within the Saccharomyces yeasts are not conserved beyond the Saccharomyces genus. Overall, these results highlight great variability in the recombination landscape and properties through budding yeasts evolution.

Acute Toxicity of Malathion, Permethrin, and Roundup on the Tropical Freshwater Shrimp Xiphocaris elongata (Guérin-Méneville, 1855)

Urban and agricultural runoffs can transport contaminants and pesticides into freshwater ecosystems, particularly in the developing tropics. For instance, organophosphate and pyrethroids pesticides, such as Roundup, Malathion, and Permethrin, have been found in tropical streams. The uncontrolled application of these pesticides has become a growing concern due to their adverse effects on various non-targeted organisms. Unfortunately, most studies have focused on a few selected model species, ignoring the effects on other non-target organisms, which may play an important role in tropical lotic ecosystems. In addition, the biological characteristics of aquatic crustaceans, including their morphology, physiology, and behavior, make them susceptible to toxic chemicals. For this reason, this study used the widely distributed freshwater shrimp Xiphocaris elongata as a model organism to determine the acute toxicity of Permethrin, Malathion, and Roundup. Our results show that the proportion of mortality of X. elongata in each concentration group became progressively higher as the concentration of exposure increased. We also found that the synthetic pyrethroid Permethrin was the most toxic pesticide tested, with a median lethal concentration (LC50) value for 96 h of 3.96 × 10−6 µg·L−1, followed by organophosphate Malathion (8.87 µg·L−1) and Roundup (748.92 µg·L−1). Experiments with this freshwater shrimp showed a good control performance and reproducibility for the tested pesticides. This study demonstrated that X. elongata is a suitable test organism that can be a representative bioindicator of pesticide toxicity in tropical streams.

RIGENERAZIONE E INTERFERENTI ENDOCRINI NEGLI ECHINODERMI

Regeneration phenomena performed by animals following self-induced or traumatic mutilations are characterized by complex developmental processes distinct from the embryonic ones and finely regulated by endocrine and neuro-humoral mechanisms. Echinoderms are a phylum of marine invertebrates where the regenerative potential is expressed at all the the life cycle stages allowing regeneration of tissues and organs and even of whole individuals from body fragments. The capabilities to easily undergo complex regenerative phenomena provide occasion for a controlled study of physiological developmental processes in adult animals and make Echinoderms ideal models to monitor the effects of environmental contamination, with particular reference to those caused by endocrine disrupters (ED) compounds. In the context of dedicated European and national projects, recent researches were addressed to study the effects of exposure to different classes of ED compounds (polyclorinated biphenyls, organotins, pesticides and others) on regenerative development of Echinoderms: the selected model species was the crinoid Antedon mediterranea. The obtained results showed that a prolonged exposure to ED compounds has a relevant impact on regeneration mechanisms inducing in the exposed individuals 1) anomalies in terms of regeneration times, morphogenesis, histogenesis and differentiation, 2) remarkable alterations of steroid hormons levels, showing a close concentration/effect correlation for all the tested compounds.

X-ray microtomography imaging of craniofacial hard tissues in selected reptile species with different types of dentition.

BackgroundReptiles exhibit a large heterogeneity in teeth morphology. The main variability comprises the different tooth shape, the type of tooth attachment to the underlying bone, or the ability to replace the teeth.FindingsHere, we provide full datasets of microtomography scans and 3D models of reptilian dentitions and skulls. We selected representative species for each of 9 reptilian families on the basis of their characteristic dental features. Because there are ≥4 different types of tooth-bone attachments, ranging from the mammalian-like thecodont attachment found in crocodilians to the simple acrodont implantation observed in some lizards, we aimed to evaluate species with different types of tooth-bone attachments. Moreover, another interesting feature varying in reptilian species is the complexity of tooth shape or the number of tooth generations, which can be associated with the type of tooth attachment to the jawbone. Therefore, selected model species also include animals with distinct tooth morphology along the jaw or different number of tooth generations. The development of tooth attachment and relationship of the tooth to the jaw can be further analysed in detail on a large collection of pre-hatching stages of chameleon. Next, we introduce different possibilities for how these datasets can be further used to study tooth-bone relationships or tooth morphology in 3D space. Moreover, these datasets can be valuable for additional morphological and morphometric analyses of reptilian skulls or their individually segmented skeletal elements.ConclusionsOur collection of microcomputed tomography scans can bring new insight into dental or skeletal research. The broad selection of reptilian species, together with their unique dental features and high quality of these scans including complete series of developmental stages of our model species and provide large opportunities for their reuse. Scans can be further used for virtual reality, 3D printing, or in education.

Comparative mitochondrial genomics of five Dermestid beetles (Coleoptera: Dermestidae) and its implications for phylogeny

Dermestid beetles (Coleoptera: Dermestidae) are important pests of various stored products, posing potential threats to international trade. Their detailed characterization on molecular basis is a pre-requisite for proper identification and for understanding of their phylogenetic relationships. In this work, the whole mitochondrial genomes (mitogenomes) of Trogoderma granarium, Dermestes lardarius, D. ater, Attagenus augustatus augustatus and Attagenus unicolor japonicus were firstly sequenced to update the database using the next-generation sequencing technique. Based on the selected model species, a comparative analysis of four Dermestidae genera was performed. The mitochondrial genomes of these five species above showed high similarity in nucleotide composition, base composition and gene order, including 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNAs), 2 ribosomal RNAs (rRNAs) and a non-coding control region, which was similar to most of Coleoptera species. The phylogenetic analysis based on the PCGs and two rRNAs indicated that the relationships within Dermestidae were reconstructed as (((Trogoderma + Anthrenus) + Attagenus) + Dermestes) using both Maximum Likelihood (ML) and Bayesian Inference (BI) analysis. However, more mitogenomes should be sequenced to obtain a more holistic view of the whole family. This study not only showed the mitogenomes of five Dermestidae species and their high conservativeness, but also discussed its implications for reconstructing a more comprehensive phylogeny of dermestids.

Proteomics based approach for edible insect fingerprinting in novel food: Differential efficiency according to selected model species

For insect-based formulations, food analysis is essential to ensure authenticity. According to the spread of the real-time-polymerase chain reaction technique, it started to be tested for entomological occurrence in food with limited success according to the insect species to be detected. Mass spectrometry-based proteomic methods are increasingly being used for the specific detection of trace amounts in food products. Here, we focused on the potential use of proteomic analyses to detect four edible insect species namely Tenebrio molitor, Hermetia illucens, Alphitobius diaperinus and Gryllus assimilis in insect commercial flours. Reproducible results were obtained from liquid chromatography-mass spectrometry with heterogenous efficiency rates on insect identification according to the target species. Indeed, Tenebrio molitor and Gryllus assimilis were identified at species and genus level respectively whereas no efficient results at these taxonomic levels could be found for Hermetia illucens. Future applications of proteomics for edible insect detection in food are discussed in relation to available data and model.

Diel leaf growth of rapeseed at critically low temperature under winter field conditions.

Growth and development of winter crops is strongly limited by low temperature during winter. Monitoring the temporal dynamics and thermal limits of leaf growth in that period can give important insights into the growth physiology at low temperature, crop management and future breeding traits for winter crops. In this study, we focussed on winter rapeseed as a model, dicotyledonous winter crop to study leaf growth under natural winter field conditions. Leaf growth was measured using a high-resolution marker based image sequence analysis method and the results were evaluated in the context of environmental conditions. Leaves stopped growing at a base temperature of 0°C. Above ~4°C, leaves grew with a diel (24h) growth rhythm, which is typically known for dicots at thermally non-limiting growth conditions. Relative leaf growth rates at temperatures above this 4°C threshold were higher at night and showed a pronounced depression during the day, which we could describe by a model based on the environmental factors vapour pressure deficit (VPD), temperature and light with VPD exerting the strongest negative effect on leaf growth. We conclude that leaf growth of the selected model species at low temperatures shows a transition between pronounced environmental regulation and a superposition of environmental and internal, possibly circadian-clock-dependent regulation.

Micro-radiography of biological samples with medical contrast agents

Micro-radiography is an imaging technique that uses X-rays to study the internal structures of objects. This fast and easy imaging tool is based on differential X-ray attenuation by various tissues and structures within biological samples. The experimental setup described is based on the semiconductor pixel X-ray detector Medipix2 and X-ray micro-focus tube. Our micro-radiographic system has been recently used not only for the examination of internal structures of various arthropods and other biological objects but also for tracing some processes in selected model species (we used living larvae of mosquito Culex quinquefasciatus). Low concentrations of iodine, lanthanum or gold particles were used as a tracer (contrast agent). Such contrast agents increase the absorption of X-rays and allow a better visibility of internal structures of model organisms (especially the various cavities, pores, etc.). In addition, the movement of tracers in selected timing experiments demonstrates some physiological functions of digestive and excretory system.

Three dimensional tracking of exploratory behavior of barnacle cyprids using stereoscopy.

Surface exploration is a key step in the colonization of surfaces by sessile marine biofoulers. As many biofouling organisms can delay settlement until a suitable surface is encountered, colonization can comprise surface exploration and intermittent swimming. As such, the process is best followed in three dimensions. Here we present a low-cost transportable stereoscopic system consisting of two consumer camcorders. We apply this novel apparatus to behavioral analysis of barnacle larvae (≈800 μm length) during surface exploration and extract and analyze the three-dimensional patterns of movement. The resolution of the system and the accuracy of position determination are characterized. As a first practical result, three-dimensional swimming trajectories of the cypris larva of the barnacle Semibalanus balanoides are recorded in the vicinity of a glass surface and close to PEG2000-OH and C11NMe3+Cl− terminated self-assembled monolayers. Although less frequently used in biofouling experiments due to its short reproductive season, the selected model species [Marechal and Hellio (2011), Int Biodeterior Biodegrad, 65(1):92–101] has been used following a number of recent investigations on the settlement behavior on chemically different surfaces [Aldred et al. (2011), ACS Appl Mater Interfaces, 3(6):2085–2091]. Experiments were scheduled to match the availability of cyprids off the north east coast of England so that natural material could be used. In order to demonstrate the biological applicability of the system, analysis of parameters such as swimming direction, swimming velocity and swimming angle are performed.Electronic supplementary materialThe online version of this article (doi:10.1007/s13758-012-0050-x) contains supplementary material, which is available to authorized users.

Metal sensitivity of the embryonic development of the ramshorn snail Marisa cornuarietis (Prosobranchia)

We investigated the effects of metal ions on the embryonic development of the ramshorn snail, Marisa cornuarietis, by exposing embryos to varying concentrations of copper (0, 50, 100, and 250 μg Cu(2+)/L), lead (0, 5, 10, and 15 mg Pb(2+)/L), lithium (0, 1, 2.5, and 3 mg Li(+)/L), or palladium (0, 50, 100, and 500 μg Pd(2+)/L). Effects of these metals were examined by recording mortality, the rate of tentacles and eyes formation, heart rate, hatching success, and weight after hatching. Compared to the control, we found a significant delay in the formation of tentacles and eyes after treatment with 100 μg Cu(2+)/L, 15 mg Pb(2+)/L, 2.5 mg Li(+)/L or 500 μg Pd(2+)/L. The heart rate decreased significantly at 500 μg Pd(2+)/L. At 10 mg Pb(2+)/L, 2.5 mg Li(+)/L, or 500 μg Pd(2+)/L, hatching was delayed significantly; 50 μg Cu(2+)/L induced a significantly earlier hatching, and reduced body weight. The LC(50) values were calculated to be about 50 μg Cu(2+)/L, 500 μg Pd(2+)/L, 2500 μg Li(+)/L, and 10000 μg Pb(2+)/L. These results show that the embryonic development of M. cornuarietis is about as sensitive to copper and lithium, compared to the most sensitive fishes used in embryo toxicity testing. Even though the MariETT is a laboratory-based assay focusing on toxicological endpoints of a selected model species, future application is envisaged to include testing of "natural" samples such as stream water or sediment interstitial water.

Short-rotation woody crop supply systems in the United States: what do we know and what do we need to know?

Short-rotation woody crop (SRWC) supply systems have been proposed over the past 20 years as a means of rapidly producing biomass for fiber and fuels. The U.S. Department of Energy, through the Biofuels Feedstock Development Program and its partners, has selected model species, developed silvicultural systems and created genetically improved clonal planting stock for use in SRWC supply systems. Spacing, fertilizer and pesticide prescriptions have been developed for several species and regions within the U.S. Breeding and genetic improvement projects continue to identify and select plant materials which display increased productivity and pest resistance. Genetic transformation, somaclonal variation and marker-assisted selection are being used to supplement traditional breeding work. Harvesting and handling methods are currently relying on traditional combinations of existing equipment. Nevertheless, technical and environmental issues related to: (1) long-term use of fertilizers and irrigation; (2) deployment of clonal planting stock; and (3) development of customized harvesting equipment remain as unresolved issues related to further deployment and commercialization of SRWC systems. Overall determination of SRWC sustainability will require resolution of these issues.