Chromosomal Sequence of Lactobacillus brevis Oregon-R-modENCODE Strain BDGP6, a Lactic Acid Bacterium Isolated from the Gut of Drosophila melanogaster

ABSTRACT Lactobacillus brevis Oregon-R-modENCODE strain BDGP6 was isolated from the gut of Drosophila melanogaster for functional host-microbial interaction studies. The bacterial chromosome is a single circular DNA molecule of 2,785,111 bp with a G+C content of 46%.

Gexplora – user interface that highlights and explores the density of genomic elements along a chromosomal sequence

The density of genomic elements such as genes or transposable elements along its consecutive sequence can provide an overview of a genomic sequence while in the detailed analysis of candidate genes it may depict enriched chromosomal hotspots harbouring genes that explain a certain trait. The herein presented python-based graphical user interface Gexplora allows to obtain more information about a genome by considering sequence-intrinsic information from external databases such as Ensembl, OMA and STRING database using REST API calls to retrieve sequence-intrinsic information, protein-protein datasets and orthologous groups. Gexplora is available under https://github.com/nthomasCUBE/Gexplora.

Complete Genome Sequence of GD1696, a Low-Virulence Strain of Human-Associated ST398 Methicillin-Susceptible Staphylococcus aureus

The emerging livestock-associated Staphylococcus aureus multilocus sequence type 398 (ST398) appears to have augmented virulence in humans. However, it is unclear if all ST398 strains are equally virulent. Here, we present the chromosomal sequence of a low-virulence ST398 methicillin-susceptible S. aureus (MSSA) strain, GD1696, to investigate ST398 sublineage virulence.

Complete Genome Sequence of the Naphthalene-Degrading Pseudomonas putida Strain ND6

ABSTRACTPseudomonas putidastrain ND6 is an efficient naphthalene-degrading bacterium. The complete genome of strain ND6 was sequenced and annotated. The genes encoding the enzymes involved in catechol degradation by theortho-cleavage pathway were found in the chromosomal sequence, which indicated that strain ND6 is able to metabolize naphthalene by the catecholmeta- andortho-cleavage pathways.

Xenopus Hox-2 genes are expressed sequentially after the onset of gastrulation and are differentially inducible by retinoic acid

In this paper, we review experiments to characterise the developmental expression and the responses to all-trans retinoic acid (RA) of six members of the Hox-2 complex of homeobox-containing genes, during the early development of Xenopus laevis. We showed that the six genes are expressed in a spatial sequence which is colinear with their putative 3′ to 5′ chromosomal sequence and that five of them are also expressed rapidly after the beginning of gastrulation, in a 3′ to 5′ colinear temporal sequence. The sixth gene (Xhox2.9) has an exceptional spatial and temporal expression pattern. The six genes all respond to RA by showing altered spatiotemporal expression patterns, and are also RA-inducible, the sequence of the magnitudes of their RA responses being colinear with their 3′ to 5′ chromosomal sequence, and with their spatial and temporal expression sequences. Our data also reveal that there is a pre-existing anteroposterior polarity in the embryo's competence for a response to RA. These results complement and extend previous findings made using murine and avian embryos and mammalian cell lines. They suggest that an endogenous retinoid could contribute to positional information in the early Xenopus embryo.