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https://www.readbyqxmd.com/read/28821184/repetitive-dna-in-the-catfish-genome-rdna-microsatellites-and-tc1-mariner-transposon-sequences-in-imparfinis-species-siluriformes-heptapteridae
#1
Juceli Gonzalez Gouveia, Ivan Rodrigo Wolf, Laurival Antonio Vilas-Boas, John Seymour Heslop-Harrison, Trude Schwarzacher, Ana Lúcia Dias
Physical mapping of repetitive DNA families in the karyotypes of fish is important to understand the organization and evolution of different orders, families, genera, or species. Fish in the genus Imparfinis show diverse karyotypes with various diploid numbers and ribosomal DNA (rDNA) locations. Here we isolated and characterized Tc1-mariner nucleotide sequences from Imparfinis schubarti, and mapped their locations together with 18S rDNA, 5S rDNA, and microsatellite probes in Imparfinis borodini and I. schubarti chromosomes...
September 1, 2017: Journal of Heredity
https://www.readbyqxmd.com/read/28821183/improvement-of-the-threespine-stickleback-genome-using-a-hi-c-based-proximity-guided-assembly
#2
Catherine L Peichel, Shawn T Sullivan, Ivan Liachko, Michael A White
Scaffolding genomes into complete chromosome assemblies remains challenging even with the rapidly increasing sequence coverage generated by current next-generation sequence technologies. Even with scaffolding information, many genome assemblies remain incomplete. The genome of the threespine stickleback (Gasterosteus aculeatus), a fish model system in evolutionary genetics and genomics, is not completely assembled despite scaffolding with high-density linkage maps. Here, we first test the ability of a Hi-C based proximity-guided assembly (PGA) to perform a de novo genome assembly from relatively short contigs...
September 1, 2017: Journal of Heredity
https://www.readbyqxmd.com/read/28821002/modeling-the-fate-and-transport-of-17%C3%AE-estradiol-in-the-south-river-watershed-in-virginia
#3
Xiaomin Zhao, Wu-Seng Lung
Hormones excreted by livestock metabolisms often enter surface water through feces and urine and can potentially cause adverse impacts to aquatic biota. This study involved a modeling analysis of 17β-estradiol (E2), a prevalent estrogen, in the South River watershed located in Augusta County, Virginia from 2013 to 2015. Cattle manure, poultry litter, biosolids, septic systems, and wastewater treatment plants (WWTPs) were considered as sources of E2 in this study. The EPA's BASINS modeling framework was configured to track the fate and transport of E2...
August 13, 2017: Chemosphere
https://www.readbyqxmd.com/read/28820901/using-local-ecological-knowledge-to-monitor-threatened-mekong-megafauna-in-lao-pdr
#4
Thomas N E Gray, Amphone Phommachak, Kongseng Vannachomchan, Francois Guegan
Pressures on freshwater biodiversity in Southeast Asia are accelerating yet the status and conservation needs of many of the region's threatened fish species are unclear. This impacts the ability to implement conservation activities and to understand the effects of infrastructure developments and other hydrological changes. We used Local Ecological Knowledge from fishing communities on the Mekong River in the Siphandone waterscape, Lao PDR to estimate mean and mode last capture dates of eight rare or culturally significant fish species in order to provide conservation monitoring baselines...
2017: PloS One
https://www.readbyqxmd.com/read/28820381/possible-role-of-fish-as-transport-hosts-for-dracunculus-spp-larvae
#5
Christopher A Cleveland, Mark L Eberhard, Alec T Thompson, Stephen J Smith, Hubert Zirimwabagabo, Robert Bringolf, Michael J Yabsley
To inform Dracunculus medinensis (Guinea worm) eradication efforts, we evaluated the role of fish as transport hosts for Dracunculus worms. Ferrets fed fish that had ingested infected copepods became infected, highlighting the importance of recommendations to cook fish, bury entrails, and prevent dogs from consuming raw fish and entrails.
September 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28820099/hymenobacter-pallidus-sp-nov-isolated-from-a-freshwater-fish-culture-pond
#6
Shih-Yi Sheu, Yi-Shu Li, Chiu-Chung Young, Wen-Ming Chen
A bacterial strain designated LYH-12T was isolated from a freshwater fish culture pond in Taiwan, ROC and characterized by taking a polyphasic taxonomy approach. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain LYH-12T belonged to the genus Hymenobacter and was most closely related to Hymenobacter xinjiangensis X2-1gT and Hymenobacter rigui WPCB131T with a sequence similarity of 96.6 % and less than 96.5 % with other members of the genus. Cells of strain LYH-12T were Gram-stain-negative, aerobic, non-motile rods that were covered by large capsules and formed light pink-coloured colonies...
August 18, 2017: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/28820083/threonine-deficiency-decreased-intestinal-immunity-and-aggravated-inflammation-associated-with-nf-%C3%AE%C2%BAb-and-target-of-rapamycin-signalling-pathways-in-juvenile-grass-carp-ctenopharyngodon-idella-after-infection-with-aeromonas-hydrophila
#7
Yu-Wen Dong, Wei-Dan Jiang, Yang Liu, Pei Wu, Jun Jiang, Sheng-Yao Kuang, Ling Tang, Wu-Neng Tang, Yong-An Zhang, Xiao-Qiu Zhou, Lin Feng
This study aimed to investigate the impacts of dietary threonine on intestinal immunity and inflammation in juvenile grass carp. Six iso-nitrogenous semi-purified diets containing graded levels of threonine (3·99-21·66 g threonine/kg) were formulated and fed to fishes for 8 weeks, and then challenged with Aeromonas hydrophila for 14 d. Results showed that, compared with optimum threonine supplementation, threonine deficiency (1) decreased the ability of fish against enteritis, intestinal lysozyme activities (except in the distal intestine), acid phosphatase activities, complement 3 (C3) and C4 contents and IgM contents (except in the proximal intestine (PI)), and it down-regulated the transcript abundances of liver-expressed antimicrobial peptide (LEAP)-2A, LEAP-2B, hepcidin, IgZ, IgM and β-defensin1 (except in the PI) (P<0·05); (2) could up-regulate intestinal pro-inflammatory cytokines TNF-α, IL-1β, IL-6, IL-8 and IL-17D mRNA levels partly related to NF-κB signalling; (3) could down-regulate intestinal anti-inflammatory cytokine transforming growth factor (TGF)-β1, TGF-β2, IL-4/13A (not IL-4/13B) and IL-10 mRNA levels partly by target of rapamycin signalling...
July 2017: British Journal of Nutrition
https://www.readbyqxmd.com/read/28819995/the-effect-of-different-fish-feed-compositions-on-%C3%AE-13-c-and-%C3%AE-15-n-signatures-of-sea-bass-and-its-potential-value-for-tracking-mariculture-derived-nutrients
#8
Henrik Kusche, Nicola Hillgruber, Yvonne Rößner, Ulfert Focken
Increasing demand for fish and seafood calls for an expansion of aquaculture production. At the same time, the status of the marine environment must not be jeopardised. Stable isotopes are potential markers for tracking feed-based nutrient flows from aquaculture into marine biota. Here, we demonstrate how four experimental diets (main protein components: fishmeal, soya protein concentrate, wheat gluten, and Jatropha kernel meal) and a commercial diet induce characteristic δ(13)C and δ(15)N signals in sea bass (Dicentrarchus labrax) during nine weeks of laboratory feeding under replicate conditions...
August 18, 2017: Isotopes in Environmental and Health Studies
https://www.readbyqxmd.com/read/28819846/filter-adapted-fluorescent-in-situ-hybridization-fa-fish-for-filtration-enriched-circulating-tumor-cells
#9
Marianne Oulhen, Emma Pailler, Vincent Faugeroux, Françoise Farace
Circulating tumor cells (CTCs) may represent an easily accessible source of tumor material to assess genetic aberrations such as gene-rearrangements or gene-amplifications and screen cancer patients eligible for targeted therapies. As the number of CTCs is a critical parameter to identify such biomarkers, we developed fluorescent in situ hybridization (FISH) for CTCs enriched on filters (filter-adapted-FISH, FA-FISH). Here, we describe the FA-FISH protocol, the combination of immunofluorescent staining (DAPI/CD45) and FA-FISH techniques, as well as the semi-automated microscopy method that we developed to improve the feasibility and reliability of FISH analyses in filtration-enriched CTC...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28819794/in-vitro-selection-and-identification-of-potential-probiotics-isolated-from-the-gastrointestinal-tract-of-nile-tilapia-oreochromis-niloticus
#10
Rasha M Reda, Khaled M Selim, Hassanin M El-Sayed, M A El-Hady
Fish gut bacteria can be used as probiotics for aquaculture. The aim of this study is to screen and identify beneficial probiotic bacteria from the gut of Nile tilapia, Oreochromis niloticus. Nine out of one hundred thirty-five isolates were non-pathogenic through intraperitoneal injection and had antibacterial activities with at least a strain from the five isolated fish pathogens, Aeromonas sobria, Aeromonas hydrophila, Pseudomonas aeruginosa, Pseudomonas putida, and Staphylococcus aureus. Further tests showed that such isolates can survive in the presence of high bile concentration (10%) and at different acidic pH values...
August 17, 2017: Probiotics and Antimicrobial Proteins
https://www.readbyqxmd.com/read/28819770/total-suspended-solids-effects-on-freshwater-lake-biota-other-than-fish
#11
REVIEW
Peter M Chapman, April Hayward, John Faithful
Protective benchmarks for the effects of total suspended solids (TSS) on freshwater aquatic biota primarily focus on fish; whether these benchmarks will also protect their prey or co-existing lower trophic level aquatic biota was uncertain. We conducted an extensive literature review of TSS effects on those organisms comprising the food webs upon which fish living in lakes depend: phytoplankton, zooplankton, periphyton, and benthic invertebrates. The available literature indicates that TSS benchmarks that protect sensitive life stages of lake fish will also protect their supporting food webs; in other words, the function of lake aquatic communities will be protected and maintained...
August 17, 2017: Bulletin of Environmental Contamination and Toxicology
https://www.readbyqxmd.com/read/28819745/bioassessment-of-the-effluents-discharged-from-two-export-oriented-industrial-zones-located-in-kelani-river-basin-sri-lanka-using-erythrocytic-responses-of-the-fish-nile-tilapia-oreochromis-niloticus
#12
C K Hemachandra, A Pathiratne
Complex effluents originating from diverse industrial processes in industrial zones could pose cytotoxic/genotoxic hazards to biota in the receiving ecosystems which cannot be revealed by conventional monitoring methods. This study assessed potential cytotoxicity/genotoxicity of treated effluents of two industrial zones which are discharged into Kelani river, Sri Lanka combining erythrocytic abnormality tests and comet assay of the tropical model fish, Nile tilapia. Exposure of fish to the effluents induced erythrocytic DNA damage and deformed erythrocytes with serrated membranes, vacuolations, nuclear buds and micronuclei showing cytotoxic/genotoxic hazards in all cases...
August 17, 2017: Bulletin of Environmental Contamination and Toxicology
https://www.readbyqxmd.com/read/28819573/an-interstitial-4q-deletion-with-a-mosaic-complementary-ring-chromosome-in-a-child-with-dysmorphism-linear-skin-pigmentation-and-hepatomegaly
#13
J Carter, H Brittain, D Morrogh, N Lench, J J Waters
Interstitial deletions of 4q are rarely reported, vary in size, and have limited genotype-phenotype correlations. Here, genome-wide array CGH analysis identified a 21.6 Mb region of copy number loss at 4q12-q21.1 in a patient diagnosed with dysmorphism, linear skin pigmentation, and hepatomegaly. An additional small ring chromosome was detected in 5/30 cells examined via G-banding. Confirmation of the origin of the ring chromosome was obtained by FISH analysis which identified that the ring chromosome contained material from the deleted region of chromosome 4 and was therefore complementary to the 21...
2017: Case Reports in Genetics
https://www.readbyqxmd.com/read/28819303/automated-segmentation-of-light-sheet-fluorescent-imaging-to-characterize-experimental-doxorubicin-induced-cardiac-injury-and-repair
#14
René R Sevag Packard, Kyung In Baek, Tyler Beebe, Nelson Jen, Yichen Ding, Feng Shi, Peng Fei, Bong Jin Kang, Po-Heng Chen, Jonathan Gau, Michael Chen, Jonathan Y Tang, Yu-Huan Shih, Yonghe Ding, Debiao Li, Xiaolei Xu, Tzung K Hsiai
This study sought to develop an automated segmentation approach based on histogram analysis of raw axial images acquired by light-sheet fluorescent imaging (LSFI) to establish rapid reconstruction of the 3-D zebrafish cardiac architecture in response to doxorubicin-induced injury and repair. Input images underwent a 4-step automated image segmentation process consisting of stationary noise removal, histogram equalization, adaptive thresholding, and image fusion followed by 3-D reconstruction. We applied this method to 3-month old zebrafish injected intraperitoneally with doxorubicin followed by LSFI at 3, 30, and 60 days post-injection...
August 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28819230/genomic-signatures-of-local-adaptation-reveal-source-sink-dynamics-in-a-high-gene-flow-fish-species
#15
Katherine Cure, Luke Thomas, Jean-Paul A Hobbs, David V Fairclough, W Jason Kennington
Understanding source-sink dynamics is important for conservation management, particularly when climatic events alter species' distributions. Following a 2011 'marine heatwave' in Western Australia, we observed high recruitment of the endemic fisheries target species Choerodon rubescens, towards the cooler (southern) end of its distribution. Here, we use a genome wide set of 14 559 single-nucleotide polymorphisms (SNPs) to identify the likely source population for this recruitment event. Most loci (76%) showed low genetic divergence across the species' range, indicating high levels of gene flow and confirming previous findings using neutral microsatellite markers...
August 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28819161/correlations-of-age-and-growth-rate-with-microbiota-composition-in-atlantic-cod-gadus-morhua-larvae
#16
Ly T T Trinh, Ingrid Bakke, Olav Vadstein
Little information is available on the link between host development (growth rate and ontogeny) and the composition of the microbiota in fish larvae. This study was carried out to examine potential correlations of microbiota composition with age and growth rate of Atlantic cod larvae. Small and large cod larvae of the same age, representing slow and fast growing individuals, were sampled 10 times during a period of 42 days post hatching (dph), and the composition of the larval microbiota was investigated using a PCR/DGGE (Denaturing Gradient Gel Electrophoresis) strategy...
August 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28819121/mucus-organisation-is-shaped-by-colonic-content-a-new-view
#17
J B J Kamphuis, M Mercier-Bonin, H Eutamène, V Theodorou
The colonic mucus barrier is commonly described as a continuous double layer covering the epithelium, separating the microbiota from the intestinal tissue. This model is currently considered valid throughout the colon. The colon is characterised by regional anatomo-functional specificities such as presence and consistency of contents and location. In this study, we characterised the organisation of the colonic mucus barrier in proximal and distal colon of rodents by histological and FISH staining, taking into account aforementioned specificities...
August 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28818905/complete-genome-sequence-of-mycobacterium-stephanolepidis
#18
Hanako Fukano, Mitsunori Yoshida, Yukie Katayama, Tsutomu Omatsu, Tetsuya Mizutani, Osamu Kurata, Shinpei Wada, Yoshihiko Hoshino
Mycobacterium stephanolepidis is a rapid-growing nonpigmented species isolated from marine teleost fish (Stephanolepis cirrhifer) and is closely related to Mycobacterium chelonae Here, we report the complete sequence of its genome, comprising a 4.9-Mb chromosome. The sequence represents essential data for future phylogenetic and comparative genome studies of this fish pathogen.
August 17, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28818891/complete-genome-sequence-of-pseudoalteromonas-piscicida-strain-de2-b-a-bacterium-with-broad-inhibitory-activity-toward-human-and-fish-pathogens
#19
Gary P Richards, David S Needleman, Michael A Watson
Pseudoalteromonas piscicida strain DE2-B is a halophilic bacterium which has broad inhibitory activity toward vibrios and other human and fish pathogens. We report the first closed genome sequence for this species, which consists of two chromosomes (4,128,210 and 1,188,838 bp). Annotation revealed multiple genes encoding proteases with potential antibacterial properties.
August 17, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28818815/mercury-concentrations-in-china-s-coastal-waters-and-implications-for-fish-consumption-by-vulnerable-populations
#20
Yindong Tong, Mengzhu Wang, Xiaoge Bu, Xin Guo, Yan Lin, Huiming Lin, Jing Li, Wei Zhang, Xuejun Wang
We assessed mercury (Hg) pollution in China's coastal waters, including the Bohai Sea, the Yellow Sea, the East China Sea and the South China Sea, based on a nationwide dataset from 301 sampling sites. A methylmercury (MeHg) intake model for humans based on the marine food chain and human fish consumption was established to determine the linkage between water pollutants and the pollutant intake by humans. The predicted MeHg concentration in fish from the Bohai Sea was the highest among the four seas included in the study...
August 14, 2017: Environmental Pollution
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