The data is in the form of genomic sequences deposited in a public database, growth curves, and bioinformatic analysis of sequences. This dataset is associated with the following publication: Henson, M., J. Santodomingo , P. Kourtev, R. Jensen, and D. Learman. Metabolic and genomic analysis elucidates strain-level variation in Microbacterium spp. isolated from chromate contaminated sediment. PeerJ. PeerJ Inc., Corte Madera, CA, USA, e1395, (2015).

The data is in the form of genomic sequences deposited in a public database, growth curves, and bioinformatic analysis of sequences. This dataset is associated with the following publication: Henson, M., J. Santodomingo , P. Kourtev, R. Jensen, and D. Learman. Metabolic and genomic analysis elucidates strain-level variation in Microbacterium spp. isolated from chromate contaminated sediment. PeerJ. PeerJ Inc., Corte Madera, CA, USA, e1395, (2015).

,Using the SHIME (an in vitro simulator of the human gut microbiome) we tracked the fate of the probiotic Lacticaseibacillus rhamnosus GG (LGG) over time and across colonic regions. Using fecal inoculum from three healthy human donors, reactors were established representing three colonic regions and both the luminal and mucosal microbiome in those regions. Community composition before, during, and after inoculation of the reactors with LGG as well as short chain fatty acid concentrations representing microbiome metabolic outputs. This dataset includes short-chain fatty acid concentrations and qPCR-based cell concentrations. Raw 16S rRNA amplicon sequencing of the V1-V2 regions can be found in the NCBI Sequence Read Archive associated with BioProject PRJNA893635: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA893635.,Resources in this dataset:,

The diagnosis of bacterial disease in freshwater unionid mussels has been hindered by a lack of baseline information regarding the microbial communities associated with these animals. In this study, we cultured and identified bacteria from the hemolymph of stable mussel populations from the upper Mississippi River basin and compared results to mussel populations associated with a mortality event in the Clinch River, VA and TN. Several bacterial genera were consistently identified across mussel species and locations, appearing to be part of the natural bacterial flora. One noteworthy isolate was identified from the Clinch River. Yokenella regensbergei was found with relatively high prevalence during the mortality event but was absent from post-mortality samples. Its role, if any, in the mortality event is unknown and deserves further investigation. We suggest that future studies of freshwater mussel health utilize hemolymph samples due to its relative disconnect with the aquatic environment, role in the circulatory system and nonlethal nature of collection.

The diagnosis of bacterial disease in freshwater unionid mussels has been hindered by a lack of baseline information regarding the microbial communities associated with these animals. In this study, we cultured and identified bacteria from the hemolymph of stable mussel populations from the upper Mississippi River basin and compared results to mussel populations associated with a mortality event in the Clinch River, VA and TN. Several bacterial genera were consistently identified across mussel species and locations, appearing to be part of the natural bacterial flora. One noteworthy isolate was identified from the Clinch River. Yokenella regensbergei was found with relatively high prevalence during the mortality event but was absent from post-mortality samples. Its role, if any, in the mortality event is unknown and deserves further investigation. We suggest that future studies of freshwater mussel health utilize hemolymph samples due to its relative disconnect with the aquatic environment, role in the circulatory system and nonlethal nature of collection.

Isolates listed by unique identifiers and levels of resistance to various antibiotics. This dataset is associated with the following publication: Hoelle, J., J.R. Johnson, B. Johnston, B. Kinkle, L. Boczek, H. Ryu, and S. Hayes. Survey of US wastewater for carbapenem-resistant Enterobacteriaceae. JOURNAL OF WATER AND HEALTH. IWA Publishing, London, UK, 17(2): 219-226, (2019).

Isolates listed by unique identifiers and levels of resistance to various antibiotics. This dataset is associated with the following publication: Hoelle, J., J.R. Johnson, B. Johnston, B. Kinkle, L. Boczek, H. Ryu, and S. Hayes. Survey of US wastewater for carbapenem-resistant Enterobacteriaceae. JOURNAL OF WATER AND HEALTH. IWA Publishing, London, UK, 17(2): 219-226, (2019).