The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism

Diatoms are unicellular algae with plastids acquired by secondary endosymbiosis. They are responsible for approximately 20% of global carbon fixation. We report the 34 million-base pair draft nuclear genome of the marine diatom Thalassiosira pseudonana and its 129 thousand-base pair plastid and 44 thousand-base pair mitochondrial genomes. Sequence and optical restriction mapping revealed 24 diploid nuclear chromosomes. We identified novel genes for silicic acid transport and formation of silica-based cell walls, high-affinity iron uptake, biosynthetic enzymes for several types of polyunsaturated fatty acids, use of a range of nitrogenous compounds, and a complete urea cycle, all attributes that allow diatoms to prosper in aquatic environments.     

Use of time-activity budgets to measure early progress of a social attraction restoration project

Social attraction is a useful technique for re-establishing or relocating waterbird colonies and other species groups. However, little information exists regarding how newly attending individuals behave when the social environment is influenced predominantly by artificial stimuli. To help assess early progress of colony re-establishment, we compared time-activity budgets of common murres (Uria aalge) at a social attraction site (Devil’s Slide Rock; DSR) in central California with two nearby reference colonies during the first 3 years (1996–1998) of efforts. Murres at all colonies spent over 95% of their time engaged in resting, comfort, courtship, and alert activities during the pre-breeding period and over 88% of their time in similar activities during the breeding period. Although patterns were similar overall, comparisons of pooled and year-specific time budget data revealed significant differences between all three colonies, especially during pre-breeding. Murres at DSR typically engaged in comfort behaviors less frequently and in alert and courtship behaviors more frequently than reference colonies. Differences likely were due to recent re-establishment, including lower bird densities and higher proportions of non-breeders and first-time breeders at DSR, along with other factors such as disturbance. Results indicate that newly attracted birds at DSR behaved “normally” even though the social environment was influenced predominantly by artificial stimuli. Furthermore, re-established breeding in the first year of efforts, subsequent colony growth, and high productivity reflected successful restoration efforts. Thus, time-activity budgets can provide important measures of early progress of social attraction efforts and as such can be used to inform adaptive management decisions.     

Phase behavior and component partitioning in low water content amorphous carbohydrates and their potential impact on encapsulation of flavors

The compositions at which amorphous ethanol-maltose-water mixtures exhibit liquid-liquid separation have been determined in the temperature range from 20 to 80 degrees C. At water contents below approximately 20% w/w two phases were observed, with the maltose-rich phase slightly richer in water. Partition coefficients of organic nonelectrolytes ranging in hydrophobicity from 1, 2-ethanediol and 1,2-propanediol to benzyl alcohol and propyl acetate have been measured for octanol/sorbitol, benzyl alcohol/sorbitol, and 1-butanol/sorbitol mixtures. Linear correlations were found between the log partition coefficients in the various solvent systems. Replacing water with sorbitol results in more organic partitioning into the octanol. Replacing octanol with benzyl alcohol or 1-butanol also results in more organic partitioning into the hydrophobic phase. The results establish a relationship with partition coefficients for octanol/water mixtures, which are well studied experimentally and for which predictive approaches exist. The implications of these results for flavor retention and encapsulation are discussed.     

Factors affecting the release of flavor encapsulated in carbohydrate matrixes

The effects of water content and temperature variation on the release of flavor components into the headspace over flavors, encapsulated by an extrusion process, in low water content carbohydrate matrixes is studied. The largest amounts of release occurred when the matrix was above its glass transition temperature, whether this was due to increased water content or elevated temperature. Under these conditions up to 70% of the sucrose in the matrix crystallized over a period of 10 days, as quantified using Fourier transform Raman spectroscopy. Smaller amounts of headspace release occurred when the water content of the encapsulated flavor system was decreased from 3. 5 to 3.1% w/w. Small amounts of release occurred from the "as prepared" materials, which were associated with the presence of small amounts of unencapsulated flavor oil with direct access to the headspace. It was concluded that release due to matrix permeability was relatively slow as compared with the above mechanisms.     

Esterified phenolics of the cell walls of chufa (Cyperus esculentusL. ) tubers and their role in texture

Chufas (Cyperus esculentus) are edible tubers that, like Chinese waterchestnut (CWC), are very crisp when raw and do not soften when cooked. The present study compares the mechanical properties of chufas with those of potato and CWC in relation to the carbohydrate and phenolic compositions of the cell walls. The cutting toughness of raw chufa was higher than that of raw CWC and potato; its value decreased on boiling, as also observed with CWC, but remained over twice that of raw potato. Chufa cell walls were rich in xylose, arabinose, glucose, uronic acid, and galactose, with minor quantities of mannose. The cell walls of the parenchyma exhibited a uniform pH-dependent autofluorescence indicating the presence of cinnamic acid derivatives. Analysis of these revealed that peeled tuber cell walls are rich in ferulic acid, whereas p-coumaric acid dominates the monomeric phenol fraction of the skin. Cell wall material from both skin and peeled tubers contains a significant amount of different diferulic acids ( approximately 20% of the wall ferulic acid), consisting mainly of the 8-O-4'-, 8-5'-, and 5-5'-dimers. These are potentially available to form thermally stable cross-links between polysaccharides within the wall and between cells. This may confer thermal stability of texture.     

Diurnal migration and responses to simulated rainfall in desert soil microarthropods and nematodes

Diurnal patterns of microarthropod abundance in surface leaf litter were related to its moisture content. Leaf litter moisture was nearly 7% by weight at 0800h but fell to less than 1% by mid-day. Oribatid and tydeid mites moved into litter in the early morning and back into the soil before mid-day. There were no significant differences in numbers of nematodes in litter or soil and 78–98% of the nematodes were anhydrobiotic (coiled) in soil and litter at all times sampled.Following simulated rainfall there were fewer microarthropods in litter at mid-day in the absence of marked decreases in soil and litter moisture content. During drying, there were gradual reductions in numbers and species diversity of litter microarthropods. Nematode numbers did not change as litter dried. Anhydrobiotic nematodes in the soil increased from 14% on day 1 to 85% on day 4. Between 24 and 36 h after simulated rainfall, the proportion of anhydrobiotic litter nematodes increased from 35 to 80%,.Within 1 h after simulated rainfall, there were marked increases in numbers and diversity of microarthropods in surface litter. No collembolans were extracted from dry litter controls but the wet litter was dominated by isotomid, sminthurid and onychiurid collembolans. There were increases in numbers and diversity of oribatid, tydeid and gamasid mites in the wet surface litter within l h after wetting compared to controls.     

Humoral recognition of lipopolysaccharide core antigens of gram-negative bacteria in neonatal swine

Serologic recognition of common lipopolysaccharide core antigens has been related to enhanced resistance to gram-negative bacterial disease in several species. Class-specific titers (IgG, IgM) were determined by direct ELISA, using intact Escherichia coli (J5) as a plate antigen. Serum samples were obtained from 224 neonatal swine between the ages of 36 and 60 hours. The mean (+/- SEM) log10 IgG titer against gram-negative core antigens was 1:1,713 +/- 0.4718 and the mean log10 IgM titer was 1:202 +/- 0.5644. The IgG titer was directly related with litter size, birth weight, and serum total IgG concentration; IgM titer was directly related with dam parity and serum total IgG concentration.