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Ecological fitting as a determinant of the community structure of platyhelminth parasites of anurans.

Host-parasite associations are assumed to be ecologically specialized, tightly coevolved systems driven by mutual modification in which host switching is a rare phenomenon. Ecological fitting, however, increases the probability of host switching, creating incongruences between host and parasite phylogenies, when (1) specialization on a particular host resource is a shared characteristic of distantly related parasites, and (2) the resource being tracked by the parasite is widespread among many host species. We investigated the effect of ecological fitting on structuring the platyhelminth communities of anurans from a temperate forest and grassland in the United States and tropical dry and wet forests in Mexico and Costa Rica. The six communities all exhibit similar structure in terms of the genera and families inhabiting the frogs. Parasite species richness is highly correlated with the amount of time a host spends in association with aquatic habitats, a conservative aspect of both parasite and host natural history, and determined in a proximal sense by host mobility and diet breadth. The pattern of parasite genera and families within host genera across the regions examined is consistent with the prediction that ecological fitting by phylogenetically conservative species, coupled with historical accidents of speciation and dispersal, should be evidenced as a nested-subset structure; the shared requirement for aquatic habitats of tadpoles provides a baseline assemblage to which other parasite taxa are added as a function of adult host association with aquatic habitats. We conclude that parasite communities are structured by both ecological fitting and coevolution (mutual modification), the relative influences of which are expected to vary among different communities and associations.

Animals↗

Temporal dynamics of antagonism and mutualism in a geographically variable plant-insect interaction.

Variation among sites and years in the local ecological outcome of interspecific interactions can generate a geographic mosaic of coevolution, as indicated by recent mathematical models. We evaluated whether local temporal dynamics of ecological outcome in the interaction between the moth Greya politella (Prodoxidae) and its host plant Lithophragma parviflorum (Saxifragaceae) are likely to mitigate or magnify geographic differences in ecological outcome found in earlier studies. The moths are highly host-specific pollinating floral parasites, and the mutualism can be swamped in some populations by the presence of effective co-pollinators. Hence, differing community contexts can shift the outcome of the interaction from mutualism to commensalism or antagonism. During each of four years, we evaluated the effect of Greya oviposition on seed development through a paired design that controlled for plant genotype and microenvironment. At Turnbull National Wildlife Refuge in Washington State, the interaction was significantly mutualistic in all four years. Mutualism in this population was indicated by a higher probability of development of capsules visited by ovipositing Greya than capsules not visited by Greya on the same plant. At Rapid River, Idaho, the interaction was commensalistic in three years and antagonistic in one year. Antagonism in this population was indicated by selective withering of capsules containing Greya eggs. Overall, the results suggest stable geographic differences in the range of ecological outcomes in this plant-insect interaction under different community contexts.

Animals↗

Environmental variation mediates the deleterious effects of Coleosporium ipomoeae on Ipomoea purpurea.

Variation in the environment is common within and between natural populations and may influence selection on plant resistance by altering the level of damage or the fitness consequences of damage from plant enemies. While much is known about how environmental variation influences the amount of damage a plant experiences, few studies have attempted to determine how variation in the environment may alter the fitness consequences of damage, particularly in plant-pathogen interactions. In this work we manipulated a rust pathogen, Coleosporium ipomoeae, in field experiments and showed that this pathogen reduced several components of fitness in its natural host plant, Ipomoea purpurea. Furthermore, we showed that the deleterious effects of C. ipomoeae were variable. We identified variation in the quality of a plant's microenvironment, the abundance of secondary enemy damage, and the length of a growing season as variable components of the environment that may influence the magnitude of damage and tolerance, causing the interaction between C. ipomoeae and I. purpurea to vary from parasitism to commensalism. Considering how environmental variation impacts the magnitude and negative fitness effects of pathogen damage is important to understanding spatially variable selection and coevolution in this and other plant-pathogen interactions.

Basidiomycota↗

Anthropoaesthetics as an aspect of anthropoecology.

The source of activity of every individual or group is to a great extent determined by the necessity of interaction with other individuals or groups (Afanasiev, 1990), i.e. with the diversity of anthropological surroundings. This manifests itself in the participation of individuals in the organization of their ecosystems, including the ethnocultural and physical conditions of life (Sukharev, 1998). Therefore it is possible to single out certain ecological aspects of perception of anthropological specificity of the surrounding population by an individual (group), leaning upon the definition of anthropoecology as a discipline, studying the laws of interaction between human communities and the system of natural, social and other factors, (Anthropological dictionary, 2004) as well as the coevolution of humans with their environment, in the process of adaptation (Lisseyev, 2001). At the same time it is usually emphasized that the ecological approach is best of all realized on the base of the principle of reciprocity of development of an individual and the surrounding reality, on the perception of the objects of this reality (including other people) with due regard to the reasons for the preference and corresponding values orientation. This represents the subject of ecological psychology (Sergeyenko, 2002; Pavlenko, 2002). In this context the relations between the individual and the environment (autoecology) as well as between the individual and a group (sinecology) are considered (Lisseyev, 2001). The study of the aesthetic perception of anthropological types by individuals belonging to different ethnoterritorial and age groups is the subject matter of a special branch of physical anthropology-anthropoaesthetics, which studies the peculiarities of the aesthetic preference of human facial features in modern populations, analyzing the dependence of human perception on the anthropological environment (Haldeyeva, 2004).

Anthropology, Cultural↗

Structure and function of the acidic ribosomal stalk proteins.

The acidic L7/L12 (prokaryotes) and P1/P2 (eukaryotes) proteins are the only ribosomal components that occur in more than one, specifically four, copies in the translational machinery. These ribosomal proteins are the only ones that do not directly interact with ribosomal RNA but bind to the particles via a protein, L10 and P0, respectively. They constitute a morphologically distinct feature on the large subunit, the stalk protuberance. Since a long time proteins L7/L12 have been implicated in translation factor binding and in the stimulation of the factor-dependent GTP-hydrolysis. Recent studies reproduced such activities with the isolated components and L7/L12 can therefore in retrospect be regarded as the first GTPase activating proteins identified. GTP-hydrolysis induces a drastic conformational change in elongation factor (EF) Tu, which enables it to dissociate from the ribosome after having successfully delivered aminoacylated tRNA into the A-site. It is also used as a driving force for translocation, mediated by EF-G. The in vitro stimulation of translation-uncoupled EF-G-dependent GTP-hydrolysis seems to be an intrinsic property of the ribosome that is dependent on L7/L12, reaches a maximum with four copies of the proteins per particle, and reflects the in vivo hydrolysis rate during translation. It is much larger than the analogous activity observed for EF-Tu, which is correlated with the in vitro polypeptide synthesis rate. Therefore, at least certain stimulatory activities of L7/L12 are controlled by the ribosomal environment, which in the case of EF-Tu senses the successful codon-anticodon pairing. Present knowledge is consistent with a picture in which proteins L7/L12 constitute a "landing platform" for the factors and after rearrangements induce GTP-hydrolysis. The molecular mechanism of the GTPase activation is unknown. While sequence comparisons show a large diversity in the stalk proteins across the kingdoms, a conserved functional domain organization and conserved designs of their genetic units are discernible. Consistently, stalk transplantation experiments suggest that coevolution took place to maintain functional L7/L12 EF-G and P-protein EF-2 couples. The acidic proteins are organized into three distinct functional parts: An N-terminal domain is responsible for oligomerization and ribosome association, a C-terminal domain is implicated in translation factor interactions, and a hinge region allows a flexible relative orientation of the latter two portions. The bacterial L7/L12 proteins have long been portrayed as highly elongated dimers displaying globular C-terminal domains, helical N-termini, and unstructured hinges. Conversely, recent crystal structures depict a compact hetero-tetrameric assembly with the hinge region adopting either an alpha-helical or an open conformation. Two different dimerization modes can be discerned in these structures. Models suggest that dimerization via one association mode can lead to elongated dimeric complexes with one helical and one unstructured hinge. The physiological role of the other dimerization mode is unclear and is in apparent contradiction to distances measured by fluorescence resonance energy transfer. The discrepancies between the crystal structures and results from other physico-chemical methods may partly be a consequence of the dynamic functions of the proteins, necessitating a high flexibility.

Crystallography, X-Ray↗

Response in nematocyst uptake by the nudibranch Flabellina verrucosa to the presence of various predators in the Southern Gulf of Maine.

Aeolid nudibranchs maintain nematocysts sequestered from their cnidarian prey for protection against predators. Selection for nematocyst incorporation is a function of diet and prey choice, but ratios vary among nudibranchs feeding on a given diet, indicating that other factors may be involved. It is proposed that the presence of predators influences nematocyst incorporation. Nematocyst uptake in the nudibranch Flabellina verrucosa collected from the southern Gulf of Maine was examined in response to various potential predators, including Crossaster papposus, Tautogolabrus adspersus, and Carcinus maenas. Nudibranchs in individual flow-through containers feeding on a diet of the hydroids Tubularia spp. and Obelia geniculata were subjected to tanks containing a predator, then their nematocyst distribution was examined. Although most of the changes over the experimental period were attributable to diet, F. verrucosa responded to both T. adspersus and C. papposus by significantly increasing microbasic mastigophore incorporation. No differential uptake was seen with C. maenas. Response was evident in the nudibranchs both for predators present in the collection area and for those with which they had no previous exposure, indicating that F. verrucosa modulates nematocyst incorporation in response to the presence of predators as well as to diet. A coevolution of nudibranchs and potential predators may govern changes in nematocyst uptake.

Animal Structures↗

Rickettsial pathogens and their arthropod vectors.

Rickettsial diseases, important causes of illness and death worldwide, exist primarily in endemic and enzootic foci that occasionally give rise to sporadic or seasonal outbreaks. Rickettsial pathogens are highly specialized for obligate intracellular survival in both the vertebrate host and the invertebrate vector. While studies often focus primarily on the vertebrate host, the arthropod vector is often more important in the natural maintenance of the pathogen. Consequently, coevolution of rickettsiae with arthropods is responsible for many features of the host-pathogen relationship that are unique among arthropod-borne diseases, including efficient pathogen replication, long-term maintenance of infection, and transstadial and transovarial transmission. This article examines the common features of the host-pathogen relationship and of the arthropod vectors of the typhus and spotted fever group rickettsiae.

Animals↗

Phylogeny, host-parasite relationship and zoogeography.

Phylogeny is the evolutionary history of a group or the lineage of organisms and is reconstructed based on morphological, molecular and other characteristics. The genealogical relationship of a group of taxa is often expressed as a phylogenetic tree. The difficulty in categorizing the phylogeny is mainly due to the existence of frequent homoplasies that deceive observers. At the present time, cladistic analysis is believed to be one of the most effective methods of reconstructing a phylogenetic tree. Excellent computer program software for phylogenetic analysis is available. As an example, cladistic analysis was applied for nematode genera of the family Acuariidae, and the phylogenetic tree formed was compared with the system used currently. Nematodes in the genera Nippostrongylus and Heligmonoides were also analyzed, and the validity of the reconstructed phylogenetic trees was observed from a zoogeographical point of view. Some of the theories of parasite evolution were briefly reviewed as well. Coevolution of parasites and humans was discussed with special reference to the evolutionary relationship between Enterobius and primates.

Animals↗

The Convergence of Antimicrobial Resistance and Virulence in Streptococcus pneumoniae: A Molecular and Clinical Perspective.

Antimicrobial resistance (AMR) and virulence have traditionally been viewed as competing traits in bacterial evolution due to fitness costs. However, Streptococcus pneumoniae has emerged as a paradigm of successful coevolution, with multidrug-resistant clones simultaneously maintaining or enhancing pathogenic potential. This review examines the molecular mechanisms, epidemiological patterns, and clinical consequences of the convergence between AMR and virulence in Streptococcus pneumoniae. Resistance to β-lactams is driven by mosaic penicillin-binding protein genes (pbp1a, pbp2b, pbp2x), while macrolide resistance is mediated primarily by the erm(B) gene (MLS phenotype) and mef(A/E)-msr(D) genes encoding an efflux system. These determinants are frequently co-localized on integrative and conjugative elements, ICEs, (e.g., Tn916 family) within successful clonal complexes such as CC271/320 and lineages including ST320 and GPSC10. Contrary to the classical fitness cost hypothesis, compensatory epistasis, capsular recombination, metabolic adaptations, and intra-serotype phenotypic variation enable certain clones to combine high-level resistance to β-lactams, macrolides, and tetracyclines with enhanced colonization, biofilm formation, immune evasion, and invasive capacity. Post-pneumococcal conjugate vaccine (PCV) surveillance reveals the persistence and expansion of these high-risk lineages, contributing to treatment-refractory invasive pneumococcal disease (IPD), increased morbidity, and mortality. Although PCVs have reduced vaccine-type resistant strains in some settings, serotype replacement and emerging metabolic genotypes continue to drive adaptation. This review highlights the need for integrated genomic surveillance, novel therapeutics (e.g., omadacycline, lefamulin, endolysins), monoclonal antibodies, and next-generation vaccines targeting both resistance and conserved virulence determinants. A multifaceted strategy combining antimicrobial stewardship, strengthened surveillance, and innovative interventions is essential to curb the evolving threat of resistant and virulent S. pneumoniae.

Streptococcus pneumoniae↗

Chromosome-Level Genome Assembly of Solanum carolinense.

Horsenettle (Solanum carolinense L.) is a noxious weed widely distributed across North America and increasingly invasive in other regions. Its strong environmental adaptability, complex defense strategies, and distinctive reproductive traits make it an important model for studying plant-herbivore coevolution. However, the absence of high-quality genomic resources has limited deeper investigation into its adaptive evolutionary mechanisms. In this study, we generated a chromosome-level reference genome assembly for S. carolinense using an integrated approach combining PacBio HiFi long-read sequencing, Illumina second-generation sequencing, and Hi-C chromatin interaction scaffolding. The final genome assembly had a total length of 915.40 Mb, with a contig N50 of 51.06 Mb and a scaffold N50 of 73.17 Mb; 96.05% of the sequences were successfully anchored onto 12 pseudochromosomes. The genome was characterized by a high proportion of repetitive sequences (73.64%) and substantial heterozygosity (1.13%), consistent with a highly repetitive and moderately high heterozygous genome. BUSCO analysis indicated that the chromosome-level genome assembly of S. carolinense reached a completeness score of 94.8%. A total of 32,206 protein-coding genes were annotated, of which 97.95% received functional annotations. The evaluation of the annotated protein-coding gene set returned a completeness value of 94.9%. This reference genome provides a valuable resource for advancing research on the adaptive evolution of weedy Solanaceae species, supports the development of more effective management strategies for this troublesome species, and offers a technical reference for assembling other highly heterozygous weed genomes.

Solanum carolinense↗

Rust fungi on rhododendrons in Asia: Diaphanopellisforrestii gen. et sp. nov., new species of Caeoma, and expanded descriptions of Chrysomyxa dietelii and C. succinea.

Many rust fungi (Uredinales) that infect rhododendrons are difficult to identify because of similar spore size and overall morphology. As part of a morphological study of rusts in the genus Chrysomyxa, herbarium specimens of Asian rhododendron rusts were examined by light and scanning electron microscopy. They were compared with similar taxa from Europe and North America. Revised and illustrated descriptions are provided for the uredinia and telia of Chrysomyxa dietelii and Chrysomyxa succinea; details of the conspicuous uredinial peridium of both species are described for the first time. A new genus and species, Diaphanopellis forrestii, is proposed to accommodate a rust fungus with uredinia covered by a peridium of ornamented cells (Aecidium-type) and teliospores enclosed in transparent outer sheaths. This species includes the previously described anamorphs Aecidium rhododendri and A. sino-rhododendri. Three new anamorphic species with unique urediniospore morphology also are described: Caeoma clemensii from Philippines, Caeoma spinulospora from Tibet, and Caeoma yunnanensis from Yunnan, China. For morphological and nomenclatural reasons Uredo rhododendri ('rhododendronis') is renamed as Caeoma dumeticola and Uredo rhododendri-capitati is transferred to Caeoma. A key to Asian rhododendron rusts that form uredinia is provided. In general morphological groups of rhododendron rusts correlate with the subgenera of Rhododendron on which they occur, suggesting coevolution of these parasites with their hosts.

Asia↗

A contig map of the Mhc class I genomic region in the zebrafish reveals ancient synteny.

In contrast to the human and mouse Mhc, in which the clusters of class I and class II loci reside in close vicinity to one another, in the zebrafish, Danio rerio, they are found in different linkage groups. Chromosome walking using BAC (bacterial artificial chromosome) and PAC (P1 artificial chromosome) clones reveals the zebrafish class I region to occupy a segment of approximately 450 kb and to encompass at least 19 loci. These include three class I (Dare-UDA, -UEA, -UFA), five proteasome subunit beta (PSMB8, -9A, -9C, -11, -12), two TAPs (TAP2A, TAP2B), and one TAP binding protein (TAPBP). This arrangement contrasts with the arrangements found in human and mouse Mhc, in which the orthologues of the PSMB, TAP, and TAPBP loci reside within the class II region. In addition to this main zebrafish class I contig, a shorter contig of about 150 kb contains two additional class I (UBA, UCA) and at least five other loci. It probably represents a different haplotype of part of the class I region. The previously identified UAA gene shares an identical 5' part with UEA, but the two genes differ in their 3' parts. One of them is probably the result of an unequal crossing over. The described organization has implications for the persistence of syntenic relationships, coevolution of loci, and interpretation of the origin of the human/mouse Mhc organization.

Animals↗

Identifying MHC class I epitopes by predicting the TAP transport efficiency of epitope precursors.

We are able to make reliable predictions of the efficiency with which peptides of arbitrary lengths will be transported by TAP. The pressure exerted by TAP on Ag presentation thus can be assessed by checking to what extent MHC class I (MHC-I)-presented epitopes can be discriminated from random peptides on the basis of predicted TAP transport efficiencies alone. Best discriminations were obtained when N-terminally prolonged epitope precursor peptides were included and the contribution of the N-terminal residues to the score were down-weighted in comparison with the contribution of the C terminus. We provide evidence that two factors may account for this N-terminal down-weighting: 1) the uncertainty as to which precursors are used in vivo and 2) the coevolution in the C-terminal sequence specificities of TAP and other agents in the pathway, which may vary among the various MHC-I alleles. Combining predictions of MHC-I binding affinities with predictions of TAP transport efficiency led to an improved identification of epitopes, which was not the case when predictions of MHC-I binding affinities were combined with predictions of C-terminal cleavages made by the proteasome.

ATP-Binding Cassette Transporters↗

Role of specific CD8+ T cells in the severity of a fulminant zoonotic viral hemorrhagic fever, hantavirus pulmonary syndrome.

We report on the role of specific CD8(+) T cells in the pathogenesis of a highly lethal human viral disease, hantavirus pulmonary syndrome (HPS). HPS is a zoonotic disease caused by transmission of Sin Nombre virus (SNV) from chronically infected deer mice. In humans, this fulminant infection is characterized by lung capillary leakage, respiratory failure, and cardiogenic shock. Individuals with HLA-B*3501 have an increased risk of developing severe HPS, suggesting that CD8(+) T cell responses to SNV contribute to pathogenesis. We identified three CD8(+) T cell epitopes in SNV presented by HLA-B*3501 and quantitated circulating SNV-specific CD8(+) T cells in 11 acute HPS patients using HLA/peptide tetramers. We found significantly higher frequencies of SNV-specific T cells in patients with severe HPS requiring mechanical ventilation (up to 44.2% of CD8(+) T cells) than in moderately ill HPS patients hospitalized but not requiring mechanical ventilation (up to 9.8% of CD8(+) T cells). These results imply that virus-specific CD8(+) T cells contribute to HPS disease outcome. Intense CD8(+) T cell responses to SNV may be induced by the encounter of the unnatural human host to this zoonotic virus without coevolution. This may also be the immunopathologic basis of other life-threatening human virus infections.

Amino Acid Sequence↗

Reduction of Culiseta melanura fitness by eastern equine encephalomyelitis virus.

The traditional view of interactions between arboviruses and their arthropod vectors is that vector hosts become increasingly resistant to parasites; parasite attenuation occurs; or through the process of coevolution, resistance and attenuation occur in concert. Detrimental effects from arboviruses are only seen when vector and virus are not yet well adapted. Results from this study indicate that eastern equine encephalomyelitis (EEE) virus reduces survival and reproduction (fitness) of the mosquito Culiseta melanura, which is required for transmission of EEE virus in North America. Mosquito virulence was not measurably attenuated in virus isolates recovered 55 year apart. This virus did not affect the ability of mosquitoes to obtain a blood meal or the rate of mosquito oocyte development. Results from this study support those from earlier investigations with other mosquito-virus interactions and suggest that reproductively successful arboviruses can have detrimental effects on their mosquito vectors.

Animals↗

Relationship between codon usage and sequence-dependent curvature of genomes.

Static DNA curvature distributions of full-sequenced genomes and large DNA contigs from different organisms were calculated. Very distinctive differences among histogram profiles coming from archaebacteria, eubacteria, and eukaryotes were observed. Eubacterial profiles were, on average, more curved than were archaeal and eukaryotic profiles. A comparative analysis between real and randomized DNA sequences revealed that eubacterial genomes presented, overall, higher curvature values than random sequences. An opposite portrait was exhibited by archaeal and eukaryotic genomes. They displayed a lower frequency of curved regions than their corresponding randomized sequences. The contributions of coding and intergenic regions to the curvature profile were also analyzed. Intergenic regions, on average, were found to be more curved than the overall genomic sequences, especially in prokaryotic organisms. Nevertheless, because of their small size with respect to coding regions, the contribution of intergenic sequences to the overall curvature profile tended to be minor. A clear relationship between codon usage and DNA curvature was demonstrated, and a proposal of the possible coevolution of both systems is discussed. Finally, we present a procedure to quantify the deviation of a curvature profile from randomness through a formal statistical analysis.

Archaea↗

[Nod factors, chemical signal exchange between bacteria and leguminous plants in nitrogen fixing symbiosis].

The early steps of the nitrogen-fixing symbiosis between plant legumes and soil bacteria (rhizobium) are mediated by an exchange of chemical signals between the two partners. Upon gene activation by plant root secretions (flavonoids), bacteria synthesize lipochitooligomers (called Nod Factors, NFs) that induce root hair deformations, cortical cell divisions, allow bacterial entry and produce nodule organogenesis at nano to picomole concentrations. Substitutions occurring on the lipochitooligosaccharide core are essential for recognition and activity. Biosynthesis of these molecules is now fully dissected, by looking at the structural changes in NFs induced by gene mutation or gene transfers. From the biodiversity studies of NFs, it appears that their structures belong with the phylogenetic evolution of plants, rather than that of bacteria, suggesting a coevolution of symbiotic bacteria with their plant receptors. Some preliminary and indirect observations indicate that similar molecules seem to exist in non-legumes plants, in batrachians and fishes beeing possibly involved in their embryogenesis, but they are probably at at a so low concentration that all attempts to detect them directly fail up to now.

Carbohydrate Sequence↗

Evolutionary ecology of Datura stramonium: genetic variation and costs for tolerance to defoliation.

The incorporation of plant tolerance after damage as a new alternative to cope with herbivory, as opposed to resistance, opened new avenues for our understanding of coevolution between plants and herbivores. Although genetic variation on tolerance to defoliation has been detected in some species, few studies have been undertaken with nonagricultural species. In this study, we explore in the annual weed Datura stramonium the existence of genetic variation for tolerance and fitness costs of tolerance. To determine which fitness-related trait was responsible for possible differences in tolerance, growth rate, total flower and fruit production, and the number of seeds per fruit were recorded. Inbred line replicates of D. stramonium from a population of Mexico City were exposed to four defoliation levels (0%, 10%, 30%, and 70%). Our results from a greenhouse experiment using controlled genetic material (inbred lines) indicated that significant genetic variation for tolerance was detected across defoliation environments. Defoliation reduced plant fitness from 15% to 25% in the highest levels of defoliation. Differences on tolerance among inbred lines were accounted by a differential reduction in the proportion of matured fruits across defoliation levels (up to 20%). Within defoliation levels, significant genetic variation in plant fitness suggests that tolerance could be selected. The correlation between fitness values of inbred lines in two environments (with and without damage) was positive (rg = 0.77), but not significant, suggesting absence of fitness costs for tolerance. The finding of genetic variation on tolerance might be either due to differences among inbred lines in their capability to overcome foliar damage through compensation or due to costs incurred by inducing secondary metabolites. Our results indicate the potential for norms of reaction to be selected under a gradient of herbivory pressure and highlights the importance of dissecting induced from compensatory responses when searching for potential causes of genetic variation on tolerance.

Environment↗