Rohit Ghai
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View article: Ecological success in freshwater lakes: insights from novel cultivated lineages of the abundant Nanopelagicales order
Ecological success in freshwater lakes: insights from novel cultivated lineages of the abundant Nanopelagicales order Open
View article: Cultivation, genomics, and giant viruses of a ubiquitous and heterotrophic freshwater cryptomonad
Cultivation, genomics, and giant viruses of a ubiquitous and heterotrophic freshwater cryptomonad Open
Heterotrophic nanoflagellates are the chief agents of bacterivory in the aquatic microbial loop but remain underrepresented in culture collections and in genomic databases. We isolated and characterised a representative of the previously u…
View article: Bringing the uncultivated microbial majority of freshwater ecosystems into culture
Bringing the uncultivated microbial majority of freshwater ecosystems into culture Open
Axenic cultures are essential for studying microbial ecology, evolution, and genomics. Despite the importance of pure cultures, public culture collections are biased towards fast-growing copiotrophs, while many abundant aquatic prokaryotes…
View article: Lineage-specific expansions of polinton-like viruses in photosynthetic cryptophytes
Lineage-specific expansions of polinton-like viruses in photosynthetic cryptophytes Open
Background Polinton-like viruses (PLVs) are diverse eukaryotic DNA viral elements (14–40 kb) that often undergo significant expansion within protist genomes through repeated insertion events. Emerging evidence indicates they function as an…
View article: Ecophysiology and global dispersal of the freshwater SAR11-IIIb clade
Ecophysiology and global dispersal of the freshwater SAR11-IIIb clade Open
The freshwater SAR11-IIIb genus Allofontibacter (initially described as ‘Ca. Fonsibacter’) within the order Pelagibacterales is recognised for its ubiquitous presence in freshwater environments. However, it remains poorly understood due to…
View article: Bringing the uncultivated microbial majority of freshwater ecosystems into culture
Bringing the uncultivated microbial majority of freshwater ecosystems into culture Open
Axenic cultures are essential for studying microbial ecology, evolution, and genomics. Despite the importance of pure cultures, public culture collections are biased towards fast-growing copiotrophs, while many abundant aquatic prokaryotes…
View article: AI-Driven Diagnostics: Bridging the Gap Between Data and Healthcare Solutions
AI-Driven Diagnostics: Bridging the Gap Between Data and Healthcare Solutions Open
View article: Proteorhodopsin insights into the molecular mechanism of vectorial proton transport
Proteorhodopsin insights into the molecular mechanism of vectorial proton transport Open
Bacterial proton pumps, proteorhodopsins (PRs), are a major group of light-driven membrane proteins found in marine bacteria. They are functionally and structurally distinct from archaeal and eukaryotic proton pumps. To elucidate the proto…
View article: Diversity and environmental distribution of Asgard archaea in shallow saline sediments
Diversity and environmental distribution of Asgard archaea in shallow saline sediments Open
In recent years, our understanding of archaeal diversity has greatly expanded, especially with the discovery of new groups like the Asgard archaea. These archaea show diverse phylogenetic and genomic traits, enabling them to thrive in vari…
View article: Uncovering the genomic basis of symbiotic interactions and niche adaptations in freshwater picocyanobacteria
Uncovering the genomic basis of symbiotic interactions and niche adaptations in freshwater picocyanobacteria Open
Background Picocyanobacteria from the genera Prochlorococcus , Synechococcus , and Cyanobium are the most widespread photosynthetic organisms in aquatic ecosystems. However, their freshwater populations remain poorly explored, due to uneve…
View article: Ubiquitous genome streamlined Acidobacteriota in freshwater environments
Ubiquitous genome streamlined Acidobacteriota in freshwater environments Open
Background Acidobacteriota are abundant in soil, peatlands and sediments, but there are so far only a few studies on those in freshwater environments. Genome streamlined bacteria have reduced genomes as an evolutionary process to adapt to …
View article: Uncovering the genomic basis of symbiotic interactions and niche adaptations in freshwater picocyanobacteria
Uncovering the genomic basis of symbiotic interactions and niche adaptations in freshwater picocyanobacteria Open
Background Picocyanobacteria from the genera Prochlorococcus, Synechococcus, and Cyanobium are the most widespread photosynthetic organisms in aquatic ecosystems. However, their freshwater populations remain poorly explored, due to uneven …
View article: Phenology and ecological role of aerobic anoxygenic phototrophs in freshwaters
Phenology and ecological role of aerobic anoxygenic phototrophs in freshwaters Open
Background Aerobic anoxygenic phototrophic (AAP) bacteria are heterotrophic bacteria that supply their metabolism with light energy harvested by bacteriochlorophyll- a -containing reaction centers. Despite their substantial contribution to…
View article: Global freshwater distribution of <i>Telonemia</i> protists
Global freshwater distribution of <i>Telonemia</i> protists Open
Telonemia are one of the oldest identified marine protists that for most part of their history have been recognized as a distinct incertae sedis lineage. Today, their evolutionary proximity to the SAR supergroup (Stramenopiles, Alveolates,…
View article: Isolation of a widespread giant virus implicated in cryptophyte bloom collapse
Isolation of a widespread giant virus implicated in cryptophyte bloom collapse Open
Photosynthetic cryptophytes are ubiquitous protists that are major participants in the freshwater phytoplankton bloom at the onset of spring. Mortality due to change in environmental conditions and grazing have been recognized as key facto…
View article: Ubiquitous genome streamlined <i>Acidobacteriota</i> in freshwater environments
Ubiquitous genome streamlined <i>Acidobacteriota</i> in freshwater environments Open
Acidobacteriota are abundant in soil, peatlands, and sediments, but their ecology in freshwater environments remains understudied. UBA12189, an Acidobacteriota genus, is an uncultivated, genome-streamlined lineage with a small genome size …
View article: Flexible genomic island conservation across freshwater and marine <i>Methylophilaceae</i>
Flexible genomic island conservation across freshwater and marine <i>Methylophilaceae</i> Open
The evolutionary trajectory of Methylophilaceae includes habitat transitions from freshwater sediments to freshwater and marine pelagial that resulted in genome reduction (genome-streamlining) of the pelagic taxa. However, the extent of ge…
View article: Phenology and ecological role of Aerobic Anoxygenic Phototrophs in fresh waters
Phenology and ecological role of Aerobic Anoxygenic Phototrophs in fresh waters Open
Aerobic anoxygenic phototrophic (AAP) bacteria are heterotrophic bacteria that supply their metabolism with light energy harvested by bacteriochlorophyll- a -containing reaction centres. Despite their substantial contribution to bacterial …
View article: Isolation of phages infecting the abundant freshwater <i>Actinobacteriota</i> order ‘<i>Ca</i>. Nanopelagicales’
Isolation of phages infecting the abundant freshwater <i>Actinobacteriota</i> order ‘<i>Ca</i>. Nanopelagicales’ Open
Low-GC Actinobacteriota of the order ‘Ca. Nanopelagicales’ (also known as acI or hgcI clade) are abundant in freshwaters around the globe. Extensive predation pressure by phages has been assumed to be the reason for their high levels of mi…
View article: Postglacial adaptations enabled colonization and quasi-clonal dispersal of ammonia-oxidizing archaea in modern European large lakes
Postglacial adaptations enabled colonization and quasi-clonal dispersal of ammonia-oxidizing archaea in modern European large lakes Open
Ammonia-oxidizing archaea (AOA) play a key role in the aquatic nitrogen cycle. Their genetic diversity is viewed as the outcome of evolutionary processes that shaped ancestral transition from terrestrial to marine habitats. However, curren…
View article: Rickettsiales’ deep evolutionary history sheds light on the emergence of intracellular lifestyles
Rickettsiales’ deep evolutionary history sheds light on the emergence of intracellular lifestyles Open
Ancient bacteria largely lived and flourished as free-living cells till the rise of eukaryotes triggered their adaptation to a new habitat: the intracellular milieu. Rickettsiales bacteria are the most prevalent intracellular microorganism…
View article: High-resolution metagenomic reconstruction of the freshwater spring bloom
High-resolution metagenomic reconstruction of the freshwater spring bloom Open
View article: Isolation of a widespread giant virus implicated in cryptophyte bloom collapse
Isolation of a widespread giant virus implicated in cryptophyte bloom collapse Open
Photosynthetic cryptophytes are ubiquitous protists that are major participants in the freshwater phytoplankton bloom at the onset of spring. Mortality due to change in environmental conditions and grazing have been recognized as key facto…
View article: Cryptic and ubiquitous aplastidic cryptophytes are key freshwater flagellated bacterivores
Cryptic and ubiquitous aplastidic cryptophytes are key freshwater flagellated bacterivores Open
Morphology-based microscopic approaches are insufficient for a taxonomic classification of bacterivorous heterotrophic nanoflagellates (HNF) in aquatic environments since their cells do not display reliably distinguishable morphological fe…
View article: The Evolutionary Kaleidoscope of Rhodopsins
The Evolutionary Kaleidoscope of Rhodopsins Open
The rhodopsin scaffold is remarkably versatile and widespread, coupling light availability to energy production and other light-dependent cellular responses with minor alterations to critical residues. We described an unprecedented spectru…
View article: Ecogenomics sheds light on diverse lifestyle strategies in freshwater CPR
Ecogenomics sheds light on diverse lifestyle strategies in freshwater CPR Open
View article: Ecogenomics sheds light on diverse lifestyle strategies in freshwater CPR
Ecogenomics sheds light on diverse lifestyle strategies in freshwater CPR Open
Background . The increased use of metagenomics and single-cell genomics led to the discovery of organisms from phyla with no cultivated representatives and proposed new microbial lineages such as the candidate phyla radiation (CPR, or Pate…
View article: Ecogenomics Sheds Light on Diverse Lifestyle Strategies in Freshwater CPR
Ecogenomics Sheds Light on Diverse Lifestyle Strategies in Freshwater CPR Open
Background. The increased use of metagenomics and single-cell genomics led to the discovery of organisms from phyla with no cultivated representatives and proposed new microbial lineages such as the candidate phyla radiation (CPR, or Pates…
View article: Cryptic and ubiquitous aplastidic cryptophytes are major freshwater bacterivores
Cryptic and ubiquitous aplastidic cryptophytes are major freshwater bacterivores Open
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View article: The evolutionary kaleidoscope of rhodopsins
The evolutionary kaleidoscope of rhodopsins Open
Rhodopsins are widely distributed across all domains of life where they perform a plethora of functions through conversion of electromagnetic radiation into physicochemical signals(Rozenberg et al., 2021). As a result of an extensive surve…