Preprints (not yet peer-reviewed)

3 downloads
58 views

Co-existence of microbes in a community is the de facto state of microbial lifestyle in almost all niches on Earth. Thus, microbes live with other microbial species in close proximity, and evolution has selected for specific methods of communication between microbes...

["Biochemistry","Biodiversity","Cell Biology","Ecology","Microbiology"]
doi:10.7287/peerj.preprints.3239v1
156 downloads
470 views

Arsenic (As), a toxic element, has impacted life since early Earth. Thus, microorganisms have evolved many As resistance and tolerance mechanisms to improve their survival outcomes given As exposure. We isolated As resistant bacteria from Centralia, PA, the site...

["Biodiversity","Ecology","Environmental Sciences","Microbiology","Soil Science"]
doi:10.7287/peerj.preprints.2451v2
80 downloads
419 views

Background. Viral metagenomics (viromics) is increasingly used to obtain uncultivated viral genomes, evaluate community diversity, and assess ecological hypotheses. While viromic experimental methods are relatively mature and widely accepted by the research community,...

["Bioinformatics","Ecology","Genomics","Microbiology"]
doi:10.7287/peerj.preprints.3053v1
1,047 downloads
734 views

Microbes, with their vast metabolic capabilities and great adaptability, occupy almost every conceivable ecological niche on Earth. Thus, could they survive in the oligotrophic (i.e., nutrient poor) deionized (DI) water that we use for experiments? Observations...

["Biochemistry","Biodiversity","Ecology","Environmental Sciences","Microbiology"]
doi:10.7287/peerj.preprints.181v5
109 downloads
143 views

Emerging infectious diseases caused by fungal taxa are increasing and are placing a substantial burden on economies and ecosystems worldwide. Of the emerging fungal diseases, chytridomycosis caused by the fungus Batrachochytrium dendrobatidis (hereafter Bd) is...

["Ecology","Microbiology","Mycology","Computational Science"]
doi:10.7287/peerj.preprints.3017v1
28 downloads
177 views

Antibiotic-resistant bacteria complicate many infections and can be difficult to eradicate from hospitals. The population dynamics and ecology of these organisms in the hospital setting, however, is not well understood. Here, we report extensive strain-based antagonistic...

["Ecology","Microbiology","Infectious Diseases"]
doi:10.7287/peerj.preprints.2973v1
145 downloads
526 views

Much of Earth’s biodiversity is at the mercy of currents and physical turnover. Residence time (τ) is the average time that particles spend in a system and is estimated from the ratio of volume to flow rate. Here, we present a framework for how τ influences biodiversity...

["Biodiversity","Ecology","Ecosystem Science","Microbiology"]
doi:10.7287/peerj.preprints.2727v2
149 downloads
259 views

Biodiversity generally affects ecosystem processes, but to what extent detailed knowledge about specific aspects of biodiversity helps us understand and predict specific ecosystem functions is not well-known. We hypothesised that information about functional gene...

["Ecology","Microbiology"]
doi:10.7287/peerj.preprints.2958v1
47 downloads
345 views

Trichogramma wasps are tiny parasitoids of lepidopteran eggs, used extensively for biological control. They are often infected with the bacterial symbiont Wolbachia, which converts Trichogramma to an asexual mode of reproduction, whereby females develop from unfertilized...

["Ecology","Entomology","Evolutionary Studies","Microbiology"]
doi:10.7287/peerj.preprints.2943v1
37 downloads
239 views

The phylum Actinobacteria constitutes one of the largest and anciently divergent phyla within the Bacteria domain. Actinobacterial diversity has been thoroughly researched in various environments due to its unique biotechnological potential. Such studies have focused...

["Biodiversity","Biogeography","Ecology","Microbiology"]
doi:10.7287/peerj.preprints.2893v1
109 downloads
377 views

Taxonomic markers such as the 16S ribosomal RNA gene are widely used in microbial community analysis. A common first step in marker-gene analysis is grouping genes into clusters to reduce data sets to a more manageable size and potentially mitigate the effects...

["Bioinformatics","Ecology","Microbiology","Computational Science"]
doi:10.7287/peerj.preprints.2879v1
39 downloads
114 views

Denitrification is an important part of the nitrogen cycle and the key step to removal of nitrogen in surface-flow wetlands. Denitrifying bacteria also function in denitrification. In this study, we explored space-time analysis with high-throughput sequencing to...

["Ecology","Environmental Sciences","Microbiology"]
doi:10.7287/peerj.preprints.2848v1
112 downloads
445 views

Metatranscriptomics and metaproteomics make it possible to measure gene expression in microbial communities. So far these approaches were mostly used to get a general overview of the dominant metabolism and physiologies of community members. Recently, environmental...

["Bioinformatics","Ecology","Environmental Sciences","Genomics","Microbiology"]
doi:10.7287/peerj.preprints.2846v1
93 downloads
171 views

Aerobic anoxygenic phototrophic bacteria (AAPB) containing bacteriochlorophyll a (BChl a) are photoheterotrophic prokaryotes that are a widely distributed functional bacterial group due to their obligately aerobic and facultative photoheterotrophic abilities. Here,...

["Ecology","Environmental Sciences","Genomics","Marine Biology","Microbiology"]
doi:10.7287/peerj.preprints.2820v1
143 downloads
621 views

Numerous investigations of bacterial communities using sequence analysis of environmental DNA have revealed extensive diversity of microbial taxa in an array of different environmental habitats. Community analysis based solely on DNA, however, does not reveal whether...

["Computational Biology","Ecology","Microbiology"]
doi:10.7287/peerj.preprints.2051v2
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