Lokeshwaran Manoharan

Lund University | LU · Department of Occupational and Environmental Medicine

Microbial enzyme diversity is a key to understand many ecosystem processes. Whole metagenome sequencing (WMG) obtains information on functional genes, but it is costly and inefficient due to large amount of sequencing that is required. In this study, we have applied a captured metagenomics technique for functional genes in soil microorganisms, as a...

Agricultural fertilization significantly affects arbuscular mycorrhizal fungal ( AMF ) community composition. However, the functional implications of community shifts are unknown, limiting understanding of the role of AMF in agriculture. We assessed AMF community composition at four sites managed under the same nitrogen (N) and phosphorus (P) ferti...

Understanding the effects of different agricultural practices on the mycorrhizal symbiosis is important for agricultural production and the sustainable use of soil. We investigated the composition and diversity of arbuscular mycorrhizal fungi (AMF) in soils from fields under different agricultural practices (conventional and organic cereal fields,...

Microbial communities play a major role in the degradation of soil organic matter (SOM) in soils. Despite its significance, the functional diversity of the highly diverse microbial communities is poorly understood. To address this, we applied a recently developed technique, captured metagenomics, to determine the effects of land-use on the function...

The genomes of Asgard Archaea , a novel archaeal proposed superphylum, share an enriched repertoire of eukaryotic signature genes and thus promise to provide insights into early eukaryote evolution. However, the distribution, metabolisms, cellular structures, and ecology of the members within this superphylum are not well understood. Here we provid...

Di-n-butyl phthalate (DBP) is a ubiquitous environmental contaminant linked with various adverse health effects, including immune system dysfunction. Gut microbial dysbiosis can contribute to a wide range of pathogenesis, particularly immune disease. Here, we investigated the impact of DBP on the gut microbiome and examined correlations with immune...

Dietary interventions modify gut microbiota and clinical outcomes. Weight reduction and improved glucose and lipid homeostasis were observed after adopting an Okinawan-based Nordic diet (O-BN) in individuals with type 2 diabetes. The aim of the present study was to explore changes in metabolomics and gut microbiota during O-BN and correlate changes...

Although mRNA SARS-CoV-2 vaccines are generally safe and effective, in certain immunocompromised individuals they can elicit poor immunogenic responses. Among these individuals, people living with HIV (PLWH) have poor immunogenicity to several oral and parenteral vaccines. As the gut microbiome is known to affect vaccine immunogenicity, we investig...

Interaction of oral bacteria with stem cells from the apical papilla (SCAP) can negatively affect the success of regenerative endodontic treatment (RET). Through RNA-seq transcriptomic analysis, we studied the effect of the oral bacteria Fusobacterium nucleatum and Enterococcus faecalis, as well as their supernatants enriched by bacterial metabolit...

Microbes are the key players in the global cycling of nitrogen (N) and carbon (C) availability and fluxes, and losses through emission of nitrous oxide (N2O) and methane (CH4), two very potent greenhouse gases.. Thus, characterization of microbial functional guilds involved in these processes is high on the political agenda. Yet, typical sequence b...

Stem cells from the apical papilla (SCAP) are a promising resource for use in regenerative endodontic treatment (RET) that may be adversely affected by oral bacteria, which in turn can exert an effect on the success of RET. Our work aims to study the cytokine profile of SCAP upon exposure to oral bacteria and their supernatants-Fusobacterium nuclea...

Background/aim: A randomized clinical trial with a starch- and sucrose-reduced diet (SSRD) in irritable bowel syndrome (IBS) patients has shown clear improvement of participants' symptoms. The present study aimed to explore the effects of the SSRD on the gut microbiota and circulating micro-RNA in relation to nutrient intake and gastrointestinal s...

Increased ocean temperature associated with climate change is especially intensified in coastal areas and its influence on microbial communities and biogeochemical cycling is poorly understood. In this study, we sampled a Baltic Sea bay that has undergone 50 years of warmer temperatures similar to RCP5-8.5 predictions due to cooling water release fro...

Agricultural intensification and extreme weather events can represent considerable stress to soil microorganisms and their functions by influencing the key players behind the degradation of soil organic matter. A better understanding of the diversity and abundance of microbial functional genes that predict the functional potential of soils, can lin...

The global antimicrobial drug resistance crisis requires urgency in searching for more effective broad-spectrum antimicrobial drugs. Here, we present a complete circular genome sequence and a plasmid of an antimicrobial-producing isolate, Bacillus velezensis strain Sam8H1, from the Makgadikgadi saltpans in Botswana. Bioinformatic analyses revealed...

Background Lung transplant (LTx) recipients are at increased risk for airway infections, but the cause of infection is often difficult to establish with traditional culture-based techniques. The objectives of the study was to compare the airway microbiome in LTx patients with and without ongoing airway infection and identify differences in their mi...

Traumatic dental injuries in young individuals are often exposed to the invasion of oral microorganisms that leads to pulp necrosis. Infective necrosis in permanent teeth not-fully-developed causes aberrant root formation. Regeneration endodontic treatments (RETs) have shown promising results by promoting continued root development by stem cells. C...

1. Ecosystem models commonly use stable‐state assumptions to predict responses of soil microbial functions to environmental change. However, past climatic conditions can shape microbial functional responses resulting in a ‘legacy effect’. For instance, exposure to drier conditions in the field may shape how soil microbial communities respond to sub...

Soil microbiome is one of the most heterogeneous biological systems. State-of-the-art molecular approaches such as those based on single-amplified genomes (SAGs) and metagenome assembled-genomes (MAGs) are now improving our capacity for disentailing soil microbial-mediated processes. Here we analyzed publicly available datasets of soil microbial ge...

Formate is one of the key compounds of the microbial carbon and/or energy metabolism. It owes a significant contribution to various anaerobic syntrophic associations, and may become one of the energy storage compounds of modern energy biotechnology. Microbial growth on formate was demonstrated for different bacteria and archaea, but not yet for spe...

The genomes of Asgard Archaea, a novel archaeal proposed superphy-lum, share an enriched repertoire of eukaryotic signature genes and thus promise to provide insights into early eukaryote evolution. However, the distribution, metabolisms , cellular structures, and ecology of the members within this superphylum are not well understood. Here we provi...

Results), page 1 To illustrate the advantage of a targeted metagenome ap- proach, we have generated more than 400,000 probes that match more than 300,000 publicly available sequences related to carbon degradation, and used these probes for targeted sequencing in a soil metagenome study.

Background Massive sequencing of genes from different environments has evolved metagenomics as central to enhancing the understanding of the wide diversity of micro-organisms and their roles in driving ecological processes. Reduced cost and high throughput sequencing has made large-scale projects achievable to a wider group of researchers, though c...