Preprints (not yet peer-reviewed)

Potamopyrgus antipodarum, a New Zealand freshwater snail, is a powerful system to study the maintenance of sexual reproduction. Obligate asexual P. antipodarum (herein, Pa) lineages include both triploids and tetraploids that are products of multiple separate transitions...

["Evolutionary Studies","Genomics"]
doi:10.7287/peerj.preprints.3046v1
6 downloads
35 views

Aminoacyl-tRNA synthetases (aaRS) are enzymes that catalyze the ligation of tRNAs to their cognate amino acids. There are aaRSs specific to each of the 20 standard amino acids. These enzymes are divided into two classes, class I and class II, which are unrelated...

["Bioinformatics","Computational Biology","Evolutionary Studies","Genomics"]
doi:10.7287/peerj.preprints.3045v1
6 downloads
106 views

The advent of next-generation sequencing tools has made it possible to conduct fine-scale surveys of population differentiation and genome-wide scans for signatures of selection in non-model organisms. Such surveys are of particular importance in sharply declining...

["Conservation Biology","Genomics","Marine Biology"]
doi:10.7287/peerj.preprints.3043v1
9 downloads
41 views

Recently, Docker technology has received increasing attention throughout the bioinformatics community. However, its implementation has not yet been mastered by most biologists, and thus its application in biological research has been limited. In order to popularize...

["Bioinformatics","Computational Biology","Genomics","Microbiology"]
doi:10.7287/peerj.preprints.3040v1
16 downloads
68 views

The Arabian Peninsula (AP) is the first site of human migration and habitation outside of Africa. As a major crossroad for human populations, the AP provides an opportunity to better understand early to modern changes in human demographic patterns through selections,...

["Bioinformatics","Evolutionary Studies","Genomics"]
doi:10.7287/peerj.preprints.3039v1
4 downloads
126 views

Recent years have witnessed the discovery of protein–coding genes which appear to have evolved de novo from previously non-coding sequences. This has changed the long-standing view that coding sequences can only evolve from other coding sequences. However, there...

["Bioinformatics","Computational Biology","Evolutionary Studies","Genetics","Genomics"]
doi:10.7287/peerj.preprints.3031v1
7 downloads
107 views

In de novo gene emergence, a segment of non-coding DNA undergoes a series of changes which enables transcription, potentially leading to a new protein that could eventually acquire a novel function. Due to their recent origins, young de novo genes have no homology...

["Bioinformatics","Evolutionary Studies","Genomics"]
doi:10.7287/peerj.preprints.3030v1
18 downloads
87 views

Background. The current study aims to explore the effects of advanced glycation end products (AGEs) on the microRNA (miRNA) expression profile in kidney tissues in a murine diabetic nephropathy (DN) model, and to investigate the possible underlying mechanisms....

["Genomics","Molecular Biology","Diabetes and Endocrinology"]
doi:10.7287/peerj.preprints.3026v1
24 downloads
85 views

Clinical bioinformatics is an emerging field in diagnostic genetics laboratories that are harnessing next-generation sequencing technologies to improve patient care. This document provides guidance for the development and validation of software used for delivery...

["Bioinformatics","Genomics","Science Policy"]
doi:10.7287/peerj.preprints.2996v1
85 downloads
347 views

Background: For more than 25 years the golden mussel Limnoperna fortunei has been an aggressive invader in South America freshwaters, having travelled more than 5,000 km upstream across 5 countries. The mussel has outcompeted native species in the invaded environments...

["Bioinformatics","Computational Biology","Conservation Biology","Genetics","Genomics"]
doi:10.7287/peerj.preprints.2995v1
16 downloads
102 views

DNA extracted from feces (human and bovine) and water samples was used for the massive pyrosequencing of the hypervariable V3 region of the 16S rRNA gene, revealing 4296 operational taxonomic units (OTUs). The greatest diversity was observed in samples of cattle...

["Biodiversity","Environmental Sciences","Genomics","Microbiology"]
doi:10.7287/peerj.preprints.2992v1
70 downloads
625 views

The genetic structure of bacterial populations can be related to geographical locations of isolation. In some species, there is a strong correlation between geographical distance and genetic distance, which can be caused by different evolutionary mechanisms. Patterns...

["Biogeography","Bioinformatics","Genomics","Microbiology","Epidemiology"]
doi:10.7287/peerj.preprints.2638v2
78 downloads
306 views

Whole genome sequencing is opening the door to novel insights into the population structure and evolutionary history of poorly known species. In organisms with large genomes, which includes most amphibians, whole-genome sequencing is excessively challenging and...

["Bioinformatics","Evolutionary Studies","Genomics","Molecular Biology","Zoology"]
doi:10.7287/peerj.preprints.2980v1
27 downloads
161 views

Background. Oil spills are major environmental disasters. Dispersants help control spills, as they emulsify oil into droplets to speed bioremediation. Although dispersant toxicity is controversial, the genetic consequences and damages of dispersed oil exposure...

["Genetics","Genomics","Marine Biology"]
doi:10.7287/peerj.preprints.2977v1
70 downloads
267 views

With the goal of evaluating genotyping-by-sequencing (GBS) in a species with a complex octoploid genome, GBS was used to survey genome-wide single-nucleotide polymorphisms (SNPs) in three biparental strawberry (Fragaria ×ananassa) populations. GBS sequence data...

["Agricultural Science","Genetics","Genomics","Plant Science"]
doi:10.7287/peerj.preprints.2975v1
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