Anoxygenic Phototrophic Bacteria Research Articles

Aerophototrophica crusticola gen. nov., sp. nov., isolated from desert biocrusts.

A pink-pigmented, Gram-stain-negative, rod-shaped, strictly aerobic bacterial strain MIMtkB3T, was isolated from moss crusts in Hunshandake desert of China. Cells grew at 15-45 °C (optimum of 28 °C), at pH of 6.0-8.5 (optimum of 7.0) and with 0-1.0 % (w/v) NaCl (optimum of 0 %). The strain could biosynthesize the green-coloured pigment bacteriochlorophyll a (BChl a). The respiratory quinone was ubiquinone Q-10, while C18 : 1 ω7c and C18 : 1 2OH were the major fatty acids. Phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, an unidentified aminophospholipid, one unidentified phospholipid, three unidentified glycolipid and one unidentified lipid were the major polar lipids. Strain MIMtkB3T was most closely related to Oleisolibacter albus NAU-10T, Niveispirillum fermenti CC-LY736T, and Rhodocista centenaria SW of the family Rhodospirillaceae with 16S rRNA gene similarities of 93.09, 92.02 and 91.73%, respectively. The genomic DNA G+C content calculated on complete genome sequencing was 69.3 mol%. The average nucleotide identity between strain MIMtkB3T and its closely related type strains in Rhodospirillaceae was below 77.96 % and digital DNA-DNA hybridization lower than 24.70 %. Full light utilization pathway of aerobic anoxygenic phototrophic bacteria was identified in the genome. Based on phenotypic, chemotaxonomic and phylogenetic characteristics, strain MIMtkB3T represents a novel genus of the family Rhodospirillaceae, for which the name Aerophototrophica crusticola gen. nov., sp. nov. is proposed. The type strain is MIMtkB3T (=KCTC 42633T=MCCC 1K00570T).

Hydrogen-dependent autotrophic growth in phototrophic and chemolithotrophic cultures of thermophilic bacteria, Chloroflexus aggregans and Chloroflexus aurantiacus, isolated from Nakabusa hot springs.

The genus Chloroflexus is a deeply branching group of thermophilic filamentous anoxygenic phototrophic bacteria. The bacteria in this genus have been shown to grow well heterotrophically under anaerobic photosynthetic and aerobic respiratory conditions. We examined autotrophic growth in new isolates of Chloroflexus strains from hot springs in Nakabusa, Japan. The isolates belonging to Chloroflexus aggregans (98.7% identity of 16S rRNA gene sequence to the respective type strain) and Chloroflexus aurantiacus (99.9% identity to the respective type strain) grew photoautotrophically under a 24% H2 atmosphere. We also observed chemolithotrophic growth of these isolates under 80% H2 and 5% O2 conditions in the dark. This is the first report showing that Chloroflexus grew under both photoautotrophic and chemolithotrophic conditions in addition to photoheterotrophic and aerobic chemoheterotrophic conditions.

Iron isotope transformations in the meromictic Lake Cadagno

Abstract The iron isotope composition of sedimentary deposits is a key tool for tracking changes in the biogeochemical and redox conditions of modern and geologically ancient aquatic systems. The use of iron isotopes to reconstruct oxic, anoxic and redox conditions is based on iron isotope fractionation associated with the iron(II)–iron(III) redox reaction and the formation of various iron oxy, hydroxy and sulfur species. However, the degree of iron isotope fractionation varies within the sedimentary record, and the processes leading to isotope fractionation within aquatic systems also vary. Here we investigate iron isotope fractionation within the water column of Lake Cadagno, Switzerland. Lake Cadagno is a 21 m deep alpine meromictic lake that is permanently stratified. It has two chemically distinct water layers: an oxic mixolimnion separated by a narrow chemocline from an anoxic monimolimnion. The chemocline is located across a narrow band between 10 and 13.5 m and is defined by steep chemical gradients in dissolved oxygen, redox potential, nutrients (nitrite + nitrate, ammonia), dissolved and particulate trace metals (iron and manganese) and sulfur species. Iron isotope determination (56Fe/54Fe ratio; expressed as δ56Fe) of both dissolved (δ56Fedissolved) and particulate (δ56Feparticulate) iron reveals a sharp transition within the chemocline with a heavy δ56Fedissolved value (+0.75‰) at 11.5 m and light δ56Fedissolved value (−0.61‰) below at 12 m. The large shift in δ56Fedissolved occurs where anoxygenic phototrophic bacteria become abundant. Modelling of the dissolved iron isotope fractionation within the chemocline produced fractionation factors of −0.60‰ (kinetic model) and −1.52‰ (equilibrium model) assuming a two-step process involving iron oxidation followed by precipitation. Changes in the isotope composition of particulate iron with depth are subtler to that of dissolved iron, with slightly lighter values (−0.18‰) above the chemocline and slightly heavier values (+0.13‰) below. The production of reduced iron(II) within and below the chemocline is likely coupled to dissimilatory iron(III) reduction and dissolution reactions associated with sinking iron(III) oxy and hydroxy species. These processes lead to a peak in dissolved iron concentrations at 12.5 m. The decline in dissolved iron concentration below this depth and its change in isotope composition is consistent with the formation of iron sulphide species, e.g. mackinawite, under mildly euxinic conditions. Overall our results indicate that variations in δ56Fedissolved likely involve a combination of biotic and abiotic processes with biological mixing enhancing the rate at which iron(II) is transferred across the chemocline. The observed isotope transformation of dissolved iron across the chemocline of Lake Cadagno may make it a reasonable analogue to past shallow-water systems with mild euxinia.

Phospholipid distributions in purple phototrophic bacteria and LH1-RC core complexes

In contrast to plants, algae and cyanobacteria that contain glycolipids as the major lipid components in their photosynthetic membranes, phospholipids are the dominant lipids in the membranes of anoxygenic purple phototrophic bacteria. Although the phospholipid compositions in whole cells or membranes are known for a limited number of the purple bacteria, little is known about the phospholipids associated with individual photosynthetic complexes. In this study, we investigated the phospholipid distributions in both membranes and the light-harvesting 1-reaction center (LH1-RC) complexes purified from several purple sulfur and nonsulfur bacteria. 31P NMR was used for determining the phospholipid compositions and inductively coupled plasma atomic emission spectroscopy was used for measuring the total phosphorous contents. Combining these two techniques, we could determine the numbers of specific phospholipids in the purified LH1-RC complexes. A total of approximate 20–30 phospholipids per LH1-RC were detected as the tightly bound lipids in all species. The results revealed that while cardiolipin (CL) exists as a minor component in the membranes, it became the most abundant phospholipid in the purified core complexes and the sum of CL and phosphatidylglycerol accounted for more than two thirds of the total phospholipids for most species. Preferential association of these anionic phospholipids with the LH1-RC is discussed in the context of the recent high-resolution structure of this complex from Thermochromatium (Tch.) tepidum. The detergent lauryldimethylamine N-oxide was demonstrated to selectively remove phosphatidylethanolamine from the membrane of Tch. tepidum.

Cryptic Cycling of Complexes Containing Fe(III) and Organic Matter by Phototrophic Fe(II)-Oxidizing Bacteria.

Fe-organic matter (Fe-OM) complexes are abundant in the environment and, due to their mobility, reactivity, and bioavailability, play a significant role in the biogeochemical Fe cycle. In photic zones of aquatic environments, Fe-OM complexes can potentially be reduced and oxidized, and thus cycled, by light-dependent processes, including abiotic photoreduction of Fe(III)-OM complexes and microbial oxidation of Fe(II)-OM complexes, by anoxygenic phototrophic bacteria. This could lead to a cryptic iron cycle in which continuous oxidation and rereduction of Fe could result in a low and steady-state Fe(II) concentration despite rapid Fe turnover. However, the coupling of these processes has never been demonstrated experimentally. In this study, we grew a model anoxygenic phototrophic Fe(II) oxidizer, Rhodobacter ferrooxidans SW2, with either citrate, Fe(II)-citrate, or Fe(III)-citrate. We found that strain SW2 was capable of reoxidizing Fe(II)-citrate produced by photochemical reduction of Fe(III)-citrate, which kept the dissolved Fe(II)-citrate concentration at low (<10 μM) and stable concentrations, with a concomitant increase in cell numbers. Cell suspension incubations with strain SW2 showed that it can also oxidize Fe(II)-EDTA, Fe(II)-humic acid, and Fe(II)-fulvic acid complexes. This work demonstrates the potential for active cryptic Fe cycling in the photic zone of anoxic aquatic environments, despite low measurable Fe(II) concentrations which are controlled by the rate of microbial Fe(II) oxidation and the identity of the Fe-OM complexes.IMPORTANCE Iron cycling, including reduction of Fe(III) and oxidation of Fe(II), involves the formation, transformation, and dissolution of minerals and dissolved iron-organic matter compounds. It has been shown previously that Fe can be cycled so rapidly that no measurable changes in Fe(II) and Fe(III) concentrations occur, leading to a so-called cryptic cycle. Cryptic Fe cycles have been shown to be driven either abiotically by a combination of photochemical reduction of Fe(III)-OM complexes and reoxidation of Fe(II) by O2, or microbially by a combination of Fe(III)-reducing and Fe(II)-oxidizing bacteria. Our study demonstrates a new type of light-driven cryptic Fe cycle that is relevant for the photic zone of aquatic habitats involving abiotic photochemical reduction of Fe(III)-OM complexes and microbial phototrophic Fe(II) oxidation. This new type of cryptic Fe cycle has important implications for biogeochemical cycling of iron, carbon, nutrients, and heavy metals and can also influence the composition and activity of microbial communities.

'Candidatus Oscillochloris fontis': a novel mesophilic phototrophic Chloroflexota bacterium belonging to the ubiquitous Oscillochloris genus.

We present the results of a study of mesophilic anoxygenic phototrophic Chloroflexota bacteria from Mechigmen hot spring (the Chukotka Peninsula) and Siberia. According to 16S rRNA phylogenetic analysis, these bacteria belong to Oscillochloris trichoides. However, sequencing the draft genome of the bacterium from the Chukotka and analysis of the average nucleotide identity, as well as in silico DNA-DNA hybridization, reveal that this bacterium belongs to a novel species within the Oscillochloris genus. We, therefore, propose 'Candidatus Oscillochloris fontis' as a novel taxon to represent this mesophilic alkaliphilic anaerobic anoxygenic phototrophic bacterium. Spectrophotometry and high-performance liquid chromatography analysis show that the bacterium possesses bacteriochlorophylls c and a, as well as lycopene, β-carotene and γ-carotene. In addition, transmission electron microscopy shows the presence of chlorosomes, polyhydroxyalkanoate- and polyphosphate-like granules. The genome of 'Ca. Oscillochloris fontis' and the Siberian strains of Oscillochloris sp. possess the key genes for nitrogenase complex (nifH) and ribulose-1,5-bisphosphate carboxylase/oxygenase (cbbL), as previously described for O. trichoides DG-6. The results presented here, and previously published data, show that Oscillochloris bacteria from different aquatic environments have the potential for CO2 and N2 fixation. Additionally, we describe a new primer system for the detection of RuBisCo form I.

Long-term seasonal and interannual variability of marine aerobic anoxygenic photoheterotrophic bacteria.

We studied the long-term temporal dynamics of the aerobic anoxygenic phototrophic (AAP) bacteria, a relevant functional group in the coastal marine microbial food web, using high-throughput sequencing of the pufM gene coupled with multivariate, time series and co-occurrence analyses at the Blanes Bay Microbial Observatory (NW Mediterranean). Additionally, using metagenomics, we tested whether the used primers captured accurately the seasonality of the most relevant AAP groups. Phylogroup K (Gammaproteobacteria) was the greatest contributor to community structure over all seasons, with phylogroups E and G (Alphaproteobacteria) being prevalent in spring. Diversity indices showed a clear seasonal trend, with maximum values in winter, which was inverse to that of AAP abundance. Multivariate analyses revealed sample clustering by season, with a relevant proportion of the variance explained by day length, temperature, salinity, phototrophic nanoflagellate abundance, chlorophyll a, and silicate concentration. Time series analysis showed robust rhythmic patterns of co-occurrence, but distinct seasonal behaviors within the same phylogroup, and even within different amplicon sequence variants (ASVs) conforming the same operational taxonomic unit (OTU). Altogether, our results picture the AAP assemblage as highly seasonal and recurrent but containing ecotypes showing distinctive temporal niche partitioning, rather than being a cohesive functional group.

Bacterial communities of the microbial mats of Chokrak sulfide springs.

This is the comparative investigation of the composition of phototrophic microbial mats developing in sulfide-rich saline Chokrak springs with outflow at the shore of the hypersaline lake Chokrak by means of next-generation sequencing. The springs are characterized by low temperature (~ 15°C), near-neutral pH (6.7-8.5), and high-sulfide content. In the species composition the benthic microbial communities of Chokrak springs are similar to microbial mats of marine supralittoral and lagoons. Our results showed that salinity limitation had a significant effect on the species composition of benthic microbial communities developing at the outflow of the Chokrak springs. Predominant oxygenic phototrophs belonged to the genera Phormidium, Lyngbya, Leptolyngbya, Geitlerinema, and Arthrospira. Anoxygenic phototrophic bacteria were represented by halophilic green sulfur bacteria Prosthecochloris spp., halotolerant Chlorobaculum sp., as well as marine and extremely halophilic purple bacteria Roseospira, Rhodovibrio, and Halochromatium. Monoculture of a new species of halotolerant anoxygenic filamentous phototrophic bacteria was isolated.

Emended description of the genus Tabrizicola and the species Tabrizicola aquatica as aerobic anoxygenic phototrophic bacteria.

The genus Tabrizicola with its type species and strain Tabrizicola aquatica RCRI19T was previously described as a purely chemotrophic genus of Gram-negative, aerobic, non-motile and rod-shaped bacteria. With the present study, we expand the description of the metabolic capabilities of this genus and the T. aquatica type strain to include chlorophyll-dependent phototrophy. Our results confirmed that T. aquatica, does not grow under anaerobic photoautotrophic or photoheterotrophic conditions. However, the presence of the photosynthesis-related genes pufL and pufM could be demonstrated in the genomes of several Tabrizicola strains. Additionally, photosynthetic pigments (bacteriochlorophyll a) were formed under aerobic, heterotrophic and low light conditions in T. aquatica strain RCRI19T. Furthermore, all the genes necessary for a fully operational photosynthetic apparatus and bacteriochlorophyll a are present in the T. aquatica type strain genome. Therefore, we suggest categorising T. aquatica RCRI19T, isolated from freshwater environment of Qurugöl Lake, as an aerobic anoxygenic phototrophic (AAP) bacterium.

Mixotrophic Growth Under Micro-Oxic Conditions in the Purple Sulfur Bacterium "Thiodictyon syntrophicum".

The microbial ecosystem of the meromictic Lake Cadagno (Ticino, Swiss Alps) has been studied intensively in order to understand structure and functioning of the anoxygenic phototrophic sulfur bacteria community living in the chemocline. It has been found that the purple sulfur bacterium “Thiodictyon syntrophicum” strain Cad16T, belonging to the Chromatiaceae, fixes around 26% of all bulk inorganic carbon in the chemocline, both during day and night. With this study, we elucidated for the first time the mode of carbon fixation of str. Cad16T under micro-oxic conditions with a combination of long-term monitoring of key physicochemical parameters with CTD, 14C-incorporation experiments and quantitative proteomics using in-situ dialysis bag incubations of str. Cad16T cultures. Regular vertical CTD profiling during the study period in summer 2017 revealed that the chemocline sank from 12 to 14 m which was accompanied by a bloom of cyanobacteria and the subsequent oxygenation of the deeper water column. Sampling was performed both day and night. CO2 assimilation rates were higher during the light period compared to those in the dark, both in the chemocline population and in the incubated cultures. The relative change in the proteome between day and night (663 quantified proteins) comprised only 1% of all proteins encoded in str. Cad16T. Oxidative respiration pathways were upregulated at light, whereas stress-related mechanisms prevailed during the night. These results indicate that low light availability and the co-occurring oxygenation of the chemocline induced mixotrophic growth in str. Cad16T. Our study thereby helps to further understand the consequences micro-oxic conditions for phototrophic sulfur oxidizing bacteria. The complete proteome data have been deposited to the ProteomeXchange database with identifier PXD010641.

Phototrophic Communities of the Berikei Highly Mineralized Mesothermal Sulfide Springs (Dagestan, Russia)

Phototrophic communities forming in the bottom of the Berikei highly mineralized mesothermal sulfide springs (Kayakent region, Dagestan, Russia) were investigated. The Berikei springs are an interesting example of combined effect of such factors as temperature, salinity, pH, and sulfide of occurrence and structure of phototrophic microbial communities. The water was of the sodium chloride type with salinity of 48‒97 g/L, near-neutral brine pH, and sulfide concentration of ~1 mM. The temperature at the stream bottom was as high as 60°C. Elevated temperature and high salinity limited the development of phototrophic communities. Formation of cyanobacterial mats occurred at temperatures below 54°C. Phormidium-like cyanobacteria and unicellular Synechocystis sp. predominated in the mats. The number of cyanobacterial species increased at desalination to 48‒57 g/L with emergence of the species morphologically resembling Spirulina sp., Leptolyngbya sp., and Oscillatoria sp. Among anoxygenic phototrophic bacteria, halophilic purple bacteria Ectothiorhodospira sp., Marichromatium sp., and Rhodovulum sp., green sulfur bacteria Prosthecochloris sp., and unidentified Chloroflexi were present. Oxygenic photosynthesis in the mats was not inhibited by sulfide. Production of cyanobacterial mats was up to 4.7‒53.8 µg/(cm2 h). The contribution of anoxygenic phototrophic bacteria to photosynthetic production varied from 0 to 100%. The composition of this microbial community was compared to those of the phototrophic microbial communities of the mesothermal springs of the Dead Sea coast (Israel), the Washington warm lake (United States), and the Paoha Island hot springs (Mono Lake, United States.

Genome Sequence of "Candidatus Viridilinea halotolerans" Chok-6, Isolated from a Saline Sulfide-Rich Spring.

The draft genome sequence of the green filamentous anoxygenic phototrophic (FAP) bacterium "Candidatus Viridilinea halotolerans" strain Chok-6, isolated from a cold saline sulfide-rich spring near Lake Chokrak, is presented. The genome sequence is annotated for elucidation of the taxonomic position of Chok-6 and to extend the public genome database.

Seasonal Variations in the Structure of an Anoxygenic Phototrophic Bacterial Community from the Meromictic Lake Trekhtsvetnoe (Kandalaksha Bay, White Sea)

The community of anoxygenic phototrophic bacteria (APB) from the water column of the meromictic Lake Trekhtsvetnoe (Kandalaksha Bay, White Sea, Russia) was studied in March 2012 and 2013 and in September 2013 and 2014. The community structure below the chemocline was shown to restore during three years after partial mixing resulting from seawater admixture into the lake in autumn 2011; a dense layer (at least 10⁸ cells mL–¹) of green-colored (g/c) sulfur bacteria (GSB) was formed. During winter, development of low numbers of brown colored (b/c) GSB was observed in the upper layer of green water. During summer seasons, b/c GSB were found to be located in the oxic zone above the green water layer, which was unusual for these organisms. The APB community was found to contain purple bacteria. Four APB strains were isolated from the upper part of the sulfide zone. The b/c and g/c GSB strains were phylogenetically close to each other and to the type species Chlorobium phaeovibrioides DSM 265 (99% similarity gene sequences). One strain of purple bacteria was phylogenetically related to the brackish sulfur bacteria Thiocapsa marina, while the other was related to freshwater bacteria Rhodopseudomonas palustris. The strains of sulfur bacteria were phylogenetically close to the chemocline bacteria from the stratified Lake Kislo-Sladkoe, also located in the coastal zone of the Kandalaksha Bay, White Sea.

Sulfide-dependent Photoautotrophy in the Filamentous Anoxygenic Phototrophic Bacterium, Chloroflexus aggregans.

Chloroflexus aggregans is a thermophilic filamentous anoxygenic phototrophic bacterium frequently found in microbial mats in natural hot springs. C. aggregans often thrives with cyanobacteria that engage in photosynthesis to provide it with an organic substrate; however, it sometimes appears as the dominant phototroph in microbial mats without cyanobacteria. This suggests that C. aggregans has the ability to grow photoautotrophically. However, photoautotrophic growth has not been observed in any cultured strains of C. aggregans. We herein attempted to isolate a photoautotrophic strain from C. aggregansdominated microbial mats in Nakabusa hot spring in Japan. Using an inorganic medium, we succeeded in isolating a new strain that we designated “ACA-12”. A phylogenetic analysis based on 16S rRNA gene and 16S-23S rRNA gene internal transcribed spacer (ITS) region sequences revealed that strain ACA-12 was closely related to known C. aggregans strains. Strain ACA-12 showed sulfide consumption along with autotrophic growth under anaerobic light conditions. The deposited elemental sulfur particles observed by microscopy indicated that sulfide oxidation occurred, similar to that in photoautotrophic strains in the related species, C. aurantiacus. Moreover, we found that other strains of C. aggregans, including the type strain, also exhibited a slight photoautotrophic growing ability, whereas strain ACA-12 showed the fastest growth rate. This is the first demonstration of photoautotrophic growth with sulfide in C. aggregans. The present results strongly indicate that C. aggregans is associated with inorganic carbon incorporation using sulfide as an electron donor in hot spring microbial mats.

Aerobic Anoxygenic Phototrophic Bacteria Promote the Development of Biological Soil Crusts.

Chlorophyll-containing oxygenic photoautotrophs have been well known to play a fundamental role in the development of biological soil crusts (BSCs) by harvesting solar radiations and providing fixed carbon to the BSCs ecosystems. Although the same functions can be theoretically fulfilled by the widespread bacteriochlorophyll-harboring aerobic anoxygenic phototrophic bacteria (AAnPB), whether AAnPB play a role in the formation of BSCs and how important they are to this process remain largely unknown. To address these questions, we set up a microcosm system with surface sands of the Hopq desert in northern China and observed the significant effects of near-infrared illumination on the development of BSCs. Compared to near-infrared or red light alone, the combined use of near-infrared and red lights for illumination greatly increased the thickness of BSCs, their organic matter contents and the microalgae abundance by 24.0, 103.7, and 1447.6%, respectively. These changes were attributed to the increasing abundance of AAnPB that can absorb near-infrared radiations. Our data suggest that AAnPB is a long-overlooked driver in promoting the development of BSCs in drylands.

Chemical and biological features of the saline Lake Krasnovishnevoye (Baraba, Russia) in comparison with Lake Malinovoe (Kulunda, Russia): a reconnaissance study

The Baraba and Kulunda steppes are located in southwestern Siberia in an area with an arid continental climate. This paper presents results of the first study of the hypersaline Lake Krasnovishnevoye (Baraba steppe, TDS (total dissolved solids)=297 g/L, pH 7.88). The major chemical, mineralogical and biological features of the lake were studied and compared to those of Lake Malinovoe, a typical saline neutral lake of Kulunda steppe (TDS=396 g/L, pH 7.63). The phytoplankton composition and the culturable diversity of anoxygenic phototrophic bacteria from Lake Krasnovishnevoye correspond to the ones in the Kulunda lakes. Nevertheless, the peculiarities of water composition and regime of Lake Krasnovishnevoye reduce the biodiversity to prokaryotes and unicellular algae.

High temperature accelerates growth of aerobic anoxygenic phototrophic bacteria in seawater.

Temperature is an important controlling factor in the growth activity of all microorganisms. Aerobic anoxygenic phototrophic (AAP) bacteria actively grow in the ocean and are known as one of the main driving forces in organic matter cycling in surface seawater environments. Whether temperature change affects AAP bacteria activity from an ecological viewpoint remains an open question. To date, no known studies have reported the effect of temperature change on AAP bacteria growth in the ocean. We here show that the growth rate of AAP bacteria exceeded that of other bacterial types at high water temperatures in the absence of grazers. The slope of the regression line of the net growth rate of AAP bacteria as a function of water temperature was the same as that for non‐AAP bacteria at all temperatures (10, 20, and 30°C); however, when grazers were eliminated, it was 4.7 times higher than that of non‐AAP bacteria. This result suggests that AAP bacteria are more responsive to water temperature increases than other bacteria and that AAP bacteria might become more dominant than other bacteria under elevated water temperatures.

Spectroscopic Study of Green Sulfur Bacteria in Stratified Water Bodies of the Kandalaksha Gulf of the White Sea

Optical characteristics of water in stratified lakes of the White Sea are of particular interest in connection with the observation of thin colored layers resulting from massive development of anoxygenic phototrophic bacteria around the chemocline. While optical properties of chlorophyll are widely used in remote sensing, spectral characteristics of bacteriochlorophylls (BChl) for natural microbial communities have been little studied. In this work, spectral study of green sulfur bacteria of four water bodies of the Kandalaksha Gulf of the White Sea was carried out. Absorption and fluorescence spectra were measured for water samples taken in March 2017 from different depths and compared with spectra of monocultures isolated from the same water bodies earlier. It has been shown that the BChl fluorescence in the living cells of green sulfur bacteria has two overlapping emission bands: in the region of 740–770 nm (BChl d and e) and at 815 nm (BChl a). The wavelength of the maximum of the first band depends on the ratio of the concentrations of green- and brown-colored forms of bacteria containing different types of BChl. A new method for separating the contributions of two types of bacteria is proposed, based on the deconvolution of the BChl fluorescence spectrum into three bands whose parameters are determined from the spectra of monocultures. The BChl content at various water depths has been estimated and the percentage ratio of different types of phototrophic bacteria has been determined.

Microbial diversity of a closed salt lagoon in the Puertecitos area, Upper Gulf of California

Located 20 km south of Puertecitos on the Baja California Peninsula, Mexico, is a salt-crusted lagoon with a surface area of approximately 265,000 m2 that is isolated from the adjacent Upper Gulf of California by a 50-m wide berm. The berm rises 2 m above mean sea level extending for 530 m across the lagoon’s seaward front to bar replenishment by normal seawater except possibly by seepage. On another side of the lagoon an extinct Pliocene volcano, Volcán Prieto, marks an equally abrupt boundary delineated by basalt flows. The lagoon’s well-constrained physical geography represents a high-salinity environment under conditions of extreme aridity, flooded only during rare events associated with subtropical storms. The Volcán Prieto Lagoon (so named herein) formed through distinct stages in developmental geomorphology outlined in this study. A duplicate set of sediment cores (17 cm in length) were retrieved from the lagoon and sampled for biological associations that record high-diversity colonization and stratification of microbial mats dominated by bacteria. Small subunit ribosomal RNA gene sequencing of different horizons revealed at least 25 major named bacterial phyla and 8 major named archaeal phyla as well as several unnamed candidate taxa from miscellaneous groups. Lipid biomarker analyses of the same horizons revealed that cyanobacteria contributed significantly to biomass production only at shallow depth, whereas the lipids of anoxygenic phototrophic bacteria persisted to a depth of 15 cm, although with decreasing contents. The lipid patterns also showed that sulfate-reducing bacteria became more abundant with depth, whereas the contents of archaeal lipids increased from 1 to 5 cm depth but remained relatively constant below. Closed lagoons on the Gulf of California are widely distributed over the length of the Baja California Peninsula, but detailed taxonomic studies regarding the diverse microbial communities that colonized these extreme habitats have only begun to shed light on complex colonization patterns.&#x0D; Key words: coastal processes, closed lagoons, Gulf of California, microbial assemblages, lipid biomarkers.

The formation of microbial-metazoan bioherms and biostromes following the latest Permian mass extinction

After the latest Permian mass extinction event, microbial mats filled the ecological niche previously occupied by metazoan reefs, resulting in widespread microbialites. This study focuses on the lipid biomarker (molecular fossil) and invertebrate fossil records from Neotethyan platform margin sections to understand microbial-metazoan bioherm formation. Here, we find that early Griesbachian thrombolitic and stromatolitic microbialites from Çürük Dag (Turkey) and Kuh e Surmeh (Iran) contain abundant lipid biomarkers, representing input from cyanobacteria, anoxygenic phototrophic bacteria, sulfate-reducing bacteria, and halophilic archaea. The biomarker inventory suggests that the microbialites were constructed by cyanobacteria-dominated microbial mats. Biomarkers of halophilic archaea are interpreted to reflect input from the water column, suggesting that the Neotethys experienced at least episodically hypersaline conditions. We also demonstrate that bacteria, possible keratose sponges (up to 50% of the carbonate is represented by the possible sponges), and microconchids lived synergistically to form microbial-metazoan bioherms in the immediate aftermath of the extinction along the western margin of the Neotethys. Abundant fossils of oxygen-dependent invertebrates (i.e. microconchids, bivalves, gastropods, brachiopods, and ostracods) and foraminifers were also found within these bioherms. The presence of invertebrates in conjunction with abundant molecular fossils of cyanobacteria indicates an oxygenated water column. Even though the presence of the biomarker isorenieratane in microbialites may considered as evidence for euxinic conditions in the water column, its absence in the background sediments rather points to a source organism belonging to the mat community. The new finding of bioherms built in part by metazoans suggests that reef ecosystems underwent a major turnover across the extinction event, and shortens the ‘metazoan reef gap’ to just the uppermost Changhsingian. During the Early Triassic, therefore, reefal ecosystems were able to recover in oxygenated settings since the earliest Griesbachian, albeit in an impoverished state.