Peer-reviewed Articles

2 downloads
741 views

Background The recent proliferation of large amounts of biodiversity transcriptomic data has resulted in an ever-expanding need for scalable and user-friendly tools capable of answering large scale molecular evolution questions. FUSTr identifies gene families involved...

["Bioinformatics","Evolutionary Studies","Genomics"]
doi:10.7717/peerj.4234
8 downloads
265 views

Previous studies of population genetic structure in Dissostichus eleginoides have shown that oceanographic and geographic discontinuities drive in this species population differentiation. Studies have focused on the genetics of D. eleginoides in the Southern Ocean;...

["Aquaculture, Fisheries and Fish Science","Evolutionary Studies","Genetics","Genomics","Marine Biology"]
doi:10.7717/peerj.4173
25 downloads
148 views

The etiology of cancer includes aberrant cellular homeostasis where a compromised RNA regulatory network is a prominent contributing factor. In particular, noncoding RNAs including microRNAs (miRNAs) and long noncoding RNAs (lncRNAs) were recently shown to play...

["Bioinformatics","Computational Biology","Genomics"]
doi:10.7717/peerj.4254
60 downloads
893 views

With the increase in the availability of metagenomic data generated by next generation sequencing, there is an urgent need for fast and accurate tools for identifying viruses in host-associated and environmental samples. In this paper, we developed a stand-alone...

["Bioinformatics","Genomics","Microbiology","Virology"]
doi:10.7717/peerj.4227
91 downloads
1,139 views

Background Microbial genome sequencing is now being routinely used in many clinical and public health laboratories. Understanding how to report complex genomic test results to stakeholders who may have varying familiarity with genomics—including clinicians, laboratorians,...

["Genomics","Microbiology","Infectious Diseases","Public Health"]
doi:10.7717/peerj.4218
137 downloads
728 views

Background Until recently, Klebsiella pneumoniae carbapenemase (KPC)-producing Enterobacteriaceae were rarely identified in Australia. Following an increase in the number of incident cases across the state of Victoria, we undertook a real-time combined genomic...

["Genomics","Microbiology","Epidemiology","Infectious Diseases","Public Health"]
doi:10.7717/peerj.4210
70 downloads
343 views

Background Phylogenetic relationship within different genera of Lemnoideae, a kind of small aquatic monocotyledonous plants, was not well resolved, using either morphological characters or traditional markers. Given that rich genetic information in chloroplast...

["Bioinformatics","Evolutionary Studies","Genomics","Plant Science"]
doi:10.7717/peerj.4186
75 downloads
404 views

The Malayan pangolin (Manis javanica) is an unusual, scale-covered, toothless mammal that specializes in myrmecophagy. Due to their threatened status and continuing decline in the wild, concerted efforts have been made to conserve and rescue this species in captivity...

["Conservation Biology","Genomics","Zoology"]
doi:10.7717/peerj.4140
120 downloads
382 views

NAC (NAM, no apical meristem; ATAF, Arabidopsis transcription activation factor and CUC, cup-shaped cotyledon) proteins are among the largest transcription factor (TF) families playing fundamental biological processes, including cell expansion and differentiation,...

["Bioinformatics","Genomics","Plant Science"]
doi:10.7717/peerj.4172
74 downloads
519 views

Background In recent years, next generation high throughput sequencing technologies have proven to be useful tools for investigations concerning the genomics or transcriptomics also of non-model species. Consequently, ornithologists have adopted these technologies...

["Bioinformatics","Genomics","Zoology"]
doi:10.7717/peerj.4045
41 downloads
264 views

Propensities for different amino acids within a protein site change in the course of evolution, so that an amino acid deleterious in a particular species may be acceptable at the same site in a different species. Here, we study the amino acid-changing variants...

["Evolutionary Studies","Genomics"]
doi:10.7717/peerj.4143
73 downloads
483 views

Background In spite of the emergence of RNA sequencing (RNA-seq), microarrays remain in widespread use for gene expression analysis in the clinic. There are over 767,000 RNA microarrays from human samples in public repositories, which are an invaluable resource...

["Genomics","Molecular Biology"]
doi:10.7717/peerj.4133
67 downloads
290 views

Vibrio harveyi is a Gram-negative, halophilic bacterium that is an opportunistic pathogen of commercially farmed marine vertebrate species. To understand the pathogenicity of this species, the genome of V. harveyi QT520 was analyzed and compared to that of other...

["Aquaculture, Fisheries and Fish Science","Genomics","Microbiology"]
doi:10.7717/peerj.4127
104 downloads
395 views

Abscisic acid (ABA) receptor pyrabactin resistance1/PYR1-like/regulatory components of ABA receptor (PYR1/PYL/RCAR) (named PYLs for simplicity) are core regulators of ABA signaling, and have been well studied in Arabidopsis and rice. However, knowledge is limited...

["Bioinformatics","Evolutionary Studies","Genomics","Plant Science"]
doi:10.7717/peerj.4126
87 downloads
266 views

Availability of snake genome sequences has opened up exciting areas of research on comparative genomics and gene diversity. One of the challenges in studying snake genomes is the acquisition of biological material from live animals, especially from the venomous...

["Biodiversity","Bioinformatics","Evolutionary Studies","Genomics"]
doi:10.7717/peerj.4104

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