Bacterial Succession within an Ephemeral Hypereutrophic Mojave Desert Playa Lake

Ephemerally wet playas are conspicuous features of arid landscapes worldwide; however, they have not been well studied as habitats for microorganisms. We tracked the geochemistry and microbial community in Silver Lake playa, California, over one flooding/desiccation cycle following the unusually wet winter of 2004–2005. Over the course of the study, total dissolved solids increased by ∽10-fold and pH increased by nearly one unit. As the lake contracted and temperatures increased over the summer, a moderately dense planktonic population of ∽1 × 10⁶ cells ml⁻¹ of culturable heterotrophs was replaced by a dense population of more than 1 × 10⁹ cells ml⁻¹, which appears to be the highest concentration of culturable planktonic heterotrophs reported in any natural aquatic ecosystem. This correlated with a dramatic depletion of nitrate as well as changes in the microbial community, as assessed by small subunit ribosomal RNA gene sequencing of bacterial isolates and uncultivated clones. Isolates from the early-phase flooded playa were primarily Actinobacteria, Firmicutes, and Bacteroidetes, yet clone libraries were dominated by Betaproteobacteria and yet uncultivated Actinobacteria. Isolates from the late-flooded phase ecosystem were predominantly Proteobacteria, particularly alkalitolerant isolates of Rhodobaca, Porphyrobacter, Hydrogenophaga, Alishwenella, and relatives of Thauera; however, clone libraries were composed almost entirely of Synechococcus (Cyanobacteria). A sample taken after the playa surface was completely desiccated contained diverse culturable Actinobacteria typically isolated from soils. In total, 205 isolates and 166 clones represented 82 and 44 species-level groups, respectively, including a wide diversity of Proteobacteria, Bacteroidetes, Actinobacteria, Firmicutes, Gemmatimonadetes, Acidobacteria, and Cyanobacteria. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Decomposition and carbon cycling of dead trees in tropical forests of the central Amazon

Decomposition rate constants were measured for boles of 155 large dead trees (>10 cm diameter) in central Amazon forests. Mortality data from 21 ha of permanent inventory plots, monitored for 10–15 years, were used to select dead trees for sampling. Measured rate constants varied by over 1.5 orders of magnitude (0.015–0.67 year^–1), averaging 0.19 year^–1 with predicted error of 0.026 year. Wood density and bole diameter were significantly and inversely correlated with rate constants. A tree of average biomass was predicted to decompose at 0.17 year^–1. Based on mortality data, an average of 7.0 trees ha^–1 year^–1 died producing 3.6 Mg ha^–1 year^–1 of coarse litter (>10 cm diameter). Mean coarse litter standing-stocks were predicted to be 21 Mg ha^–1, with a mean residence time of 5.9 years, and a maximum mean carbon flux to the atmosphere of 1.8 Mg C ha^–1 year^–1. Total litter is estimated to be partitioned into 16% fine wood, 30% coarse wood, and 54% non-woody litter (e.g., leaves, fruits, flowers). Decomposition rate constants for coarse litter were compiled from 20 globally distributed studies. Rates were highly correlated with mean annual temperature, giving a respiration quotient (Q ₁₀) of 2.4 (10°C^–1). Received: 14 June 1999 / Accepted: 31 August 1999     

Symptoms of nitrogen saturation in an aggrading forested watershed in western Maryland

The objective of this study was to evaluate the nitrogen (N) biogeochemistry of an 18–22 year old forested watershed in western Maryland. We hypothesized that this watershed should not exhibit symptoms of N saturation. This watershed was a strong source of nitrate (NO₃ ⁻) to the stream in all years, with a mean annual export of 9.5 kg N ha⁻¹ year⁻¹ and a range of 4.4–18.4 kg N ha⁻¹ year⁻¹. During the 2001 and 2002 water years, wet deposition of inorganic N was 9.0 kg N ha⁻¹ year⁻¹ and 6.3 kg N ha⁻¹ year⁻¹, respectively. Watershed N export rates in 2001 and 2002 water years were 4.2 kg N ha⁻¹ year⁻¹ and 5.3 kg N ha⁻¹ year⁻¹, respectively. During the wetter water years of 2003 and 2004, the watershed exported 15.0 kg N ha⁻¹ year⁻¹ and 18.4 kg N ha⁻¹ year⁻¹, rates that exceeded annual wet deposition of N by a factor of two (7.5 kg N ha⁻¹ year⁻¹ in 2003) and three (5.5 kg N ha⁻¹ year⁻¹ in 2004). Consistent with the high rates of N export, were high concentrations (2.1–3.3%) of N in foliage, wood (0.3%) and fine roots, low C:N ratios in the forest floor (17–24) and mineral soil (14), high percentages (83–96%) of the amount of mineralized N that was nitrified and elevated N concentrations (up to 3 mg N l⁻¹) in soil solution. Although this watershed contained a young aggrading forest, it exhibited several symptoms of N saturation commonly observed in more mature forests.     

Energy flow and subsidies associated with the complex life cycle of ambystomatid salamanders in ponds and adjacent forest in southern Illinois

Breeding adults and metamorphosing larval amphibians transfer energy between freshwater and terrestrial ecosystems during seasonal migrations and emergences, although rarely has this been quantified. We intensively sampled ambystomatid salamander assemblages (Ambystoma opacum,A. maculatum, and A. tigrinum) in five forested ponds in southern Illinois to quantify energy flow associated with egg deposition, larval production, and emergence of metamorphosed larvae. Oviposition by female salamanders added 7.0–761.4 g ash-free dry mass (AFDM) year⁻¹ to ponds (up to 5.5 g AFDM m⁻² year⁻¹). Larval production ranged from 0.4 to 7.4 g AFDM m⁻² year⁻¹ among populations in three ponds that did not dry during larval development, with as much as 7.9 g AFDM m⁻² year⁻¹ produced by an entire assemblage. Mean larval biomass during cohort production intervals in these three ponds ranged from 0.1 to 2.3 g AFDM m⁻² and annual P/B (production/biomass) ranged from 4 to 21 for individual taxa. Emergent biomass averaged 10% (range=2–35%) of larval production; larval mortality within ponds accounted for the difference. Hydroperiod and intraguild predation limited larval production in some ponds, but emerging metamorphs exported an average of 70.0±33.9 g AFDM year⁻¹ (range=21.0–135.2 g AFDM year⁻¹) from ponds to surrounding forest. For the three ponds where larvae survived to metamorphosis, salamander assemblages provided an average net flux of 349.5±140.8 g AFDM year⁻¹ into pond habitats. Among all ponds, net flux into ponds was highest for the largest pond and decreased for smaller ponds with higher perimeter to surface area ratios (r ² =0.94, P<0.05, n=5). These results are important in understanding the multiple functional roles of salamanders and the impact of amphibian population declines on ecosystems. Electronic Supplementary Material Supplementary material is available for this article at and is accessible for authorized users.     

Earthworm secondary production and N flux in agroecosystems: a comparison of two approaches

Production was estimated for Aporrectodea spp. and Lumbricus spp. populations in corn agroecosystems with a 5-year history of manure or inorganic fertilizer applications during 1994–1995 and 1995–1996. Earthworm biomass and production were greater in manure than inorganic fertilizer plots, although biomass and production declined by about 50% between 1994–1995 and 1995–1996 due to unfavorable climatic conditions. Production was highest during the spring and autumn when soil temperatures were between 4 and 22°C. Production was higher in Lumbricus spp. than Aporrectodea spp. populations due to greater Lumbricus spp. biomass. Aporrectodea spp. production was 3.47–16.14 g ash-free dry weight (AFDW) m^–2 year^–1, while Lumbricus spp. production was 6.09–18.11 g AFDW m^–2 year^–1, depending on the fertilizer treatment and the method used to estimate production. However, production estimates from the instantaneous growth rate method were within 27% of the values calculated using the size-frequency method. Nitrogen flux through earthworms was used to estimate efficiency quotients. Net production efficiency (P/A) ranged from 0.64 to 0.76, assimilation efficiency (A/C) ranged from 0.1 to 0.3, and gross production efficiency (P/C) ranged from 0.06 to 0.22. Annual N flux through earthworm populations was higher in manure than inorganic fertilizer plots, and ranged from 2.95 to 5.47 g N m^–2 year^–1 in 1994–1995 and 1.76 to 2.92 g N m^–2 year^–1 in 1995–1996. The N flux through earthworms represented an amount equivalent to 16–30% of crop N uptake during 1994–1995 and 11–18% of crop N uptake during 1995–1996. We concluded that the effects of earthworms on N cycling in corn agroecosystems were substantial, and that N flux through earthworms was influenced significantly by fertilizer amendments. Received: 20 September 1999 / Accepted: 24 March 2000     

Spatial and temporal patterns of aboveground net primary productivity (ANPP) along two freshwater-estuarine transects in the Florida Coastal Everglades

We present here a 4-year dataset (2001–2004) on the spatial and temporal patterns of aboveground net primary production (ANPP) by dominant primary producers (sawgrass, periphyton, mangroves, and seagrasses) along two transects in the oligotrophic Florida Everglades coastal landscape. The 17 sites of the Florida Coastal Everglades Long Term Ecological Research (FCE LTER) program are located along fresh-estuarine gradients in Shark River Slough (SRS) and Taylor River/C-111/Florida Bay (TS/Ph) basins that drain the western and southern Everglades, respectively. Within the SRS basin, sawgrass and periphyton ANPP did not differ significantly among sites but mangrove ANPP was highest at the site nearest the Gulf of Mexico. In the southern Everglades transect, there was a productivity peak in sawgrass and periphyton at the upper estuarine ecotone within Taylor River but no trends were observed in the C-111 Basin for either primary producer. Over the 4 years, average sawgrass ANPP in both basins ranged from 255 to 606 g m⁻² year⁻¹. Average periphyton productivity at SRS and TS/Ph was 17–68 g C m⁻² year⁻¹ and 342–10371 g C m⁻² year⁻¹, respectively. Mangrove productivity ranged from 340 g m⁻² year⁻¹ at Taylor River to 2208 g m⁻² year⁻¹ at the lower estuarine Shark River site. Average Thalassia testudinum productivity ranged from 91 to 396 g m⁻² year⁻¹ and was 4-fold greater at the site nearest the Gulf of Mexico than in eastern Florida Bay. There were no differences in periphyton productivity at Florida Bay. Interannual comparisons revealed no significant differences within each primary producer at either SRS or TS/Ph with the exception of sawgrass at SRS and the C−111 Basin. Future research will address difficulties in assessing and comparing ANPP of different primary producers along gradients as well as the significance of belowground production to the total productivity of this ecosystem.     

Soil carbon storage, litterfall and CO2 efflux in fertilized and unfertilized larch (Larix leptolepis) plantations

This study evaluated the effects of forest fertilization on the forest carbon (C) dynamics in a 36-year-old larch (Larix leptolepis) plantation in Korea. Above- and below-ground C storage, litterfall, root decomposition and soil CO₂ efflux rates after fertilization were measured for 2 years. Fertilizers were applied to the forest floor at rates of 112 kg N ha⁻¹ year⁻¹, 75 kg P ha⁻¹ year⁻¹ and 37 kg K ha⁻¹ year⁻¹ for 2 years (May 2002, 2003). There was no significant difference in the above-ground C storage between fertilized (41.20 Mg C ha⁻¹) and unfertilized (42.25 Mg C ha⁻¹) plots, and the C increment was similar between the fertilized (1.65 Mg C ha⁻¹ year⁻¹) and unfertilized (1.52 Mg C ha⁻¹ year⁻¹) plots. There was no significant difference in the soil C storage between the fertilized and unfertilized plots at each soil depth (0–15, 15–30 and 30–50 cm). The organic C inputs due to litterfall ranged from 1.57 Mg C ha⁻¹ year⁻¹ for fertilized to 1.68 Mg C ha⁻¹ year⁻¹ for unfertilized plots. There was no significant difference in the needle litter decomposition rates between the fertilized and unfertilized plots, while the decomposition of roots with 1–2 mm diameters increased significantly with the fertilization relative to the unfertilized plots. The mean annual soil CO₂ efflux rates for the 2 years were similar between the fertilized (0.38 g CO₂ m⁻² h⁻¹) and unfertilized (0.40 g CO₂ m⁻² h⁻¹) plots, which corresponded with the similar fluctuation in the organic carbon (litterfall, needle and root decomposition) and soil environmental parameters (soil temperature and soil water content). These results indicate that little effect on the C dynamics of the larch plantation could be attributed to the 2-year short-term fertilization trials and/or the soil fertility in the mature coniferous plantation used in this study.     

Land use/cover change and its drivers: a case in the watershed of Lake Kasumigaura, Japan

Land use/land cover (LULC) changes in the watershed (2,157 km²) of Lake Kasumigaura during 1979–1996 (Period-1: 1979–1990, Period-2: 1990–1996) were analyzed, and their socio-economic and biophysical drivers were compared using time-series, high-quality GIS datasets in order to examine the characteristics of a model forecasting the future LULC. The changes occurred over an area of more than 90 km² during the overall period at changing rates of 0.22% year⁻¹ in Period-1 and 0.25% year⁻¹ in Period-2. Forestland decreased most in both periods at changing rates of 0.45% year⁻¹ in Period-1 and 0.61% year⁻¹ in Period-2. However, predominant changing patterns differed, i.e., from forest to golf course in Period-1 and from forest to artificial field in Period-2. Particularly in Period-2, a significant LULC change was observed in an area of high population increase on the edge of an already high-population area. Relationships examined among LULC change, population, and rate of population change suggested that the urbanized area was highly resistant to LULC change, and that such change was less frequent in areas of population decline. Statistical analyses indicated that the most influential drivers for total LULC changes were population in Period-1 and distance from the Tokyo Station in Period-2. Since the change potentials differed between the periods, we could not assume a stationary process for the corresponding drivers. Somewhat low S values (indices for demonstrability) show that LULC changes in the watershed of Lake Kasumigaura occurred rather randomly, probably resulting in fragmentation of the landscape.     

Nutrient transfer by leaf litterfall during a sugar maple decline episode at Lake Clair watershed,Québec,Canada

In a declining sugar maple (SM) stand, we tested the hypothesis that an increasing relative abundance of American beech (AB) and yellow birch (YB) would improve litter quality by providing a higher proportion of litterfall richer in base cations and lower in acidity. From 1989 to 2006, SM leaf fall diminished from 59% (1,718 kg ha⁻¹ year⁻¹) to 36% (915 kg ha⁻¹ year⁻¹) of the total leaf fall biomass. Overall, the increase in AB and YB litterfall compensated for the SM decrease, resulting in constant annual leaf litterfall fluxes (2,803 kg ha⁻¹ year⁻¹) over the period studied. However, because the leaf litter for AB and YB had Ca and Mg concentrations 2–3 times higher than did SM, Ca and Mg concentrations and fluxes in leaf litterfall significantly increased between 1989 and 2006. Leaf litterfall of AB and YB also has a higher base/acid ratio than SM. Consequently, changes in forest composition following SM decline led to a clear improvement in litterfall quality in terms of base cations content and fluxes and acid–base properties.     

Diversity of culturable sulfidogenic bacteria in two oil–water separation tanks in the north-eastern oil fields of India

Sulfidogenic communities in the production waters of onshore oil fields in north-eastern India were examined using a culturing approach. Production water samples were inoculated into medium selective for Sulfate reducing bacteria (SRB) and Thiosulfate Reducing Bacteria (TRB). The total number of viable sulfidogenic microorganisms in the samples obtained from the two production water tanks was approximately 10⁵ MPN ml^?1 (most probable number per ml). Most of the isolates were thermo-tolerant and could be grown between 40 and 45 °C. Hydrogen sulfide production by TRB was significantly higher than by SRB. Based on 16S rRNA gene sequencing, the isolates were grouped in nine different phylotypes. Phylogenetic analysis indicated that most of the SRB were affiliated with the phylum Proteobacteria, encompassing Gram-negative bacteria, belonging to the genera Desulfovibrio, Desulfomicrobium, and Desulfobulbus. However, five isolates grouped with the genus Desulfotomaculum were found to be gram-positive SRB. Most of the thiosulfate reducing isolates was affiliated with the phylum Firmicutes, including Clostridium and Fusibacter and also with the phylum Proteobacteria, including the genera Enterobacter and Citrobacter. Phylotypes related to Clostridium (69%) and Desulfovibrio (53%) dominated the community in the production water samples. This study demonstrates the diversity of the TRB and SRB that play a critical role in the souring mediated corrosion of the oil–water separation tanks in the north-eastern India oil fields.     

Coarse woody debris mass and nutrients in forest ecosystems of Korea

Coarse woody debris (CWD) is an essential component of forests. However, quantification of both the mass and nutrient content of CWD within a given environment tends to be a fairly labor-intensive proposition that requires long-term studies to be conducted for viable data to be obtained. As a result, various aspects of CWD in forest ecosystems remain somewhat poorly understood. In this review, we have compiled all available estimates of CWD mass and nutrients from both coniferous and deciduous forests in Korea. The CWD mass data varied substantially by forest type, age, location, and sampling time, ranging from 1.5 to 24.5 Mg ha⁻¹, and for the amount (kg ha⁻¹) of nutrients in the CWD, ranging from 3.5 to 23.6 for nitrogen (N), 0.8 to 4.7 for phosphorus (P), 3.9 to 13.3 for potassium (K), 25.9 to 30.9 for calcium (Ca), 1.4 to 4.2 for magnesium (Mg), and 0.1 to 0.6 for sodium (Na). The mass of CWD transferred from live trees to the forest floor ranged between 0.1 and 4.9 Mg ha⁻¹ year⁻¹, and these values were roughly equivalent to 26–42% of the annual litterfall inputs (2.5–10.8 Mg ha⁻¹ year⁻¹) for mixed Quercus spp. forests within the relevant region. Annual nutrients inputs (kg ha⁻¹ year⁻¹) through CWD decomposition were 0.7–1.6 for N, 0.04–0.3 for P, 0.3–1.0 for K, 1.7–3.1 for Ca, and 0.1–0.3 for Mg. Consequently, these results revealed that the ecological value of CWD for C and nutrient cycling was relatively insignificant. However, only a limited number of studies have been conducted on CWD in different coniferous or mixed deciduous forests in the region. As a direct result of this paucity of data, further long-term studies on CWD mass and nutrients in a variety of forest types are required in order to be able to evaluate accurately the ecological value of CWD on biodiversity and physical properties in Korean forest ecosystems.     

Prokaryotic diversity in sediments beneath two polar glaciers with contrasting organic carbon substrates

Microbial ecosystems beneath glaciers and ice sheets are thought to play an active role in regional and global carbon cycling. Subglacial sediments are assumed to be largely anoxic, and thus various pathways of organic carbon metabolism may occur here. We examine the abundance and diversity of prokaryotes in sediment beneath two glaciers (Lower Wright Glacier in Antarctica and Russell Glacier in Greenland) with different glaciation histories and thus with different organic carbon substrates. The total microbial abundance in the Lower Wright Glacier sediment, originating from young lacustrine sediment, was an order of magnitude higher (~8 × 10⁶ cells per gram of wet sediment) than in Russell Glacier sediment (~9 × 10⁵ cells g⁻¹) that is of Holocene-aged soil origin. 4% of the microbes from the Russell Glacier sediment and 0.04–0.35% from Lower Wright Glacier were culturable at 10°C. The Lower Wright Glacier subglacial community was dominated by Proteobacteria, followed by Firmicutes. The Russell Glacier library was much less diverse and also dominated by Proteobacteria. Low numbers and diversity of both Euryarchaeota and Crenarchaeota were found in both sediments. The identified clones were related to bacteria with both aerobic and anaerobic metabolisms, indicating the presence of both oxic and anoxic conditions in the sediments.     

Spatial variation in sea urchins, fish predators, and bioerosion rates on coral reefs of Belize

Although sea urchins are critical for controlling macroalgae on heavily fished coral reefs, high densities threaten reefs, as urchins are also prodigous bioeroders. This study examined urchin population characteristics, bioerosion rates, their fish predators (Labridae), and potential competitors (Scaridae) on unprotected reefs and a reef within a marine protected area (MPA) in the lagoonal regions off Belize. Urchin density (<1 m⁻²) and bioerosion rates (∼0.2 kg CaCO₃ m⁻² year⁻¹) were lowest and members of the Labridae were the highest (∼20 fish 200 m⁻³) within the MPA, while several unprotected reefs had higher (∼18–40 m⁻²) urchin densities, lower Labridae abundances (1–3 fish 200 m⁻³), and bioerosion rates ranging from ∼0.3–2.6 kg CaCO₃ m⁻² year⁻¹. Urchin abundances were inversely related to Labridae (wrasses and hogfish) densities; however, on reef ridges, low algal cover (∼15%), small urchin size (∼14 mm), and low proportion of organic material in urchin guts suggested food limitation. Both top–down (predation) and bottom–up factors (food limitation) likely contribute to the control of urchins, predominantly Echinometra viridis, off Belize, thereby potentially diminishing the negative impacts of bioerosion activities by urchins.     

Plant regeneration through somatic embryogenesis and rapd analysis of regenerated plants in Tylophora indica (Burm. F. Merrill.)

Summary A procedure for the regeneration of complete plantlets of Tylophora indica from cultured leaf callus via somatic embryogenesis is described. Callus induction from leaf explants was on Murashige and Skoog (MS) medium with different concentrations of 2,4-dichlorophenoxyacetic acid (2.4-D; 0.03–3 mg l⁻¹; 0.0–13.56 μM) and kinetin (Kn; 0.01 mg l⁻¹; 0.05 μM). The best response for callus induction was obtained on MS medium containing 2 mg l⁻¹ (9.04 μM) 2.4-D and 0.01 mg l⁻¹ (0.05 μM) Kn. After two subeultures on the same medium the embryogenic callus was transferred to MS medium with different concentrations of the cytokinin, 6-benzyladenine (0.5–3 mg l⁻¹; 2.22–13.32 μM) and 2-isopentenyladenine (2ip; 0.53 mg l⁻¹; 2.46–14.76 μM) along with 0.01 mg l⁻¹ (0.05 μM) indole-3-butyric acid (IBA) for somatic embryo development and maturation. MS medium with 2 mg l⁻¹ (9.84 μM) 2ip produced the maximum number of mature somatic embryos. The mature embryos were bipolar and on transfer to MS basal medium produced complete plantlets. After hardening the regenerants were planted in the Gudalur forests of Western Ghats. Total DNA was extracted from 14 regenerants and the mother plant. Random amplified polymorphic, DNA (RAPD) analysis was carried out using 20 arbitrary oligonucleotides. The amplification products were monomorphic among all the plants revealing the genetic homogeneity and true-to-type nature of the regenerants.     

A reliable protocol for plant regeneration from callus culture of <Emphasis Type="Italic">Phalaenopsis</Emphasis>

Summary Callus of Phalaenopsis Nebula was induced from seed-derived protocorms on 1/2 Murashige and Skoog (MS) basal medium plus 0–1.0 mg l⁻¹ (0–4.52 μM) N-phenyl-N′-1,2,3,-thiadiazol-5-yl urea (TDZ) and/or 0–10 mg l⁻¹ (0–45.24 μ M) 2,4-dichlorophenoxyacetic acid (2,4-D). Protocorms 2 mo. old performed better than 1-mo.-old protocorms for callus induction. More calluses formed on 1/2 MS basal medium supplemented with 0.1–1.0 mg l⁻¹ (0.45–4.52 μM) TDZ. These calluses could be maintained by subculturing every month with basal medium supplemented with 0.5 mg l⁻¹ (2.27 μM) TDZ and 0.5 mg l⁻¹ (2.26 μM) 2,4-D. Protocorm-like bodies were formed, and plants regenerated from these calluses on 1/2 MS basal medium alone or supplemented with 0.1–1.0 mg l⁻¹ (0.45–4.52 μM) TDZ. Plantlets were then potted on sphagnum moss in the greenhouse and grew well. No chromosomal abnormalities were found among the root-tip samples of 21 of the regenerated plantlets that were successfully acclimatized.     

Photosynthetic property and primary production of phytoplankton in sublittoral sand bank area in the Seto Inland Sea,Japan

We investigated the photosynthesis–light intensity (P–I) relationships of phytoplankton collected from a sublittoral sand bank in the Seto Inland Sea, Japan, under different temperature conditions. In spite of low chlorophyll a concentration (<3 mg m⁻³), phytoplankton had considerably high photosynthetic potential (>10 mg C (mg chl a)⁻¹ h⁻¹) in the study area. Based on the P–I relationships, we conducted numerical simulation of areal primary production using published data on water temperature, chlorophyll a concentration, and irradiance. The areal primary production ranged between 159 and 187 g C m⁻² year⁻¹. This production was within the range of typical values reported previously in deeper areas of the Seto Inland Sea. The productivity in the sand bank area was discussed in relation to water current, allochthonous resource input, and fisheries.     

Analysis of bacterial community structure in bulk soil by in situ hybridization

In situ hybridization with rRNA-targeted, fluorescent (Cy3-labeled) oligonucleotide probes was used to analyze bacterial community structure in ethanol- or paraformaldehyde-fixed bulk soil after homogenization of soil samples in 0.1% pyrophosphate by mild ultrasonic treatment. In ethanol-fixed samples 37 ± 7%, and in paraformaldehyde 41 ± 8% of the 4′, 6-diamidino-2-phenylindole(DAPI)-stained cells were detected with the bacterial probe Eub338. The yield could not be increased by enzymatic and/or chemical pretreatments known to enhance the permeability of bacterial cells for probes. However, during storage in ethanol for 7 months, the detectability of bacteria increased in both ethanol- and paraformaldehyde-fixed samples to up to 47 ± 8% due to an increase in the detection yield of members of the α-subdivision of Proteobacteria from 2 ± 1% to 10 ± 3%. Approximately half of the bacteria detected by probe Eub338 could be affiliated to major phylogenetic groups such as the α-, β-, γ-, and δ-subdivisions of Proteobacteria, gram-positive bacteria with a high G+C DNA content, bacteria of the Cytophaga-Flavobacterium cluster of the CFB phylum, and the planctomycetes. The analysis revealed that bacteria of the α- and δ-subdivision of Proteobacteria and the planctomycetes were predominant. Here, members of the α-subdivision of Proteobacteria accounted for approximately 10 ± 3% of DAPI-stained cells, which corresponded to 44 ± 16 × 10⁸ cells (g soil, dry wt.)^–1, while members of the δ-subdivision of Proteobacteria made up 4 ± 2% of DAPI-stained cells [17 ± 9 × 10⁸ cells (g soil, dry wt.)^–1]. A large population of bacteria in bulk soil was represented by the planctomycetes, which accounted for 7 ± 3% of DAPI-stained cells [32 ± 12 × 10⁸ cells (g soil, dry wt.)^–1]. The detection of planctomycetes in soil confirms previous reports on the occurrence of planctomycetes in soil and indicates a yet unknown ecological significance of this group, which to date has never been isolated from terrestrial environments. Received: 29 March 1997 / Accepted: 28 May 1997     

Biogeochemistry of inter-reef sediments on the northern and central Great Barrier Reef

The deposition and cycling of carbon and nitrogen in carbonate sediments located between coral reefs on the northern and central sections of the Great Barrier Reef were examined. Rates of mass sediment accumulation ranged from 1.9 kg m⁻² year⁻¹ (inshore reefs) to 2.1–4.9 kg m⁻² year⁻¹ (between mid-shelf reefs); sedimentation was minimal off outer-shelf reefs. Rates of total organic carbon decomposition ranged from 1.7 to 11.4 mol C m⁻² year⁻¹ and total nitrogen mineralization ranged from 77 to 438 mmol N m⁻² year⁻¹, declining significantly with distance from land. Sediment organic matter was highly reactive, with mineralization efficiencies ranging from 81 to 99% for organic carbon and 64–100% for nitrogen, with little C and N burial. There was no evidence of carbonate dissolution/precipitation in short-term incubation experiments. Rates of sulfate reduction (range 0–3.4 mmol S m⁻² day⁻¹) and methane release (range 0–12.8 μmol CH₄ m⁻² day⁻¹) were minor or modest pathways of carbon decomposition. Aerobic respiration, estimated by difference between total O₂ consumption and the sum of the other pathways, accounted for 55–98% of total carbon mineralization. Rates of ammonification ranged from 150 to 1,725 μmol NH₄ m⁻² day⁻¹, sufficient to support high rates of denitrification (range 30–2,235 μmol N₂ m⁻² day⁻¹). N₂O release was not detected and rates of NH₄ ⁺ and NO₂ ⁻ + NO₃ ⁻ efflux were low, indicating that most mineralized N was denitrified. The percentage of total N input removed via denitrification averaged ≈75% (range 28–100%) with little regenerated N available for primary producers. Inter-reef environments are therefore significant sites of energy and nutrient flow, especially in spatially complex reef matrices such as the Great Barrier Reef.     

Cultivable Bacterial Diversity of Alkaline Lonar Lake, India

Aerobic, alkaliphilic bacteria were isolated and characterized from water and sediment samples collected in the winter season, January 2002 from alkaline Lonar lake, India, having pH 10.5. The total number of microorganisms in the sediment and water samples was found to be 10²–10⁶ cfu g⁻¹ and 10²–10⁴ cfu ml⁻¹, respectively. One hundred and ninety-six strains were isolated using different enrichment media. To study the bacterial diversity of Lonar lake and to select the bacterial strains for further characterization, screening was done on the basis of pH and salt tolerance of the isolates. Sixty-four isolates were subjected to phenotypic, biochemical characterization and 16S rRNA sequencing. Out of 64, 31 bacterial isolates were selected on the basis of their enzyme profile and further subjected to phylogenetic analysis. Phylogenetic analysis indicated that most of the Lonar lake isolates were related to the phylum Firmicutes, containing Low G+C, Gram-positive bacteria, with different genera: Bacillus, Paenibacillus, Alkalibacillus, Exiguobacterium, Planococcus, Enterococcus and Vagococcus. Seven strains constituted a Gram-negative bacterial group, with different genera: Halomonas, Stenotrophomonas and Providencia affiliated to γ-Proteobacteria, Alcaligenes to β-Proteobacteria and Paracoccus to α-Proteobacteria. Only five isolates were High G+C, Gram-positive bacteria associated with phylum Actinobacteria, with various genera: Cellulosimicrobium, Dietzia, Arthrobacter and Micrococcus. Despite the alkaline pH of the Lonar lake, most of the strains were alkalitolerant and only two strains were obligate alkaliphilic. Most of the isolates produced biotechnologically important enzymes at alkaline pH, while only two isolates (ARI 351 and ARI 341) showed the presence of polyhydroxyalkcanoate (PHA) and exopolysaccharide (EPS), respectively.     

Long-term effects of continuous direct seeding mulch-based cropping systems on soil nitrogen supply in the Cerrado region of Brazil

In the Cerrado region of Brazil conventional soybean monoculture is since the 1980s being replaced by direct seeding mulch-based cropping (DMC) with two crops per year and absence of tillage practices. The objective of this study was to assess the long-term impact of DMC on soil organic matter accumulation and nitrogen (N) mineralization. Measurements of soil organic carbon (C) content, soil total N content and soil N mineralization, both under laboratory conditions using disturbed soil samples and under field conditions using intact soil cores were conducted on a chronosequence of 2-, 6-, 9- and 14-year-old DMC fields (DMC-2, DMC-6, DMC-9 and DMC-14, respectively). The average increase of organic C in the 0–30 cm topsoil layer under DMC was 1.91 Mg C ha⁻¹ year⁻¹. Soil total N increased with 103 kg N ha⁻¹ year⁻¹ (0–30 cm). The potential N mineralization rate under laboratory conditions (28°C, 75% of soil moisture at field capacity) was 0.27, 0.28, 0.39 and 0.36 mg N kg soil⁻¹ day⁻¹ for, respectively, the DMC-2, DMC-6, DMC-9 and DMC-14 soils. The corresponding specific N mineralization rates were 0.16, 0.15, 0.22 and 0.17 mg N g N⁻¹ day⁻¹. There was no obvious explanation for the higher specific N mineralization rate of soils under DMC-9, given the similar soil conditions and land-use history before DMC was introduced. Results from the in situ N incubation experiments were in good agreement with those from the laboratory incubations. We estimated that soil N mineralization increases with about 2.0 kg N ha⁻¹ year⁻¹ under DMC. The increase was mainly attributed to the larger soil total N content. These results indicate that even in the medium term (10 years), continuous DMC cropping has limited implications for N fertilization recommendations, since the extra soil N supply represents less than 20% of the common N fertilization dose for maize in the region.