Spatial distribution of forest aboveground biomass estimated from remote sensing and forest inventory data in New England, USA.

Abstract We combined satellite (Landsat 7 and Moderate Resolution Imaging Spectrometer) and U.S. Department of Agriculture forest inventory and analysis (FIA) data to estimate forest aboveground biomass (AGB) across New England, USA. This is practical for large-scale carbon studies and may reduce uncertainty of AGB estimates. We estimate that total regional forest AGB was 1,867 teragram (1012, dry weight) in 2001, with a mean AGB density of 120 Mg/ha (Standard deviation = 54 Mg/ha) ranging from 15 to 240 Mg/ha within a 95% percentile. The majority of regional AGB density was in the range of 80 to 160 Mg/ha (58.2%). High AGB densities were observed along the Appalachian Mountains from northwestern Connecticut to the Green Mountains in Vermont and White Mountains in New Hampshire, while low AGB densities were concentrated in the Downeast area of Maine (ME) and the Cape Cod area of Massachusetts (MA). At the state level, the averaged difference in mean AGB densities between simulated and FIA (as reference) was -2.0% ranging from 0% to -4.2% with a standard error of 3.2%. Within the 95% confidence interval the differences between FIA and simulated AGB densities ranged from 0 to 6% (absolute value). Our study may provide useful information for regional fuel-loading estimates

Carbon changes in conterminous US forests associated with growth and major disturbances.

Abstract We estimated forest area and carbon changes in the conterminous United States using a remote sensing based land cover change map, forest fire data from the Monitoring Trends in Burn Severity program, and forest growth and harvest data from the USDA Forest Service, Forest Inventory and Analysis Program. Natural and human-associated disturbances reduced the forest ecosystems\u27 carbon sink by 36% from 1992 to 2001, compared to that without disturbances in the 48 states. Among the three identified disturbances, forest-related land cover change contributed 33% of the total effect in reducing the forest carbon potential sink, while harvests and fires accounted for 63% and 4% of the total effect, respectively. The nation\u27s forests sequestered 1.6 ± 0.1Pg (1015 petagram) carbon during the period, or 0.18PgCyr-1, with substantial regional variation. The southern region of the United States was a small net carbon source whereas the greater Pacific Northwest region was a strong net sink. Results of the approach fit reasonably well at an aggregate level with other related estimates of the current forest US greenhouse gas inventory, suggesting that further research using this approach is warranted

Carbon benefits from protected areas in the conterminous United States

Background: Conversion of forests to other land cover or land use releases the carbon stored in the forests and reduces carbon sequestration potential of the land. The rate of forest conversion could be reduced by establishing protected areas for biological diversity and other conservation goals. The purpose of this study is to quantify the efficiency and potential of forest land protection for mitigating GHG emissions. Results: The analysis of related national-level datasets shows that during the period of 1992–2001 net forest losses in protected areas were small as compared to those in unprotected areas: -0.74% and −4.07%, respectively. If forest loss rates in protected and unprotected area had been similar, then forest losses in the protected forestlands would be larger by 870 km2/yr forests, that corresponds to release of 7 Tg C/yr (1 Tg=1012 g). Conversely, and continuing to assume no leakage effects or interactions of prices and harvest levels, about 1,200 km2/yr forests could have remained forest during the period of 1992–2001 if net area loss rate in the forestland outside protected areas was reduced by 20%. Not counting carbon in harvested wood products, this is equivalent to reducing fossil-fuel based carbon emissions by 10 Tg C/yr during this period. The South and West had much higher potentials to mitigate GHG emission from reducing loss rates in unprotected forests than that of North region. Spatially, rates of forest loss were higher across the coastal states in the southeastern US than would be expected from their population change, while interior states in the northern US experienced less forest area loss than would have been expected given their demographic characteristics. Conclusions: The estimated carbon benefit from the reduced forest loss based on current protected areas is 7 Tg C/yr, equivalent to the average carbon benefit per year for a previously proposed ten-year $110 million per year tree planting program scenario in the US. If there had been a program that could have reduced forest area loss by 20% in unprotected forestlands during 1992–2001, collectively the benefits from reduced forest loss would be equal to 9.4% of current net forest ecosystem carbon sequestration in the conterminous US

Structure of the first representative of Pfam family PF04016 (DUF364) reveals enolase and Rossmann-like folds that combine to form a unique active site with a possible role in heavy-metal chelation.

The crystal structure of Dhaf4260 from Desulfitobacterium hafniense DCB-2 was determined by single-wavelength anomalous diffraction (SAD) to a resolution of 2.01 Å using the semi-automated high-throughput pipeline of the Joint Center for Structural Genomics (JCSG) as part of the NIGMS Protein Structure Initiative (PSI). This protein structure is the first representative of the PF04016 (DUF364) Pfam family and reveals a novel combination of two well known domains (an enolase N-terminal-like fold followed by a Rossmann-like domain). Structural and bioinformatic analyses reveal partial similarities to Rossmann-like methyltransferases, with residues from the enolase-like fold combining to form a unique active site that is likely to be involved in the condensation or hydrolysis of molecules implicated in the synthesis of flavins, pterins or other siderophores. The genome context of Dhaf4260 and homologs additionally supports a role in heavy-metal chelation

An approach for verifying biogenic greenhouse gas emissions inventories with atmospheric CO₂ concentration data

Verifying national greenhouse gas (GHG) emissions inventories is a critical step to ensure that reported emissions data to the United Nations Framework Convention on Climate Change (UNFCCC) are accurate and representative of a country\u27s contribution to GHG concentrations in the atmosphere. Furthermore, verifying biogenic fluxes provides a check on estimated emissions associated with managing lands for carbon sequestration and other activities, which often have large uncertainties. We report here on the challenges and results associated with a case study using atmospheric measurements of CO₂ concentrations and inverse modeling to verify nationally-reported biogenic CO₂ emissions. The biogenic CO₂ emissions inventory was compiled for the Mid-Continent region of United States based on methods and data used by the US government for reporting to the UNFCCC, along with additional sources and sinks to produce a full carbon balance. The biogenic emissions inventory produced an estimated flux of −408 ± 136 Tg CO₂ for the entire study region, which was not statistically different from the biogenic flux of −478 ± 146 Tg CO₂ that was estimated using the atmospheric CO₂concentration data. At sub-regional scales, the spatial density of atmospheric observations did not appear sufficient to verify emissions in general. However, a difference between the inventory and inversion results was found in one isolated area of West-central Wisconsin. This part of the region is dominated by forestlands, suggesting that further investigation may be warranted into the forest C stock or harvested wood product data from this portion of the study area. The results suggest that observations of atmospheric CO₂ concentration data and inverse modeling could be used to verify biogenic emissions, and provide more confidence in biogenic GHG emissions reporting to the UNFCCC

Group B streptococcal carriage, serotype distribution and antibiotic susceptibilities in pregnant women at the time of delivery in a refugee population on the Thai-Myanmar border

<p>Abstract</p> <p>Background</p> <p>Group B Streptococcus (GBS) is the leading cause of neonatal sepsis in the developed world. Little is known about its epidemiology in the developing world, where the majority of deaths from neonatal infections occur. Maternal carriage of GBS is a prerequisite for the development of early onset GBS neonatal sepsis but there is a paucity of carriage data published from the developing world, in particular South East Asia.</p> <p>Methods</p> <p>We undertook a cross sectional study over a 13 month period in a remote South East Asian setting on the Thai-Myanmar border. During labour, 549 mothers had a combined vaginal rectal swab taken for GBS culture. All swabs underwent both conventional culture as well as PCR for GBS detection. Cultured GBS isolates were serotyped by latex agglutination, those that were negative or had a weak positive reaction and those that were PCR positive but culture negative were additionally tested using multiplex PCR based on the detection of GBS capsular polysaccharide genes.</p> <p>Results</p> <p>The GBS carriage rate was 12.0% (95% CI: 9.4-15.0), with 8.6% positive by both culture and PCR and an additional 3.5% positive by PCR alone. Serotypes, Ia, Ib, II, III, IV, V, VI and VII were identified, with II the predominant serotype. All GBS isolates were susceptible to penicillin, ceftriaxone and vancomycin and 43/47 (91.5%) were susceptible to erythromycin and clindamycin.</p> <p>Conclusions</p> <p>GBS carriage is not uncommon in pregnant women living on the Thai-Myanmar border with a large range of serotypes represented.</p

Structure of a putative NTP pyrophosphohydrolase: YP_001813558.1 from Exiguobacterium sibiricum 255-15.

The crystal structure of a putative NTPase, YP_001813558.1 from Exiguobacterium sibiricum 255-15 (PF09934, DUF2166) was determined to 1.78 Å resolution. YP_001813558.1 and its homologs (dimeric dUTPases, MazG proteins and HisE-encoded phosphoribosyl ATP pyrophosphohydrolases) form a superfamily of all-α-helical NTP pyrophosphatases. In dimeric dUTPase-like proteins, a central four-helix bundle forms the active site. However, in YP_001813558.1, an unexpected intertwined swapping of two of the helices that compose the conserved helix bundle results in a `linked dimer' that has not previously been observed for this family. Interestingly, despite this novel mode of dimerization, the metal-binding site for divalent cations, such as magnesium, that are essential for NTPase activity is still conserved. Furthermore, the active-site residues that are involved in sugar binding of the NTPs are also conserved when compared with other α-helical NTPases, but those that recognize the nucleotide bases are not conserved, suggesting a different substrate specificity

Structure of the γ-D-glutamyl-L-diamino acid endopeptidase YkfC from Bacillus cereus in complex with L-Ala-γ-D-Glu: insights into substrate recognition by NlpC/P60 cysteine peptidases.

Dipeptidyl-peptidase VI from Bacillus sphaericus and YkfC from Bacillus subtilis have both previously been characterized as highly specific γ-D-glutamyl-L-diamino acid endopeptidases. The crystal structure of a YkfC ortholog from Bacillus cereus (BcYkfC) at 1.8 Å resolution revealed that it contains two N-terminal bacterial SH3 (SH3b) domains in addition to the C-terminal catalytic NlpC/P60 domain that is ubiquitous in the very large family of cell-wall-related cysteine peptidases. A bound reaction product (L-Ala-γ-D-Glu) enabled the identification of conserved sequence and structural signatures for recognition of L-Ala and γ-D-Glu and, therefore, provides a clear framework for understanding the substrate specificity observed in dipeptidyl-peptidase VI, YkfC and other NlpC/P60 domains in general. The first SH3b domain plays an important role in defining substrate specificity by contributing to the formation of the active site, such that only murein peptides with a free N-terminal alanine are allowed. A conserved tyrosine in the SH3b domain of the YkfC subfamily is correlated with the presence of a conserved acidic residue in the NlpC/P60 domain and both residues interact with the free amine group of the alanine. This structural feature allows the definition of a subfamily of NlpC/P60 enzymes with the same N-terminal substrate requirements, including a previously characterized cyanobacterial L-alanine-γ-D-glutamate endopeptidase that contains the two key components (an NlpC/P60 domain attached to an SH3b domain) for assembly of a YkfC-like active site

The structure of BVU2987 from Bacteroides vulgatus reveals a superfamily of bacterial periplasmic proteins with possible inhibitory function.

Proteins that contain the DUF2874 domain constitute a new Pfam family PF11396. Members of this family have predominantly been identified in microbes found in the human gut and oral cavity. The crystal structure of one member of this family, BVU2987 from Bacteroides vulgatus, has been determined, revealing a β-lactamase inhibitor protein-like structure with a tandem repeat of domains. Sequence analysis and structural comparisons reveal that BVU2987 and other DUF2874 proteins are related to β-lactamase inhibitor protein, PepSY and SmpA_OmlA proteins and hence are likely to function as inhibitory proteins