Biotechnology


Publications
188

Sifarchaeota ,” a Novel Asgard Phylum from Costa Rican Sediment Capable of Polysaccharide Degradation and Anaerobic Methylotrophy

Citation
Farag et al. (2021). Applied and Environmental Microbiology 87 (9)
Names
“Sifarchaeum subterraneum” “Sifarchaeum” Ca. Sifarchaeum marinoarchaea Ca. Sifarchaeum subterraneus “Sifarchaeota”
Abstract
The exploration of deep marine sediments has unearthed many new lineages of microbes. The finding of this novel phylum of Asgard archaea is important, since understanding the diversity and evolution of Asgard archaea may inform also about the evolution of eukaryotic cells. The comparison of metabolic potentials of the Asgard archaea can help inform about selective pressures the lineages have faced during evolution.

Production of nonulosonic acids in the extracellular polymeric substances of “Candidatus Accumulibacter phosphatis”

Citation
Tomás-Martínez et al. (2021). Applied Microbiology and Biotechnology 105 (8)
Names
“Accumulibacter” “Accumulibacter phosphatis”
Abstract
Abstract Nonulosonic acids (NulOs) are a family of acidic carbohydrates with a nine-carbon backbone, which include different related structures, such as sialic acids. They have mainly been studied for their relevance in animal cells and pathogenic bacteria. Recently, sialic acids have been discovered as an important compound in the extracellular matrix of virtually all microbial life and in “Candidatus Accumulibacter phosphatis”, a well-studied polyphosphate-accu

“ Candidatus Liberibacter asiaticus” Secretes Nonclassically Secreted Proteins That Suppress Host Hypersensitive Cell Death and Induce Expression of Plant Pathogenesis-Related Proteins

Citation
Du et al. (2021). Applied and Environmental Microbiology 87 (8)
Names
Ca. Liberibacter asiaticus
Abstract
In this study, we present a combined computational and experimental methodology that allows a rapid and efficient identification of the ncSecPs from bacteria, in particular the unculturable bacteria like CLas. Meanwhile, the study determined that a number of CLas ncSecPs suppressed HR-based cell death, and thus indicated a novel role for the bacterial ncSecPs in extracellular milieu.

The Actin Cytoskeleton Mediates Transmission of “ Candidatus Liberibacter solanacearum” by the Carrot Psyllid

Citation
Sarkar et al. (2021). Applied and Environmental Microbiology 87 (3)
Names
“Liberibacter solanacearum”
Abstract
Plant diseases caused by vector-borne pathogens are responsible for tremendous losses and threaten some of the most important agricultural crops. A good example is the citrus greening disease, which is caused by bacteria of the genus Liberibacter and is transmitted by psyllids; it has devastated the citrus industry in the United States, China, and Brazil.

Comparative genomics in “Candidatus Kuenenia stuttgartiensis” reveal high genomic plasticity in the overall genome structure, CRISPR loci and surface proteins

Citation
Ding, Adrian (2020). BMC Genomics 21 (1)
Names
Ca. Kuenenia “Kuenenia stuttgartensis”
Abstract
Abstract Background Anaerobic ammonium oxidizing bacteria (anammox bacteria) are contributing significantly to the nitrogen cycle and are successfully used in wastewater treatment. Due to the lack of complete genomes in the databases, little is known about the stability and variability of their genomes and how the genomes evolve in response to changing environments. Results Here we report the complete genome of the anammox bacterium “Candidatus Kuenenia stuttgartiensis” strain CSTR1 which was e

Revealing the Metabolic Flexibility of “ Candidatus Accumulibacter phosphatis” through Redox Cofactor Analysis and Metabolic Network Modeling

Citation
Guedes da Silva et al. (2020). Applied and Environmental Microbiology 86 (24)
Names
“Accumulibacter phosphatis”
Abstract
Here, we demonstrate how microbial storage metabolism can adjust to a wide range of environmental conditions. Such flexibility generates a selective advantage under fluctuating environmental conditions. It can also explain the different observations reported in PAO literature, including the capacity of “ Ca . Accumulibacter phosphatis” to act like glycogen-accumulating organisms (GAOs). These observations stem from slightly different experimental conditions,

Metabolic Diversity and Evolutionary History of the Archaeal Phylum “ Candidatus Micrarchaeota” Uncovered from a Freshwater Lake Metagenome

Citation
Kadnikov et al. (2020). Applied and Environmental Microbiology 86 (23)
Names
Ca. Diapherotrites Ca. Micrarchaeota “Fermentimicrarchaeales” “Fermentimicrarchaeaceae”
Abstract
The recently described superphylum DPANN includes several phyla of uncultivated archaea with small cell sizes, reduced genomes, and limited metabolic capabilities. One of these phyla, “ Ca . Micrarchaeota,” comprises an enigmatic group of archaea found in acid mine drainage environments, the archaeal Richmond Mine acidophilic nanoorganisms (ARMAN) group. Analysis of their reduced genomes revealed the absence of key metabolic pathways consistent with their par