Rapid multi-locus sequence typing direct from uncorrected long reads using Krocus.

abstract：:Epidemiological studies of low prevalence disease problems are often hindered by the high cost of diagnostic testing. The objective of this study was to evaluate PCR screening of both individual and pooled fecal samples from culled dairy cows for the invA gene of Salmonella followed by culture to determine if the sens...

journal_title：PeerJ

authors： Adaska JM,Ekong PS,Clothier KA,Williams DR,Rossitto PV,Lehenbauer TW,Atwill ER,Li X,Aly SS

更新日期：2020-01-15 00:00:00

abstract：:Network motifs play an important role in the structural analysis of biological networks. Identification of such network motifs leads to many important applications such as understanding the modularity and the large-scale structure of biological networks, classification of networks into super-families, and protein func...

journal_title：PeerJ

authors： Patra S,Mohapatra A

更新日期：2019-05-17 00:00:00

abstract：:The threatened status (both ecologically and legally) of Caribbean staghorn coral, Acropora cervicornis, has prompted rapidly expanding efforts in culture and restocking, although tissue loss diseases continue to affect populations. In this study, disease surveillance and histopathological characterization were used t...

journal_title：PeerJ

authors： Miller MW,Lohr KE,Cameron CM,Williams DE,Peters EC

更新日期：2014-08-28 00:00:00

abstract：:Marine biodiversity and derived ecosystem services are critical to the healthy functioning of marine ecosystems, and to human economic and societal well-being. Thus, an understanding of marine biodiversity in different ecosystems is necessary for their conservation and management. Coral reefs in particular are noted f...

journal_title：PeerJ

authors： Reimer JD,Biondi P,Lau YW,Masucci GD,Nguyen XH,Santos MEA,Wee HB

更新日期：2019-04-12 00:00:00

abstract：:Wild edible mushrooms have been collected and consumed by human groups for centuries, and today they represent a relevant source of food and income for many rural families worldwide. Preserving these non-timber forest products is of great interest, and there is concern about the damage caused by intensive mushroom har...

journal_title：PeerJ

authors： Ruiz-Almenara C,Gándara E,Gómez-Hernández M

更新日期：2019-12-18 00:00:00

abstract：:We investigate the survivorship, growth and diet preferences of hatchery-raised juvenile urchins, Tripneustes gratilla, to evaluate the efficacy of their use as biocontrol agents in the efforts to reduce alien invasive algae. In flow-through tanks, we measured urchin growth rates, feeding rates and feeding preferences...

journal_title：PeerJ

authors： Westbrook CE,Ringang RR,Cantero SM,HDAR & TNC Urchin Team.,Toonen RJ

更新日期：2015-09-15 00:00:00

abstract：:We examined whether chemically mediated risk perception by prey and the effects of changes in prey behavior on basal resources vary as a function of the amount of prey biomass consumed by the predator. We studied these issues using a tritrophic system composed of blue crabs, Callinectes sapidus (top predator), mud cra...

journal_title：PeerJ

authors： Weissburg M,Beauvais J

更新日期：2015-11-19 00:00:00

abstract：BACKGROUND:Recent climatic history has strongly impacted plant populations, but little is known about its effect on microbes. Alders, which host few and specific symbionts, have high genetic diversity in glacial refugia. Here, we tested the prediction that communities of root symbionts survived in refugia with their ho...

journal_title：PeerJ

authors： Roy M,Pozzi AC,Gareil R,Nagati M,Manzi S,Nouioui I,Sharikadze N,Jargeat P,Gryta H,Moreau PA,Fernandez MP,Gardes M

更新日期：2017-07-18 00:00:00

abstract：:Lupus nephritis (LN) is a severe manifestation of systemic lupus erythematosus (SLE), which often progresses to end-stage renal disease (ESRD) and ultimately leads to death. At present, there are no definitive therapies towards LN, so that illuminating the molecular mechanism behind the disease has become an urgent ta...

journal_title：PeerJ

authors： Yang H,Li H

更新日期：2019-10-01 00:00:00

abstract：:Paratya australiensis Kemp (Decapoda: Atyidae) is a widely distributed freshwater shrimp in eastern Australia. The species has been considered as an important stream organism for studying genetics, dispersal, biology, behaviour and evolution in atyids and is a major food source for stream dwelling fishes. Paratya aust...

journal_title：PeerJ

authors： Rahman S,Schmidt D,Hughes JM

更新日期：2020-01-09 00:00:00

abstract：:Metabarcoding can rapidly determine the species composition of bulk samples and thus aids biodiversity and ecosystem assessment. However, it is essential to use primer sets that minimize amplification bias among taxa to maximize species recovery. Despite this fact, the performance of primer sets employed for metabarco...

journal_title：PeerJ

authors： Elbrecht V,Braukmann TWA,Ivanova NV,Prosser SWJ,Hajibabaei M,Wright M,Zakharov EV,Hebert PDN,Steinke D

更新日期：2019-10-07 00:00:00

abstract：:Ephemeral rivers act as linear oases in drylands providing key resources to people and wildlife. However, not much is known about these rivers' sensitivities to human activities. We investigated the landscape-level determinants of riparian tree dieback along the Swakop River, a dammed ephemeral river in Namibia, focus...

journal_title：PeerJ

authors： Douglas CM,Mulligan M,Harrison XA,Henschel JR,Pettorelli N,Cowlishaw G

更新日期：2016-10-27 00:00:00

abstract：Background:Oral squamous cell carcinoma (OSCC) is a major lethal malignant cancer of the head and neck region, yet its molecular mechanisms of tumourigenesis are still unclear. Patients and methods:We performed weighted gene co-expression network analysis (WGCNA) on RNA-sequencing data with clinical information obtain...

journal_title：PeerJ

authors： Hu X,Sun G,Shi Z,Ni H,Jiang S

更新日期：2020-02-04 00:00:00

abstract：:Aedes aegypti is the major vector of dengue, yellow fever and chikungunya viruses that put millions of people in endemic countries at risk. Mass rearing of this mosquito is crucial for strategies that use modified insects to reduce vector populations and transmission of pathogens, such as sterile insect technique or p...

journal_title：PeerJ

authors： Gonzales KK,Tsujimoto H,Hansen IA

更新日期：2015-05-05 00:00:00

abstract：:A new p-terphenyl derivative 4″-deoxy-2'-methoxyterphenyllin (1), along with six known p-terphenyl derivatives (2-7), a known flavonoid derivative dechlorochlorflavonin (8) and a known fellutanine A (9), were isolated from the insect-derived strain of the fungus Aspergillus candidus Bdf-2, associated with Blaptica dub...

journal_title：PeerJ

authors： Shan T,Wang Y,Wang S,Xie Y,Cui Z,Wu C,Sun J,Wang J,Mao Z

更新日期：2020-01-02 00:00:00

abstract：:Bcl-2 (B-cell lymphoma 2) protein is localized in the outer membrane of mitochondria, where it plays an important role in promoting cellular survival and inhibiting the actions of pro-apoptotic proteins. PRDM10 is a member of the PR/SET family of epigenetic regulators and may play a role in development and cell differ...

journal_title：PeerJ

authors： Chen N,Hu T,Gui Y,Gao J,Li Z,Huang S

更新日期：2019-05-15 00:00:00

abstract：:Taphonomic deformation, the distortion of fossils as a result of geological processes, poses problems for the use of geometric morphometrics in addressing paleobiological questions. Signal from biological variation, such as ontogenetic trends and sexual dimorphism, may be lost if variation from deformation is too high...

journal_title：PeerJ

authors： Kammerer CF,Deutsch M,Lungmus JK,Angielczyk KD

更新日期：2020-10-07 00:00:00

abstract：:Acoustic recording has been recognized as a valuable tool for non-intrusive monitoring of the marine environment, complementing traditional visual surveys. Acoustic surveys conducted on coral ecosystems have so far been restricted to barrier reefs and to shallow depths (10-30 m). Since they may provide refuge for cora...

journal_title：PeerJ

authors： Bertucci F,Parmentier E,Berthe C,Besson M,Hawkins AD,Aubin T,Lecchini D

更新日期：2017-11-14 00:00:00

abstract：Background:Plant reproduction is influenced by the net outcome of plant-herbivore and plant-pollinator interactions. While both herbivore impacts and pollinator impacts on plant reproduction have been widely studied, few studies examine them in concert. Methodology:Here, we review the contemporary literature that exam...

journal_title：PeerJ

authors： Haas SM,Lortie CJ

更新日期：2020-06-08 00:00:00

abstract：:A striking and unexpected biochemical phenotype was found in an insertion mutant line in the model plant Arabidopsis thaliana. One of two investigated insertion mutant lines in the gene encoding the phosphate transporter PHT4;1 demonstrated a prominent loss of trienoic fatty acids, whereas the other insertion line was...

journal_title：PeerJ

authors： Nilsson AK,Andersson MX

更新日期：2017-12-01 00:00:00

abstract：:Much genomic-scale, especially transcriptomic, data on spider phylogeny has accumulated in the last few years. These data have recently been used to investigate the diverse architectures and the origin of spider webs, concluding that the ancestral spider spun no foraging web, that spider webs evolved de novo 10-14 tim...

journal_title：PeerJ

authors： Coddington JA,Agnarsson I,Hamilton CA,Bond JE

更新日期：2019-04-04 00:00:00

abstract：:Schemes to reduce road impacts on amphibians have been implemented for decades in Europe, yet, several aspects on the effectiveness of such schemes remain poorly understood. Particularly in northern Europe, including Sweden, there is a lack of available information on road mitigation for amphibians, which is hampering...

journal_title：PeerJ

authors： Helldin JO,Petrovan SO

更新日期：2019-08-26 00:00:00

abstract：:This study evaluated pollution levels in water and sediments of Península de Paraguaná and related these levels with benthic macrofauna along a coastal area where the largest Venezuelan oil refineries have operated over the past 60 years. For this, the concentration of heavy metals, of hydrocarbon compounds and the co...

journal_title：PeerJ

authors： Croquer A,Bone D,Bastidas C,Ramos R,García E

更新日期：2016-06-23 00:00:00

abstract：:Bird communities in lowland Neotropical forests exhibit temporal and spatial variation in species composition and abundance at multiple scales. Detecting and explaining such variation requires adequate methods for sampling those bird communities but counting birds in highly diverse lowland forests of the Neotropics ca...

journal_title：PeerJ

authors： Blake JG

更新日期：2021-01-13 00:00:00

abstract：:The exoskeleton is an important source of characters for the taxonomy of Hydroidolina. It originates as epidermal secretions and, among other functions, protects the coenosarc of the polypoid stage. However, comparative studies on the exoskeletal tissue origin, development, chemical, and structural characteristics, as...

journal_title：PeerJ

authors： Mendoza-Becerril MA,Marian JE,Migotto AE,Marques AC

更新日期：2017-02-16 00:00:00

abstract：:Reservoirs possess gradients in conditions and resources along their long (deep-shallow) axis, but the response of littoral vertebrates (fish and turtles) to these gradients is poorly understood. We have quantified the littoral vertebrate communities throughout a small reservoir in Southeastern Ohio during July and Au...

journal_title：PeerJ

authors： Ruhl N,Soski JJ,Roosenburg WM

更新日期：2014-12-11 00:00:00

abstract：:Analysis of calcium sparks in cardiomyocytes can provide valuable information about functional changes of calcium handling in health and disease. As a part of the calcium sparks analysis, sparks detection and characterization is necessary. Here, we describe a new open-source platform for automatic calcium sparks detec...

journal_title：PeerJ

authors： Laasmaa M,Karro N,Birkedal R,Vendelin M

更新日期：2019-03-29 00:00:00

abstract：:Estimating the depth of anaesthesia (DoA) in operations has always been a challenging issue due to the underlying complexity of the brain mechanisms. Electroencephalogram (EEG) signals are undoubtedly the most widely used signals for measuring DoA. In this paper, a novel EEG-based index is proposed to evaluate DoA for...

journal_title：PeerJ

authors： Liu Q,Ma L,Fan SZ,Abbod MF,Shieh JS

更新日期：2018-05-23 00:00:00

abstract：:Coastal birds are critical ecosystem constituents on sandy shores, yet are threatened by depressed reproductive success resulting from direct and indirect anthropogenic and natural pressures. Few studies examine clutch fate across the wide range of environments experienced by birds; instead, most focus at the small si...

journal_title：PeerJ

authors： Maslo B,Schlacher TA,Weston MA,Huijbers CM,Anderson C,Gilby BL,Olds AD,Connolly RM,Schoeman DS

更新日期：2016-09-13 00:00:00

abstract：:Human hands, when compared to that of apes, have a series of adaptations to facilitate manipulation. Numerous studies have shown that Australopithecus afarensis and Au. africanus display some of these adaptations, such as a longer thumb relative to the other fingers, asymmetric heads on the second and fifth metacarpal...

journal_title：PeerJ

authors： Drapeau MS

更新日期：2015-10-06 00:00:00