Preprints (not yet peer-reviewed)

6 downloads
34 views

Unknown sequences, or gaps, are largely present in most published genomes across public databases. Gap filling is an important finishing step in de novo genome assembly, especially in large genomes. The gap filling problem is nontrivial and while many computational...

["Bioinformatics","Genetics","Genomics","Computational Science"]
doi:10.7287/peerj.preprints.3467v1
18 downloads
49 views

The mitochondrial genome of moss Mielichhoferia elongata has been sequenced and assembled with Spades genome assembler. It consists of 100,342 base pairs and has practically the same gene set and its order as in other known bryophyte chondriomes. The genome contains...

["Biodiversity","Evolutionary Studies","Genomics","Plant Science","Taxonomy"]
doi:10.7287/peerj.preprints.3465v1
55 downloads
141 views

Horizontal gene transfer has had major impacts on the biology of a wide range of organisms from antibiotic resistance in bacteria to adaptations to herbivory in arthropods. A growing body of literature shows that horizontal gene transfer (HGT) between non-animals...

["Evolutionary Studies","Genomics"]
doi:10.7287/peerj.preprints.3462v1
57 downloads
89 views

Olfactory systems in insects are used to detect volatile chemical odors, and play crucial roles in survival, reproduction, and mediating key behaviors. Here, RNA sequencing technology was used to sequence and assemble the antennal transcriptome of Heortia vitessoides,...

["Entomology","Genomics"]
doi:10.7287/peerj.preprints.3433v1
51 downloads
104 views

Effective approaches for assessing mitochondrial DNA (mtDNA) variation are important to multiple scientific disciplines. Mitochondrial haplogroups characterize branch points in the phylogeny of mtDNA. Several tools exist for mitochondrial haplogroup classification....

["Genetics","Genomics"]
doi:10.7287/peerj.preprints.3420v1
87 downloads
193 views

Normalization is the first critical step in microbiome sequencing data analysis used to account for variable library sizes. Current RNA-Seq based normalization methods that have been adapted for microbiome data fail to consider the unique characteristics of microbiome...

["Bioinformatics","Genomics","Statistics"]
doi:10.7287/peerj.preprints.3417v2
59 downloads
119 views

Brucellosis is a commonly diagnosed zoonosis that causes infertility and abortion in cattle, it is acquired from handling of infected animals or consuming contaminated milk or milk products. In Colombia, it is classified as prevention and control disease, despite...

["Agricultural Science","Genomics"]
doi:10.7287/peerj.preprints.3416v1
92 downloads
267 views

Although recent advances in molecular methods have facilitated understanding the evolution of fungal symbiosis, little is known about genomic and microbiome features of most uncultured symbiotic fungal clades. Here, we analysed the genome and microbiome of Inocybaceae...

["Biodiversity","Ecology","Genomics","Microbiology","Mycology"]
doi:10.7287/peerj.preprints.3408v1
49 downloads
333 views

In translational medicine, the technology of RNA sequencing (RNA-seq) continues to prove powerful, and transforming the RNA-seq data into biological insights has become increasingly imperative. We present the Transcriptomics profiler for Easy Discovery (TED) toolkit,...

["Bioinformatics","Genomics","Translational Medicine","Computational Science","Data Science"]
doi:10.7287/peerj.preprints.3385v1
54 downloads
163 views

Similar to natural rivers, manmade inlets connect inland runoff to the ocean. Port Everglades Inlet (PEI) is a busy cargo and cruise ship port in South Florida, which can act as a source of pollution and nutrients to surrounding beaches and offshore coral reefs....

["Environmental Sciences","Genomics","Marine Biology","Microbiology"]
doi:10.7287/peerj.preprints.3369v1
54 downloads
108 views

The herbal medicinal genus Aconitum L., belonging to the Ranunculaceae family, represents the earliest diverging lineage within the eudicots. It currently comprises of two subgenera, A. subgenus Lycoctonum and A. subg. Aconitum. The complete chloroplast (cp) genome...

["Biodiversity","Evolutionary Studies","Genomics","Plant Science"]
doi:10.7287/peerj.preprints.3360v1
40 downloads
204 views

Venom has been associated with the ecological success of many groups of organisms, most notably reptiles, gastropods, and arachnids. In some cases, diversification has been directly linked to tailoring of venoms for dietary specialization. Spiders in particular...

["Biodiversity","Entomology","Genomics"]
doi:10.7287/peerj.preprints.3358v1
46 downloads
307 views

Current research posits that all multicellular organisms live in symbioses with associated microorganisms and form so-called metaorganisms or holobionts. Cnidarian metaorganisms are of specific interest given that stony corals provide the foundation of the globally...

["Bioinformatics","Genomics","Virology","Biosphere Interactions"]
doi:10.7287/peerj.preprints.3343v1
22 downloads
137 views

MicroRNAs (miRNAs) are small non-coding RNA molecules mediating the translational repression and degradation of target mRNAs in the cell. Mature miRNAs are used as a template by the RNA-induced silencing complex (RISC) to recognize the complementary mRNAs to be...

["Bioinformatics","Computational Biology","Genomics"]
doi:10.7287/peerj.preprints.3337v1
37 downloads
179 views

Systems Biology is a holistic approach, based on the integration of multiscale models and different kinds of data, aimed at studying the underlying mechanisms of complex biological systems. A GEnome-scale metabolic Model (GEM) is the representation of the metabolic...

["Computational Biology","Genomics"]
doi:10.7287/peerj.preprints.3323v1
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