Bacterial Growth in Brines Formed by the Deliquescence of Salts Relevant to Cold Arid Worlds

Hygroscopic salts at Mars' near-surface (MgSO₄, (per)chlorates, NaCl) may form brines by absorbing moisture from the atmosphere at certain times through the process of deliquescence. We have previously shown strong bacterial growth in saturated MgSO₄ (∼67% w/v as epsomite) at room temperature, and growth was observed at the MgSO₄ eutectic point (43% w/v at -4°C). Here, we have investigated the growth of salinotolerant microbes (Halomonas, Marinococcus, Planococcus) from Hot Lake, Washington; Basque Lake, British Columbia; and Great Salt Plains, Oklahoma under deliquescing conditions. Bacterial cultures were grown to mid-log phase in SP medium supplemented with 50% MgSO₄ (as epsomite), 20% NaClO₃, or 10% NaCl (w/v), and small aliquots in cups were dried by vacuum desiccation. When the dried culture was rehydrated by the manual addition of water, the culture resumed growth in the reconstituted brine. When desiccated cultures were maintained in a sealed container with a brine reservoir of the matching growth medium controlling the humidity of the headspace, the desiccated microbial culture evaporites formed brine by deliquescence using humidity alone. Bacterial cultures resumed growth in all three salts once rehydrated by deliquescence. Cultures of Halomonas sp. str. HL12 showed robust survival and growth when subjected to several cycles of desiccation and deliquescent or manual rehydration. Our laboratory demonstrations of microbial growth in deliquescent brines are relevant to the surface and near-subsurface of cold arid worlds like Mars. When conditions become wetter, hygroscopic evaporite minerals can deliquesce to produce the earliest habitable brines. Survival after desiccation and growth in deliquescent brines increases the likelihood that microbes from Earth, carried on spacecraft, pose a contamination risk to Mars.

Effects of Nitrogen and Phosphorus Limitation on Lipid Accumulation by Chlorella kessleri str. UTEX 263 Grown in Darkness

Growing algae in darkness for biodiesel production eliminates the challenges of evaporation and light penetration reported for open ponds and the costs and fouling that plague photobioreactors. The current study demonstrated that Chlorella kessleri str. UTEX 263 could grow heterotrophically in the dark on pure sugars or lignocellulosic hydrolysates of plant biomass. Hydrolysates of a prairie grass native to Kansas, Big bluestem (Andropogon gerardii), supported the growth of C. kessleri in the dark. Nitrogen limitation stimulated the accumulation of biodiesel lipids by 10-fold in heterotrophic cultures grown on pure sugars or Big bluestem hydrolysate. Limiting P in the growth medium also was shown to increase cellular lipid accumulation in C. kessleri. Iron limitation was not sufficient to increase cellular lipid content. Crude biomass extracts may have levels of N that can't be easily removed, which are high enough to relieve N limitations in growth media. This initial study suggests that P might be more easily removed from biomass extracts than N for increasing cellular lipid production by nutrient limitation and further that native prairie grasses are potentially suitable as sources of lignocellulosic sugars.

Bacterial Growth in Saturated and Eutectic Solutions of Magnesium Sulphate and Potassium Chlorate with Relevance to Mars and the Ocean Worlds

Liquid water on Mars might be created by deliquescence of hygroscopic salts or by permafrost melts, both potentially forming saturated brines. Freezing point depression allows these heavy brines to remain liquid in the near-surface environment for extended periods, perhaps as eutectic solutions, at the lowest temperatures and highest salt concentrations where ices and precipitates do not form. Perchlorate and chlorate salts and iron sulfate form brines with low eutectic temperatures and may persist under Mars near-surface conditions, but are chemically harsh at high concentrations and were expected to be incompatible with life, while brines of common sulfate salts on Mars may be more suitable for microbial growth. Microbial growth in saturated brines also may be relevant beyond Mars, to the oceans of Ceres, Enceladus, Europa and Pluto. We have previously shown strong growth of salinotolerant bacteria in media containing 2 M MgSO₄ heptahydrate (~50% w/v) at 25 °C. Here we extend those observations to bacterial isolates from Basque Lake, BC and Hot Lake, WA, that grow well in saturated MgSO₄ medium (67%) at 25 °C and in 50% MgSO₄ medium at 4 °C (56% would be saturated). Psychrotolerant, salinotolerant microbes isolated from Basque Lake soils included Halomonas and Marinococcus, which were identified by 16S rRNA gene sequencing and characterized phenetically. Eutectic liquid medium constituted by 43% MgSO₄ at -4 °C supported copious growth of these psychrotolerant Halomonas isolates, among others. Bacterial isolates also grew well at the eutectic for K chlorate (3% at -3 °C). Survival and growth in eutectic solutions increases the possibility that microbes contaminating spacecraft pose a contamination risk to Mars. The cold brines of sulfate and (per)chlorate salts that may form at times on Mars through deliquescence or permafrost melt have now been demonstrated to be suitable microbial habitats, should appropriate nutrients be available and dormant cells become vegetative.

Cultivation and characterization of the bacterial assemblage of epsomic Basque Lake, BC

Athalassohaline waters that are rich in divalent ions are good analogues for the chemical environments of Mars and the ocean worlds. Sulfate salts, along with chlorides, are important in Mars regolith with Ca, Fe, Mg, and Na counterions. Certain lakes in the Pacific Northwest are saturated with MgSO4 as epsomite. Here we report on the microbial community of Basque Lake, BC, a group of playas that is saturated with MgSO4. More than 60 bacterial isolates were obtained from Basque Lake soils by enrichment culture and repetitive streak-plating using media containing 10% (~ 1.7 M) NaCl or 50% (~ 2 M) MgSO4. Most of the isolates (~ 75%) were Gram-positive, motile, and produced endospores. Isolates related to Marinococcus halophilus and Virgibacillus marismortui dominated the collection. Halomonas and Salinivibrio were Gram-negative genera found at Basque Lake. Nearly all of the Basque Lake isolates grew at 50% MgSO4, with 65% growing at 60% MgSO4. Several isolates could grow in saturated (67%) MgSO4 (aw = 0.90). All of the isolates grew at 10% NaCl with 70% growing at 20% salinity (~ 3.5 M NaCl; aw = 0.82). Basque Lake isolates grew better at basic pH than acidic pH, with 80% growing at pH 9 and 30% growing at pH 10. Only 20% of the isolates grew at pH 5. Numerical taxonomy dendrograms based on 44 phenetic characteristics showed a strong correspondence to phylogenetic trees constructed from 16S rRNA gene sequences. Pyrosequencing of 16S rRNA gene sequences from direct DNA extracts of Basque Lake soils recovered predominantly Proteobacteria (60%), Firmicutes (11%), and unclassified bacteria (27%). Microbes capable of growth under the extreme chemical conditions of Mars are a particular concern for forward planetary protection should they contaminate a spacecraft.

Nitrogen-fixation activity and the abundance and taxonomy of nifH genes in agricultural, pristine, and urban prairie stream sediments chronically exposed to different levels of nitrogen loading

Small streams exert great influences on the retention and attenuation of nitrogen (N) within stream networks. Human land use can lead to increased transport of dissolved inorganic N compounds and downstream eutrophication. Microbial activity in streams is important for maintaining an actively functioning N cycle. Chronically high N loading in streams affects the rates of the central processes of the N cycle by increasing rates of nitrification and denitrification, with biota exhibiting decreased efficiency of N use. The LINXII project measured N-cycle parameters in small streams using 15NO3- tracer release experiments. We concurrently measured N2 fixation rates in six streams of three types (agricultural, pristine, and urban prairie streams) as part of this broader study of major N-cycle processes. Nitrogen fixation in streams was significantly negatively correlated with nitrate levels, dissolved inorganic N levels, and denitrification rates. Algal mat and leaf litter samples generally exhibited the highest rates of N2 fixation. The abundance of nifH genes, as measured by real-time PCR, was marginally correlated with N2-fixation rates, but not to other N-cycle processes or stream characteristics. The nifH sequences observed were assigned to cyanobacteria, Deltaproteobacteria, Methylococcus, and Rhizobia. Seasonal changes, disturbances, and varying inputs may encourage a diverse, flexible, stable N2-fixing guild. Patchiness in the streams should be considered when assessing the overall impact of N2 fixation, since algal biomass exhibited high rates of N2 fixation.

Prevalence of sucretolerant bacteria in common soils and their isolation and characterization

Sucretolerant microbes grow in the presence of sugar concentrations high enough to substantially lower water activities. Natural habitats high in sugars are mainly limited to dried fruit, floral nectar, honey, sugarcane, and associated soils. Organisms that tolerate extremes of solute concentration, high enough to lower water activities, might not be expected in common oligoosmotic soils. We report on the isolation of sucretolerant bacteria from common soils using media supplemented with 50% sucrose (a w 0.91) and their physiological characterization and identification by 16S rRNA gene phylogeny. Fifteen of these sucretolerant isolates from common soils were related to four Bacillus spp. A Lysinibacillus and a Microbacterium (actinomycete) also were collected. All grew at 50% sucrose and 13 grew at 60% sucrose. Most probable number counts were used to determine the abundance of sucretolerant microbes in several common soil types, including agricultural, managed turf, and native prairie. Microbial abundance (with fungicides) was about 105 and 103 cells g-1 soil in media containing 50 or 70% sucrose, respectively. The abundances of sucretolerant bacteria in common soils mirror those of halotolerant bacteria that grow at 10 and 20% NaCl. However, there is not a correlation between halotolerance and sucretolerance in our isolates, nor can predictions be made based on taxonomy. Specific solute effects may be at work, rather than biological responses to a single physicochemical parameter such as a w. The occurrence of spore-forming sucretolerant bacteria in common soils has relevance to forward planetary protection and astrobiology. Extraterrestrial habitable regions are defined in part by tolerance to high solute concentrations and osmotolerant soil microbes may contaminate spacecraft.

Molecular and Phenetic Characterization of the Bacterial Assemblage of Hot Lake, WA, an Environment with High Concentrations of Magnesium Sulfate, and Its Relevance to Mars

Hot Lake (Oroville, WA) is an athalassohaline epsomite lake that can have precipitating concentrations of MgSO4 salts, mainly epsomite. Little biotic study has been done on epsomite lakes and it was unclear whether microbes isolated from epsomite lakes and their margins would fall within recognized halotolerant genera, common soil genera, or novel phyla. Our initial study cultivated and characterized epsotolerant bacteria from the lake and its margins. Approximately 100 aerobic heterotrophic microbial isolates were obtained by repetitive streak-plating in high-salt media including either 10% NaCl or 2 M MgSO4. The collected isolates were all bacteria, nearly evenly divided between Gram-positive and Gram-negative clades, the most abundant genera being Halomonas, Idiomarina, Marinobacter, Marinococcus, Nesterenkonia, Nocardiopsis, and Planococcus. Bacillus, Corynebacterium, Exiguobacterium, Kocuria, and Staphylococcus also were cultured. This initial study included culture-independent community analysis of direct DNA extracts of lake margin soil using PCR-based clone libraries and 16S rRNA gene phylogeny. Clones assigned Gram-positive bacterial clades (70% of total clones) were dominated by sequences related to uncultured actinobacteria. There were abundant Deltaproteobacteria clones related to bacterial sulfur metabolisms and clones of Legionella and Coxiella. These epsomite lake microbial communities seem to be divided between bacteria primarily associated with hyperhaline environments rich in NaCl and salinotolerant relatives of common soil organisms. Archaea appear to be in low abundance and none were isolated, despite near-saturated salinities. Growth of microbes at very high concentrations of magnesium and other sulfates has relevance to planetary protection and life-detection missions to Mars, where scant liquid water may form as deliquescent brines and appear as eutectic liquids.

Isolation and Characterization of Halotolerant Soil Fungi from the Great Salt Plains of Oklahoma

The Great Salt Plains (GSP) of Oklahoma is an inland terrestrial hypersaline environment where saturated brines leave evaporite crusts of NaCl. The current report examines the fungal community, complementing earlier reports on the bacterial and archaeal communities. Twenty-five fungal isolates from GSP soils were obtained on medium containing 10% NaCl and characterized. Based on 18S rRNA gene sequence analysis, all of the isolates fall within the Ascomycetes, with a predominance of Trichocomaceae, represented by Aspergillus, Eurotium, and Penicillium species. Representatives of Anthrinium, Cladosporium, Debaryomyces, Fusarium, and Ulocladium also were isolated. Overall the isolates were widely halotolerant, with best growth observed at lower salinities and no halophilism. The fungal genera observed were all cosmopolitan, without strong specialization. Taken together, these results support the conclusion that hypersaline environments do not have a characteristic community, in contrast to what was observed at the GSP for bacteria and archaea.

Comparative molecular analysis of the prokaryotic diversity of two salt mine soils in southwest China

While much is known about the microbial diversity in some hypersaline environments, little is known about those of salt mine tunnel soils. The objective of this study was to conduct a comprehensive phylogenetic comparison of the archaeal and bacterial communities present in Yipinglang salt mine (YPL) and Qiaohou salt mine (QH) tunnels differing in salinity and salt composition using 16S rRNA gene clone libraries. Two hundred twenty-eight sequences for QH and 182 sequences for YPL were analyzed by amplified ribosomal DNA-restriction analysis. Libraries revealed 44 bacterial and 57 archaeal different operational taxonomic units belonging to at least 8 bacterial and 3 archaeal divisions, but not all divisions were observed in both salt mines. The bacterial community affiliated with the Bacteroidetes was the most abundant (60% of clones) in QH, while the community in YPL was dominated by δ-Proteobacteria (45% of clones). All archaeal clones from QH were affiliated with Halobacteriaceae. In contrast, in the YPL library, 49% of clones belonged to Halobacteriaceae, 31% of clones related to unclassified archaea, and 21% of clones belonged to Crenarchaeota. Bioinformatic analysis and comparisons showed that the clone libraries were significantly different between two salt mines.

Colorimetric microbial diversity analysis and halotolerance along a soil salinity gradient at the Great Salt Plains of Oklahoma

Microbial diversity was measured along a salinity gradient at the Great Salt Plains of Oklahoma using colony color quantified as RGB components of microbial isolate streaks. Numerical taxonomy was performed using a UPGMA method to create trees of relatedness, define OTUs, and calculate diversity indices. Surface soil samples along a 6-m salinity gradient (from hypersaline soil with 7.5% salinity to oligohaline rangeland soil) at WP68 were dilution-plated on SP medium of various salinities and hundreds of random colonies were collected. The salinity tolerance of isolates along the gradient was determined. From the 1364 colonies examined, 338 OTUs were defined by colony color and their distribution statistically analyzed by soil type and the salinity of enrichment media. Most colonies were shades of cream that became distinguishable based on RGB color components. Diversity indices were high overall and it is likely that the OTUs defined by colony color are below the species level, at the strain level, where the greatest diversity lies in this environment. These results are complementary to previous molecular genetic analyses of 16S rRNA clone libraries from soils at the Great Salt Plains. Great diversity at lower taxonomic levels supports the suggestion that gene flow is not highly fragmented, a result of less specialization, as expected given the highly variable salinity observed at the salt flats with rain events.

Inexpensive and safe DNA gel electrophoresis using household materials

Gel electrophoresis is the single most important molecular biology technique and it is central to life sciences research, but it is often too expensive for the secondary science classroom or homeschoolers. A simple safe low-cost procedure is described here that uses household materials to construct and run DNA gel electrophoresis. Plastic containers are fitted with aluminum foil electrodes and 9-V batteries to run food-grade agar-agar gels using aquarium pH buffers and then stained with gentian violet. This activity was tested in a high school biology classroom with significantly positive responses on postactivity reflective surveys. The electrophoresis activity addresses several Life Science Content Standard C criteria, including aspects of cell biology, genetics, and evolution. It also can be used to teach aspects of motion and force in the physical science classroom.

Culture-independent analysis of the soil bacterial assemblage at the Great Salt Plains of Oklahoma

The Great Salt Plains (GSP) of Oklahoma is a natural inland terrestrial hypersaline environment that forms evaporite crusts of mainly NaCl. Previous work described GSP bacterial assemblages through the phylogenetic and phenetic characterization of 105 isolates from 46 phylotypes. The current report describes the same bacterial assemblages through culture-independent 16S rRNA gene clone libraries. Although from similar hypersaline mud flats, the bacterial libraries from two sites, WP3 and WP6, were quite different. The WP3 library was dominated by cyanobacteria, mainly Cyanothece and Euhalothece. The WP6 library was rich in anaerobic sulfur-cycle organisms, including abundant Desulfuromonas. This pattern likely reflects differences in abiotic factors, such as frequency of flooding and hydrologic push. While more than 100 OTUs were identified, the assemblages were not as diverse, based on Shannon indexes, as bacterial communities from oligohaline soils. Since natural inland hypersaline soils are relatively unstudied, it was not clear what kind of bacteria would be present. The bacterial assemblage is predominantly genera typically found in hypersaline systems, although some were relatives of microbes common in oligohaline and marine environments. The bacterial clones did not reflect wide functional diversity, beyond phototrophs, sulfur metabolizers, and numerous heterotrophs.

Archaeal diversity at the great salt plains of Oklahoma described by cultivation and molecular analyses

The Great Salt Plains of Oklahoma is a natural inland terrestrial hypersaline environment that forms evaporite crusts of mainly NaCl. Previous work described the bacterial community through the characterization of 105 isolates from 46 phylotypes. The current report describes the archaeal community through both microbial isolation and culture-independent techniques. Nineteen distinct archaea were isolated, and ten were characterized phenetically. Included were isolates phylogenetically related to Haloarcula, Haloferax, Halorubrum, Haloterrigena, and Natrinema. The isolates were aerobic, non-motile, Gram-negative organisms and exhibited little capacity for fermentation. All of the isolates were halophilic, with most requiring at least 15% salinity for growth, and all grew at 30% salinity. The isolates were mainly mesothermic and could grow at alkaline pH (8.5). A 16S rRNA gene library was generated by polymerase chain reaction amplification of direct soil DNA extracts, and 200 clones were sequenced and analyzed. At 99% and 94% sequence identity, 36 and 19 operational taxonomic units (OTUs) were detected, respectively, while 53 and 22 OTUs were estimated by Chao1, respectively. Coverage was relatively high (100% and 59% at 89% and 99% sequence identity, respectively), and the Shannon Index was 3.01 at 99% sequence identity, comparable to or somewhat lower than hypersaline habitats previously studied. Only sequences from Euryarchaeota in the Halobacteriales were detected, and the strength of matches to known sequences was generally low, most near 90% sequence identity. Large clusters were observed that are related to Haloarcula and Halorubrum. More than two-thirds of the sequences were in clusters that did not have close relatives reported in public databases.

West Nile virus antibodies in permanent resident and overwintering migrant birds in south-central Kansas

We conducted serological studies, using epitope-blocking ELISAs directed at West Nile virus (WNV) and flavivirus antibodies, of wild birds in south-central Kansas, the first for this state, in the winters of 2003-04 through 2005-06. Overwintering migratory species (primarily the American tree sparrow and dark-eyed junco) consistently showed significantly lower seropositivity than permanent residents (primarily the northern cardinal). The cardinal showed annual variation in seropositivity between winters. Of 35 birds that were serial sampled within a single winter, one cardinal may have seroconverted between late December and mid-February, providing a preliminary suggestion of continued enzootic transmission, chronic infection, or bird-bird transfer as overwintering mechanisms. Breeding population size of the cardinal did not change after the introduction of WNV to Kansas. Of eighteen birds that were serial sampled between winters, none seroconverted. Among overwintering migrants, the Harris' Sparrow showed the highest seropositivity, possibly related to its migration route through the central Great Plains, an area of recent high WNV activity. The finding that permanent resident birds exhibit higher seropositivity than migrant birds suggests that resident birds contribute to the initiation of annual infection cycles,although this conclusion is speculative in the absence of data on viral titers and the length of viremia.

KEYWORDS

West Nile Virus-flavivirus-birds-epitope-blocking ELISA-winter.

Carbon substrate utilization, antibiotic sensitivity, and numerical taxonomy of bacterial isolates from the Great Salt Plains of Oklahoma

The current work extends the phenotypic characterization of a bacterial culture collection from the Great Salt Plains of Oklahoma. This barren expanse of mud flats is typically crusted with thalassohaline salt evaporites. The initial account of the aerobic heterotrophic bacteria from the Great Salt Plains described 105 halotolerant isolates that represented 47 phylotypes. Extensive phenotypic analyses were performed on 76 isolates representing 37 unique phylotypes. The current report extends these observations for 60 of the isolates by measuring a wider set of phenotypic characteristics. Utilization patterns for 45 carbon substrates were used to assign the isolates into seven coherent phenons, along with several singletons and a group of isolates that did not grow on single carbon substrates. Most of the isolates were able to utilize nearly all of the nitrogen sources tested, with nitrate being the least utilized. Little antibiotic resistance was seen in the collection as a whole; however, certain phenons were enriched for antibiotic-resistant organisms. A total of 81 phenotypic characteristics were used to generate dendrograms. The numerical taxonomy trees essentially agreed with those generated using 16S rRNA gene sequences. The pattern of carbon substrate utilization showed substantial changes at different salinities that may have relevance to the variable salinities microbes experience at the Salt Plains over time.

?-Aminolevulinic acid biosynthesis inUstilago maydis

A biosynthetic precursor of tetrapyrroles, delta-aminolevulinic acid (ALA), can be formed via two pathways: enzymatic condensation of glycine and succinyl-CoA by ALA synthase in animal mitochondria and some fungi, and the C5 pathway converting glutamate to ALA in plants, algae, archaea, and most bacteria. The two pathways are distinguishable using specifically radiolabeled compounds. The C1 of glutamate is lost during conversion to succinate in the TCA cycle, and the C2 of glycine is lost during conversion to acetyl-CoA on the way to glutamate. Desalted high-speed supernatants of Ustilago maydis sporidia extracts were assayed using specifically radiolabeled substrates. A significant amount of radiolabel was incorporated into ALA from 2-[14C]glycine. No radiolabel was incorporated into ALA from 1-[14C]glutamate. These results indicate that the basidiomycete yeast, Ustilago maydis, has active ALA synthase.

Elemental and redox analysis of single bacterial cells by x-ray microbeam analysis

High-energy x-ray fluorescence measurements were used to make elemental maps and qualitative chemical analyses of individual Pseudomonas fluorescens strain NCIMB 11764 cells. Marked differences between planktonic and adhered cells were seen in the morphology, elemental composition, and sensitivity to Cr(VI) of hydrated cells at spatial scales of 150 nm. This technology can be applied to natural geomicrobiological systems.

DNA-repair potential of Halomonas spp. from the Salt Plains Microbial Observatory of Oklahoma

The Great Salt Plains (GSP), an unvegetated, barren salt flat that is part of the Salt Plains National Wildlife Refuge near Cherokee, Oklahoma, is the site of the Salt Plains Microbial Observatory. At the GSP the briny remains of an ancient sea rise to the surface, evaporate under dry conditions, and leave crusts of white salt. Adaptation to this environment requires development of coping mechanisms providing tolerance to desiccating conditions due to the high salinity, extreme temperatures, alkaline pH, unrelenting exposure to solar UV radiation, and prevailing winds. Several lines of evidence suggest that the same DNA repair mechanisms that are usually associated with UV light or chemically induced DNA damage are also important in protecting microbes from desiccation. Because little is known about the DNA repair capacity of microorganisms from hypersaline terrestrial environments, we explored the DNA repair capacity of microbial isolates from the GSP. We used survival following exposure to UV light as a convenient tool to assess DNA repair capacity. Two species of Halomonas (H. salina and H. venusta) that have been isolated repeatedly from the GSP were chosen for analysis. The survival profiles were compared to those of Escherichia coli, Pseudomonas aeruginosa, and Halomonas spp. from aquatic saline environments. Survival of GSP organisms exceeded that of the freshwater organism P. aeruginosa, although they survived no better than E. coli. The GSP isolates were much more resistance to killing by UV than were the aquatic species of Halomonas reported in the literature [Martin et al. (2000) Can J Microbiol 46:180-187]. Unlike E. coli, the GSP isolates did not appear to have an inducible, error-prone repair mechanism. However, they demonstrated high levels of spontaneous mutation.

Halotolerant aerobic heterotrophic bacteria from the Great Salt Plains of Oklahoma

The Salt Plains National Wildlife Refuge (SPNWR) near Cherokee, Oklahoma, contains a barren salt flat where Permian brine rises to the surface and evaporates under dry conditions to leave a crust of white salt. Rainfall events dissolve the salt crust and create ephemeral streams and ponds. The rapidly changing salinity and high surface temperatures, salinity, and UV exposure make this an extreme environment. The Salt Plains Microbial Observatory (SPMO) examined the soil microbial community of this habitat using classic enrichment and isolation techniques and phylogenetic rDNA studies. Rich growth media have been emphasized that differ in total salt concentration and composition. Aerobic heterotrophic enrichments were performed under a variety of conditions. Heterotrophic enrichments and dilution plates have generated 105 bacterial isolates, representing 46 phylotypes. The bacterial isolates have been characterized phenotypically and subjected to rDNA sequencing and phylogenetic analyses. Fast-growing isolates obtained from enrichments with 10% salt are predominantly from the gamma subgroup of the Proteobacteria and from the low GC Gram-positive cluster. Several different areas on the salt flats have yielded a variety of isolates from the Gram-negative genera Halomonas, Idiomarina, Salinivibrio, and Bacteroidetes. Gram-positive bacteria are well represented in the culture collection including members of the Bacillus, Salibacillus, Oceanobacillus, and Halobacillus.

Direct extraction of DNA from soils for studies in microbial ecology

Molecular analyses for the study of soil microbial communities often depend on the extraction of DNA directly from soils. These extractions are by no means trivial, being complicated by humic substances that are inhibitory to PCR and restriction enzymes or being too highly colored for blot hybridization protocols. Many different published protocols exist, but none have been found to be suitable enough to be generally accepted as a standard. Most direct extraction protocols start with relatively harsh cell breakage steps such as bead-beating and freeze-thaw cycles, followed by the addition of detergents and high salt buffers and/or enzymic digestion with lysozyme and proteases. After typical organic extraction and alcohol precipitation, further purification is usually needed to remove inhibitory substances from the extract. The purification steps include size-exclusion chromatography, ion-exchange chromatography, silica gel spin columns, and cesium chloride gradients, among others. A direct DNA extraction protocol is described that has been shown to be effective in a wide variety of soil types. This protocol is experimentally compared to several published protocols.

Implications of platinum-group element accumulation along U.S. roads from catalytic-converter attrition

Automobile catalytic converters are dispersing platinum-group elements (PGEs) Rh, Pt, and Pd into the environment (1-3). This paper represents the first detailed study to assess the PGE content of soils and grasses from U.S. roadsides. These soils were analyzed using cation exchange pretreatment and ultrasonic nebulizer-ICP-MS (4). Highway and several urban sites showed Pt abundances of 64-73 ng/g immediately adjacent to the roadside, with corresponding Pd and Rh abundances of 18-31 ng/g and 3-7 ng/g, respectively. All Pt and most Pd and Rh abundances are statistically above local background soil values. Platinum, Rd, and Rh show positive correlations with traffic-related elements (Ni, Cu, Zn, and Pb) but no correlations with nontraffic-related elements (Y, Ga). Iridium and Ru show no correlations with any of these trace elements. These PGE abundances are comparable to European studies (5-7) and are approaching concentrations that would be economically viable to recover. This study also demonstrates transport of Pt statistically above background more than 50 m from the roadside. Further study is necessary to see how mobile the PGEs are in roadside environments, but these initial data indicate only Pt is taken up by plants.

Biomass byproducts for the remediation of wastewaters contaminated with toxic metals

Pollution of the environment with toxic metals is widespread and often involves large volumes of wastewater. Remediation strategies must be designed to support high throughput while keeping costs to a minimum. Biosorption is presented as an alternative to traditional physicochemical means for removing toxic metals from wastewater. We have investigated the metal binding qualities of two biomass byproducts that are commercially available in quantity and at low cost, namely "spillage", a dried yeast and plant mixture from the production of ethanol from corn, and ground corn cobs used in animal feeds. The biomass materials effectively removed toxic metals, such as Cu, Cs, Mo, Ni, Pb, and Zn, even in the presence of competing metals likely to be found in sulfide mine tailing ponds. The effectiveness of these biosorbents was demonstrated using samples from the Berkeley Pit in Montana. Investigations included column chromatography and slurry systems, and linear distribution coefficients are presented. X-ray spectroscopy was used to identify the binding sites for metals adsorbed to the spillage material. The results of our experiments demonstrate that the biosorption of metals from wastewaters using biomass byproducts is a viable and cost-effective technology that should be included in process evaluations.

CELSS-3D: a broad computer model simulating a controlled ecological life support system

CELSS-3D is a dynamic, deterministic, and discrete computer simulation of a controlled ecological life support system (CELSS) focusing on biological issues. A series of linear difference equations within a graphic-based modeling environment, the IThink program, was used to describe a modular CELSS system. The overall model included submodels for crop growth chambers, food storage reservoirs, the human crew, a cyanobacterial growth chamber, a waste processor, fixed nitrogen reservoirs, and the atmospheric gases, CO, O2, and N2. The primary process variable was carbon, although oxygen and nitrogen flows were also modeled. Most of the input data used in CELSS-3D were from published sources. A separate linear optimization program, What'sBest!, was used to compare options for the crew's vegetarian diet. CELSS-3D simulations were run for the equivalent of 3 years with a 1-h time interval. Output from simulations run under nominal conditions was used to illustrate dynamic changes in the concentrations of atmospheric gases. The modular design of CELSS-3D will allow other configurations and various failure scenarios to be tested and compared.

Potential contribution of the diazotrophic cyanobacterium, Cyanothece sp. strain 51142, to a bioregenerative life support system

Long-duration manned space missions will likely require the development of bioregenerative means of life support. Such a Controlled Ecological Life Support System (CELSS) would use higher plants to provide food and a breathable atmosphere for the crew and employ a waste processing system to recover elements for recycling. The current study identifies ways in which a cyanobacterial component may enhance the sustainability of a space-deployed CELSS, including balancing CO2/O2 gas exchange, production of bioavailable N, dietary supplementation, and contingency against catastrophic failure of the higher plant crops. Relevant quantitative data have been collected about the cyanobacterium, Cyanothece sp. strain ATCC 51142, a large, aerobic, unicellular diazotroph. This organism grew rapidly (466 g dry wt. m-3 d-1) and under diverse environmental conditions, was amenable to large-scale culture, could be grown with relative energy efficiency (3.8% conversion), could actively fix atmospheric N2 (35.0 g m-3 d-1), could survive extreme environmental insults, and exhibited gas exchange properties (assimilatory quotient of 0.49) that may be useful for correcting the gas exchange ratio imbalances observed between humans and higher plants. It is suggested that a diazotrophic cyanobacterium, like Cyanothece sp. strain ATCC 51142, may be a safe, effective, and renewable complement or alternative to physicochemical backup systems in a CELSS.

Creating webservers on the Internet to advance CELSS research

Effective integration of CELSS design concepts depends on the transfer of research results from studies performed in several disciplines and at many locations to all members of the CELSS community. Some of these appear in sources outside the mainstream scientific journals and are often difficult to acquire. The Internet offers a way to make these research results more accessible. The NSCORT in Bioregenerative Life Support at Purdue University has created a webserver on the Internet that provides information about the Purdue NSCORT, the NSCORT program, and CELSS design and development. Other CELSS-related webservers are needed, and a tutorial on webserver development is presented here. The Purdue NSCORT webserver is discussed in relation to other CELSS-related Internet projects. Future applications of the Internet in promoting CELSS research also are discussed.

A role for the diazotrophic cyanobacterium, Cyanothece sp. strain ATCC 51142, in nitrogen cycling for CELSS applications

Simple calculations show that fixed nitrogen regeneration in a CELSS may not be as efficient as stowage and resupply of fixed nitrogen compounds. However, fixed nitrogen regeneration may be important for the sustainability and safety of a deployed CELSS. Cyanothece sp. strain ATCC 51142, a unicellular, aerobic, diazotrophic cyanobacterium, with high growth rates and a robust metabolism, is a reasonable candidate organism for a biological, fixed nitrogen regeneration system. In addition, Cyanothece sp. cultures may be used to balance gas exchange ratio imparities between plants and humans. The regeneration of fixed nitrogen compounds by cyanobacterial cultures was examined in the context of a broad computer model/simulation (called CELSS-3D). When cyanothece sp. cultures were used to balance gas exchange imparities, the biomass harvested could supply as much as half of the total fixed nitrogen needed for plant biomass production.

Composition of the carbohydrate granules of the cyanobacterium, Cyanothece sp. strain ATCC 51142

Cyanothece sp. strain ATCC 51142 is an aerobic, unicellular, diazotrophic cyanobacterium that temporally separates O2-sensitive N2 fixation from oxygenic photosynthesis. The energy and reducing power needed for N2 fixation appears to be generated by an active respiratory apparatus that utilizes the contents of large interthylakoidal carbohydrate granules. We report here on the carbohydrate and protein composition of the granules of Cyanothece sp. strain ATCC 51142. The carbohydrate component is a glucose homopolymer with branches every nine residues and is chemically identical to glycogen. Granule-associated protein fractions showed temporal changes in the number of proteins and their abundance during the metabolic oscillations observed under diazotrophic conditions. There also were temporal changes in the protein pattern of the granule-depleted supernatant fractions from diazotrophic cultures. None of the granule-associated proteins crossreacted with antisera directed against several glycogen-metabolizing enzymes or nitrogenase, although these proteins were tentatively identified in supernatant fractions. It is suggested that the granule-associated proteins are structural proteins required to maintain a complex granule architecture.

Evaluation of Cyanothece sp. ATCC 51142 as a candidate for inclusion in a CELSS

Controlled ecological life support systems (CELSS) have been proposed to make long-duration manned space flights more cost-effective. Higher plants will presumably provide food and a breathable atmosphere for the crew. It has been suggested that imbalances between the CO2/O2 gas exchange ratios of the heterotrophic and autotrophic components of the system will inevitably lead to an unstable system, and the loss of O2 from the atmosphere. Ratio imbalances may be corrected by including a second autotroph with an appropriate CO2/O2 gas exchange ratio. Cyanothece sp. ATCC 51142 is a large unicellular N2-fixing cyanobacterium, exhibiting high growth rates under diverse physiological conditions. A rat-feeding study showed the biomass to be edible. Furthermore, it may have a CO2/O2 gas exchange ratio that theoretically can compensate for ratio imbalances. It is suggested that Cyanothece spp. could fulfill several roles in a CELSS: supplementing atmosphere recycling, generating fixed N from the air, providing a balanced protein supplement, and protecting a CELSS in case of catastrophic crop failure.

Compositional and toxicological evaluation of the diazotrophic cyanobacterium, Cyanothece sp. strain ATCC 51142

Compositional analyses of Cyanothece sp. strain ATCC 51142 showed high protein (50-60%) and low fat (0.4-1%) content, and the ability to synthesize vitamin B12. The amino acid profile indicated that Cyanothece sp. was a balanced protein source. Fatty acids of the 18:3n-3 type were also present. Mineral analyses indicated that the cellular biomass may be a good source of Fe, Zn and Na. Caloric content was 4.5 to 5.1 kcal g dry weight-1 and the carbon content was approximately 40% on a dry weight basis. Nitrogen content was 8 to 9% on a dry weight basis and total nucleic acids were 1.3% on a dry weight basis. Short-term feeding studies in rats followed by histopathology found no toxicity or dietary incompatibility problems. The level of uric acid and allantoin in urine and tissues was low, suggesting no excess of nucleic acids, as sometimes reported in the past for a cyanobacteria-containing diet. The current work discusses the potential implications of these results for human nutrition applications.

Oscillating behavior of carbohydrate granule formation and dinitrogen fixation in the cyanobacterium Cyanothece sp. strain ATCC 51142

It has been shown that some aerobic, unicellular, diazotrophic cyanobacteria temporally separate photosynthetic O2 evolution and oxygen-sensitive N2 fixation. Cyanothece sp. ATCC strain 51142 is an aerobic, unicellular, diazotrophic cyanobacterium that fixes N2 during discrete periods of its cell cycle. When the bacteria are maintained under diurnal light-dark cycles, N2 fixation occurs in the dark. Similar cycling is observed in continuous light, implicating a circadian rhythm. Under N2-fixing conditions, large inclusion granules form between the thylakoid membranes. Maximum granulation, as observed by electron microscopy, occurs before the onset of N2 fixation, and the granules decrease in number during the period of N2 fixation. The granules can be purified from cell homogenates by differential centrifugation. Biochemical analyses of the granules indicate that these structures are primarily carbohydrate, with some protein. Further analyses of the carbohydrate have shown that it is a glucose polymer with some characteristics of glycogen. It is proposed that N2 fixation is driven by energy and reducing power stored in these inclusion granules. Cyanothece sp. strain ATCC 51142 represents an excellent experimental organism for the study of the protective mechanisms of nitrogenase, metabolic events in cyanobacteria under normal and stress conditions, the partitioning of resources between growth and storage, and biological rhythms.

Origin of the chlorophyll b formyl oxygen in Chlorella vulgaris

Chlorophyll (Chl) b is an accessory light-harvesting pigment of plants and chlorophyte algae. Chl b differs from Chl a in that the 3-methyl group on ring B of chl a is replaced by a 3-formyl group on Chl b. The present study determined the biosynthetic origin of the Chl b formyl oxygen in in vivo labeling experiments. A mutant strain of the unicellular chlorophyte Chlorella vulgaris, which can not synthesize Chls when cultured in the dark but rapidly greens when transferred to the light, was grown in the dark for several generations to deplete Chls, and then the cells were transferred to the light and allowed to form Chls in a controlled atmosphere containing 18O2. Chl a and Chl b were purified from the cells and analyzed by high-resolution mass spectroscopy. Analysis of the mass spectra indicated that over 76% of the Chl a molecules had incorporated an atom of 18O. For Chl b, 58% of the molecules had incorporated an atom of 18O at one position and 34% of the molecules had incorporated an atom of 18O at a second position. These results demonstrate that the isocyclic ring keto oxygen of both Chl a and Chl b, as well as the formyl oxygen of Chl b, is derived from O2.

The tRNA Required for in Vitro delta-Aminolevulinic Acid Formation from Glutamate in Synechocystis Extracts : Determination of Activity in a Synechocystis in Vitro Protein Synthesizing System

RNA is an essential component for the enzymic conversion of glutamate to delta-aminolevulinic acid (ALA), the universal heme and chlorophyll precursor, as carried out in plants, algae, and some bacteria. The RNA required in this process was reported to bear a close structural resemblance to tRNA(Glu(UUC)), and it can be isolated by affinity chromatography directed against the UUC anticodon. Affinity-purified tRNA(Glu(UUC)) from the cyanobacterium Synechocystis sp. PCC 6803 was resolved into two major subfractions by reverse-phase HPLC. Only one of these was effectively charged with glutamate in enzyme extract from Synechocystis, but both were charged in Chlorella vulgaris enzyme extract. When charged with glutamate, the two glutamyl-tRNA(Glu(UUC)) species produced were equally effective in supporting both ALA formation and protein synthesis in vitro, as measured by label transfer from [(3)H]glutamyl-tRNA to ALA and protein. These results indicate that one of the two tRNA(Glu(UUC)) species is used by Synechocystis for both protein biosynthesis and ALA formation. Both of the tRNA(Glu(UUC)) subfractions from Synechocystis supported ALA formation in Chlorella enzyme extract. Escherichia coli tRNA(Glu(UUC)) was charged with glutamate, but did not support ALA formation in Synechocystis enzyme extract. Unfractionated tRNA from Chlorella, pea, and E. coli, having been charged with [(3)H] glutamate by Chlorella enzyme extract and then re-isolated, were all able to transfer label to proteins in the Synechocystis enzyme extract.

Characterization of the RNA Required for Biosynthesis of delta-Aminolevulinic Acid from Glutamate : Purification by Anticodon-Based Affinity Chromatography and Determination That the UUC Glutamate Anticodon Is a General Requirement for Function in ALA Biosynthesis

The heme and chlorophyll precursor delta-aminolevulinic acid acid (ALA) is formed in plants and algae from glutamate in a process that requires at least three enzyme components plus a low molecular weight RNA which co-purifies with the tRNA fraction during DEAE-cellulose column chromatography. RNA that is effective in the in vitro ALA biosynthetic system was extracted from several plant and algal species that form ALA via this route. In all cases, the effective RNA contained the UUC glutamate anticodon, as determined by its specific retention on an affinity resin containing an affine ligand directed against this anticodon. Construction of the affinity resin was based on the fact that the UUC glutamate anticodon is complementary to the GAA phenylalanine anticodon. By covalently linking the 3' terminus of yeast tRNA(Phe(GAA)) to hydrazine-activated polyacrylamide gel beads, a resin carrying an affine ligand specific for the anticodon of tRNA(Glu(UUC)) was obtained. Column chromatography of plant and algal RNA extracts over this resin yielded a fraction that was highly enriched in the ability to stimulate ALA formation from glutamate when added to enzyme extracts of the unicellular green alga Chlorella vulgaris. Enhancement of ALA formation per A(260) unit added was as much as 50 times greater with the affinity-purified RNA than with the RNA before affinity purification. The affinity column selectively retained RNA which supported ALA formation upon chromatography of RNA extracts from species of the diverse algal groups Chlorophyta (Chlorella Vulgaris), Euglenophyta (Euglena gracilis), Rhodophyta (Cyanidium caldarium), and Cyanophyta (Synechocystis sp. PCC 6803), and a higher plant (spinach). Other glutamate-accepting tRNAs that were not retained by the affinity column were ineffective in supporting ALA formation. These results indicate that possession of the UUC glutamate anticodon is a general requirement for RNA to participate in the conversion of glutamate to ALA in plants and algae.

Biosynthesis of protoheme and heme a from glutamate in maize

The heme and chlorophyll precursor delta-aminolevulinic acid (ALA) can be formed by two biosynthetic routes: from the intact carbon skeleton of glutamate via a five-carbon pathway, which occurs in chloroplasts and bluegreen algae, and by ALA synthase-catalyzed condensation of succinyl-CoA and glycine, which occurs in bacteria and animal mitochondria. The biosynthetic route of plant mitochondrial heme a was determined by incubating terminal epicotyl sections of 8-day-old etiolated Zea mays seedlings in the dark with l-1-[(14)C]glutamate (which can be incorporated into ALA only via the five-carbon route) or 2-[(14)C]glycine (which would be incorporated via ALA synthase). Label incorporation was measured in highly purified protoheme and heme a. In 12-hour incubations, label uptake was greater than 70%. Total cellular protoheme was labeled 29.7 times more effectively by glutamate than glycine. Heme a was labeled 4.1 times more effectively by glutamate than by glycine. To assess the relative ability of the two amino acids to contribute label to the farnesyl moiety of heme a, label incorporation into total cellular nonsaponifiable lipids was measured. Glycine labeled this fraction 11.3 times more effectively than glutamate. Thus, a contribution by glycine to the farnesyl moiety may account for the small amount of label appearing in heme a. Our results indicate that in etiolated maize, noncovalently bound hemes, including mitochondrial heme a, are made mostly, and possibly entirely, from ALA synthesized via the five-carbon pathway. There is little or no contribution from ALA formed via ALA synthase, and no evidence was found for the operation of this enzyme in maize.

Amino Acid Transport in Suspension-Cultured Plant Cells : VI. Influence of pH Buffers, Calcium, and Preincubation Media on l-Leucine Uptake

The rate at which l-leucine was transported into suspension-cultured Nicotiana tabacum cv Wisconsin 38 cells increased more than 2-fold over a period of hours when the cells were preincubated in a 1% sucrose solution. This increase in uptake rate was eliminated if certain tris buffers were included in the preincubation solution while other buffers had little effect. Calcium could reverse the effect of the inhibitory buffers only if the buffer and calcium were present together from the beginning of the preincubation period. It was the amine group of the inhibitory buffers which was responsible for the inhibition. Preincubation in a complete culture medium (EM Linsmaier, F Skoog 1965 Physiol Plant 18: 100-127) led to minimal changes in l-leucine uptake rate over a 10 hour preincubation period indicating that the uptake rate was stabilized by this medium. The complete medium stabilized the l-leucine uptake rate as a result of its ionic composition and not because of its osmolarity. Most of the increased uptake rate observed after preincubation in a 1% sucrose solution could be inhibited by 2,4-dinitrophenol or carbonyl cyanide m-chlorophenyl hydrazone, or high concentrations of l-phenyl-alanine or l-leucine. Therefore much of the increase could be accounted for by an increase in active transport of l-leucine.