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https://www.readbyqxmd.com/read/28229028/small-scale-spatial-variation-in-population-and-individual-level-reproductive-parameters-of-the-blue-legged-hermit-crab-clibanarius-tricolor
#1
J Antonio Baeza, Donald C Behringer
Management of the few regulated ornamental fisheries relies on inadequate information about the life history of the target species. Herein, we investigated the reproductive biology of the most heavily traded marine invertebrate in the western Atlantic; the blue-legged hermit crab Clibanarius tricolor. We report on density, individual-level, and population-level reproductive parameters in 14 populations spanning the Florida Keys. In C. tricolor, abundance, population-level, and individual-level reproductive parameters exhibited substantial small-scale spatial variation in the Florida Keys...
2017: PeerJ
https://www.readbyqxmd.com/read/28229027/risk-analysis-of-colorectal-cancer-incidence-by-gene-expression-analysis
#2
Wei-Chuan Shangkuan, Hung-Che Lin, Yu-Tien Chang, Chen-En Jian, Hueng-Chuen Fan, Kang-Hua Chen, Ya-Fang Liu, Huan-Ming Hsu, Hsiu-Ling Chou, Chung-Tay Yao, Chi-Ming Chu, Sui-Lung Su, Chi-Wen Chang
BACKGROUND: Colorectal cancer (CRC) is one of the leading cancers worldwide. Several studies have performed microarray data analyses for cancer classification and prognostic analyses. Microarray assays also enable the identification of gene signatures for molecular characterization and treatment prediction. OBJECTIVE: Microarray gene expression data from the online Gene Expression Omnibus (GEO) database were used to to distinguish colorectal cancer from normal colon tissue samples...
2017: PeerJ
https://www.readbyqxmd.com/read/28229026/spawning-aggregation-of-white-streaked-grouper-epinephelus-ongus-spatial-distribution-and-annual-variation-in-the-fish-density-within-a-spawning-ground
#3
Atsushi Nanami, Taku Sato, Yuuki Kawabata, Junichi Okuyama
White-streaked grouper (Epinephelus ongus) is an important fisheries target and forms spawning aggregations at particular spawning grounds. The aims of the present study were to investigate the ecological characteristics of annual spawning aggregations such as (1) spatial variations in the density of E. ongus at the spawning ground, (2) the relationship between fish density and environmental variables, (3) inter-annual variations in the spawning aggregation, (4) the proportion of males to females at the spawning ground for several days pre-and post-spawning and (5) the relationship between male density and female density at the protected spawning ground, based on observations over five years at an Okinawan coral reef...
2017: PeerJ
https://www.readbyqxmd.com/read/28229025/effect-of-interleukin-il-35-on-il-17-expression-and-production-by-human-cd4-%C3%A2-t-cells
#4
Kosuke Okada, Takeki Fujimura, Takeshi Kikuchi, Makoto Aino, Yosuke Kamiya, Ario Izawa, Yuki Iwamura, Hisashi Goto, Iichiro Okabe, Eriko Miyake, Yoshiaki Hasegawa, Makio Mogi, Akio Mitani
BACKGROUND: Interleukin (IL)-17 produced by mainly T helper 17 (Th17) cells may play an important destructive role in chronic periodontitis (CP). Thus, anti-inflammatory cytokines, such as IL-35, might have a beneficial effect in periodontitis by inhibiting differentiation of Th17 cells. Th17 differentiation is regulated by the retinoic acid receptor-related orphan receptor (ROR) α (encoded by RORA) and RORγt (encoded by RORC). However, the role of IL-35 in periodontitis is not clear and the effect of IL-35 on the function of Th17 cells is still incompletely understood...
2017: PeerJ
https://www.readbyqxmd.com/read/28229024/modafinil-decreases-anxiety-like-behaviour-in-zebrafish
#5
Adrian Johnson, Trevor James Hamilton
Modafinil (2-((diphenylmethyl)sulfinyl)acetamide), a selective dopamine and norepinephrine transporter inhibitor, is most commonly prescribed for narcolepsy but has gained recent interest for treating a variety of disorders. Zebrafish (Danio rerio) are becoming a model of choice for pharmacological and behavioural research. To investigate the behavioural effects of modafinil on anxiety, we administered doses of 0, 2, 20, and 200 mg/L for 30 minutes then tested zebrafish in the novel approach test. In this test, the fish was placed into a circular arena with a novel object in the center and motion-tracking software was used to quantify the time the fish spent in the outer area of the arena (thigmotaxis zone), middle third of the arena (transition zone) and center of the arena, as well as total distance traveled, immobility and meandering...
2017: PeerJ
https://www.readbyqxmd.com/read/28229023/toxgen-an-improved-reference-database-for-the-identification-of-type-b-trichothecene-genotypes-in-fusarium
#6
Tomasz Kulik, Kessy Abarenkov, Maciej Buśko, Katarzyna Bilska, Anne D van Diepeningen, Anna Ostrowska-Kołodziejczak, Katarzyna Krawczyk, Balázs Brankovics, Sebastian Stenglein, Jakub Sawicki, Juliusz Perkowski
Type B trichothecenes, which pose a serious hazard to consumer health, occur worldwide in grains. These mycotoxins are produced mainly by three different trichothecene genotypes/chemotypes: 3ADON (3-acetyldeoxynivalenol), 15ADON (15-acetyldeoxynivalenol) and NIV (nivalenol), named after these three major mycotoxin compounds. Correct identification of these genotypes is elementary for all studies relating to population surveys, fungal ecology and mycotoxicology. Trichothecene producers exhibit enormous strain-dependent chemical diversity, which may result in variation in levels of the genotype's determining toxin and in the production of low to high amounts of atypical compounds...
2017: PeerJ
https://www.readbyqxmd.com/read/28229022/opportunities-drive-the-global-distribution-of-protected-areas
#7
Germán Baldi, Marcos Texeira, Osvaldo A Martin, H Ricardo Grau, Esteban G Jobbágy
BACKGROUND: Protected areas, regarded today as a cornerstone of nature conservation, result from an array of multiple motivations and opportunities. We explored at global and regional levels the current distribution of protected areas along biophysical, human, and biological gradients, and assessed to what extent protection has pursued (i) a balanced representation of biophysical environments, (ii) a set of preferred conditions (biological, spiritual, economic, or geopolitical), or (iii) existing opportunities for conservation regardless of any representation or preference criteria...
2017: PeerJ
https://www.readbyqxmd.com/read/28229021/the-preventive-effect-of-dexmedetomidine-on-paroxysmal-sympathetic-hyperactivity-in-severe-traumatic-brain-injury-patients-who-have-undergone-surgery-a-retrospective-study
#8
Qilin Tang, Xiang Wu, Weiji Weng, Hongpeng Li, Junfeng Feng, Qing Mao, Guoyi Gao, Jiyao Jiang
BACKGROUND: Paroxysmal sympathetic hyperactivity (PSH) results and aggravates in secondary brain injury, which seriously affects the prognosis of severe traumatic brain injury patients. Although several studies have focused on the treatment of PSH, few have concentrated on its prevention. METHODS: Ninety post-operation (post-op) severe traumatic brain injury (sTBI) patients admitted from October 2014 to April 2016 were chosen to participate in this study. Fifty of the post-op sTBI patients were sedated with dexmedetomidine and were referred as the "dexmedetomidine group" (admitted from May 2015 to April 2016)...
2017: PeerJ
https://www.readbyqxmd.com/read/28229020/an-open-source-device-for-operant-licking-in-rats
#9
Matthew Longley, Ethan L Willis, Cindy X Tay, Hao Chen
We created an easy-to-use device for operant licking experiments and another device that records environmental variables. Both devices use the Raspberry Pi computer to obtain data from multiple input devices (e.g., radio frequency identification tag readers, touch and motion sensors, environmental sensors) and activate output devices (e.g., LED lights, syringe pumps) as needed. Data gathered from these devices are stored locally on the computer but can be automatically transferred to a remote server via a wireless network...
2017: PeerJ
https://www.readbyqxmd.com/read/28229019/is-there-a-relation-between-dental-anxiety-fear-and-general-psychological-status
#10
Tuba Talo Yildirim, Serkan Dundar, Alihan Bozoglan, Tahir Karaman, Neval Dildes, Filiz Acun Kaya, Eyyup Altintas, Faruk Oztekin, Osman Atas, Hilal Alan
BACKGROUND: Dental anxiety is a widespread problem in many populations. This problem can be a barrier to dental care and may lead to poor oral health. Dental anxiety may be related to psychological status. AIMS: The aim of the present study was to assess the levels of dental anxiety, dental fear, Beck Depression, and state-trait anxiety according to age, gender and education level in patients at the periodontology clinic in the Diyarbakır Mouth and Dental Health Center...
2017: PeerJ
https://www.readbyqxmd.com/read/28229018/-genomic-data-mining-of-the-marine-actinobacteria-streptomyces-sp-h-kf8-unveils-insights-into-multi-stress-related-genes-and-metabolic-pathways-involved-in-antimicrobial-synthesis
#11
Agustina Undabarrena, Juan A Ugalde, Michael Seeger, Beatriz Cámara
Streptomyces sp. H-KF8 is an actinobacterial strain isolated from marine sediments of a Chilean Patagonian fjord. Morphological characterization together with antibacterial activity was assessed in various culture media, revealing a carbon-source dependent activity mainly against Gram-positive bacteria (S. aureus and L. monocytogenes). Genome mining of this antibacterial-producing bacterium revealed the presence of 26 biosynthetic gene clusters (BGCs) for secondary metabolites, where among them, 81% have low similarities with known BGCs...
2017: PeerJ
https://www.readbyqxmd.com/read/28224054/variant-profiling-of-evolving-prokaryotic-populations
#12
Markus Zojer, Lisa N Schuster, Frederik Schulz, Alexander Pfundner, Matthias Horn, Thomas Rattei
Genomic heterogeneity of bacterial species is observed and studied in experimental evolution experiments and clinical diagnostics, and occurs as micro-diversity of natural habitats. The challenge for genome research is to accurately capture this heterogeneity with the currently used short sequencing reads. Recent advances in NGS technologies improved the speed and coverage and thus allowed for deep sequencing of bacterial populations. This facilitates the quantitative assessment of genomic heterogeneity, including low frequency alleles or haplotypes...
2017: PeerJ
https://www.readbyqxmd.com/read/28224053/understanding-morphological-variability-in-a-taxonomic-context-in-chilean-diplomystids-teleostei-siluriformes-including-the-description-of-a-new-species
#13
Gloria Arratia, Claudio Quezada-Romegialli
Following study of the external morphology and its unmatched variability throughout ontogeny and a re-examination of selected morphological characters based on many specimens of diplomystids from Central and South Chile, we revised and emended previous specific diagnoses and consider Diplomystes chilensis, D. nahuelbutaensis, D. camposensis, and Olivaichthys viedmensis (Baker River) to be valid species. Another group, previously identified as Diplomystes sp., D. spec., D. aff. chilensis, and D. cf. chilensis inhabiting rivers between Rapel and Itata Basins is given a new specific name (Diplomystes incognitus) and is diagnosed...
2017: PeerJ
https://www.readbyqxmd.com/read/28224052/compacting-and-correcting-trinity-and-oases-rna-seq-de-novo-assemblies
#14
Cédric Cabau, Frédéric Escudié, Anis Djari, Yann Guiguen, Julien Bobe, Christophe Klopp
BACKGROUND: De novo transcriptome assembly of short reads is now a common step in expression analysis of organisms lacking a reference genome sequence. Several software packages are available to perform this task. Even if their results are of good quality it is still possible to improve them in several ways including redundancy reduction or error correction. Trinity and Oases are two commonly used de novo transcriptome assemblers. The contig sets they produce are of good quality. Still, their compaction (number of contigs needed to represent the transcriptome) and their quality (chimera and nucleotide error rates) can be improved...
2017: PeerJ
https://www.readbyqxmd.com/read/28224051/high-richness-of-insect-herbivory-from-the-early-miocene-hindon-maar-crater-otago-new-zealand
#15
Anna Lena Möller, Uwe Kaulfuss, Daphne E Lee, Torsten Wappler
Plants and insects are key components of terrestrial ecosystems and insect herbivory is the most important type of interaction in these ecosystems. This study presents the first analysis of associations between plants and insects for the early Miocene Hindon Maar fossil lagerstätte, Otago, New Zealand. A total of 584 fossil angiosperm leaves representing 24 morphotypes were examined to determine the presence or absence of insect damage types. Of these leaves, 73% show signs of insect damage; they comprise 821 occurrences of damage from 87 damage types representing all eight functional feeding groups...
2017: PeerJ
https://www.readbyqxmd.com/read/28224050/exoskeletons-of-bougainvilliidae-and-other-hydroidolina-cnidaria-hydrozoa-structure-and-composition
#16
María A Mendoza-Becerril, José Eduardo A R Marian, Alvaro Esteves Migotto, Antonio Carlos Marques
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 well as its evolution and homology, are few and fragmented. This study compares the structure and composition of the exoskeleton and underlying coenosarc in members of "Anthoathecata" and some Leptothecata, but does so mainly in bougainvilliid polyps histological analyses...
2017: PeerJ
https://www.readbyqxmd.com/read/28194319/candidate-genes-that-have-facilitated-freshwater-adaptation-by-palaemonid-prawns-in-the-genus-macrobrachium-identification-and-expression-validation-in-a-model-species-m-koombooloomba
#17
Md Lifat Rahi, Shorash Amin, Peter B Mather, David A Hurwood
BACKGROUND: The endemic Australian freshwater prawn, Macrobrachium koombooloomba, provides a model for exploring genes involved with freshwater adaptation because it is one of the relatively few Macrobrachium species that can complete its entire life cycle in freshwater. METHODS: The present study was conducted to identify potential candidate genes that are likely to contribute to effective freshwater adaptation by M. koombooloomba using a transcriptomics approach...
2017: PeerJ
https://www.readbyqxmd.com/read/28194318/cropping-system-diversification-for-food-production-in-mindanao-rubber-plantations-a-rice-cultivar-mixture-and-rice-intercropped-with-mungbean
#18
Rosa Fe Hondrade, Edwin Hondrade, Lianqing Zheng, Francisco Elazegui, Jo-Anne Lynne Joy E Duque, Christopher C Mundt, Casiana M Vera Cruz, Karen A Garrett
Including food production in non-food systems, such as rubber plantations and biofuel or bioenergy crops, may contribute to household food security. We evaluated the potential for planting rice, mungbean, rice cultivar mixtures, and rice intercropped with mungbean in young rubber plantations in experiments in the Arakan Valley of Mindanao in the Philippines. Rice mixtures consisted of two- or three-row strips of cultivar Dinorado, a cultivar with higher value but lower yield, and high-yielding cultivar UPL Ri-5...
2017: PeerJ
https://www.readbyqxmd.com/read/28194317/pull-down-combined-with-proteomic-strategy-reveals-functional-diversity-of-synaptotagmin-i
#19
Tianyao Guo, Zhigui Duan, Jia Chen, Chunliang Xie, Ying Wang, Ping Chen, Xianchun Wang
Synaptotagmin I (Syt I) is most abundant in the brain and is involved in multiple cellular processes. Its two C2 domains, C2A and C2B, are the main functional regions. Our present study employed a pull-down combined with proteomic strategy to identify the C2 domain-interacting proteins to comprehensively understand the biological roles of the C2 domains and thus the functional diversity of Syt I. A total of 135 non-redundant proteins interacting with the C2 domains of Syt I were identified. Out of them, 32 and 64 proteins only bound to C2A or C2B domains, respectively, and 39 proteins bound to both of them...
2017: PeerJ
https://www.readbyqxmd.com/read/28194316/large-scale-gene-flow-in-the-barnacle-jehlius-cirratus-and-contrasts-with-other-broadly-distributed-taxa-along-the-chilean-coast
#20
Baoying Guo, John P Wares
We evaluate the population genetic structure of the intertidal barnacle Jehlius cirratus across a broad portion of its geographic distribution using data from the mitochondrial cytochrome oxidase I (COI) gene region. Despite sampling diversity from over 3,000 km of the linear range of this species, there is only slight regional structure indicated, with overall Φ CT of 0.036 (p < 0.001) yet no support for isolation by distance. While these results suggest greater structure than previous studies of J...
2017: PeerJ
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