Rohan Sachdeva

Genetic exchange drives relatedness of large linear and circular extrachromosomal elements of archaea

The paper identifies three new families of archaeal extrachromosomal elements and shows their relatedness is due to horizontal gene transfer, not common ancestry.

Rice soil methane emissions are modulated by microbial cohorts that shape redox succession over the growing season

This study identifies microbial cohorts in rice paddies that modulate methane emissions by shifting redox processes over the growing season.

Jumbo circular extrachromosomal elements of methane-oxidizing archaea with variably extensive metabolic and defense gene repertoires

The paper identifies jumbo circular extrachromosomal elements in Methanoperedens archaea, which integrate into chromosomes and carry metabolic and defense genes not found in the host.

The origin and evolution of archaeal Borg extrachromosomal elements

The paper identifies and characterizes Borgs and mini-Borgs in Methanoperedens archaea, revealing their evolutionary origins and genomic relationships.

Metagenomic strain-resolved DNA modification patterns link extrachromosomal genetic elements to host strains

The paper introduces MODIFI, a tool for detecting DNA modifications in metagenomes, and identifies ECE-host linkages in environmental and human samples.

Reduced methane emissions in transgenic rice genotypes are associated with altered rhizosphere microbial hydrogen cycling

This study shows that transgenic rice genotypes overexpressing PSY genes reduce methane emissions by altering rhizosphere microbial hydrogen cycling through changes in gene activity and metabolic pathways.

Revealing the pervasive landscape of MGE-host interactions in situ with single-cell genomics

The paper uses single-cell genomics to analyze MGE-host interactions in microbiomes, revealing widespread MGE presence and host range diversity across microbial lineages.

Convergent evolution of viral-like Borg archaeal extrachromosomal elements and giant eukaryotic viruses

The paper analyzes Borg archaeal extrachromosomal elements using in silico methods, revealing features similar to giant eukaryotic viruses, suggesting convergent evolution.

Megaplasmids associate with Escherichia coli and other Enterobacteriaceae

The paper identifies megaplasmids in Enterobacteriaceae species, showing they are self-transmissible, encode drug resistance, and may enhance bacterial competitiveness.

Phage-based microbiome manipulation elucidates interactions within community context

The paper uses phages to manipulate Variovorax species in microbiomes, confirming thiamine interdependencies and laying groundwork for targeted microbiome research.

Circular 23S rRNA within archaeal ribosomes

The paper identifies circular 23S rRNA in archaeal ribosomes, showing they are more abundant than linear forms and confirms their structure through sequencing and modeling.

Assemblies of long-read metagenomes suffer from diverse errors

The paper evaluates errors in long-read metagenome assemblers and identifies common issues like chimeras and phantom sequences.

Overturning circulation structures the microbial functional landscape of the South Pacific

The paper uses genomic and hydrographic data to show that ocean circulation structures microbial diversity and function in the South Pacific.

The active subset of grassland soil microbiomes changes with soil depth, water availability and prominently features predatory bacteria and episymbionts

The paper investigates how microbial activity in grassland soils varies with depth and water availability, identifying active predatory bacteria and episymbionts in different soil layers.

Characterization of sediment and granite hosted deep underground research laboratories reveals diverse microbiome functions, limited temporal variation and substantial genomic conservation

The paper characterizes microbiomes in underground research labs, finding genomic conservation and similar functional profiles despite environmental differences.

Genetic elements and defense systems drive diversification and evolution in Asgard archaea

This study identifies mobile genetic elements and defense systems in Asgard archaea, revealing their role in shaping genetic diversity and evolution.