Tryptophan 7-halogenase (PrnA) structure suggests a mechanism for regioselective chlorination

Chlorinated natural products include vancomycin and cryptophycin A. Their biosynthesis involves regioselective chlorination by flavin-dependent halogenases. We report the structural characterization of tryptophan 7-halogenase (PrnA), which regioselectively chlorinates tryptophan. Tryptophan and flavin adenine dinucleotide (FAD) are separated by a 10 angstrom-long tunnel and bound by distinct enzyme modules. The FAD module is conserved in halogenases and is related to flavin-dependent monooxygenases. On the basis of biochemical studies, crystal structures, and by analogy with monooxygenases, we predict that FADH2 reacts with O2 to make peroxyflavin, which is decomposed by Cl-. The resulting HOCl is guided through the tunnel to tryptophan, where it is activated to participate in electrophilic aromatic substitution.     

Circadian polymorphisms associated with affective disorders

Background  

Clinical symptoms of affective disorders, their response to light treatment, and sensitivity to other circadian interventions indicate that the circadian system has a role in mood disorders. Possibly the mechanisms involve circadian seasonal and photoperiodic mechanisms. Since genetic susceptibilities contribute a strong component to affective disorders, we explored whether circadian gene polymorphisms were associated with affective disorders in four complementary studies.     

Fishery yields vary with land cover on the Amazon River floodplain

Inland fisheries underpin food security in many tropical countries. The most productive inland fisheries in tropical and subtropical developing countries occur in large river–floodplain systems that are often impacted by land cover changes. However, few studies to date have assessed the effects of changes in floodplain land cover on fishery yields. Here, we integrated fisheries and satellite‐mapped habitat data to evaluate the effects of floodplain deforestation on fishery yields in 68 floodplain lake systems of the lower Amazon River, representing a wide range in relative amounts of woody, herbaceous and non‐vegetated land cover. We modelled relative fish yields (fish capture per unit effort [CPUE]) in the floodplain lakes as a function of the relative amounts of forest, shrub, aquatic macrophyte and bare/herbaceous habitats surrounding them. We found that forest amount was positively related (p = .0003) to multispecies CPUE. The validity of these findings was supported by rejection of plausible alternative causative mechanisms involving habitat‐related differences in amount of piscivores, fishing effort, lake area, and habitat effects on CPUE of the nine taxa dominating multispecies yields. Our results provide support to the idea that removal of floodplain forests reduces fishery yields per unit effort. Increased protection of floodplain forests is necessary to maintain the food, income and livelihood security services provided by large river–floodplain fisheries.     

Evidence of altitudinal increase in photosynthetic capacity: gas exchange measurements at ambient and constant CO2 partial pressures

? Because all microclimatic variables change with elevation, it is difficult to compare plant performance and especially photosynthetic capacity at different elevations. Indeed, most previous studies investigated photosynthetic capacity of low- and high-elevation plants using constant temperature, humidity and light but varying CO₂ partial pressures (P _{CO 2}).

? Using gas exchange measurements, we compared here maximum assimilation rates (A _max) at ambient and constant-low-elevation P _{CO 2}for two temperate tree species along an altitudinal gradient (100 to 1600 m) in the Pyrénées mountains.

? Significant differences in A _max were observed between the CO₂ partial pressure treatments for elevations above 600 m, the between-treatment differences increasing with elevation up to 4 μmol m^?2 s^?1. We found an increase in A _max with increasing elevation at constant-low-elevation P _{CO 2} but not at ambient P _{CO 2} for both species. Given a 10% change in P _{CO 2}, a proportionally higher shift in maximum assimilation rate was found for both species.

? Our results showed that high elevation populations had higher photosynthetic capacity and therefore demonstrated that trees coped with extreme environmental conditions by a combination of adaptation (genetic evolution) and of acclimation. Our study also highlighted the importance of using constant CO₂ partial pressure to assess plant adaptation at different elevations.

     

The impact of conservation on the status of the world's vertebrates

Using data for 25,780 species categorized on the International Union for Conservation of Nature Red List, we present an assessment of the status of the world's vertebrates. One-fifth of species are classified as Threatened, and we show that this figure is increasing: On average, 52 species of mammals, birds, and amphibians move one category closer to extinction each year. However, this overall pattern conceals the impact of conservation successes, and we show that the rate of deterioration would have been at least one-fifth again as much in the absence of these. Nonetheless, current conservation efforts remain insufficient to offset the main drivers of biodiversity loss in these groups: agricultural expansion, logging, overexploitation, and invasive alien species.     

Use of two cloprostenol administrations 11.5 days apart efficiently synchronizes oestrus in photostimulated multiparous dairy goats in the non-breeding season

This study assessed the efficiency of synchronous oestrous induction by light programme followed by two doses of cloprostenol in acyclic Saanen goats of different parity orders. Primiparous (n = 22) and multiparous (n = 33) goats were subjected to 16 hr of light and 8 hr of darkness for 60 days (D0-D60), starting 10 days after the winter solstice. All goats received 120 µg cloprostenol doses on D130 (morning) and D141.5 (afternoon) (11.5 days apart). Oestrus behaviour, ovarian follicular dynamics and serum progesterone (P4) analyses were recorded from D0 to D174 at different intervals. Animals in oestrus after D141.5 were randomly assigned into two groups: assisted natural mating (NM) or artificial insemination (AI; 10–24 hr after oestrus onset with frozen-thawed semen). From D57 to D120, 89.0% of goats presented large follicles (5–8 mm) and P4 concentrations were subluteal from D0 to D120. More multiparous compared to primiparous goats (54.5%, 18/33 vs. 18.2%, 4/22) exhibited oestrus after both injections. More primiparous compared to multiparous goats (54.5%, 12/22 vs. 12.1%, 4/33) did not exhibit oestrus after any injection. A total of 35 goats (64%) were in oestrus after the second prostaglandin injection and were subjected to NM or AI. The conception rate was similar among primiparous (70.0%, 7/10) and multiparous (68.0%, 17/25) goats but the pregnancy rate differed, being 31.8% (7/22) and 51.5% (17/33), respectively. No interaction was found between parity order and P4 concentrations in does that became pregnant or not. Thus, the association between light programme (60 days, starting at the beginning of winter) and two cloprostenol administrations 11.5 days apart (starting 70 days after the end of the light treatment) resulted in sufficient synchronous oestrous response in multiparous acyclic Saanen goats to reach satisfactory fertility levels after both NM and AI.     

Vitamin A deficiency and hepatic retinol levels in sea otters, Enhydra lutris

Vitamin A deficiency has rarely been reported in captive or free-ranging wildlife species. Necropsy findings in two captively housed southern sea otters (Enhydra lutris nereis) included irregular thickening of the calvaria characterized by diffuse hyperostoses on the internal surface. One animal also had moderate squamous metaplasia of the seromucinous glands of the nose. There was no measurable retinol in the liver of either sea otter. For comparison, hepatic retinol concentration was determined for 23 deceased free-ranging southern and northern (Enhydra lutris kenyoni) sea otters from California and Alaska. Free-ranging otters were found to have similar hepatic retinol concentrations (316 +/- 245 mg/kg wet weight) regardless of their location and subspecies. All of these values were significantly higher than the levels in the affected animals. Consumption of a diet with very low vitamin A concentrations and noncompliance in daily supplementation are hypothesized as the causes of vitamin A deficiency in these two sea otters.     

A decision support approach for cane supply management within a sugar mill area

Increased competition between agri-food supply chains has strained relationships between farmers and processing factories while reducing individual profit margins. Decisions at different levels of the supply chain can no longer be considered independently, since they may influence profitability throughout the supply chain. This paper presents a decision support approach based on the MAGI^® simulation tool, which aims to facilitate discussion and negotiation between stakeholders while collectively exploring satisfactory solutions.The simulation tool helps sugarcane growers and millers in designing and assessing new ways of organizing cane supply management within a mill area. It addresses key issues such as restructuring mill areas or changing cane delivery allocation rules in order to increase total sugar production and total net revenue at the mill area level. This approach has been implemented for two mills in Réunion and one mill in South Africa. Simulations showed that sugar gains may be obtained by rearranging supply scheduling according to quality-based zoning within a mill area. Discussions led to further studies regarding the practicality of the best scenarios. MAGI^® is now available as freeware for testing in different settings.