Metagenomes from Soils along an Agricultural Transect in Ulster County, New York.

Many modern farming practices negatively impact ecosystems on the local and global scales. Here, we assessed the taxonomic structures of 48 soil microbial communities along an agricultural transect using 16S rRNA and internal transcribed spacer (ITS) amplicon sequencing. We further characterized the functional structures of a subsample of 12 microbiomes using whole-genome sequencing.

Bacteria communities and water quality parameters in riverine water and sediments near wastewater discharges.

Wastewater treatment plant (WWTP) discharges alter water quality and microbial communities by introducing human-associated bacteria in the environment and by altering microbial communities. To fully understand this impact, it is crucial to study whether WWTP discharges affect water and sediments microbial communities in comparable ways and whether such effects depend on specific environmental variables. Here, we present a dataset investigating the impact of a WWTP on water quality and bacterial communities by comparing samples collected directly from the WWTP outflow to surface waters and sediments at two sites above and two sites below it over a period of five months.

Passive exposure to cannabidiol oil does not cause microbiome dysbiosis in larval zebrafish.

The use of cannabidiol oil derived products has dramatically increased in popularity and is predicted to grow steadily over the next decade. Given its relative stability, cannabidiol is likely to accumulate in the environment and affect aquatic animals and their host-associated microbiomes. Here, using zebrafish larvae, a model system in environmental toxicology, we show that passive exposure to a concentration as high as 200 µg/L cannabidiol oil did not affect larvae survival and had limited effects on their host-associated microbial communities.

Preconditioning of Caenorhabditis elegans to anoxic insult by inactivation of cholinergic, GABAergic and muscle activity.

For most metazoans, oxygen deprivation leads to cell dysfunction and if severe, death. Sublethal stress prior to a hypoxic or anoxic insult ("preconditioning") can protect cells from subsequent oxygen deprivation. The molecular mechanisms by which sublethal stress can buffer against a subsequent toxic insult and the role of the nervous system in the response are not well understood.

Draft Genome Sequences of Bacillus subtilis Strains TNC1(2019), TNC3(2019), and TNW1(2019), as Well as Bacillus velezensis Strains TNC2(2019) and TNW2(2019), Isolated from Cabbage Kimchee.

We report the draft genome sequences of five novel strains isolated from five different batches of fermented Napa cabbage kimchee. Strains TNC1(2019), TNC3(2019), and TNW1(2019) were identified as , while TNC2(2019) and TNW2(2019) were identified as .

Draft Genome Sequences of sp. Strains RM1(2019), RM2(2019), RM9(2019), RM11(2019), and RM15(2019), Isolated from Temperate Soils in the Hudson River Valley of New York.

We report the draft genome sequences of five novel strains isolated from temperate soils in Annandale-on-Hudson, NY. Strains RM1(2019), RM9(2019), and RM15(2019) were identified as , while RM11(2019) was identified as The draft genome of strain RM2(2019) was unclassified and likely represents a new species.

Draft Genome Sequence of a Species from Hudson Valley Waterways That Expresses Violacein Pigment.

spp. are Gram-negative bacilli that are observed in freshwater and soil sources. A number of species have been characterized, including the green-pigmented The isolate described here, BJB300, was obtained from a freshwater source in the Hudson Valley, NY.

Draft Genome Sequences of Violacein-Producing Duganella sp. Isolates from a Waterway in Eastern Pennsylvania.

Five Duganella sp. bacterial isolates that synthesize violacein were cultured from a central Pennsylvania waterway. Violacein has antimicrobial potential, including chytrid-killing effects, relevant to amphibian declines worldwide.

Dysbiosis and early mortality in zebrafish larvae exposed to subclinical concentrations of streptomycin.

Exposure to low concentrations of antibiotics found in aquatic environments can increase susceptibility to infection in adult fish due to microbiome disruption. However, little is known regarding the effect of antibiotic pollution on fish larvae. Here, we show that exposure to streptomycin, a common antibiotic used in medicine and aquaculture, disrupts the normal composition of zebrafish larvae microbiomes, significantly reducing the microbial diversity found in the fish.

Exposure to Arsenic Alters the Microbiome of Larval Zebrafish.

Exposure to environmental toxins such as heavy metals can perturb the development and stability of microbial communities associated with human or animal hosts. Widespread arsenic contamination in rivers and riparian habitats therefore presents environmental and health concerns for populations living near sources of contamination. To investigate how arsenic affects host microbiomes, we sequenced and characterized the microbiomes of twenty larval zebrafish exposed to three concentrations of arsenic that are found in contaminated water-low (10 ppb), medium (50 ppb), and high (100 ppb) for 20 days.

Draft Genome Sequences of Phenotypically Distinct sp. Isolates Cultured from the Hudson Valley Watershed.

Investigation of the Hudson Valley watershed reveals many violacein-producing bacteria. These are of interest for their biotherapeutic potential in treating chytrid infections of amphibians. The draft whole-genome sequences for seven isolates with a variety of phenotypes are provided in this study.

Draft Genome Sequence of a Red-Pigmented sp. Native to the Hudson Valley Watershed.

Water samples from the Hudson Valley watershed indicate that the area is host to many violacein-producing bacterial isolates. Here, we report the draft whole-genome sequence of sp. strain BJB412, an isolate lacking violacein production yet containing genes responsible for prodigiosin, biofilm production, and quorum sensing, like its purple-pigmented counterparts.

Draft Genome Sequence of a Violacein-Producing sp. from the Hudson Valley Watershed.

species are among a number of freshwater Gram-negative violacein-producing bacteria. and have had their whole genomes sequenced and annotated. This is the first report of a draft whole-genome sequence of a violacein-producing strain that was isolated from the Hudson Valley watershed.

Draft Genome Sequences of 10 Environmental Strains Isolated from Soils, Sediments, and Waters.

is an important opportunistic pathogen that has the ability to grow in a range of environmental niches. Here, we report the draft genome sequences of 10 environmental strains of the bacterium isolated from soils, sediments, and waters in various locations in North America and South Africa.

Recurring Necrotic Enteritis Outbreaks in Commercial Broiler Chicken Flocks Strongly Influence Toxin Gene Carriage and Species Richness in the Resident Population.

Extensive use of antibiotic growth promoters (AGPs) in food animals has been questioned due to the globally increasing problem of antibiotic resistance. For the poultry industry, digestive health management following AGP withdrawal in Europe has been a challenge, especially the control of necrotic enteritis. Much research work has focused on gut health in commercial broiler chicken husbandry.