Characterization of the DNA nucleotide sequences in the genome of red sea bream iridoviruses isolated in Korea

The nucleotide sequences of DNA fragments amplified by polymerase chain reaction (PCR) from four different genomic regions of nine red sea bream iridoviruses (RSIVs) isolated from different species of fish, different areas and in different years in Korea were compared with the reported reference sequences. One isolate, RSIV Namhae, showed 100% homology to the reference sequences, while the other eight isolates, which appeared to contain identical nucleotide sequences, showed 96.6–98.9% homology with reference sequences depending upon the target regions of PCR gene amplification. However, differences in nucleotide sequences were not apparent between the RSIVs isolated in different locations, in different years or in different host species. We also cloned and sequenced the 3′ end flanking region (K1) of the DNA polymerase (DPOL) gene using the cassette ligation-mediated PCR method. This sequence was 4436-bp long and possessed two open reading frames (ORF-1 and ORF-2) oriented in opposite directions. The putative proteins encoded by these two ORFs could not be characterized by comparison with the proteins of other species in the data banks. The presence of the ribonucleotide reductase small subunit (RNRS) gene at the 3′ end of the K1 region allowed us to determine that these two genes, RNRS and DPOL, are separated 5508 bp and oriented in the same direction in the genome of RSIV. Moreover, it is of interest that a PstI-restriction fragment, of which the sequence but not the location within the RSIV genome had previously been reported, is located at nucleotide positions from 1096 to 2054, extending from within the ORF-1 region, spanning the intervening sequence between ORF-1 and ORF-2, and extending into the ORF-2 region. Various repeating sequences up to 86 bp were present at the 3′ ends of ORFs, especially within the nucleotide sequences at the 3′ terminus of ORF-2. No similarities were detected when the DNA sequences of the K1 region were compared to the DNA sequences of a repetitive element in the genome of other iridoviruses.     

Genestic differences between successive year classes of two strains of reared rainbow trout, Oncorhynchus mykiss (Walbaum)

The genetic composition of consecutive year classes of two farmed rainbow trout, Oncorhynchus mykiss (Walbaum), strains was assessed, using starch gel electrophoresis of 11 enzymes encoded by a minimum of 23 loci, many of which have been shown to be polymorphic in previous studies. Angle frequencies at the majority of polymorphic loci varied significantly between year classes of each strain. Several alleles which were present at low frequency in the 1900 year classes, were absent in the samples from the 1991 cohorts. However, mean heterozygosity per locus (H) did not differ significantly between year classes of either strain, illustrating that allelic diversity is a more sensitive indicator of loss of genetic variability than mean heterozygosity. This heterogeneity between cohorts is probably due either to broodstock maintenance practices such as the use of insufficient numbers of spawners, or, in the case of one strain, to bottlenecking caused by selection for late maturation and increased growth rate. Genetic monitoring of all year classes of reared strains is suggested, if insufficient breeding and distribution records are available from egg producers. Such records are often unavailable in commercial situations.     

Circular Disc Blade Considerations in Soil Force Prediction Modelling

Previous soil-disc force prediction models have considered spherical and concave blades, as used on disc ploughs and harrows, with many simplifying assumptions. This study proposes an approach applying the fundamental equation of earth moving mechanics for calculating the soil passive reaction acting on a rotating fiat disc blade as used on a zero-till single disc seeder. The study considers the effects of disc variable depth of cut, sweep and tilt angles, free rotation and a scrubbing reaction at the beveled edge. This paper outlines the modeling approach and prediction results for a fixed circular blade operating at 90° sweep angle over a range of speeds and at two tilt angles. To account for the varying depth across the circular disc shape width, elemental wide blade force reactions acting on wide blade segments of elemental width were integrated across the disc working width. By including inertia forces due to speed as well as additional bulldozing forces due to the loose soil accumulation in front of the blade the draught and upward vertical forces acting on the vertical disc blade were predicted with a deviation of 6%-19% and 1.5%-14% from measured data, respectively. The model was able to predict the effect of increasing the tilt angle from 0° to 20° on reducing both draught and upward vertical forces. Further development and validation of the model will be described in subsequent papers, reflecting a step by step approach of increasing complexity to model a disc blade as used on a zero-till single disc seeding system.     

Is the decline of soil microbial biomass in late winter coupled to changes in the physical state of cold soils?

During winter when the active layer of Arctic and alpine soils is below 0 °C, soil microbes are alive but metabolizing slowly, presumably in contact with unfrozen water. This unfrozen water is at the same negative chemical potential as the ice. While both the hydrostatic and the osmotic components of the chemical potential will contribute to this negative value, we argue that the osmotic component (osmotic potential) is the significant contributor. Hence, the soil microorganisms need to be at least halotolerant and psychrotolerant to survive in seasonally frozen soils. The low osmotic potential of unfrozen soil water will lead to the withdrawal of cell water, unless balanced by accumulation of compatible solutes. Many microbes appear to survive this dehydration, since microbial biomass in some situations is high, and rising, in winter. In late winter however, before the soil temperature rises above zero, there can be a considerable decline in soil microbial biomass due to the loss of compatible solutes from viable cells or to cell rupture. This decline may be caused by changes in the physical state of the system, specifically by sudden fluxes of melt water down channels in frozen soil, rapidly raising the chemical potential. The dehydrated cells may be unable to accommodate a rapid rise in osmotic potential so that cell membranes rupture and cells lyse. The exhaustion of soluble substrates released from senescing plant and microbial tissues in autumn and winter may also limit microbial growth, while in addition the rising temperatures may terminate a winter bloom of psychrophiles.Climate change is predicted to cause a decline in plant production in these northern soils, due to summer drought and to an increase in freeze-thaw cycles. Both of these may be expected to reduce soil microbial biomass in late winter. After lysis of microbial cells this biomass provides nutrients for plant growth in early spring. These feedbacks, in turn, could affect herbivory and production at higher trophic levels.     

Multi-model comparison on the effects of climate change on tree species in the eastern U.S.: results from an enhanced niche model and process-based ecosystem and landscape models

Context

Species distribution models (SDM) establish statistical relationships between the current distribution of species and key attributes whereas process-based models simulate ecosystem and tree species dynamics based on representations of physical and biological processes. TreeAtlas, which uses DISTRIB SDM, and Linkages and LANDIS PRO, process-based ecosystem and landscape models, respectively, were used concurrently on four regional climate change assessments in the eastern Unites States.

Objectives

We compared predictions for 30 species from TreeAtlas, Linkages, and LANDIS PRO, using two climate change scenarios on four regions, to derive a more robust assessment of species change in response to climate change.

Methods

We calculated the ratio of future importance or biomass to current for each species, then compared agreement among models by species, region, and climate scenario using change classes, an ordinal agreement score, spearman rank correlations, and model averaged change ratios.

Results

Comparisons indicated high agreement for many species, especially northern species modeled to lose habitat. TreeAtlas and Linkages agreed the most but each also agreed with many species outputs from LANDIS PRO, particularly when succession within LANDIS PRO was simulated to 2300. A geographic analysis showed that a simple difference (in latitude degrees) of the weighted mean center of a species distribution versus the geographic center of the region of interest provides an initial estimate for the species’ potential to gain, lose, or remain stable under climate change.

Conclusions

This analysis of multiple models provides a useful approach to compare among disparate models and a more consistent interpretation of the future for use in vulnerability assessments and adaptation planning.

     

Changes in the concentrations of serum IgG, IgA and IgM of sows throughout the reproductive cycle

The concentrations of IgG, IgM and IgA in sera collected from 3855 sows (3208 pregnant and 647 lactating) at a single time point were determined. This experimental design allowed changes in serum immunoglobulin over the reproductive cycle to be studied without bias from seasonal influence. The concentrations of the three immunoglobulins changed independently during the reproductive cycle. Serum levels of IgM and IgG began a progressive postpartal decline during the 14th–17th week of gestation. At the onset of lactation serum IgG levels progressively increased while IgM levels continued to decline, the latter reaching their lowest level during the third week of lactation. In contrast to IgM and IgG, serum IgA levels increased 35% during weeks 14–17 of gestation and continued to increase throughout lactation, reaching their highest serum levels in the third week of lactation; the serum IgA concentration at this time was twice that observed during the first 13 weeks of gestation. Results of these studies allowed the reproductive cycle to be classified into four phases on the basis of serum immunoglobulin concentrations: (1) weeks 1–4 of gestation; (2) weeks 5–13 of gestation; (3) weeks 14–17 of gestation and (4) lactation.     

Reduced chromosome association between the short arms of 5H homologues in Hordeum vulgare L. at metaphase I

Rod or ring bivalents at metaphase I (MI) reflect whether crossing-over has occurred on one or both pairs of chromosome arms, respectively, during meiotic prophase (pachytene). In cultivated barley ( Hordeum vulgare ) the highest frequencies of rod bivalents were found for satellite chromosomes (either 5H or 6H). To distinguish between chromosome 5H and 6H associations, a recombinant line derived from an H. vulgare × H. bulbosum hybrid with a hemizygous introgression from H. bulbosum on the short arm of chromosome 6H was probed with 45S rDNA and pSc119.2 using fluorescent in situ hybridization and compared with non-recombinant H. vulgare. The frequencies of rod bivalents, caused by failure of the short arms of 5H chromosomes (5HS) to associate during meiosis in the recombinant line, were similar to the frequencies of rod bivalents involving the satellite chromosomes in H. vulgare. Hence, rod bivalent formation in H. vulgare satellite chromosomes is probably based on reduced association of 5HS, corresponding to a low frequency of genetic recombination. 5HS is, therefore, more likely to show linkage disequilibrium than the other chromosome arms.     

Combining ability between lines of Cucumis sativus L. and Cucumis sativus var. hardwickii (R.) Alef

Summary Three Cucumis sativus L. (CS) lines adapted to USA growing conditions were used as female parents in crosses to one line each of seven Cucumis sativus var. hardwickii (R.) Alef. (CH) accessions used as male parents to determine the relative combining ability of the CH accessions for six horticultural characters. The 21 F₁ progenies were grown in a randomized complete block design in two locations and evaluated for fruit number, lateral branch number, fruit length, fruit length/diameter ratio, number of female flowering nodes, and days to anthesis. General combining ability (GCA) was significant for all characters in each location. Specific combining ability (SCA) was significant for all characters except days to anthesis in one location and lateral branch number in both locations. Significant location × combining ability interactions were also evident for several characters. Results suggest that CH may be useful for improving fruit yield in commercial cucumber, but that limitations may lie in the attainment of acceptable fruit.Research supported by the College of Agric. and Life Sci., Univ. of Wisconsin, Madison; USDA, ARS, and by funds from Pickle Packers Intl., Inc. Mention of a trademark, proprietary product, or vendor does not constitute a guarantee of warranty of the product by the USDA and does not imply its improval to the exclusion of the other products or vendors that may also be suitable.     

Soil nitrogen mineralization not affected by grass species traits

Species N use traits was evaluated as a mechanism whereby Bromus inermis (Bromus), an established invasive, might alter soil N supply in a Northern mixed-grass prairie. We compared soils under stands of Bromus with those from three representative native grasses of different litter C/N: Andropogon gerardii (Andropogon), Nassella viridula (Nassella) and Pascopyrum smithii (Pascopyrum); in ascending order of litter quality. Net mineralization (per g soil N) measured in year-long laboratory incubations showed no differences in comparisons of Bromus with two of the three native grasses: Andropogon and Nassella. Higher mineralization in Pascopyrum stands relative to Bromus was consistent with its higher litter quality. However, an unusually high occurrence of an N-fixing legume in Pascopyrum stands, potentially favoring high mineralization rates, confounded any conclusions regarding the effects of plant N use on N mineralization. Instead of an initial flush of net mineralization, as would be expected in laboratory incubation, we observed an initial lag phase. This lag in net N mineralization coincided with high microbial activity (respiration) that suggests strong N limitation of the microbial biomass. Further support for the importance of immobilization initially came from modeling mineralization dynamics, which was explained better when we accounted for microbial growth in our model. The absence of strong differences in net mineralization beneath these grasses suggests that differences in plant N use alone were unlikely to influence soil N mineralization through substrate quality, particularly under strong N control of the microbial biomass.