Chloroplast genome variation in upland and lowland switchgrass

Switchgrass (Panicum virgatum L.) exists at multiple ploidies and two phenotypically distinct ecotypes. To facilitate interploidal comparisons and to understand the extent of sequence variation within existing breeding pools, two complete switchgrass chloroplast genomes were sequenced from individuals representative of the upland and lowland ecotypes. The results demonstrated a very high degree of conservation in gene content and order with other sequenced plastid genomes. The lowland ecotype reference sequence (Kanlow Lin1) was 139,677 base pairs while the upland sequence (Summer Lin2) was 139,619 base pairs. Alignments between the lowland reference sequence and short-read sequence data from existing sequence datasets identified as either upland or lowland confirmed known polymorphisms and indicated the presence of other differences. Insertions and deletions principally occurred near stretches of homopolymer simple sequence repeats in intergenic regions while most Single Nucleotide Polymorphisms (SNPs) occurred in intergenic regions and introns within the single copy portions of the genome. The polymorphism rate between upland and lowland switchgrass ecotypes was found to be similar to rates reported between chloroplast genomes of indica and japonica subspecies of rice which were believed to have diverged 0.2-0.4 million years ago.     

Comparison of growth and performance in upland and lowland switchgrass types to water and nitrogen stress

The objective of the study was to examine lowland (Alamo and Kanlow) and upland (Blackwell and Caddo) cultivars of switchgrass (Panicum virgatum L.) for differences in response to water deficit and nitrogen fertilizer. Cultivars were grown in pots with fritted clay at two water levels: well watered and deficit conditions (-0.1 and -1.0 MPa) and two nitrogen levels (10 and 100 kg ha(-1)). Nitrogen determined growth potential of the cultivars more than water availability. The lowland cultivars produced greater biomass yields than upland cultivars. However, upland cultivars showed a smaller response to drought stress. Under water stress conditions all cultivars exhibited a higher leaf percentage of total dry matter (DM), with the upland cultivars having the highest leaf percentage of total DM. Nitrogen proved to have more of an effect on single-leaf photosynthesis rates than water. Alamo demonstrated the greatest biomass production among all cultivars. The differences found between the two lowland cultivars suggest that Alamo would be better suited for forage and biomass production in central Texas, being a higher producer under drought and non-drought conditions than Kanlow as well as upland cultivars.     

Different maternal origins of Japanese lowland and upland rice populations

Plastid subtype ID (PS-ID) sequences were determined from sequence data based on CA repeats between genes rpl16 and rpl14 in Japanese lowland and upland cultivars. The PS-ID sequences of Japanese rice cultivars showed that there are different maternal origins between lowland and upland cultivars. One subtype, 6C7A, of PS-ID sequences was predominant in all but one Japanese lowland cultivar and carried a combination of the indica-specific subtype 8C8A and japonica-specific nuclear markers for the isozyme genotype. It is probably a nuclear-cytoplasmic recombinant resulting from natural out-crossing and succeeding self-pollination. The origin of the plastid was re-confirmed by the existence of an indica-specific deletion in the plastid genome. In contrast, the Japanese upland cultivars showed two subtypes, 7C6A and 6C7A, of PS-ID sequences. An upland-specific isozyme allele as a nuclear marker was equally predominant in cultivars carrying each subtype. The existence of these particular upland-specific nuclear and cytoplasmic genotypes suggests that the origin of Japanese upland cultivars is different from that of Japanese lowland cultivars. Cultivars carrying the upland-specific nuclear genotype are common in Southeast Asia, but the combination of the upland-specific nuclear and cytoplasmic genotypes which is the same as the Japanese upland predominant type was found in cultivars only in Taiwan and Indonesia. Japanese upland cultivars are closely related to those cultivars.     

Root development of bermudagrass and tall fescue as affected by cutting interval and growth regulators

A study was conducted to characterize changes in bermudagrass (Cynodon dactylon [L.] Pers.) and tall fescue (Festuca arundinacea Schreb.) root development over time and with depth, and to determine the effects of defoliation interval and chemical seedhead suppression on root and shoot growth. Field plots were established on a fine-silty, mixed mesic Typic Fragiudult soil in Fayetteville, AR, USA, and each plot contained three minirhizotrons (plexiglass observation tubes) to a depth of 40 cm. Images of roots in 10-cm depth increments were periodically videorecorded, and total root length (RL) and root length density (RLD) were measured with a computer-interfaced tracing probe. Treatments consisted of two cutting intervals, 3 and 6 weeks, and two plant growth regulator (PGR) treatments, an untreated control and either 300 g ha^-1 mefluidide on tall fescue in early spring of both years or 10 g ha^-1 each of metsulfuron methyl (MSM) and sulfometuron methyl (SMM) applied in late May of both post-establishment years. Data were analyzed separately for the establishment period (planting to the first date of PGR application) and the subsequent post-establishment period. Bermulagrass exhibited a two-stage root establishment pattern characterized first by minimal root development in conjunction with stolon proliferation and soil surface colonization, followed by accumulation of total RL over two subsequent forage production seasons. There was a net accumulation of root mass during the winter dormancy period of 1986–87. Total RL of tall fescue peaked one and a half years after planting. Cutting interval had no influence on RL and RLD. Application of a PGR did not affect RL but did alter RLD of both species. Application of mefluidide to tall fescue stimulated RLD 64 days after application, whereas bermudagrass RLD was retarded by MSM and SMM up to 50 days after application. Trends in root growth did not closely follow patterns of shoot growth. Published with the approval of the Director of the Arkansas Agricultural Experiment Station. Published with the approval of the Director of the Arkansas Agricultural Experiment Station.     

Metabolic adaptation to flooding stress in upland and lowland rice seedlings

Ability of metabolic adaptation in upland and lowland rice (Oryza sativa L.) seedlings to flooding stress was compared. Flooding stress increased alcohol dehydrogenase (ADH) activity and ethanol concentration in shoots and roots of the upland and lowland rice seedlings. The difference in ADH activity and ethanol concentration in shoots between the upland and lowland rice was not apparent. However, both ADH activity and ethanol concentration in roots of the lowland rice were 2-fold greater than those in roots of the upland rice, suggesting that flooding-induction of ethanolic fermentation in lowland rice roots may be significantly greater than that in the upland rice roots. Since flooding often causes the anaerobic conditions in rooting zone than aerial part of plants and ethanolic fermentation is essential to survive in the anaerobic conditions, the ability of metabolic adaptation in lowland rice seedlings to flooding stress may be greater than that in upland rice seedlings.     

Respiration in mature leaves of Lolium perenne as affected by nutrient supply, cutting and competition

The rate of oxygen uptake was measured on sections of mature leaf tissue derived from two populations of Lolium perenne L. cv. S23, selected for contrasting rates of mature leaf respiration. Under conditions of sufficient nutrient supply, GL72 had a lower rate of respiration and a greater yield than GL66. The populations were exposed to important management variables to investigate their effect on the selection criterion, the two variables being nutrient supply and defoliation. Conditions of low nutrient supply were characterized by a similarity in respiration rate and a change in the regulation of respiration. Enzyme levels, rather than adenylates, controlled respiration. Weekly cutting induced activity of the otherwise latent alternative pathway.     

Long-term oscillations in grassland productivity induced by drought

Disturbances such as drought have immediate impacts on ecosystem functioning, but little is known about long-term dynamic consequences of disturbance. Here, we show that a major drought perturbed prairie grassland from nearly constant average annual production, and induced 9 years of oscillations with a 2-year period. This pattern occurred in unmanipulated plots in many widely separated fields that were part of two different long-term studies. Using direct and indirect tests, we could reject the hypothesis that the oscillations were externally imposed by climate or herbivores. Weak evidence supported the hypothesis that oscillations were internally generated, caused by a litter and nitrogen dependent feedback on productivity. This hypothesis was supported by the results of two other long-term studies, in which burning and, separately, nitrogen addition eliminated the 2-year oscillations in plant production. However, more direct evidence failed to support the litter hypothesis. A final, but untested hypothesis was suggested by the observation that production tended to be synchronized amongst dominant plants. Drought may have synchronized production dynamics amongst plants with biennially greater allocation to above-ground growth. Regardless of the specific mechanism, our results show that a single disturbance may have long-lasting effects on the dynamics of plant production.     

Conditioned reflex activity of pigeons as affected by an infra-low frequency alternating magnetic field

In experiments on 35 pigeons formation and realization was studied of alimentary motor conditioned reflexes under the influence of alternating magnetic field (AMF) with a frequency of 5 and 8 Hz and induction 5100 nTl. It has been found that under the action of such AMF, the percent of adequate responses lowers and the time of motor reaction during execution of motor alimentary conditioned reflexes and of delayed reactions increases. Realization of delayed reactions is disturbed more significantly than that of the present conditioned reflexes. AMF with a frequency of 8 Hz influences more expressively the pigeons conditioned activity in comparison with 5 Hz frequency.     

Distribution and diversity of cytotypes in Dianthus broteri as evidenced by genome size variations

Background and Aims

Studying the spatial distribution of cytotypes and genome size in plants can provide valuable information about the evolution of polyploid complexes. Here, the spatial distribution of cytological races and the amount of DNA in Dianthus broteri, an Iberian carnation with several ploidy levels, is investigated.

Methods

Sample chromosome counts and flow cytometry (using propidium iodide) were used to determine overall genome size (2C value) and ploidy level in 244 individuals of 25 populations. Both fresh and dried samples were investigated. Differences in 2C and 1Cx values among ploidy levels within biogeographical provinces were tested using ANOVA. Geographical correlations of genome size were also explored.

Key Results

Extensive variation in chromosomes numbers (2n = 2x = 30, 2n = 4x = 60, 2n = 6x = 90 and 2n = 12x =180) was detected, and the dodecaploid cytotype is reported for the first time in this genus. As regards cytotype distribution, six populations were diploid, 11 were tetraploid, three were hexaploid and five were dodecaploid. Except for one diploid population containing some triploid plants (2n = 45), the remaining populations showed a single cytotype. Diploids appeared in two disjunct areas (south-east and south-west), and so did tetraploids (although with a considerably wider geographic range). Dehydrated leaf samples provided reliable measurements of DNA content. Genome size varied significantly among some cytotypes, and also extensively within diploid (up to 1·17-fold) and tetraploid (1·22-fold) populations. Nevertheless, variations were not straightforwardly congruent with ecology and geographical distribution.

Conclusions

Dianthus broteri shows the highest diversity of cytotypes known to date in the genus Dianthus. Moreover, some cytotypes present remarkable internal genome size variation. The evolution of the complex is discussed in terms of autopolyploidy, with primary and secondary contact zones.     

Improving fertility and productivity of a highly-weathered upland soil in subtropical China by incorporating rice straw

The transfer of rice straw from paddy fields to upland areas was proposed in our study as an innovative practice to improve the fertility of the highly-weathered and poor upland soils, as well as to mitigate environmental impacts from rice production system (e.g., the large application of chemical fertilizers, straw burning, CH₄ emission from decomposed straw) in the subtropical China. Data from an 8-year field experiment with sweet potato and rapeseed show that, the contents of organic matter and total nitrogen (N) in the surface soil (0–20 cm) with rice straw incorporation were increased by 13%, and the amounts of soil microbial biomass carbon (C), N, and phosphorus (P) by 18–43%, compared with the values when chemical fertilizers (NPK) were applied alone. Physical conditions and crop productivity of the test soil were effectively promoted with the straw incorporation, as indicated in significant changes in soil field water-holding capacity, total porosity, and bulk density in the 10–15 cm soil layer, and the rise (about 10% and 20%, respectively) of sweet potato and rapeseed yields. In conclusion, these results suggest that the practice shift from conventional rice straw management (‘on the spot’ incorporation) to upland incorporation is effective in improvement in fertility and productivity of the upland soil, which has potentials to reduce the amounts of chemical fertilizers applied and to increase soil C storage in farmlands in the region.     

Nitrogen loss in chicken litter compost as affected by carbon to nitrogen ratio and turning frequency

The study was undertaken to investigate the effects of carbon to nitrogen (C:N) ratio and turning frequency (TF) on the loss of total nitrogen (TN) during composting of chicken litter (a mixture of chicken manure, waste feed, feathers and sawdust) with a view to producing good quality compost. Carbon to nitrogen ratios of 20:1, 25:1 and 30:1 and TF of 2, 4 and 6 days were experimented. The initial physico-chemical properties of the litter were determined. During the composting process, moisture level in the piles was periodically replenished to 55% and the temperature, pH and TN of the chicken litter were periodically monitored. Also, the dry matter (DM), total carbon (TC), total phosphorus (P) and total potassium (K) were examined at the end of composting. The results showed that both C:N ratio and TF had significant (p < or = 0.05) effect on pile temperature, pH changes, TN, TC, P and K losses while DM was only affected (p < or = 0.05) by C:N ratio. All treatments reached maturation at about 87 days as indicated by the decline of pile temperatures to near ambient temperature. Losses of TN, which were largely attributed to volatilization of ammonia (NH3), were highest within the first 28 days when the pile temperatures and pH values were above 33 degrees C and 7.7, respectively. Moisture loss increased as C:N ratio and TF increased. In conclusion, the treatment with a combination of 4 days TF and C:N ratio 25:1 (T4R25) had the minimum TN loss (70.73% of the initial TN) and this indicated the most efficient combination.     

Micronucleus frequency in Gomel (Belarus) children affected and not affected by thyroid cancer.

Cytogenetic monitoring was carried out on a group of children from Gomel (Belarus), one of the areas most severely affected by radioactive contamination following the accident at the Chernobyl nuclear power plant, in 1986. We performed the micronucleus test (MN) in binucleated lymphocytes of 42 children (mean age: 11+/-2.34 years), 16 of whom were affected by thyroid gland tumor. Thirty healthy children living in Pisa (mean age: 14.96+/-2.17 years) were enrolled in the study as controls. Thyroid tumor affected children living in Gomel showed a statistically significant increase in the frequency of micronucleated cells as compared with the healthy children from Pisa. Moreover, a significant correlation was found between MN frequency and both the presence of tumor and higher 137Cs contamination. In addition, higher 137Cs contamination was more frequently observed in tumor affected children. These results suggest that the increased MN frequency is attributable more to 137Cs contamination rather than to the presence of the tumor itself.     

An in vitro nutritive evaluation of olive tree (Olea europaea) pruning residues as affected by cutting regimen

Nutritive values of the branches from Olea europaea trees cut at 25, 50, 75 or 100 cm distance from the tip were evaluated by determination of the in vitro digestible organic matter (IVDOM), metabolizable energy (ME), net energy lactation (NEL), and presence nutritional and anti-nutritional components. The values of nutritive components, nitrogen forms, IVDOM, ME and NEL declined and concentrations of crude fiber and cell wall constituents increased with the increase in cutting length. Total phenols, hydrolysable tannins and condensed tannins amounted to 70, 17 and 0.6 g/kg DM, respectively. The addition of polyethylene glycol (PEG, 6000) to the plant samples incubated with rumen fluid at a ratio of (2:1 PEG:substrate) increased the values of IVDOM, ME and NEL by 40 g/kg DM, 0.59 MJ/kg DM and 0.42 MJ/kg DM, respectively. IVDOM, ME and NEL were negatively correlated with crude fiber and cell wall constituents but positively correlated with nitrogen forms and non-fiber carbohydrates. Olive pruning branches in diameter <3 mm could be used as sources of feeds for small ruminants.     

Long-term effects of catchment liming on invertebrates in upland streams

1. Catchment liming to mitigate acidification causes major chemical change in freshwaters but longer‐term effects are poorly understood. Using a replicated basin‐scale experiment with a multiple BACI design (= before‐after‐control‐impact), we assessed chemical and biological effects for 10 years after the catchments of three acidified Welsh streams at Llyn Brianne were limed in 1987/88. 2. Stream chemistry was measured weekly to monthly, and macroinvertebrates monitored annually, between 1985 and 1998. Biological change through time was assessed from the abundance and taxon richness of invertebrates. We paid particular attention to 18 species known to be acid‐sensitive. The effects of liming were assessed by comparing chemical and biological trends among the three replicate limed streams, three acid reference streams and two naturally circumneutral streams. 3. Following single lime applications, acid‐base chemistry in treated streams changed significantly. High mean pH (> 6), increased calcium (> 2.5 mg L^?1) and low aluminium (< 0.1 mg L^?1) persisted throughout the 10 years following liming. 4. The effects of liming on invertebrates were modest. Acid sensitive taxa increased significantly in abundance in limed streams, but only during 2 years following treatment. Significant effects on richness were more sustained, but on average added only 2–3 acid‐sensitive species to the treated streams, roughly one‐third of their average richness in adjacent circumneutral streams. Only the mayfly Baetis rhodani and the stonefly Brachyptera risi occurred significantly more often in limed streams after treatment than before it. 5. Despite these modest long‐term effects on invertebrates, nearly 80% of the total pool of acid‐sensitive species has occurred at least once in the limed streams in the 10 years since treatment. This pattern of occurrence suggests that the colonization of limed streams by acid‐sensitive taxa reflects limited persistence rather than restricted dispersal. We present evidence to show that episodes of low pH continued to affect acid‐sensitive taxa even after liming. We highlight the importance of extending the time‐periods over which the effects of large‐scale ecological experiments are assessed.     

Nitrogen gas (N2+N2O) flux from urea applied to lowland rice as affected by green manure

A field study was conducted on a clay soil (Andaqueptic Haplaquoll) in the Philippines to directly measure the evolution of (N₂+N₂O)−¹⁵N from 98 atom %¹⁵N-labeled urea broadcast at 29 kg N ha⁻¹ into 0.05-m-deep floodwater at 15 days after transplanting (DT) rice. The flux of (N₂+N₂O)−¹⁵N during the 19 days following urea application never exceeded 28 g N ha⁻¹ day⁻¹. The total recovery of (N₂+N₂O)−¹⁵N evolved from the field was only 0.51% of the applied N, whereas total gaseous¹⁵N loss estimated from unrecovered¹⁵N in the¹⁵N balance was 41% of the applied N. Floodwater (nitrate+nitrite)−N in the 5 days following urea application never exceeded 0.14 g N m⁻³ or 0.3% of the applied N. Prior cropping of cowpea [Vigna unguiculata (L.) Walp.] to flowering with subsequent incorporation of the green manure (dry matter=2.5 Mg ha⁻¹, C/N=15) at 15 days before rice transplanting had no effect on fate of urea applied to rice at 15 DT. The recovery of (N₂+N₂O)−¹⁵N and total¹⁵N loss during the 19 days following urea application were 0.46 and 40%, respectively. Direct recovery of evolved (N₂+N₂O)−¹⁵N and total¹⁵N loss from 27 kg applied nitrate-N ha⁻¹ were 20% and 53% during the same 19-day period. The failure of directly-recovered (N₂+N₂O)−¹⁵N to match total¹⁵N loss from added nitrate-¹⁵N might be due to entrapment of denitrification end products in soil or transport of gaseous end products to the atmosphere through rice plants. The rapid conversion of added nitrate-N to (N₂+N₂O)−N, the apparently sufficient water soluble soil organic C for denitrification (101 μg C g⁻¹ in the top 0.15-m soil layer), and the low floodwater nitrate following urea application suggested that denitrification loss from urea was controlled by supply of nitrate rather than by availability of organic C.