Author: Jan

The entirety of bacteria in the mouse intestine–the so-called gut microbiota–can have a significant impact on scientific results in the context of the mouse model. But there is still only little known about the precise composition of gut bacteria in mice for a proper assessment of their influence. The composition of the gut microbiota was now comprehensively assessed via a collection of cultivable bacteria: 100 strains were characterized, including fifteen new species. Here, my whole genome sequence-based phylogenomic analyses using the GBDP method were able to provide exciting insights via precise phylogenies including both new and already known species. The […]

The article was published in Frontieres in Microbiology.

The article was published in BMC Standards in Genomic Sciences.

We investigated the phylogeny of 93 sequenced strains within the Pseudomonas fluorescens complex using state-of-the-art whole-genome sequence-based methods such as the Genome Blast Distance Phylogeny approach. As a result we divided the P. fluorescens complex into eight phylogenomic groups that agree with previous works based on type strains. Digital DDH (dDDH; http://ggdc.dsmz.de) identified 69 species and 75 subspecies among the 93 strains. The eight groups corresponded to clustering with a threshold of 31.8% dDDH. The article was published in PLoS ONE.

I want to draw your attention to one of my recent articles [1] in the well known German BIOspektrum journal. The article was published in the category “Karriere, Köpfe & Konzepte” (i.e., “careers, heads and concepts”) and summarizes our recent work on the E. coli type strain [2] as well as the suite of modern, computer-assisted taxonomic tools we applied to shed further light on the taxonomy of this important group. The article also covers our new method for a genome sequence-based subspecies delineation (of all bacterial and archaeal strains!) as published in the original article [2]. References: [1] http://dx.doi.org/10.1007/s12268-015-0600-0 […]