Peer-reviewed Articles - Biology

41 downloads
240 views

Background The Streptococcus genus is relevant to both public health and food safety because of its ability to cause pathogenic infections. It is well-represented (>100 genomes) in publicly available databases. Streptococci are ubiquitous, with multiple sources...

["Biodiversity","Bioinformatics","Genomics","Microbiology","Molecular Biology"]
doi:10.7717/peerj.6233
64 downloads
519 views

A total of 16 different strains of Microbacterium spp. were isolated from contaminated soil and enriched on the carcinogen, hexavalent chromium [Cr(VI)]. The majority of the isolates (11 of the 16) were able to tolerate concentrations (0.1 mM) of cobalt, cadmium,...

["Genomics","Microbiology","Biogeochemistry","Environmental Contamination and Remediation"]
doi:10.7717/peerj.6258
35 downloads
207 views

Miniature inverted-repeat transposable elements (MITEs) have been associated with genic regions in plant genomes and may play important roles in the regulation of nearby genes via recruitment of small RNAs (sRNA) to the MITEs loci. We identified eight families...

["Bioinformatics","Genomics","Plant Science"]
doi:10.7717/peerj.6080
33 downloads
145 views

Helicobacter pylori is a human pathogenic bacterium with a high genomic plasticity. Although the functional CRISPR-Cas system has not been found in its genome, CRISPR-like loci have been recently identified. In this work, 53 genomes from different geographical...

["Bioinformatics","Evolutionary Studies","Genetics","Genomics"]
doi:10.7717/peerj.6221
25 downloads
180 views

In polyploid genomes, homoeologs are a specific subtype of homologs, and can be thought of as orthologs between subgenomes. In Orthologous MAtrix, we infer homoeologs in three polyploid plant species: upland cotton (Gossypium hirsutum), rapeseed (Brassica napus),...

["Bioinformatics","Computational Biology","Genomics"]
doi:10.7717/peerj.6231
34 downloads
105 views

The MYB family, one of the largest transcription factor (TF) families in the plant kingdom, plays vital roles in cell formation, morphogenesis and signal transduction, as well as responses to biotic and abiotic stresses. However, the underlying function of bamboo...

["Bioinformatics","Genomics","Molecular Biology","Plant Science"]
doi:10.7717/peerj.6242
33 downloads
188 views

Blue mold is a postharvest rot of pomaceous fruits caused by Penicillium expansum and a number of other Penicillium species. The genome of the highly aggressive P. expansum strain R19 was re-sequenced and analyzed together with the genome of the less aggressive...

["Agricultural Science","Genomics","Mycology","Plant Science"]
doi:10.7717/peerj.6170
43 downloads
220 views

Antimicrobial peptides (AMPs) are the main components of the plant innate immune system. Defensins represent the most important AMP family involved in defense and non-defense functions. In this work, global RNA sequencing and de novo transcriptome assembly were...

["Agricultural Science","Biodiversity","Bioinformatics","Genomics","Plant Science"]
doi:10.7717/peerj.6125
40 downloads
193 views

Aquatic organisms inhabiting polluted waterways face numerous adverse effects, including physiological disruption by endocrine disrupting compounds (EDCs). Little is known about how the temperatures associated with global climate change may influence the response...

["Genomics","Toxicology","Climate Change Biology","Ecotoxicology","Environmental Impacts"]
doi:10.7717/peerj.6156
69 downloads
176 views

Genome sequences of marine streptomycetes are valuable for the discovery of useful enzymes and bioactive compounds by genome mining. However, publicly available complete genome sequences of marine streptomycetes are still limited. Here, we present the complete...

["Biochemistry","Genomics","Microbiology"]
doi:10.7717/peerj.6122
76 downloads
311 views

We describe Arge bella Wei & Du sp. nov., a large and beautiful species of Argidae from south China, and report its mitochondrial genome based on high-throughput sequencing data. We present the gene order, nucleotide composition of protein-coding genes (PCGs),...

["Entomology","Genomics","Taxonomy","Zoology"]
doi:10.7717/peerj.6131
55 downloads
333 views

Xanthomonas citri subsp. citri 306 (XccA) is the causal agent of type A citrus canker (CC), one of the most significant citriculture diseases. Murein lytic transglycosylases (LT), potentially involved in XccA pathogenicity, are enzymes responsible for peptidoglycan...

["Biochemistry","Bioinformatics","Genetics","Genomics","Microbiology"]
doi:10.7717/peerj.6111
57 downloads
275 views

There is a gradual shift from representing a species’ genome by a single reference genome sequence to a pan-genome representation. Pan-genomes are the abstract representations of the genomes of all the strains that are present in the population or species. In this...

["Bioinformatics","Genomics","Population Biology"]
doi:10.7717/peerj.5963
59 downloads
310 views

Oil palm parthenocarpic fruits, which are produced without fertilization, can be targeted to increase oil content because the majority of the fruit is occupied by mesocarp, the part in which palm oil is stored. Consequently, gaining an understanding of the parthenocarpic...

["Agricultural Science","Biotechnology","Genomics","Plant Science"]
doi:10.7717/peerj.5975
67 downloads
312 views

Mitochondrial genomes (mitogenomes) of five Cyrtodactylus were determined. Their compositions and structures were similar to most of the available gecko lizard mitogenomes as 13 protein-coding, two rRNA and 22 tRNA genes. The non-coding control region (CR) of almost...

["Biodiversity","Evolutionary Studies","Genetics","Genomics"]
doi:10.7717/peerj.6121

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