Saline systems最新文献

{"title":"Post-genomics of the model haloarchaeon Halobacterium sp. NRC-1.","authors":"Shiladitya DasSarma,&nbsp;Brian R Berquist,&nbsp;James A Coker,&nbsp;Priya DasSarma,&nbsp;Jochen A Müller","doi":"10.1186/1746-1448-2-3","DOIUrl":"https://doi.org/10.1186/1746-1448-2-3","url":null,"abstract":"<p><p>Halobacteriumsp. NRC-1 is an extremely halophilic archaeon that is easily cultured and genetically tractable. Since its genome sequence was completed in 2000, a combination of genetic, transcriptomic, proteomic, and bioinformatic approaches have provided insights into both its extremophilic lifestyle as well as fundamental cellular processes common to all life forms. Here, we review post-genomic research on this archaeon, including investigations of DNA replication and repair systems, phototrophic, anaerobic, and other physiological capabilities, acidity of the proteome for function at high salinity, and role of lateral gene transfer in its evolution.</p>","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2006-03-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-2-3","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25910841","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Variable hydrology and salinity of salt ponds in the British Virgin Islands.","authors":"Lianna Jarecki,&nbsp;Mike Walkey","doi":"10.1186/1746-1448-2-2","DOIUrl":"https://doi.org/10.1186/1746-1448-2-2","url":null,"abstract":"<p><p>Caribbean salt ponds are unique wetlands that have received little scientific attention. They are common features of dry Caribbean coastlines, but they are threatened by rapid coastal development. We compared hydrology and salinity of 17 salt ponds in the British Virgin Islands. Ponds were mostly hypersaline (>50 ppt), and they exhibited dramatic salinity fluctuations in response to rainfall and evaporation. Individual ponds varied in their mean salinities and thus experienced different ranges of salinity. Differences in mean salinity appeared to be linked with hydrological characteristics. Hydrological variation ranged from permanently inundated ponds with direct sea connection to those fully isolated from the sea and retaining water only after rainfall. We characterized groups of ponds by their major hydrological characteristics, particularly their period of inundation and their degree of connection with the sea. The resulting classification appeared to reflect a continuum of increasing isolation from the sea, concurring with published geological records from salt pond sediments elsewhere. The patterns of variability and succession described here are applicable to salt pond management interests throughout the Caribbean.</p>","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2006-02-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-2-2","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25877679","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Saline Systems highlights for 2005.","authors":"Shiladitya DasSarma","doi":"10.1186/1746-1448-2-1","DOIUrl":"https://doi.org/10.1186/1746-1448-2-1","url":null,"abstract":"<p><p>On the 4th of July, 2005, the Saline Systems editorial group launched the new online open access journal, Saline Systems, with BioMed Central as the publisher. The scope of the journal includes both basic and applied research on halophilic organisms and saline environments, from gene systems to ecosystems. The stated goal of the journal is to meet publication needs for researchers working in coastal and inland saline environments and provide an interdisciplinary and readily accessible forum for scientists worldwide. The inaugural volume of the journal contains a significant number of high quality original research papers and reviews on a wide range of relevant topics. At the end of the launch period, from January 1, 2006 onwards, the journal will be introducing article-processing charges to cover the cost of publication. Charges will be partly or completely waived for authors from BioMed Central institutional subscribers and in cases of financial hardship.</p>","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2006-01-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-2-1","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25804819","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"IX International Conference on Salt Lake research: research opportunities and management challenges.","authors":"Robert Jellison","doi":"10.1186/1746-1448-1-12","DOIUrl":"https://doi.org/10.1186/1746-1448-1-12","url":null,"abstract":"<p><p>The 9th International Conference on Salt Lake Research was held 26-30 September 2005 in Western Australia at the Curtin University of Technology, Perth, Australia. One hundred scientists from 10 countries presented research on a diverse array of topics highlighting research findings and opportunities, and management challenges associated with inland saline waters. Major emergent themes of the conference included modeling of ecosystem processes, microbial communities, and features of Western Australian inland saline environments, including current threats, conservation and management.</p>","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2005-12-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-1-12","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25773948","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"In situ studies of algal biomass in relation to physicochemical characteristics of the Salt Plains National Wildlife Refuge, Oklahoma, USA.","authors":"Kelly M Major,&nbsp;Andrea E Kirkwood,&nbsp;Clinton S Major,&nbsp;John W McCreadie,&nbsp;William J Henley","doi":"10.1186/1746-1448-1-11","DOIUrl":"https://doi.org/10.1186/1746-1448-1-11","url":null,"abstract":"<p><p>This is the first in a series of experiments designed to characterize the Salt Plains National Wildlife Refuge (SPNWR) ecosystem in northwestern Oklahoma and to catalogue its microbial inhabitants. The SPNWR is the remnant of an ancient ocean, encompassing approximately 65 km2 of variably hypersaline flat land, fed by tributaries of the Arkansas River. Relative algal biomass (i.e., chlorophyll concentrations attributed to Chlorophyll-a-containing oxygenic phototrophs) and physical and chemical parameters were monitored at three permanent stations for a one-year period (July 2000 to July 2001) using a nested block design. Salient features of the flats include annual air temperatures that ranged from -10 to 40 degrees C, and similar to other arid/semi-arid environments, 15-20-degree daily swings were common. Shade is absent from the flats system; intense irradiance and high temperatures (air and sediment surface) resulted in low water availability across the SPNWR, with levels of only ca. 15 % at the sediment surface. Moreover, moderate daily winds were constant (ca. 8-12 km h-1), sometimes achieving maximum speeds of up to 137 km h-1. Typical of freshwater systems, orthophosphate (PO(4)3-) concentrations were low, ranging from 0.04 to <1 microM; dissolved inorganic nitrogen levels were high, but spatially variable, ranging from ca. 250-600 microM (NO(3)- + NO(2)-) and 4-166 microM (NH(4)+). Phototroph abundance was likely tied to nutrient availability, with high-nutrient sites exhibiting high Chl-a levels (ca. 1.46 mg m-2). Despite these harsh conditions, the phototrophic microbial community was unexpectedly diverse. Preliminary attempts to isolate and identify oxygenic phototrophs from SPNWR water and soil samples yielded 47 species from 20 taxa and 3 divisions. Our data indicate that highly variable, extreme environments might support phototrophic microbial communities characterized by higher species diversity than previously assumed.</p>","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2005-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-1-11","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25752761","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Saline systems of the Great Plains of western Canada: an overview of the limnogeology and paleolimnology.","authors":"William M Last,&nbsp;Fawn M Ginn","doi":"10.1186/1746-1448-1-10","DOIUrl":"https://doi.org/10.1186/1746-1448-1-10","url":null,"abstract":"<p><p>In much of the northern Great Plains, saline and hypersaline lacustrine brines are the only surface waters present. As a group, the lakes of this region are unique: there is no other area in the world that can match the concentration and diversity of saline lake environments exhibited in the prairie region of Canada and northern United States. The immense number of individual salt lakes and saline wetlands in this region of North America is staggering. Estimates vary from about one million to greater than 10 million, with densities in some areas being as high as 120 lakes/km2. Despite over a century of scientific investigation of these salt lakes, we have only in the last twenty years advanced far enough to appreciate the wide spectrum of lake types, water chemistries, and limnological processes that are operating in the modern settings. Hydrochemical data are available for about 800 of the lake brines in the region. Composition, textural, and geochemical information on the modern bottom sediments has been collected for just over 150 of these lakes. Characterization of the biological and ecological features of these lakes is based on even fewer investigations, and the stratigraphic records of only twenty basins have been examined. The lake waters show a considerable range in ionic composition and concentration. Early investigators, concentrating on the most saline brines, emphasized a strong predominance of Na+ and SO4-2 in the lakes. It is now realized, however, that not only is there a complete spectrum of salinities from less than 1 ppt TDS to nearly 400 ppt, but also virtually every water chemistry type is represented in lakes of the region. With such a vast array of compositions, it is difficult to generalize. Nonetheless, the paucity of Cl-rich lakes makes the northern Great Plains basins somewhat unusual compared with salt lakes in many other areas of the world (e.g., Australia, western United States). Compilations of the lake water chemistries show distinct spatial trends and regional variations controlled by groundwater input, climate, and geomorphology. Short-term temporal variations in the brine composition, which can have significant effects on the composition of the modern sediments, have also been well documented in several individual basins. From a sedimentological and mineralogical perspective, the wide range of water chemistries exhibited by the lakes leads to an unusually large diversity of modern sediment composition. Over 40 species of endogenic precipitates and authigenic minerals have been identified in the lacustrine sediments. The most common non-detrital components of the modern sediments include: calcium and calcium-magnesium carbonates (magnesian calcite, aragonite, dolomite), and sodium, magnesium, and sodium-magnesium sulfates (mirabilite, thenardite, bloedite, epsomite). Many of the basins whose brines have very high Mg/Ca ratios also have hydromagnesite, magnesite, and nesquehonite. Unlike salt lakes in many o","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2005-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-1-10","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25695543","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Determination of biological and physicochemical parameters of Artemia franciscana strains in hypersaline environments for aquaculture in the Colombian Caribbean.","authors":"William N Camargo,&nbsp;Gabriel C Durán,&nbsp;Orlando C Rada,&nbsp;Licet C Hernández,&nbsp;Juan-Carlos G Linero,&nbsp;Igor M Muelle,&nbsp;Patrick Sorgeloos","doi":"10.1186/1746-1448-1-9","DOIUrl":"https://doi.org/10.1186/1746-1448-1-9","url":null,"abstract":"<p><strong>Background: </strong>Artemia (Crustacea, Anostraca), also known as brine shrimp, are typical inhabitants of extreme environments. These hypersaline environments vary considerably in their physicochemical composition, and even their climatic conditions and elevation. Several thalassohaline (marine) environments along the Colombian Caribbean coast were surveyed in order to contribute to the knowledge of brine shrimp biotopes in South America by determining some vital biological and physicochemical parameters for Artemia survival. Additionally, cyst quality tests, biometrical and essential fatty acids analysis were performed to evaluate the economic viability of some of these strains for the aquaculture industry.</p><p><strong>Results: </strong>In addition to the three locations (Galerazamba, Manaure, and Pozos Colorados) reported in the literature three decades ago in the Colombian Caribbean, six new locations were registered (Salina Cero, Kangaru, Tayrona, Bahía Hondita, Warrego and Pusheo). All habitats sampled showed that chloride was the prevailing anion, as expected, because of their thalassohaline origin. There were significant differences in cyst diameter grouping strains in the following manner according to this parameter: 1) San Francisco Bay (SFB-Control, USA), 2) Galerazamba and Tayrona, 3) Kangarú, 4) Manaure, and 5) Salina Cero and Pozos Colorados. Chorion thickness values were smaller in Tayrona, followed by Salina Cero, Galerazamba, Manaure, SFB, Kangarú and Pozos Colorados. There were significant differences in naupliar size, grouping strains as follows (smallest to largest): 1) Galerazamba, 2) Manaure, 3) SFB, Kangarú, and Salina Cero, 4) Pozos Colorados, and 5) Tayrona. Overall, cyst quality analysis conducted on samples from Manaure, Galerazamba, and Salina Cero revealed that all sites exhibited a relatively high number of cysts.g-1. Essential fatty acids (EFA) analysis performed on nauplii from cyst samples from Manaure, Galerazamba, Salina Cero and Tayrona revealed that cysts from all sites exhibited high arachidonic acid:20:4(n-6) (ArA) and eicosapentaenoic acid: 20:5(n-3) (EPA) levels comparable to the control sample (SFB). In contrast, most cysts collected (including SFB) at different locations, and during different months, presented low docosahexaenoic acid: 22:6(n-3) (DHA) levels (Manaure was the only exception with high DHA levels). Some variations in EPA and ArA levels were observed in all sites, contrasting with the much lower DHA levels which remained constant for all locations, except for Manaure which exhibited variable DHA levels. DHA/EPA ratio was overall very low for all sites compared to SFB cysts. All strains had a low DHA/ArA, but a high EPA/ArA ratio, including the control.</p><p><strong>Conclusion: </strong>The Colombian A. franciscana habitats analyzed were determined to be thalassohaline, and suitable for A. franciscana development. EFA profiles demonstrated that Tayrona, Galerazamba, Manaure and","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2005-10-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-1-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25661232","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Endospores of halophilic bacteria of the family Bacillaceae isolated from non-saline Japanese soil may be transported by Kosa event (Asian dust storm).","authors":"Akinobu Echigo,&nbsp;Miki Hino,&nbsp;Tadamasa Fukushima,&nbsp;Toru Mizuki,&nbsp;Masahiro Kamekura,&nbsp;Ron Usami","doi":"10.1186/1746-1448-1-8","DOIUrl":"https://doi.org/10.1186/1746-1448-1-8","url":null,"abstract":"<p><strong>Background: </strong>Generally, extremophiles have been deemed to survive in the extreme environments to which they had adapted to grow. Recently many extremophiles have been isolated from places where they are not expected to grow. Alkaliphilic microorganisms have been isolated from acidic soil samples with pH 4.0, and thermophiles have been isolated from samples of low temperature. Numerous moderately halophilic microorganisms, defined as those that grow optimally in media containing 0.5-2.5 Molar (3-15%) NaCl, and halotolerant microorganisms that are able to grow in media without added NaCl and in the presence of high NaCl have been isolated from saline environments such as salterns, salt lakes and sea sands. It has tacitly been believed that habitats of halophiles able to grow in media containing more than 20% (3.4 M) are restricted to saline environments, and no reports have been published on the isolation of halophiles from ordinary garden soil samples.</p><p><strong>Results: </strong>We demonstrated that many halophilic bacteria that are able to grow in the presence of 20% NaCl are inhabiting in non-saline environments such as ordinary garden soils, yards, fields and roadways in an area surrounding Tokyo, Japan. Analyses of partial 16S rRNA gene sequences of 176 isolates suggested that they were halophiles belonging to genera of the family Bacillaceae, Bacillus (11 isolates), Filobacillus (19 isolates), Gracilibacillus (6 isolates), Halobacillus (102 isolates), Lentibacillus (1 isolate), Paraliobacillus (5 isolates) and Virgibacillus (17 isolates). Sequences of 15 isolates showed similarities less than 92%, suggesting that they may represent novel taxa within the family Bacillaceae.</p><p><strong>Conclusion: </strong>The numbers of total bacteria of inland soil samples were in a range from 1.4 x 10(7)/g to 1.1 x 10(6)/g. One tenth of the total bacteria was occupied by endospore-forming bacteria. Only very few of the endospore-forming bacteria, roughly 1 out of 20,000, are halophilic bacteria. Most of the halophilic bacteria were surviving as endospores in the soil samples, in a range of less than 1 to about 500/g soil. Samples collected from seashore in a city confronting Tokyo Bay gave the total numbers of bacteria and endospores roughly 1000 time smaller than those of inland soil samples. Numbers of halophilic bacteria per gram, however, were almost the same as those of inland soil samples. A possible source of the halophilic endospore originating from Asian dust storms is discussed.</p>","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2005-10-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-1-8","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25671828","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Metaproteomic analysis of Chesapeake Bay microbial communities.","authors":"Jinjun Kan,&nbsp;Thomas E Hanson,&nbsp;Joy M Ginter,&nbsp;Kui Wang,&nbsp;Feng Chen","doi":"10.1186/1746-1448-1-7","DOIUrl":"https://doi.org/10.1186/1746-1448-1-7","url":null,"abstract":"<p><strong>Background: </strong>Natural microbial communities are extremely complex and dynamic systems in terms of their population structure and functions. However, little is known about the in situ functions of the microbial communities.</p><p><strong>Results: </strong>This study describes the application of proteomic approaches (metaproteomics) to observe expressed protein profiles of natural microbial communities (metaproteomes). The technique was validated using a constructed community and subsequently used to analyze Chesapeake Bay microbial community (0.2 to 3.0 microm) metaproteomes. Chesapeake Bay metaproteomes contained proteins from pI 4-8 with apparent molecular masses between 10-80 kDa. Replicated middle Bay metaproteomes shared approximately 92% of all detected spots, but only shared 30% and 70% of common protein spots with upper and lower Bay metaproteomes. MALDI-TOF analysis of highly expressed proteins produced no significant matches to known proteins. Three Chesapeake Bay proteins were tentatively identified by LC-MS/MS sequencing coupled with MS-BLAST searching. The proteins identified were of marine microbial origin and correlated with abundant Chesapeake Bay microbial lineages, Bacteroides and alpha-proteobacteria.</p><p><strong>Conclusion: </strong>Our results represent the first metaproteomic study of aquatic microbial assemblages and demonstrate the potential of metaproteomic approaches to link metagenomic data, taxonomic diversity, functional diversity and biological processes in natural environments.</p>","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2005-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-1-7","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25598403","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Adaption to life at high salt concentrations in Archaea, Bacteria and Eukarya","authors":"C. Rensing","doi":"10.1186/1746-1448-1-6","DOIUrl":"https://doi.org/10.1186/1746-1448-1-6","url":null,"abstract":"","PeriodicalId":87359,"journal":{"name":"Saline systems","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2005-08-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/1746-1448-1-6","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"65687976","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}