Linking long-term dietary patterns with gut microbial enterotypes

Diet strongly affects human health, partly by modulating gut microbiome composition. We used diet inventories and 16S rDNA sequencing to characterize fecal samples from 98 individuals. Fecal communities clustered into enterotypes distinguished primarily by levels of Bacteroides and Prevotella. Enterotypes were strongly associated with long-term diets, particularly protein and animal fat (Bacteroides) versus carbohydrates (Prevotella). A controlled-feeding study of 10 subjects showed that microbiome composition changed detectably within 24 hours of initiating a high-fat/low-fiber or low-fat/high-fiber diet, but that enterotype identity remained stable during the 10-day study. Thus, alternative enterotype states are associated with long-term diet.     

Metagenomic discovery of biomass-degrading genes and genomes from cow rumen

The paucity of enzymes that efficiently deconstruct plant polysaccharides represents a major bottleneck for industrial-scale conversion of cellulosic biomass into biofuels. Cow rumen microbes specialize in degradation of cellulosic plant material, but most members of this complex community resist cultivation. To characterize biomass-degrading genes and genomes, we sequenced and analyzed 268 gigabases of metagenomic DNA from microbes adherent to plant fiber incubated in cow rumen. From these data, we identified 27,755 putative carbohydrate-active genes and expressed 90 candidate proteins, of which 57% were enzymatically active against cellulosic substrates. We also assembled 15 uncultured microbial genomes, which were validated by complementary methods including single-cell genome sequencing. These data sets provide a substantially expanded catalog of genes and genomes participating in the deconstruction of cellulosic biomass.     

Iron emission lines from extended x-ray jets in SS 433: reheating of atomic nuclei

Powerful relativistic jets are among the most ubiquitous and energetic observational consequences of accretion around supermassive black holes in active galactic nuclei and neutron stars and stellar-mass black holes in x-ray binary (XRB) systems. But despite more than three decades of study, the structure and composition of these jets remain unknown. Here we present spatially resolved x-ray spectroscopy of arc second-scale x-ray jets from XRB SS 433 analyzed with the Chandra advanced charge-coupled device imaging spectrometer. These observations reveal evidence for a hot continuum and Doppler-shifted iron emission lines from spatially resolved regions. Apparently, in situ reheating of the baryonic component of the jets takes place in a flow that moves with relativistic bulk velocity even more than 100 days after launch from the binary core.     

A transient radio jet in an erupting dwarf nova

Astrophysical jets seem to occur in nearly all types of accreting objects, from supermassive black holes to young stellar objects. On the basis of x-ray binaries, a unified scenario describing the disc/jet coupling has evolved and been extended to many accreting objects. The only major exceptions are thought to be cataclysmic variables: Dwarf novae, weakly accreting white dwarfs, show similar outburst behavior to x-ray binaries, but no jet has yet been detected. Here we present radio observations of a dwarf nova in outburst showing variable flat-spectrum radio emission that is best explained as synchrotron emission originating in a transient jet. Both the inferred jet power and the relation to the outburst cycle are analogous to those seen in x-ray binaries, suggesting that the disc/jet coupling mechanism is ubiquitous.     

Giant larvacean houses: rapid carbon transport to the deep sea floor

An unresolved issue in ocean science is the discrepancy between the food requirements of the animals living on the deep sea floor and their food supply, as measured by sediment traps. A 10-year time-series study of the water column off Monterey Bay, California, revealed that the discarded mucus feeding structures of giant larvaceans carry a substantial portion of the upper ocean's productivity to the deep seabed. These abundant, rapidly sinking, carbon-rich vectors are not detected by conventional sampling methods and thus have not been included in calculations of vertical nutrient flux or in oceanic carbon budgets.     

The effects of birth weight and estimated breeding value for protein deposition on nitrogen efficiency in growing pigs

The effects of birth weight (BiW; low BiW [LBW] vs. high BiW [HBW]) and estimated breeding value (EBV) for protein deposition (low EBV [LBV] vs. high EBV [HBV]) on N retention, N efficiency, and concentrations of metabolites in plasma and urine related to N efficiency in growing pigs were studied. At an age of 14 wk, 10 LBW–LBV (BiW: 1.07 ± 0.09 [SD] kg; EBV: −2.52 ± 3.97 g/d, compared with an average crossbred pig with a protein deposition of 165 g/d), 10 LBW–HBV (BiW: 1.02 ± 0.13 kg; EBV: 10.47 ± 4.26 g/d), 10 HBW–LBV (BiW: 1.80 ± 0.13 kg; EBV: −2.15 ± 2.28 g/d), and 10 HBW–HBV (BiW: 1.80 ± 0.15 kg; EBV: 11.18 ± 3.68 g/d) male growing pigs were allotted to the experiment. The pigs were individually housed in metabolism cages and were subjected to an N balance study in two sequential periods of 5 d, after an 11-d dietary adaptation period. Pigs were assigned to a protein adequate (A) or protein restricted (R, 70% of A) regime in a change-over design. Pigs were fed 2.8 times the energy requirements for maintenance. Nontargeted metabolomics analyses were performed in urine and blood plasma samples. The N retention (in g/d) was higher in the HBW than in the LBW pigs (P < 0.001). The N retention (in g/[kg metabolic body weight (BW^0.75) · d]) and N efficiency, however, were not affected by the BiW of the pigs. The N retention (P = 0.04) and N efficiency (P = 0.04) were higher in HBV than in LVB pigs on the A regime but were not affected by EBV in pigs on the R regime. Restricting the dietary protein supply with 30% decreased the N retention (P < 0.001) but increased the N efficiency (P = 0.003). Nontargeted metabolomics showed that a hexose, free amino acids (AA), and lysophosphatidylcholines were the most important metabolites in plasma for the discrimination between HBV and LBV pigs, whereas metabolites of microbial origin contributed to the discrimination between HBV and LBV pigs in urine. This study shows that BiW does not affect N efficiency in the later life of pigs. Nitrogen efficiency and N retention were higher in HBV than in LBV pigs on the A regime but similar in HBV and LBV pigs on the R regime. In precision feeding concepts aiming to further optimize protein and AA efficiency in pigs, the variation in EBV for protein deposition of pigs should be considered as a factor determining N retention, growth performance, and N efficiency.     

Comparison of Odor Emissions from Three Different Biosolids Applied to Forest Soil

The odor emissions from three types of biosolidsfrom King County, WA, were measured usingdilution-to-threshold olfactometry and mass spectralanalyses. This article describes thermal desorption andcryogenic GC/MS methods developed to characterizeodorant emissions from biosolids application to forestsoil. The major odorous compounds volatilized from twoanaerobically digested biosolids were ammonia anddimethyl disulfide, with lesser quantities of carbondisulfide, dimethyl sulfide, trimethyl amine, acetoneand methyl ethyl ketone. A third type of biosolidswas formed by centrifuge and drying one of the otherbiosolids at 190 °C. This dry biosolids producedmore odor and volatilized a more complex array ofvolatile compounds including: dimethyl disulfide,dimethyl sulfide, carbon disulfide, methylethyldisulfide, methane thiol, trimethyl amine, aceticacid, propionic acid, and butyric acid. Odor unitemissions were not found to correlate with microbialactivity, initial biosolids ammonium, organicnitrogen, and total sulfur. Variability in odoremission were explained by the number of odorouscompounds volatilized from each material, surface areaof biosolids and drying of the biosolids.