The goal of this study was to use environmental sequencing of 16S rRNA and bop genes to compare the diversity of planktonic bacteria and archaea across ponds with increasing salinity in the Exportadora de Sal (ESSA) evaporative saltern in Guerrero Negro, Baja CA S., Mexico. We hypothesized that diverse communities of heterotrophic bacteria and archaea would be found in the ESSA ponds, but that bacterial diversity would decrease relative to archaea at the highest salinities. Archaeal 16S rRNA diversity was higher in Ponds 11 and 12 (370 and 380 g l−1 total salts, respectively) compared to Pond 9 (180 g l−1 total salts). Both Pond 11 and 12 communities had high representation (47 and 45% of clones, respectively) by Haloquadratum walsbyi-like (99% similarity) lineages. The archaeal community in Pond 9 was dominated (79%) by a single uncultured phylotype with 99% similarity to sequences recovered from the Sfax saltern in Tunisia. This pattern was mirrored in bop gene diversity with greater numbers of highly supported phylotypes including many Haloquadratum-like sequences from the two highest salinity ponds. In Pond 9, most bop sequences, were not closely related to sequences in databases. Bacterial 16S rRNA diversity was higher than archaeal in both Pond 9 and Pond 12 samples, but not Pond 11, where a non-Salinibacter lineage within the Bacteroidetes >98% similar to environmental clones recovered from Lake Tuz in Turkey and a saltern in Chula Vista, CA was most abundant (69% of community). This OTU was also the most abundant in Pond 12, but only represented 14% of clones in the more diverse pond. The most abundant OTU in Pond 9 (33% of community) was 99% similar to an uncultured gammaproteobacterial clone from the Salton Sea. Results suggest that the communities of saltern bacteria and archaea vary even in ponds with similar salinity and further investigation into the ecology of diverse, uncultured halophile communities is warranted.

The shallow-sea hydrothermal vents at White Point (WP) in Palos Verdes on the southern California coast support microbial mats and provide easily accessed settings in which to study chemolithoautotrophic sulfur cycling. Previous studies have cultured sulfur-oxidizing bacteria from the WP mats; however, almost nothing is known about the in situ diversity and activity of the microorganisms in these habitats. We studied the diversity, micron-scale spatial associations and metabolic activity of the mat community via sequence analysis of 16S rRNA and aprA genes, fluorescence in situ hybridization (FISH) microscopy and sulfate reduction rate (SRR) measurements. Sequence analysis revealed a diverse group of bacteria, dominated by sulfur cycling gamma-, epsilon-, and deltaproteobacterial lineages such as Marithrix, Sulfurovum, and Desulfuromusa. FISH microscopy suggests a close physical association between sulfur-oxidizing and sulfur-reducing genotypes, while radiotracer studies showed low, but detectable, SRR. Comparative 16S rRNA gene sequence analyses indicate the WP sulfur vent microbial mat community is similar, but distinct from other hydrothermal vent communities representing a range of biotopes and lithologic settings. These findings suggest a complete biological sulfur cycle is operating in the WP mat ecosystem mediated by diverse bacterial lineages, with some similarity with deep-sea hydrothermal vent communities.

Agriculture production in California is negatively impacted by soilborne fungi, such as Verticillium dahliae, and limited water availability for irrigation. Some regions have adapted the use of recycling wastewater, i.e., reclaimed water, to supplement the potable water supply. Wastewater purification is not fully efficient at removing all contaminants and small amounts of pharmaceutical products, known as chemicals of emerging concern (CECs), remain. Acetaminophen, trimethoprim, sulfamethoxazole and gemfibrozil are some of the most common CECs found in treated wastewater and were therefore used in this study. These CECs were evaluated for their potential to interact with microorganisms directly, or for their ability to alter the development of Verticillium wilt disease in eggplants. The microorganisms Verticillium dahliae, Fusarium oxysporum f. sp. lycopersici, Piriformospora indica, Phytopthora capsici, and Bradyrhizobium japonicum were used for in vitro growth assays in the presence of CECs. CECs induced varying responses in strains of the same fungi by promoting growth of one strain while inhibiting growth of the other. CECs influenced spore germination of V. dahliae and F. oxysporum. Greenhouse experiments in which Solanum melongena (eggplants) were inoculated with V. dahliae and irrigated with CECs were used to evaluate the impacts of these chemicals on disease development. Overall our results found that most of the organisms we tested were sensitive to the CECs. P. capsici was found to be the most sensitive microorganism, while B. japonicum growth was unaffected by the CECs at the concentrations used. The greenhouse assays results indicated that plant disease severity may be influenced by given CECs at certain stages of plant growth. Overall the results of this study indicate that the concentrations of CECs found in reclaimed water are occurring at biologically relevant concentrations.

Beneficial rhizobacteria can stimulate changes in plant root development. While root system growth is mediated by multiple factors, the regulated distribution of the phytohormone auxin within root tissues plays a principal role. Auxin transport facilitators help to generate the auxin gradients and maxima that determine root structure. Here, we show that the plant growth-promoting rhizobacterial strain Bradyrhizobium japonicum IRAT FA3 influences specific auxin efflux transporters to alter Arabidopsis thaliana root morphology. Gene expression profiling of host transcripts in control and B. japonicum-inoculated roots of the wild type A. thaliana accession Col-0 confirmed upregulation of PIN2, PIN3, PIN7 and ABCB19 with B. japonicum and identified genes potentially contributing to a diverse array of auxin-related responses. Co-cultivation of the bacterium with loss-of-function auxin efflux transport mutants revealed that B. japonicum requires PIN3, PIN7 and ABCB19 to increase lateral root development and utilizes PIN2 to reduce primary root length. Accelerated lateral root primordia production due to B. japonicum was not observed in single pin3, pin7 or abcb19 mutants, suggesting independent roles for PIN3, PIN7 and ABCB19 during the plant-microbe interaction. Our work demonstrates B. japonicum’s influence over host transcriptional reprogramming during plant interaction with this beneficial microbe and the subsequent alterations to root system architecture.

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