Biology subjects

Lowry, C.

Publications and source records attributed to Lowry, C..

3 recordsLinked to original sources

bioRxiv2026

Active and total rhizosphere microbiomes of plant mixtures diverge from additive expectations, depending on nitrogen and plant composition

Mixing plant functional groups can boost plant productivity, but the underlying rhizosphere microbial dynamics remain unclear. We tested when to expect divergence from additive expectations by measuring plant traits and active and total rhizosphere microbiomes (via BONCAT-FACS and 16S rRNA gene amplicon sequencing) in monocultures and mixtures of legumes, brassicas, and grasses under varying nitrogen. While shoot biomass was predictable from monocultures, legume-containing mixtures yielded greater-than-expected root biomass and N-fixation. Each plant species supported distinct active and total microbiomes, and nitrogen addition increased microbiome divergence among plant species and their mixtures. In most plant mixtures, microbiomes were additive combinations of those associated with the individual species; legume-grass combinations were a notable exception, showing non-additive shifts in microbial composition, microbial activity, and the abundance of Rhizobium sp. This divergence from additive expectations coincided with non-additive biomass gains in legume-grass mixtures, suggesting that emergent plant-microbe interactions may underlie synergistic belowground responses.

ecology↗

bioRxiv2024

Neighbor sensing through rhizodeposits in sorghum affects plant physiology and productivity

Plant-plant interactions play a crucial role in shaping the growth environment for crops, impacting their productivity and stress response. The interaction between plants aboveground has been studied and incorporated into breeding programs that select for plants that reduce aboveground competition between plants. However, few studies have focused on belowground interactions, and these looked at combined interactions and root partitioning in the soil. This study focuses on the developmental and physiological responses of sorghum (Sorghum bicolor L.) genotypes to neighboring sorghum plants. In this study, we used two growing methods: i) a focal plant surrounded by neighboring plants in the same pot but without shading, and ii) a focal plant grown either alone or surrounded by neighbors, irrigated with nutrient solution passed through pots (leachates) with or without plants. Our results showed that the presence of neighbors in the same pot led to reduced size-dry weight height, and leaf area of the focal plant. In addition, the presence of neighbors reduced stomatal conductance and PSII quantum yield. While the response direction was similar across tested genotypes, the magnitude varied. The results were repeated when neighboring plants were not grown in the same pot, but the nutrient solution passed through the root system of plants of the neighboring genotype. Furthermore, we saw a reduction in assimilation rate and stomatal conductance when plants were exposed to either the physical presence of neighbors or leachate. We did not find differences in root architecture in either treatment. These results show plants change their growth in response to neighbors and that the signal is carried through the liquid phase of the soil. Our findings provide insights into sorghum plants responses to below-ground signaling from neighboring plants and lay the foundation for future studies enabling increased crop performance under high-density planting conditions.

plant biology↗

bioRxiv2021

Characterization of gut microbiome and metabolome in Helicobacter pylori patients in an underprivileged community in the United States

BackgroundHelicobacter pylori, a bacterium that infects approximately half of the worlds population, is associated with various gastrointestinal diseases, including peptic ulcers, non-ulcer dyspepsia, gastric adenocarcinoma, and gastric lymphoma. To combat the increasing antibiotic resistance of H. pylori, the need for new therapeutic strategies has become more pressing. Characterization of the interactions between H. pylori and the fecal microbiome, as well as the mechanisms underlying these interactions, may offer new therapeutic approaches. Exploration of changes in fatty acid metabolism associated with H. pylori-mediated alterations of the fecal microbiome may also reveal strategies to help prevent progression to neoplasia. AimTo characterize the gut microbiome and metabolome in H. pylori patients in a socioeconomically challenged and underprivileged inner-city community. MethodsStool samples from 19 H. pylori patients and 16 control subjects were analyzed. 16S rRNA gene sequencing was performed on normalized pooled amplicons using the Illumina MiSeq System using a MiSeq reagent kit v2. Alpha and beta diversity analyses were performed in QIIME 2. Non-targeted fatty acid analysis of the samples was carried out using gas chromatography-mass spectrometry (GC-MS), which measures the total content of 30 fatty acids in stool after conversion into their corresponding fatty acid methyl esters. Multi-dimensional scaling (MDS) was performed on Bray-Curtis distance matrices created from both the metabolomics and microbiome datasets and a Procrustes test was performed on the metabolomics and microbiome MDS coordinates. ResultsFecal microbiome analysis showed that alpha diversity was lowest in H. pylori patients over 40 years of age compared to control subjects of similar age group. Beta diversity analysis of the samples revealed significant differences in microbial community structure between H. pylori patients and control subjects. Thirty-eight and six taxa had lower and higher relative abundance in H. pylori patients, respectively. Taxa that were enriched in H. pylori patients included Atopobium, Gemellaceae, Micrococcaceae, Gemellales and Rothia (R. mucilaginosa). Notably, relative abundance of the phylum Verrucomicrobia was decreased in H. pylori patients compared to control subjects, suggesting disruption of the gut mucosal environment by H. pylori. Procrustes analysis showed a significant relationship between the microbiome and metabolome datasets. Stool samples from H. pylori patients showed increases in several fatty acids including the polyunsaturated fatty acids (PUFAs) 22:4n6, 22:5n3, 20:3n6 and 22:2n6, while decreases were noted in other fatty acids including the PUFA 18:3n6. The pattern of changes in fatty acid concentration correlated to the Bacteroidetes:Firmicutes ratio determined by 16S rRNA gene analysis. ConclusionAn individualized understanding of gut microbiome features among H. pylori patients will pave the way for improved community impact, reduced healthcare burdens of repeated treatment, and decreased mounting resistance.

microbiology↗