Channelrhodopsin-1: a light-gated proton channel in green algae

Phototaxis and photophobic responses of green algae are mediated by rhodopsins with microbial-type chromophores. We report a complementary DNA sequence in the green alga Chlamydomonas reinhardtii that encodes a microbial opsin-related protein, which we term Channelopsin-1. The hydrophobic core region of the protein shows homology to the light-activated proton pump bacteriorhodopsin. Expression of Channelopsin-1, or only the hydrophobic core, in Xenopus laevis oocytes in the presence of all-trans retinal produces a light-gated conductance that shows characteristics of a channel selectively permeable for protons. We suggest that Channelrhodopsins are involved in phototaxis of green algae.     

Dynamics of dissolved and particulate polyunsaturated aldehydes in mesocosms inoculated with different densities of the diatom Skeletonema marinoi

A survey of the production of polyunsaturated aldehydes (PUA) of manipulated plankton communities is presented here. PUA are phytoplankton-derived metabolites that are proposed to play an important role in chemically mediated plankton interactions. Blooms of different intensities of the diatom Skeletonema marinoi were generated in eight mesocosms filled with water from the surrounding fjord by adding different amounts of a starting culture and nutrients. This set-up allowed us to follow PUA production of the plankton community over the entire induced bloom development, and to compare it with the natural levels of PUA. We found that S. marinoi is a major source for the particulate PUA 2,4-heptadienal and 2,4-octadienal (defined as PUA released upon wounding of the diatom cells) during the entire bloom development. Just before, and during, the decline of the induced diatom blooms, these PUA were also detected in up to 1 nM concentrations dissolved in the water. In addition, we detected high levels of the PUA 2,4-decadienal that was not produced by the diatom S. marinoi. Particulate decadienal correlated well with the cell counts of the prymnesiophyte Phaeocystis sp. that also developed in the fertilized mesocosms. Particulate decadienal levels were often even higher than those of diatom-derived PUA, indicating that PUA sources other than diatoms should be considered when it comes to the evaluation of the impact of these metabolites.     

How temperature and aridity drive lignin decomposition along a latitudinal transect in western Siberia

Climate change drives a northward shift of biomes in high-latitude regions. This might have consequences on the decomposition of plant litter entering the soil, including its lignin component, which is one of the most abundant components of vascular plants. In order to elucidate the combined effect of climate and soil characteristics on the decomposition pattern of lignin, we investigated lignin contents and its degree of oxidative decomposition within soil profiles along a climosequence in western Siberia. Soil samples were collected from organic topsoil to mineral subsoil at six sites along a 1500-km latitudinal transect, stretching from tundra, through taiga and forest steppe to typical steppe. The stage of lignin degradation, as mirrored by decreasing organic carbon-normalized lignin contents and increasing oxidative alteration of the remnant lignin (acid-to-aldehyde ratios of vanillyl- and syringyl-units [(Ac/Al)_V and (Ac/Al)_S]) within soil horizons, increased from tundra to forest steppe and then decreased to the steppe. Principal component analysis, involving also climatic conditions such as mean annual temperature and aridity index, showed that the different states of lignin degradation between horizons related well to the activity of phenoloxidases and peroxidases, enzymes involved in lignin depolymerization that are produced primarily by fungi and less importantly by bacteria. The low microbial lignin decomposition in the tundra was likely due to low temperature and high soil moisture, which do not favour the fungi. Increasing temperature and decreasing soil moisture, facilitating a higher abundance of fungi, led to increased fungal lignin decomposition towards the forest-steppe biome, while drought and high pH might be responsible for the reduced lignin decomposition in the steppe. We infer that a shift of biomes to the north, driven by climate change, might promote lignin decomposition in the northern parts, whereas in the south a further retardation might be likely.     

Microbial biomass activity of a sodic Lixisol reclaimed with gypsum and clean water irrigation in urban vegetable systems of Burkina Faso

Background

Little is known about the effects of gypsum application to remediate saline–sodic soils in the tropics and the role of microbial indicators in soil reclamation.

Aims

Our study aimed at (1) remediating a highly weathered, irrigated sodic Lixisol under prolonged urban crop production by clean water and gypsum application and (2) to determine the remediation effects on soil microbial indices.

Methods

A three-factorial on-farm experiment with maize (Zea mays L.) was used to study effects on soil microbial biomass of (1) soil degradation at two levels of salinity, (2) irrigation with clean water and wastewater, and (3) the impact of added gypsum during a typical growing season.

Results

At the high-degradation site, the 0.5 M K₂SO₄ extractable carbon (C) content was 40% higher than at the low-degradation site. In addition, microbial biomass carbon (MBC) and microbial biomass nitrogen (MBN) were 20% lower than at the low-degradation site, while fungal ergosterol was even 40% lower, leading to a 33% lower ergosterol/MBC ratio. Wastewater irrigation increased MBN but decreased ergosterol content at the low-degradation site while having no effect at the high-degradation site. Gypsum amendment led to higher MBN at the low-degradation site but to lower MBN at the high-degradation site. Gypsum amendment always increased the ergosterol content whereby this increase was stronger at the low-degradation site, especially in combination with wastewater irrigation.

Conclusions

From a microbial perspective, high soil degradation levels should be avoided by treatment of a saline–sodic wastewater prior to its use for irrigation rather than relying on future remediation strategies of affected field sites.     

Detection of Mycoplasma conjunctivae in the eyes of healthy, free-ranging Alpine ibex: possible involvement of Alpine ibex as carriers for the main causing agent of infectious keratoconjunctivitis in wild Caprinae

Mycoplasma conjunctivae is considered the major cause of infectious keratoconjunctivitis (IKC) in Alpine ibex (Capra i. ibex) and chamois (Rupicapra r. rupicapra). While it is known that domestic sheep can act as healthy carriers for M. conjunctivae, this question has not been addressed in wild ungulates so far. In this study, bacteriological investigations and field observations were performed to assess whether free-ranging Alpine ibex can be healthy carriers of M. conjunctivae. Among 136 ibex without clinical signs of IKC, M. conjunctivae was identified 26 times (19.1%) by TaqMan PCR. To assess the potential pathogenicity of M. conjunctivae strains isolated from asymptomatic eyes, strains from three healthy ibex and from 15 IKC-ibex and IKC-chamois were analysed genetically by DNA sequence analysis of the variable part of the lppS gene. No significant differences were observed between strains from asymptomatic and clinically affected animals, reflecting the assumption that healthy ibex may act as carriers for M. conjunctivae strains that may be pathogenic for other individuals. Our results further indicate that development of IKC is associated with M. conjunctivae load in the eyes. In addition, a questionnaire survey revealed that IKC is generally less common in ibex than chamois and that infection in wild ungulates is not necessarily linked to the presence of sheep. These data support the hypothesis that apparently healthy ibex may be important in the epizootiology of IKC and indicate that host predilection may play a role in IKC development.     

The variability between different analytical procedures and laboratories for measuring soil microbial biomass C and biomass N by the fumigation extraction method

The interlaboratory variations in the fumigation extraction method and the analytical procedures for measuring C and N in the soil microbial biomass were tested with one soil sample, and two soil extracts (non-fumigated and fumigated) sent to 25 different laboratories. Four groups of analytical procedures for organic C, i.e. (1) oven oxidation/ IR detection, (2) UV-persulfate oxidation/lR detection, (3) UV-persulfate oxidation/colorimetric detection and (4) dichromate oxidation/ titration, and three groups for total N, i.e. (1) Kjedahl reduction to NH₄⁺, (2) UV-persulfate and (3) persulfate-borate oxidation to NO₃^? were used by the different laboratories. The coefficient of variation for C and N measurements between different laboratories and analytical procedures varied between 15 and 34% in non-fumigated samples, between 13 and 20% in fumigated samples, and between 12 and 24% in the differences E_c and E_N. The average coefficients of variation between the replicate measurements within one laboratory were much smaller, i.e. they varied between 3.0 and 9.2% in non-fumigated samples, between 2.4 and 5.5% in fumigated samples, and between 4.5 and 12.8% in the differences E_c and E_n. Extraction and fumigation were not the major source of the variations observed. They were mainly a result of differences in the analytical procedures used to measure the low concentrations of C and N in the extracts. However, all of these analytical procedures should be able to measure correct values if they are properly calibrated and performed.     

Mobilization and immobilization of dissolved organic matter in forest soils

Field and laboratory studies combined with destructive and nondestructive analytical methods were used to characterize dissolved organic matter (DOM) in acid forest soils. DOM is produced in significant amounts in the forest canopy and in the forest floor. A major part of the organic solutes are lignocellulose-degradation products being strongly microbially altered in the course of ligninolysis. The release of lignin-derived moieties into the soil solution is controlled by their degree of biooxidation. Microorganisms contribute also directly to the organic solutes through the release of microbial metabolites. DOM released from the forest floor passes the upper mineral soil almost conservatively, whereas in the subsoil most DOM is removed from solution. Immobilization of DOM is mainly due to sorption on Fe and Al oxides. The highly oxidized lignin-derived moieties are preferentially removed from the soil solution whereas the saccharides are relatively enriched. We conclude that DOM in the forest soil output to the hydrosphere is a result of (1) the release of microbially degraded lignocellulose compounds and of microbial metabolites into the forest floor solution and (2) selective sorptive removal of the lignin-derived constituents in the subsoil.     

C‐Factors of the Universal Soil Loss Equation for olive plantations in Western Anatolia (central Ege Region)

In the course of investigations into soil erosion and its prediction in Western Anatolia (Ege region), C‐factors of the Universal Soil Loss Equation (USLE / ABAG) were also determined for various agricultural culture systems, including olive orchards. Because of the extreme level of input and expenditure required for field tests in such an investigation, the necessary information was instead acquired from surveys of agricultural organizations and local experts, along with additional own assessments. The information collected was analyzed in the form of a partly analogous application of specific values available in the USLE and ABAG, respectively. So the C‐factor estimation was performed dependent on analogous deductions. Necessary information about the seasonal course of rainfall erosivity in the area under investigation was acquired from a relevant Turkish study. Erosion problems in olive plantations result particularly from the intensity of soil tillage practices and from the treatment of the undergrowth (= weed and grass). That the level of the C‐factor of an olive plantation can be substantially influenced by this value alone is demonstrated by a comparison with the effect of the simultaneously determined second C‐factor component, namely the canopy effect of the trees themselves. The information gained can be used as a basis for recommendations to control erosion in olive plantations.     

Something old,something new: Historical perspectives provide lessons for blue growth agendas

The concept of “blue growth,” which aims to promote the growth of ocean economies while holistically managing marine socioecological systems, is emerging within national and international marine policy. The concept is often promoted as being novel; however, we show that historical analogies exist that can provide insights for contemporary planning and implementation of blue growth. Using a case‐study approach based on expert knowledge, we identified 20 historical fisheries or aquaculture examples from 13 countries, spanning the last 40–800 years, that we contend embody blue growth concepts. This is the first time, to our knowledge, that blue growth has been investigated across such broad spatial and temporal scales. The past societies managed to balance exploitation with equitable access, ecological integrity and/or economic growth for varying periods of time. Four main trajectories existed that led to the success or failure of blue growth. Success was linked to equitable rather than open access, innovation and management that was responsive, holistic and based on scientific knowledge and monitoring. The inability to achieve or maintain blue growth resulted from failures to address limits to industry growth and/or anticipate the impacts of adverse extrinsic events and drivers (e.g. changes in international markets, war), the prioritization of short‐term gains over long‐term sustainability, and loss of supporting systems. Fourteen cross‐cutting lessons and 10 recommendations were derived that can improve understanding and implementation of blue growth. Despite the contemporary literature broadly supporting our findings, these recommendations are not adequately addressed by agendas seeking to realize blue growth.