SUMOylation in Trypanosoma brucei

Published on 2013-10-08 in PeerJ, vol 1. DOI: 10.7717/peerj.180
Small ubiquitin like modifier (SUMO) proteins are involved in many processes in eukaryotes. We here show that Trypanosoma brucei SUMO (Tb927.5.3210) modifies many proteins. The levels of SUMOylation were unaffected by temperature changes but were increased by severe oxidative stress. We obtained evidence that trypanosome homologues of the SUMO conjugating enzyme Ubc9 (Tb927.2.2460) and the SUMO-specific protease SENP (Tb927.9.2220) are involved in SUMOylation and SUMO removal, respectively. Read more

Decadal changes and delayed avian species losses due to deforestation in the northern Neotropics

Published on 2013-10-08 in PeerJ, vol 1. DOI: 10.7717/peerj.179
How avifauna respond to the long-term loss and fragmentation of tropical forests is a critical issue in biodiversity management. We use data from over 30 years to gain insights into such changes in the northernmost Neotropical rainforest in the Sierra de Los Tuxtlas of southern Veracruz, Mexico. This region has been extensively deforested over the past half-century. The Estación de Biología Tropical Los Tuxtlas, of the Universidad Nacional Autónoma de México (UNAM), protects a 640 ha… Read more

Antimicrobial resistance and molecular epidemiology of Staphylococcus aureus from Ulaanbaatar, Mongolia

Published on 2013-10-08 in PeerJ, vol 1. DOI: 10.7717/peerj.176
This study aimed to characterize Staphylococcus aureus (S. aureus) strains isolated from human infections in Mongolia. Infection samples were collected at two time periods (2007–08 and 2011) by the National Center for Communicable Diseases (NCCD) in Ulaanbaatar, Mongolia. S. aureus isolates were characterized using polymerase chain reaction (PCR) for mecA, PVL, and sasX genes and tested for agr functionality. All isolates were also spa typed. A subset of isolates selected by frequency of… Read more

Internet-delivered therapist-guided physical activity for mild to moderate depression: a randomized controlled trial

Published on 2013-10-03 in PeerJ, vol 1. DOI: 10.7717/peerj.178
Objective. The main hypothesis, and the objective of the study, was to test if the participants allocated to the treatment group would show a larger reduction in depressive symptoms than those in the control group. Methods. This study was a randomized nine week trial of an Internet-administered treatment based on guided physical exercise for Major Depressive Disorder (MDD). A total of 48 participants with mild to moderate depression, diagnosed using the Structured… Read more

Integrating precision medicine in the study and clinical treatment of a severely mentally ill person

Published on 2013-10-03 in PeerJ, vol 1. DOI: 10.7717/peerj.177
Background. In recent years, there has been an explosion in the number of technical and medical diagnostic platforms being developed. This has greatly improved our ability to more accurately, and more comprehensively, explore and characterize human biological systems on the individual level. Large quantities of biomedical data are now being generated and archived in many separate research and clinical activities, but there exists a paucity of studies that integrate the areas of clinical… Read more

iSNO-AAPair: incorporating amino acid pairwise coupling into PseAAC for predicting cysteine S-nitrosylation sites in proteins

Published on 2013-10-03 in PeerJ, vol 1. DOI: 10.7717/peerj.171
As one of the most important and universal posttranslational modifications (PTMs) of proteins, S-nitrosylation (SNO) plays crucial roles in a variety of biological processes, including the regulation of cellular dynamics and many signaling events. Knowledge of SNO sites in proteins is very useful for drug development and basic research as well. Unfortunately, it is both time-consuming and costly to determine the SNO sites purely based on biological experiments. Facing the explosive… Read more

Data reuse and the open data citation advantage

Published on 2013-10-01 in PeerJ, vol 1. DOI: 10.7717/peerj.175
Background. Attribution to the original contributor upon reuse of published data is important both as a reward for data creators and to document the provenance of research findings. Previous studies have found that papers with publicly available datasets receive a higher number of citations than similar studies without available data. However, few previous analyses have had the statistical power to control for the many variables known to predict citation rate, which has led to uncertain… Read more

The β-carboline alkaloid harmine inhibits telomerase activity of MCF-7 cells by down-regulating hTERT mRNA expression accompanied by an accelerated senescent phenotype

Published on 2013-10-01 in PeerJ, vol 1. DOI: 10.7717/peerj.174
The end replication problem, which occurs in normal somatic cells inducing replicative senescence, is solved in most cancer cells by activating telomerase. The activity of telomerase is highly associated with carcinogenesis which makes the enzyme an attractive biomarker in cancer diagnosis and treatment. The indole alkaloid harmine has multiple pharmacological properties including DNA intercalation which can lead to frame shift mutations. In this study, harmine was applied to human… Read more

A new species of long-necked turtle (Pleurodira: Chelidae: Chelodina) from the late Miocene Alcoota Local Fauna, Northern Territory, Australia

Published on 2013-10-01 in PeerJ, vol 1. DOI: 10.7717/peerj.170
The new species Chelodina (Chelodina) murrayi is described from the late Miocene Alcoota Local Fauna of central Australia, in the Northern Territory. The new species is based on shell fragments and can be diagnosed by a ventrally reflexed anterior margin of the plastron, a ventrally narrowed cervical scute and strongly dorsally curved margins of the carapace extending from approximately peripheral two to peripheral nine or ten as well as by a unique combination of characters. Within… Read more

Why do leaf-tying caterpillars abandon their leaf ties?

Published on 2013-09-26 in PeerJ, vol 1. DOI: 10.7717/peerj.173
Leaf-tying caterpillars act as ecosystem engineers by building shelters between overlapping leaves, which are inhabited by other arthropods. Leaf-tiers have been observed to leave their ties and create new shelters (and thus additional microhabitats), but the ecological factors affecting shelter fidelity are poorly known. For this study, we explored the effects of resource limitation and occupant density on shelter fidelity and assessed the consequences of shelter abandonment. We first… Read more