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Article
Open Access“Candidatus Intestinibacterium parameciiphilum”—member of the “Candidatus Paracaedibacteraceae” family (Alphaproteobacteria, Holosporales) inhabiting the ciliated protist Paramecium
Protists frequently host diverse bacterial symbionts, in particular those affiliated with the order Holosporales (Alphaproteobacteria). All characterised members of this bacterial lineage have been retrieved in o...
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Article
Open AccessSubtractive assembly for comparative metagenomics, and its application to type 2 diabetes metagenomes
Comparative metagenomics remains challenging due to the size and complexity of metagenomic datasets. Here we introduce subtractive assembly, a de novo assembly approach for comparative metagenomics that direct...
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Article
Open AccessCRISPR-Cas systems target a diverse collection of invasive mobile genetic elements in human microbiomes
Bacteria and archaea develop immunity against invading genomes by incorporating pieces of the invaders' sequences, called spacers, into a clustered regularly interspaced short palindromic repeats (CRISPR) locu...
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Article
Open AccessThe gain and loss of chromosomal integron systems in the Treponemaspecies
Integron systems are now recognized as important agents of bacterial evolution and are prevalent in most environments. One of the human pathogens known to harbor chromosomal integrons, the Treponema spirochetes a...
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Article
RNA-mediated epigenetic programming of a genome-rearrangement pathway
Genome-wide DNA rearrangements occur in many eukaryotes but are most exaggerated in ciliates, making them ideal model systems for epigenetic phenomena. During development of the somatic macronucleus, Oxytricha tr...
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Article
Coding properties of Oxytricha trifallax (Sterkiella histriomuscorum) macronuclear chromosomes: analysis of a pilot genome project
The macronuclear genomes of spirotrichous ciliates are almost entirely polyploid, single-gene chromosomes (“nanochromosomes”). We recently performed a pilot genome project for a member of this group, Oxytricha tr...
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Article
Open AccessTelomere formation on macronuclear chromosomes of Oxytricha trifallax and O. fallax : alternatively processed regions have multiple telomere addition sites
Ciliates employ massive chromatid breakage and de novo telomere formation during generation of the somatic macronucleus. Positions flanking the 81-MAC locus are reproducibly cut. But those flanking the Common Reg...
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Article
Conserved features of TBE1 transposons in ciliated protozoa
The complete sequences of four TBE1 transposons from Oxytricha fallax and O. trifallax are presented and analyzed. Although two TBE1s are 98% identical to each other at the nucleotide level, the remaining two ...
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Genetic Approaches to the Synthesis and Physiological Significance of B12 in Salmonella typhimurium
In the bacterium Salmonella typhimurium the biosynthetic genes for cobalamin are located in three separated regions of the genetic map. Most synthetic genes (approximately 20 of 25) are located in a single large ...
