Database for bacterial group II introns

The Database for Bacterial Group II Introns (http://webapps2.ucalgary.ca/~groupii/index.html#) provides a catalogue of full-length, non-redundant group II introns present in bacterial DNA sequences in GenBank. The website is divided into three sections. The first section provides general information on group II intron properties, structures and classification. The second and main section lists information for individual introns, including insertion sites, DNA sequences, intron-encoded protein sequences and RNA secondary structure models. The final section provides tools for identification and analysis of intron sequences. These include a step-by-step guide to identify introns in genomic sequences, a local BLAST tool to identify closest intron relatives to a query sequence, and a boundary-finding tool that predicts 5′ and 3′ intron–exon junctions in an input DNA sequence. Finally, selected intron data can be downloaded in FASTA format. It is hoped that this database will be a useful resource not only to group II intron and RNA researchers, but also to microbiologists who encounter these unexpected introns in genomic sequences

Evaluating the Effect of Predators on White-Tailed Deer: Movement and Diet of Coyotes

Coyotes (Canis latrans) may affect adult and neonate white-tailed deer (Odocoileus virginianus) survival and have been implicated as a contributor to the decline of deer populations. Additionally, coyote diet composition is influenced by prey availability, season, and region. Because coyote movement and diet vary by region, local data are important to understand coyote population dynamics and their impact on prey species. In southeast Minnesota, we investigated the effect of coyotes on white-tailed deer populations by documenting movement rates, distances moved, and habitats searched by coyotes during fawning and nonfawning periods. Additionally, we determined survival, cause-specific mortality, and seasonal diet composition of coyotes. From 2001 to 2003, we captured and radiocollared 30 coyotes. Per-hour rate of movement averaged 0.87 km and was greater (P = 0.046) during the fawning (1.07 km) than the nonfawning period (0.80 km); areas searched were similar (P = 0.175) between seasons. Coyote habitat use differed during both seasons; habitats were not used in proportion to their availability (P \u3c 0.001). Croplands were used more (P \u3c 0.001) than their proportional availability during both seasons. Use of grasslands was greater during the fawning period (P = 0.030), whereas use of cropland was greater in the nonfawning period (P \u3c 0.001). We collected 66 fecal samples during the nonfawning period; coyote diets were primarily composed of Microtus spp. (65.2%), and consumption of deer was 9.1%. During the study, 19 coyotes died; annual survival rate range was 0.33–0.41, which was low compared with other studies. Consumption of deer was low and coyotes searched open areas (i.e., cropland) more than fawning areas with dense cover. These factors in addition to high coyote mortality suggested that coyote predation was not likely limiting white-tailed deer populations in southeast Minnesota

A pipeline of programs for collecting and analyzing group II intron retroelement sequences from GenBank

Article deposited according to publisher policies: http://www.biomedcentral.com/about/copyright June 12, 2014YesFunding provided by the Open Access Authors Fun

Environmental reproductive justice: intersections in an American Indian community impacted by environmental contamination

In order to fully understand the impact of contamination on Indigenous communities, this paper explores how intersectionality has been integral to the development of environmental justice (EJ) and reproductive justice (RJ), and how considering the ways in which these two frameworks then intersect with each other is necessary to more fully explicate how toxicants have threatened the reproduction of human beings and tribal culture. The concept of environmental reproductive justice (ERJ), or ensuring that environmental issues do not interfere with physical or cultural reproduction, involves expanding reproductive justice to include a deeper focus on the environment, and to include the reproduction of language and culture as concerns, in addition to the reproduction of human beings. ERJ also aims to expand the framework of environmental justice to more closely consider the impact of environmental contaminants on physical and cultural reproduction. Through the example of Akwesasne, a Mohawk American Indian community located downstream from industrial sites on the New York/Canadian border, this paper explores how the concept of ERJ can be utilized to understand the unique situation of American Indian communities who are arguing that justice necessitates going beyond equal protection