Naomi Sengamalay

TL;DR: An improved dual-indexing amplification and sequencing approach to assess the composition of microbial communities from clinical samples using the V3-V4 region of the 16S rRNA gene on the Illumina MiSeq platform by introducing a 0 to 7 bp “heterogeneity spacer” to the index sequence that allows an equal proportion of samples to be sequenced out of phase.

TL;DR: In patients with resectable colorectal cancers, higher amounts of preoperative circulating tumor DNA were associated with disease recurrence and decreased overall survival, and a method developed by Phallen et al., called targeted error correction sequencing, demonstrates the feasibility of detecting circulating cell-free DNA from many early tumors, suggesting its potential use for cancer screening.

TL;DR: A new, large-scale sequencing effort to provide a more comprehensive picture of the evolution of influenza viruses and of their pattern of transmission through human and animal populations is reported, encompassing a total of 2,821,103 nucleotides.

TL;DR: It is proposed that AIV in wild birds forms transient “genome constellations,” continually reshuffled by reassortment, in contrast to the spread of a limited number of stable genome constellation that characterizes the evolution of mammalian-adapted influenza A viruses.

TL;DR: The SISPA methodology is adapted to genome sequencing of RNA and DNA viruses and of great utility in generating whole genome assemblies for viruses with little or no available sequence information, viruses from greatly divergent families, previously uncharacterized viruses, or to more fully describe mixed viral infections.