Nudivirus Genomics： Diversity and Classification

Nudiviruses represent a diverse group of arthropod specific, rod-shaped and dsDNA viruses. Due to similarities in pathology and morphology to members of the family Baculoviridae, they have been previously classified as the so-called “non-occluded” baculoviruses. However, presently they are taxonomically orphaned and are not assigned to any virus family because of the lack of genetic relatedness to Baculoviridae,. Here, we report on recent progress in the genomic analysis of Heliothis zea nudivirus 1 (HzNV-1), Oryctes rhinoceros nudivirus (OrNV), Gryllus bimaculatus nudivirus (GbNV) and Heliotis zea nudivirus 2 (HzNV-2). Gene content comparison and phylogenetic analyses indicated that the viruses share 15 core genes with baculoviruses and form a monophyletic sister group to them. Consequences of the genetic relationship are discussed for the classification of nudiviruses.     

Can Flowering Plants Enhance Numbers of Beneficial Arthropods in UK Apple and Pear Orchards?

A replicated experiment with fourteen flowering plant species was used to determine the effectiveness of flowering plants as attractants for beneficial arthropods in orchards. The greatest numbers of anthocorids were found on cornflower (Centaurea cyanus) and corn chamomile (Anthemis arvensis) and hymenopteran parasitoids on corn marigold (Chrysanthemum segetum) and corn chamomile. The impact on pest numbers of manipulating the orchard environment by the use of flowering plants was investigated in two ways. In an apple and a pear orchard, a proportion of the trees was undersown with a mixture of cornflower, corn marigold and corn chamomile. No significant differences were found in numbers of Panonychus ulmi (in apple) or Cacopsylla pyricola (in pear) on trees grown in the undersown areas compared with trees grown in conventional bare herbicide strips. When potted pear trees infested with pear psyllids were placed either into plots sown with the flower mixture or on bare earth, psyllid numbers declined rapidly on trees in both treatments. When beneficials were excluded from the potted control trees, numbers of psyllid larvae, but not eggs, declined more quickly on the trees surrounded by flowering plants. The importance of habitat diversity on biocontrol in orchards is discussed.     

Close Evolutionary Relatedness of α-Amylases from Archaea and Plants

The amino acid sequences of 22 α-amylases from family 13 of glycosyl hydrolases were analyzed with the aim of revealing the evolutionary relationships between the archaeal α-amylases and their eubacterial and eukaryotic counterparts. Two evolutionary distance trees were constructed: (i) the first one based on the alignment of extracted best-conserved sequence regions (58 residues) comprising β2, β3, β4, β5, β7, and β8 strand segments of the catalytic (α/β)₈-barrel and a short conserved stretch in domain B protruding out of the barrel in the β3 →α3 loop, and (ii) the second one based on the alignment of the substantial continuous part of the (α/β)₈-barrel involving the entire domain B (consensus length: 386 residues). With regard to archaeal α-amylases, both trees compared brought, in fact, the same results; i.e., all family 13 α-amylases from domain Archaea were clustered with barley pI isozymes, which represent all plant α-amylases. The enzymes from Bacillus licheniformis and Escherichia coli, representing liquefying and cytoplasmic α-amylases, respectively, seem to be the further closest relatives to archaeal α-amylases. This evolutionary relatedness clearly reflects the discussed similarities in the amino acid sequences of these α-amylases, especially in the best-conserved sequence regions. Since the results for α-amylases belonging to all three domains (Eucarya, Eubacteria, Archaea) offered by both evolutionary trees are very similar, it is proposed that the investigated conserved sequence regions may indeed constitute the ``sequence fingerprints' of a given α-amylase. Received: 3 June 1998 / Accepted: 20 August 1998     

Wide Distribution and Genetic Diversity of “Candidatus Neoehrlichia mikurensis” in Rodents from China

“Candidatus Neoehrlichia mikurensis” was detected by PCR in 4.0% (34/841) of the rodents tested in this study. The 34 rodents represented nine species from seven regions of China. Phylogenetic analyses based on the partial groEL and nearly entire 16S rRNA gene sequences of the agent revealed genetic diversity, which was correlated with its geographic origins.     

Local-Scale Diversity and Between-Year “Frozen Evolution” of Avian Influenza A Viruses in Nature

Influenza A virus (IAV) in wild bird reservoir hosts is characterized by the perpetuation in a plethora of subtype and genotype constellations. Multiyear monitoring studies carried out during the last two decades worldwide have provided a large body of knowledge regarding the ecology of IAV in wild birds. Nevertheless, other issues of avian IAV evolution have not been fully elucidated, such as the complexity and dynamics of genetic interactions between the co-circulating IAV genomes taking place at a local-scale level or the phenomenon of frozen evolution. We investigated the IAV diversity in a mallard population residing in a single pond in the Czech Republic. Despite the relative small number of samples collected, remarkable heterogeneity was revealed with four different IAV subtype combinations, H6N2, H6N9, H11N2, and H11N9, and six genomic constellations in co-circulation. Moreover, the H6, H11, and N2 segments belonged to two distinguishable sub-lineages. A reconstruction of the pattern of genetic reassortment revealed direct parent-progeny relationships between the H6N2, H11N9 and H6N9 viruses. Interestingly the IAV, with the H6N9 subtype, was re-detected a year later in a genetically unchanged form in the close proximity of the original sampling locality. The almost absolute nucleotide sequence identity of all the respective genomic segments between the two H6N9 viruses indicates frozen evolution as a result of prolonged conservation in the environment. The persistence of the H6N9 IAV in various abiotic and biotic environmental components was also discussed.     

Diversity and Spatial Structure of Belowground Plant–Fungal Symbiosis in a Mixed Subtropical Forest of Ectomycorrhizal and Arbuscular Mycorrhizal Plants

Plant–mycorrhizal fungal interactions are ubiquitous in forest ecosystems. While ectomycorrhizal plants and their fungi generally dominate temperate forests, arbuscular mycorrhizal symbiosis is common in the tropics. In subtropical regions, however, ectomycorrhizal and arbuscular mycorrhizal plants co-occur at comparable abundances in single forests, presumably generating complex community structures of root-associated fungi. To reveal root-associated fungal community structure in a mixed forest of ectomycorrhizal and arbuscular mycorrhizal plants, we conducted a massively-parallel pyrosequencing analysis, targeting fungi in the roots of 36 plant species that co-occur in a subtropical forest. In total, 580 fungal operational taxonomic units were detected, of which 132 and 58 were probably ectomycorrhizal and arbuscular mycorrhizal, respectively. As expected, the composition of fungal symbionts differed between fagaceous (ectomycorrhizal) and non-fagaceous (possibly arbuscular mycorrhizal) plants. However, non-fagaceous plants were associated with not only arbuscular mycorrhizal fungi but also several clades of ectomycorrhizal (e.g., Russula) and root-endophytic ascomycete fungi. Many of the ectomycorrhizal and root-endophytic fungi were detected from both fagaceous and non-fagaceous plants in the community. Interestingly, ectomycorrhizal and arbuscular mycorrhizal fungi were concurrently detected from tiny root fragments of non-fagaceous plants. The plant–fungal associations in the forest were spatially structured, and non-fagaceous plant roots hosted ectomycorrhizal fungi more often in the proximity of ectomycorrhizal plant roots. Overall, this study suggests that belowground plant–fungal symbiosis in subtropical forests is complex in that it includes “non-typical” plant–fungal combinations (e.g., ectomycorrhizal fungi on possibly arbuscular mycorrhizal plants) that do not fall within the conventional classification of mycorrhizal symbioses, and in that associations with multiple functional (or phylogenetic) groups of fungi are ubiquitous among plants. Moreover, ectomycorrhizal fungal symbionts of fagaceous plants may “invade” the roots of neighboring non-fagaceous plants, potentially influencing the interactions between non-fagaceous plants and their arbuscular-mycorrhizal fungal symbionts at a fine spatial scale.     

Cell-wall Polysaccharides of Immature Barley Plants. I. Isolation and Characterization of a β-d-Glucan

A β-d-glucan was isolated on fractionation of a 4% potassium hydroxide extract (hemi-celluloses) of immature barley plants (Hordeum distichum L.). Most of the glucose residues in the extract were found to be derived from the glucan. Methylation analysis and enzyme degradation studies showed that the glucan had (l-→3)-and (1-→4)-linked d-glucopyranosyl residues in an approximate molar ratio of 1.0:2.3. The molecular weight of the glucan was estimated to be 1.8 x 10⁵ by gel filtration on Sepharose CL-6B.     

S. F. Gray's “Natural Arrangement of British Plants” (1821)

S. F. Gray's Natural Arrangement of British Plants (2 vols., November 1821) was for many years deliberately and unjustly neglected by British botanists on account of its idiosyncrasies, anti-Linnaean character, unorthodox nomenclature, narrow generic concepts and contemporary hostility to the supposed authorR. A. Salisbury, but is nevertheless nomenclaturally important, particularly for cryptogamic groups. This paper surveys its history, authorship, date of publication and nomenclature.Dedicated to the memory of JohnS. L. Gilmour.     

Exploring the Diversity and Distribution of Neotropical Avian Malaria Parasites – A Molecular Survey from Southeast Brazil

Southeast Brazil is a neotropical region composed of a mosaic of different tropical habitats and mountain chains, which allowed for the formation of bird-rich communities with distinct ecological niches. Although this region has the potential to harbor a remarkable variety of avian parasites, there is a lack of information about the diversity of malarial parasites. We used molecular approaches to characterize the lineage diversity of Plasmodium and Haemoproteus in bird communities from three different habitats in southeast Brazil based on the prevalence, richness and composition of lineages. We observed an overall prevalence of 35.3%, with a local prevalence ranging from 17.2% to 54.8%. Moreover, no significant association between prevalence and habitat type could be verified (p>0.05). We identified 89 Plasmodium and 22 Haemoproteus lineages, with 86% of them described for the first time here, including an unusual infection of a non-columbiform host by a Haemoproteus (Haemoproteus) parasite. The composition analyses of the parasite communities showed that the lineage composition from Brazilian savannah and tropical dry forest was similar, but it was different from the lineage composition of Atlantic rainforest, reflecting the greater likeness of the former habitats with respect to seasonality and forest density. No significant effects of habitat type on lineage richness were observed based on GLM analyses. We also found that sites whose samples had a greater diversity of bird species showed a greater diversity of parasite lineages, providing evidence that areas with high bird richness also have high parasite richness. Our findings point to the importance of the neotropical region (southeast Brazil) as a major reservoir of new haemosporidian lineages.     

Review of the book by A.A. Kudryavtsev,A.S. Smirnov,and L.D. Tsendin “Physics of Glow Discharge”

A new voluminous book on gas-discharge physics is reviewed. It is emphasized that the authors consistently follow a nontraditional approach based on the electron distribution function with allowance for its nonlocal character. This opens new, sometimes unexpected, issues of the well-known phenomena, which is illustrated by the reviewer by using the positive column of a low-pressure glow discharge as an example.     

Sphaerotylos C. J. Chen—A Remarkable New Genus of Urticaceae from China,with Notes on Stigmas of the Family

A new subtribe of the family Urticaceae, Sphaerotylinae C. J. Chen, a new genus, Sphaerotylos C. J. Chen and its type species S. medogensis C. J. Chen from south-eastern Xizang (Tibet) in China are described and illustrated. The subtribe is regarded as a primitive group in the tribe Boehmerieae. The ring-shaped stigma and the ball-like connective are the first discovery in the family Urticaceae. The types of the stigma of the family, their taxonomic significance and their evolution are also discussed in the present paper.     

Purification and Partial Characterization of β-Glucosidase from Fresh Leaves of Tea Plants （Camellia sinensis （L.） O. Kuntze）

β-Glucosidases are important in the formation of floral tea aroma and the development of resistance to pathogens and herbivores in tea plants. A novel β-glucosidase was purified 117-fold to homogeneity,with a yield of 1.26%, from tea leaves by chilled acetone and ammonium sulfate precipitation, ion exchange chromatography (CM-Sephadex C-50) and fast protein liquid chromatography (FPLC; Superdex 75, Resource S). The enzyme was a monomeric protein with specific activity of 2.57 U/mg. The molecular mass of the enzyme was estimated to be about 41 kDa and 34 kDa by SDS-PAGE and FPLC gel filtration on Superdex 200, respectively. The enzyme showed optimum activity at 50℃ and was stable at temperatures lower than 40℃. It was active between pH 4.0 and pH 7.0, with an optimum activity at pH 5.5, and was fairly stable from pH 4.5 to pH 8.0. The enzyme showed maximum activity towards pNPG, low activity towards pNP-Galacto, and no activity towards pNP-Xylo.     

Composition and Diversity of Lawn Flora in Differently Managed Village Yards – A Case Study from Southwestern Hungary

Traditionally managed village yards have been disappearing from the Central-European countryside. Their lawn flora is likely to provide a unique habitat for many plants that are adapted to this environment. Composition of lawn flora was investigated in differently managed village yards (i.e., regularly mown and regularly trampled yards, poultry yards, paved yards) in southwestern Hungary. The main goal of the study was to detect the impacts of these different management regimes on the composition and diversity of the vegetation. In total, 240 1-m² plots were sampled in 60 yards ranging from 80 m² to 5,000 m² in size. In the redundancy analysis, eight significant variables (degree of southness, slope, age, total size of yards; mowing, trampling and grazing regime; and the number of dogs) explained 16 % of the total variation in species data. The most diverse flora across yards was detected in the paved ones, and their stands also proved to be the most compositionally distinctive. In contrast, presence of domestic animals can contribute to local species loss as well as to a decrease in within-yard-type variability. These results highlight the importance of certain anthropogenic disturbances in maintaining high plant diversity, but also underline the crucial role of small-scale land management practices in rural environments.