Flaws in the methodologies for organic carbon analysis in seagrass blue carbon soils

The ability to accurately measure organic carbon (OC) in marine sediments or soils is overall taken for granted in scientific communities, yet this seemingly mundane task remains a methodological challenge when the soil matrix contains calcium carbonate (CaCO3), creating inaccuracies in Blue Carbon estimates. Here, we compared five common methods combining acidification, combustion, and wet oxidation pre-treatments for determination of OC in sediments and soils containing CaCO3 based on the analyses of artificial soil mixtures made of different OC and CaCO3 contents, and multiple soils from Australian seagrass cores. The results obtained showed that methods involving acidification pre-treatment entailed −17 ± 0.2% (mean ± SE) underestimation of OC content (ranging from −8% to −26%), whereas the combustion-based method was accurate for samples with high CaCO3 content but entailed 32–47% overestimation in samples with low CaCO3 content. The Heanes method (wet oxidation method) showed \u3c 5% deviation from the known OC content, but this method is not suitable for soil samples containing reduced iron, sulfur and potentially manganese compounds. The differences observed among methods have significant impacts on local, regional, and global Blue Carbon storage calculations. We provide key methodological guidelines for the analysis of OC in soils with high and low CaCO3 contents, aiming at improving accuracy in current Blue Carbon science

Seagrass meadows provide 3D habitat for reef fish

For large fishes, seagrass canopies typically provide a relatively flat habitat on seabeds, but seagrasses in the genus Posidonia can provide additional habitat complexity by forming organic-rich deposits known as mats. Erosional processes can scour channels through the mats, resulting in the formation of escarpments with caves. Here we report that reef fishes, such as groupers, inhabit the caves found within mat escarpments. The characteristics of the cavities are highly variable, ranging from small-elongated holes to deep caves with large entrances. The origin of these caves (biological and/or geological) is unknown, but it is possible that fish behavior enhance their formation. Posidonia seagrass escarpments provide a complex 3D habitat for reef fish that is not provided by typical canopy structure of seagrass. Further studies are required to gain insights into the natural history of seagrass escarpments and their ecological importance

Seagrass posidonia escarpments support high diversity and biomass of rocky reef fishes

Although seagrass meadows form a relatively homogenous habitat, escarpments, which form three-dimensional structures and originate from the erosion of seagrass peat, can provide important habitat for reef fishes. Here, we compare fish assemblages and habitat structural complexity among seagrass Posidonia australis escarpments and canopies, as well as limestone reef habitats, to understand the role of seagrass escarpments as reef fish habitat in Shark Bay, Western Australia. The total number of fish species, fish biomass, and top predator biomass were significantly higher in seagrass escarpments and reef habitats than in seagrass canopies due to lower habitat structural complexity and thus becoming suitable habitats for predators and prey in the latter. Both seagrass escarpment and reef habitats host similar assemblages of top predators and carnivorous fishes, such as Epinephelus coioides, Microcanthus strigatus, and Choerodon schoenleinii, that were absent in seagrass canopies. Seagrass escarpments provide an alternative habitat for reef fishes comparable to rocky reefs, which are limited in Shark Bay. Caves and ledges within the escarpments support 13.4 Mg of fish and 3.6 Mg of top predator species of commercial interest within the Shark Bay World Heritage Site. Additional research is needed to further understand the ecological importance of seagrass escarpments in enhancing fish biomass and biodiversity, as reproduction grounds or refuge from predators, and to investigate the role of meadow edges in ecosystem function

Numerical study of Taylor bubbles rising in a stagnant liquid using a level-set/moving-mesh method

An Arbitrary Lagrangian-Eulerian formulation has been posed to solve the challenging problem of the three-dimensional Taylor bubble, within a Conservative Level Set (CLS) framework. By employing a domain optimization method (i.e. the moving mesh method), smaller domains can be used to simulate rising bubbles, thus saving computational resources. As the method requires the use of open boundaries, a careful treatment of both inflow and outflow boundary conditions has been carried out. The coupled CLS - moving mesh method has been verified by means of extensive numerical tests. The challenging problem of the full three-dimensional Taylor bubble has then been thoroughly addressed, providing a detailed description of its features. The study also includes a sensitivity analyses with respect to the initial shape of the bubble, the initial volume of the bubble, the flow regime and the inclination of the channel.Postprint (author's final draft

Calcification reduction and recovery in native and non-native Mediterranean corals in response to ocean acidification

10 páginas, 7 figuras, 2 tablas.In recent years, some of the ramifications of the ocean acidification problematic derived from the anthropogenic rising of atmospheric CO2 have been widely studied. In particular, the potential effects of a lowering pH on tropical coral reefs have received special attention. However, only a few studies have focused on testing the effects of ocean acidification in corals from the Mediterranean Sea, despite the fact that this basin is especially sensitive to increasing atmospheric CO2. In this context, we investigated the response to ocean acidification of the two zooxanthellate coral species capable of constituting the main framework of the community, the endemic Cladocora caespitosa and the non-native Oculina patagonica. To this end, we examined the response of both species to pCO2 concentrations expected by the end of the century, 800 ppm, vs the present levels. Calcification rate measurements after 92 days of exposure to low pH conditions showed the same negative response in both species, a decrease of 32–35% compared to corals reared under control conditions. In addition, we detected in both species a correlation between the calcification rate of colonies in control conditions and the degree of impairment of the same colonies at low pH. Independent of species, faster growing colonies were more affected by decreased pH. After this period of decreased pH, we conducted a recovery experiment, in which corals reared in the acidic treatment were brought back to control conditions. In this case, normal calcification rates were reached in both species. Overall, our results suggest that O. patagonica and C. caespitosa will both be affected detrimentally by progressive ocean acidification in the near future. They do not display differences in response between native and non-native species but do manifest differential responses depending on calcification rate, pointing to a role of the coral genetics in determining the response of corals to ocean acidification.Financial support for this study was provided by the Spanish Ministry of Economy and Competitiveness through projects CTM2006-01957/MAR, CTM2009-08849/MAR, CGL2010-18466 and a FPI studentship (BES-2007-16537) to J.M. This work is a contribution from the Marine Biogeochemistry and Global Change research group, funded by Generalitat de Catalunya (Catalan Government) through grant 2009SGR142. [RH]Peer reviewe

Regulation of ribonucleotide synthesis by the Pseudomonas aeruginosa two-component system AlgR in response to oxidative stress

Ribonucleotide reductases (RNR) catalyze the last step of deoxyribonucleotide synthesis, and are therefore essential to DNA-based life. Three forms of RNR exist: classes I, II, and III. While eukaryotic cells use only class Ia RNR, bacteria can harbor any combination of classes, granting them adaptability. The opportunistic pathogen Pseudomonas aeruginosa surprisingly encodes all three classes, allowing it to thrive in diferent environments. Here we study an aspect of the complex RNR regulation whose molecular mechanism has never been elucidated, the well-described induction through oxidative stress, and link it to the AlgZR two-component system, the primary regulator of the mucoid phenotype. Through bioinformatics, we identify AlgR binding locations in RNR promoters, which we characterize functionally through EMSA and physically through AFM imaging. Gene reporter assays in diferent growth models are used to study the AlgZR-mediated control on the RNR network under various environmental conditions and physiological states. Thereby, we show that the two-component system AlgZR, which is crucial for bacterial conversion to the mucoid phenotype associated with chronic disease, controls the RNR network and directs how the DNA synthesis pathway is modulated in mucoid and non-mucoid bioflms, allowing it to respond to oxidative stress

Mòduls per l’aprenentatge experimental de sistemes electrònics de mesura i control enfocats a sistemes biològics utilitzant Programmable Systems-on-Chip

L’objectiu principal és l’elaboració de material de pràctiques de laboratori que permetin que els estudiants d’Enginyeria dels Sistemes Biològics utilitzin sistemes electrònics de mesura i control, amb aplicacions adequades al seu context. Per facilitar que les pràctiques vagin evolucionant en el futur amb un mínim d’inversió posterior, s’ha escollit sistemes basats en microcontroladors i sistemes reconfigurables com ara els PSoC (Programmable System-On-Chip) i els sistemes d’adquisició de dades. Específicament, el material de pràctiques elaborat permet implementar i entendre les característiques de les tècniques de mesura de paràmetres comuns a l’àmbit industrial (temperatura, humitat, pressió), entendre els conceptes bàsics de l’adquisició de dades (fons d’escala, mostreig, resolució, marge dinàmic) i observar el comportament de les estratègies de control bàsiques (PID, on-off). És important remarcar que, en ser un grau de nova implantació, l’objectiu docent no és tant la millora de resultats (no n’hi ha, d’antecedents) com proveir els estudiants amb pràctiques que defugin les orientacions més tradicionals d’assignatures de Sistemes Electrònics. Els resultats obtinguts son, d’una banda, materials didàctics en forma de kits de sistemes electrònics capaços de rebre senyals de diverses sondes i controladors comercials, i d’altra banda les guies de laboratori que suggereixen un ús per aquest material.Peer Reviewe

Hepatic metastases from colorectal cancer: preoperative detectiona and assessment of resectability with helical CT

Purpose: to prospectively evaluate helical computed tomography (CT) in the preoperative detection of hepatic metastases and assessment of resectability with surgical, intraoperative ultrasonographic (US), and histopathologic correlation. Materials and methods: between October 1995 and December 1998, preoperative staging with helical CT (5-mm collimation; reconstruction interval, 5 mm) was performed in 157 patients with hepatic metastases. Iodinated contrast material was injected intravenously (160-170 mL; rate, 2.5-3.0 mL/sec); acquisition began at 60-70 seconds. Four radiologists prospectively assessed the metastatic involvement of the liver by indicating the number and location of the lesions; resection was indicated in 113 patients (119 instances). Helical CT findings were correlated with pathologic and surgical findings on a lesion-by-lesion basis. Results: intraoperative US, palpation, and histopathologic examination revealed 290 liver metastases; helical CT correctly depicted 247. Helical CT results were the following: overall detection rate, 85.1% (95% CI: 80.8%, 89.3%); positive predictive value, 96.1% (95% CI: 92.9%, 98.1%); and false-positive rate, 3.9% (10 of 257 findings; 95% CI: 1.9%, 7.1%). False-positive findings were related to hemangioendothelioma, hemangioma, hepatic peliosis, biliary adenoma, centrilobar hemorrhage, biliary hamartoma, periportal fibrosis, and normal liver parenchyma. Curative resection was performed in 112 instances with a resectability rate of 94.1%. Four-year patient survival rate was 58.6%. Conclusion: helical CT is a noninvasive, reliable, and accurate technique for imaging the liver and should be considered as the standard preoperative work-up of hepatic metastases from colorectal cancer

Association between maternal factors, preterm birth, and low birth weight of Chilean singletons

There has been an increase in preterm (PT) births in Western countries in recent years, which is associated with low-birthweight (LBW) children. The aim of this study was to determine the association between maternal factors and PT and LBW Chilean newborns. Methods: This was an analytical cross-sectional study of a national sample of 903,847 newborns and their mothers. The newborn gestational age, birth weight, maternal age, marital status, education, employment situation, and residence were analyzed. A multivariate logistic regression model was applied (α = 0.05) (STATA v.15). The prevalence was 6.8% and 5.0% for PT and LBW, respectively. The probability of the newborns being PT and LBW was 1.18 and 1.22 times if their mothers had <12 years of education and 1.38 and 1.29 times if the mothers were ≥35 years old, respectively. Mothers with <12 years education and ≥35 years were risk factors for PT and LBW newborns. Maternal educational attainment was a protective factor for the Chilean newborns, and a maternal age ≥35 years was a risk factor for PT and LBW.Depto. de Biodiversidad, Ecología y EvoluciónFac. de Ciencias BiológicasTRUEUniversity of Bío-Bío (Chile)pu

Losartan prevents heart fibrosis induced by long-term intensive exercise in an animal model

Rationale Recently it has been shown that long-term intensive exercise practice is able to induce myocardial fibrosis in an animal model. Angiotensin II is a profibrotic hormone that could be involved in the cardiac remodeling resulting from endurance exercise. Objective This study examined the antifibrotic effect of losartan, an angiotensin II type 1 receptor antagonist, in an animal model of heart fibrosis induced by long-term intense exercise. Methods and Results Male Wistar rats were randomly distributed into 4 experimental groups: Exercise, Exercise plus losartan, Sedentary and Sedentary plus losartan. Exercise groups were conditioned to run vigorously for 16 weeks. Losartan was orally administered daily before each training session (50 mg/kg/day). Time-matched sedentary rats served as controls. After euthanasia, heart hypertrophy was evaluated by histological studies; ventricular collagen deposition was quantified by histological and biochemical studies; and messenger RNA and protein expression of transforming growth factor-β1, fibronectin-1, matrix metalloproteinase-2, tissue inhibitor of metalloproteinase-1, procollagen-I and procollagen-III was evaluated in all 4 cardiac chambers. Daily intensive exercise caused hypertrophy in the left ventricular heart wall and originated collagen deposition in the right ventricle. Additionally long-term intensive exercise induced a significant increase in messenger RNA expression and protein synthesis of the major fibrotic markers in both atria and in the right ventricle. Losartan treatment was able to reduce all increases in messenger RNA expression and protein levels caused by exercise, although it could not completely reverse the heart hypertrophy. Conclusions Losartan treatment prevents the heart fibrosis induced by endurance exercise in training animals