Metagenomics: genomic analysis of microbial communities

CS Riesenfeld, PD Schloss, J Handelsman - Annu. Rev. Genet., 2004 - annualreviews.org
▪ Abstract Uncultured microorganisms comprise the majority of the planet's biological
diversity. Microorganisms represent two of the three domains of life and contain vast …

Impact of genomics on the understanding of microbial evolution and classification: the importance of Darwin's views on classification

RS Gupta - FEMS microbiology reviews, 2016 - academic.oup.com
Analyses of genome sequences, by some approaches, suggest that the widespread
occurrence of horizontal gene transfers (HGTs) in prokaryotes disguises their evolutionary …

The Complete Genome Sequence of Fibrobacter succinogenes S85 Reveals a Cellulolytic and Metabolic Specialist

G Suen, PJ Weimer, DM Stevenson, FO Aylward… - PloS one, 2011 - journals.plos.org
Fibrobacter succinogenes is an important member of the rumen microbial community that
converts plant biomass into nutrients usable by its host. This bacterium, which is also one of …

The deep archaeal roots of eukaryotes

N Yutin, KS Makarova, SL Mekhedov… - Molecular biology …, 2008 - academic.oup.com
The set of conserved eukaryotic protein-coding genes includes distinct subsets one of which
appears to be most closely related to and, by inference, derived from archaea, whereas …

Critical issues in bacterial phylogeny

RS Gupta, E Griffiths - Theoretical population biology, 2002 - Elsevier
To understand bacterial phylogeny, it is essential that the following two critical issues be
resolved:(i) development of well-defined (molecular) criteria for identifying the main groups …

The Phylogeny and Signature Sequences Characteristics of Fibrobacteres, Chlorobi, and Bacteroidetes

RS Gupta - Critical reviews in microbiology, 2004 - Taylor & Francis
Fibrobacteres, Chlorobi, and Bacteroidetes (FCB group) comprise three main bacterial phyla
recognized on the basis of 16S rRNA trees. Presently, there are no distinctive biochemical or …

Focused Metabolism of β-Glucans by the Soil Bacteroidetes Species Chitinophaga pinensis

LS McKee, A Martínez-Abad, AC Ruthes… - Applied and …, 2019 - Am Soc Microbiol
The genome and natural habitat of Chitinophaga pinensis suggest it has the ability to
degrade a wide variety of carbohydrate-based biomass. Complementing our earlier …

Identification of conserved indels that are useful for classification and evolutionary studies

RS Gupta - Methods in microbiology, 2014 - Elsevier
Phylogenetic treeing approaches for the classification of organisms have a number of
important limitations. The most significant of these drawbacks is that different groups/taxa …

A mitochondrial-like aconitase in the bacterium Bacteroides fragilis: Implications for the evolution of the mitochondrial Krebs cycle

AD Baughn, MH Malamy - Proceedings of the National …, 2002 - National Acad Sciences
Aconitase and isocitrate dehydrogenase (IDH) enzyme activities were detected in
anaerobically prepared cell extracts of the obligate anaerobe Bacteroides fragilis. The …

Phylogeny and molecular signatures (conserved proteins and indels) that are specific for the Bacteroidetes and Chlorobi species

RS Gupta, E Lorenzini - BMC evolutionary biology, 2007 - Springer
Abstract Background The Bacteroidetes and Chlorobi species constitute two main groups of
the Bacteria that are closely related in phylogenetic trees. The Bacteroidetes species are …