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https://www.readbyqxmd.com/read/29785397/whole-genome-sequencing-of-greater-amberjack-seriola-dumerili-for-snp-identification-on-aligned-scaffolds-and-genome-structural-variation-analysis-using-parallel-resequencing
#1
Kazuo Araki, Jun-Ya Aokic, Junya Kawase, Kazuhisa Hamada, Akiyuki Ozaki, Hiroshi Fujimoto, Ikki Yamamoto, Hironori Usuki
Greater amberjack ( Seriola dumerili ) is distributed in tropical and temperate waters worldwide and is an important aquaculture fish. We carried out de novo sequencing of the greater amberjack genome to construct a reference genome sequence to identify single nucleotide polymorphisms (SNPs) for breeding amberjack by marker-assisted or gene-assisted selection as well as to identify functional genes for biological traits. We obtained 200 times coverage and constructed a high-quality genome assembly using next generation sequencing technology...
2018: International Journal of Genomics
https://www.readbyqxmd.com/read/29782501/disentangling-the-complexity-of-tropical-small-scale-fisheries-dynamics-using-supervised-self-organizing-maps
#2
Manuel Mendoza-Carranza, Elisabet Ejarque, Leopold A J Nagelkerke
Tropical small-scale fisheries are typical for providing complex multivariate data, due to their diversity in fishing techniques and highly diverse species composition. In this paper we used for the first time a supervised Self-Organizing Map (xyf-SOM), to recognize and understand the internal heterogeneity of a tropical marine small-scale fishery, using as model the fishery fleet of San Pedro port, Tabasco, Mexico. We used multivariate data from commercial logbooks, including the following four factors: fish species (47), gear types (bottom longline, vertical line+shark longline and vertical line), season (cold, warm), and inter-annual variation (2007-2012)...
2018: PloS One
https://www.readbyqxmd.com/read/29778594/differetial-toxin-profiles-of-ciguatoxins-in-marine-organisms-chemistry-fate-and-global-distribution
#3
REVIEW
Lucía Soliño, Pedro Reis Costa
Ciguatoxins (CTXs) are fish metabolism products and a result of biotransformation of precursor gambiertoxins produced, in the first instance, by benthic dinoflagellates Gambierdiscus and Fukuyoa. Ciguatoxins are potent neurotoxins that selectively open voltage gated sodium channels in excitable cells causing the human food poisoning known as Ciguatera (CFP). Endemic from tropical areas in central Pacific and West Indian Ocean, and the Caribbean Sea, CTX may affects up to 500,000 people annually due to fish consumption...
May 17, 2018: Toxicon: Official Journal of the International Society on Toxinology
https://www.readbyqxmd.com/read/29778225/identification-growth-and-toxicity-assessment-of-coolia-meunier-dinophyceae-from-nova-scotia-canada
#4
Nancy I Lewis, Jennifer L Wolny, John Claude Achenbach, Lee Ellis, Joseph S Pitula, Cheryl Rafuse, Detbra S Rosales, Pearse McCarron
Benthic dinoflagellates of the toxigenic genus Coolia Meunier (Dinophyceae) are known to have a global distribution in both tropical and temperate waters. The type species, C. monotis, has been reported from the Mediterranean Sea, the NE Atlantic and from Rhode Island, USA in the NW Atlantic, whereas other species in the genus have been reported from tropical locations. Coolia cells were observed in algal drift samples collected at seven sites in Nova Scotia, Canada. Clonal isolates were established from four of these locations and identified with light and scanning electron microscopy, then confirmed with genetic sequencing to be C...
May 2018: Harmful Algae
https://www.readbyqxmd.com/read/29773843/loss-of-live-coral-compromises-predator-avoidance-behaviour-in-coral-reef-damselfish
#5
Lisa Boström-Einarsson, Mary C Bonin, Philip L Munday, Geoffrey P Jones
Tropical reefs have experienced an unprecedented loss of live coral in the past few decades and the biodiversity of coral-dependent species is under threat. Many reef fish species decline in abundance as coral cover is lost, yet the mechanisms responsible for these losses are largely unknown. A commonly hypothesised cause of fish decline is the loss of shelter space between branches as dead corals become overgrown by algae. Here we tested this hypothesis by quantifying changes in predator-avoidance behaviour of a common damselfish, Pomacentrus moluccensis, before and after the death of their coral colony...
May 17, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29770692/highly-sensitive-and-practical-fluorescent-sandwich-elisa-for-ciguatoxins
#6
Takeshi Tsumuraya, Takeshi Sato, Masahiro Hirama, Ikuo Fujii
Ciguatera fish poisoning (CFP) caused by the consumption of fish that have accumulated ciguatoxins (CTXs) affects more than 50,000 people annually. The spread of CFP causes enormous damage to public health, fishery resources, and the economies of tropical and subtropical endemic regions. The difficulty in avoiding CFP arises from the lack of sensitive and reliable analytical methods for the detection and quantification of CTXs in contaminated fish, along with the normal appearance, smell, and taste of fish contaminated with the causative toxins...
May 17, 2018: Analytical Chemistry
https://www.readbyqxmd.com/read/29769538/organic-matter-loading-by-hippopotami-causes-subsidy-overload-resulting-in-downstream-hypoxia-and-fish-kills
#7
Christopher L Dutton, Amanda L Subalusky, Stephen K Hamilton, Emma J Rosi, David M Post
Organic matter and nutrient loading into aquatic ecosystems affects ecosystem structure and function and can result in eutrophication and hypoxia. Hypoxia is often attributed to anthropogenic pollution and is not common in unpolluted rivers. Here we show that organic matter loading from hippopotami causes the repeated occurrence of hypoxia in the Mara River, East Africa. We documented 49 high flow events over 3 years that caused dissolved oxygen decreases, including 13 events resulting in hypoxia, and 9 fish kills over 5 years...
May 16, 2018: Nature Communications
https://www.readbyqxmd.com/read/29768738/unlocking-biodiversity-and-conservation-studies-in-high-diversity-environments-using-environmental-dna-edna-a-test-with-guianese-freshwater-fishes
#8
Kévin Cilleros, Alice Valentini, Luc Allard, Tony Dejean, Roselyne Etienne, Gaël Grenouillet, Amaia Iribar, Pierre Taberlet, Régis Vigouroux, Sébastien Brosse
Determining the species compositions of local assemblages is a prerequisite to understanding how anthropogenic disturbances affect biodiversity. However, biodiversity measurements often remain incomplete due to the limited efficiency of sampling methods. This is particularly true in freshwater tropical environments that host rich fish assemblages, for which assessments are uncertain and often rely on destructive methods. Developing an efficient and non-destructive method to assess biodiversity in tropical freshwaters is highly important...
May 16, 2018: Molecular Ecology Resources
https://www.readbyqxmd.com/read/29764335/comparative-bioaccumulation-and-effects-of-purified-and-cellular-extract-of-cylindrospermopsin-to-freshwater-fish-hoplias-malabaricus
#9
Rodrigo de Cássio da Silva, Sonia Regina Grötzner, Daniele Dietrich Moura Costa, Juan Ramón Esquivel Garcia, Juan Muelbert, Valéria Freitas de Magalhães, Francisco Filipak Neto, Ciro Alberto de Oliveira Ribeiro
Many tropical freshwater ecosystems are impacted by cyanobacteria blooms increasing the risk of cyanotoxins exposure to aquatic organisms while human populations may be exposed by eating fish, drinking water, or dermal swimming. However, few toxicological data are available on the influence of cyanobacteria blooms in particular, cylindrospermopsin (CYN) on Brazilian neotropical fish. A number of studies demonstrated the ability of CYN to bioaccumulate in freshwater organisms and consequently enter the human food chain...
May 15, 2018: Journal of Toxicology and Environmental Health. Part A
https://www.readbyqxmd.com/read/29736999/the-hidden-half-ecology-and-evolution-of-cryptobenthic-fishes-on-coral-reefs
#10
Simon J Brandl, Christopher H R Goatley, David R Bellwood, Luke Tornabene
Teleost fishes are the most diverse group of vertebrates on Earth. On tropical coral reefs, their species richness exceeds 6000 species; one tenth of total vertebrate biodiversity. A large proportion of this diversity is composed of cryptobenthic reef fishes (CRFs): bottom-dwelling, morphologically or behaviourally cryptic species typically less than 50 mm in length. Yet, despite their diversity and abundance, these fishes are both poorly defined and understood. Herein we provide a new quantitative definition and synthesise current knowledge on the diversity, distribution and life history of CRFs...
May 7, 2018: Biological Reviews of the Cambridge Philosophical Society
https://www.readbyqxmd.com/read/29724458/interspecific-comparison-of-radiocesium-trophic-transfer-in-two-tropical-fish-species
#11
Simon Pouil, Jean-Louis Teyssié, Scott W Fowler, Marc Metian, Michel Warnau
The trophic transfer of radiocesium (134 Cs) was investigated in two tropical fish, the silver moony Monodactylus argenteus and the spotted scat Scatophagus argus. Juveniles of both species were exposed to dietary 134 Cs using the pulse-chase feeding methodology. The food was brine shrimp (Artemia salina) previously exposed to the dissolved radiotracer. Depuration kinetics of 134 Cs were followed for 45 d. Results showed that Cs was similarly efficiently assimilated by both species (AE > 50%). The estimated trophic transfer factors in the two species ranked from 1 to 2, suggesting that 134 Cs could be biomagnified in both omnivorous species...
April 30, 2018: Journal of Environmental Radioactivity
https://www.readbyqxmd.com/read/29720106/gc-bias-lead-to-increased-small-amino-acids-and-random-coils-of-proteins-in-cold-water-fishes
#12
Dongsheng Zhang, Peng Hu, Taigang Liu, Jian Wang, Shouwen Jiang, Qianghua Xu, Liangbiao Chen
BACKGROUND: Temperature adaptation of biological molecules is fundamental in evolutionary studies but remains unsolved. Fishes living in cold water are adapted to low temperatures through adaptive modification of their biological molecules, which enables their functioning in extreme cold. To study nucleotide and amino acid preference in cold-water fishes, we investigated the substitution asymmetry of codons and amino acids in protein-coding DNA sequences between cold-water fishes and tropical fishes...
May 2, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29714830/pacific-decadal-and-el-ni%C3%A3-o-oscillations-shape-survival-of-a-seabird
#13
Jocelyn Champagnon, Jean-Dominique Lebreton, Hugh Drummond, David J Anderson
Understanding and modeling population change is urgently needed to predict effects of climate change on biodiversity. High trophic-level organisms are influenced by fluctuations of prey quality and abundance, which themselves may depend on climate oscillations. Modeling effects of such fluctuations is challenging because prey populations may vary with multiple climate oscillations occurring at different time scales. The analysis of a 28-yr time series of capture-recapture data of a tropical seabird, the Nazca Booby (Sula granti), in the Galápagos, Ecuador, allowed us to test for demographic effects of two major ocean oscillations occurring at distinct time-scales: the inter-annual El Niño Southern Oscillation (ENSO) and inter-decadal oscillations...
May 2018: Ecology
https://www.readbyqxmd.com/read/29704554/growth-physiological-antioxidants-and-immune-response-of-african-catfish-clarias-gariepinus-b-to-dietary-clove-basil-ocimum-gratissimum-leaf-extract-and-its-susceptibility-to-listeria-monocytogenes-infection
#14
Mohsen Abdel-Tawwab, Ibrahim Adeshina, Adetola Jenyo-Oni, Emmanual K Ajani, Benjami O Emikpe
Clove basil, Ocimum gratissimum, is a native plant to Africa and grows virtually in tropical and subtropical regions. It has good aroma and its leaves have become used as a spicy and in traditional medicine. The use of plant leaves in fish diets may deteriorate their growth because it may content anti-nutritional factors0 Thus, it is better to use plants leaves extract. In the current study, clove basil leaves extract (CBLE) was administrated to African catfish, Clarias gariepinus (B.) for 12 weeks to evaluate its effect on growth performance, physiological, antioxidants, and innate immunity variables...
April 25, 2018: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/29704444/chromosome-level-assembly-genetic-and-physical-mapping-of-phalaenopsis-aphrodite-genome-provides-new-insights-into-species-adaptation-and-resources-for-orchid-breeding
#15
Ya-Ting Chao, Wan-Chieh Chen, Chun-Yi Chen, Hsiu-Yin Ho, Chih-Hsin Yeh, Yi-Tzu Kuo, Chun-Lin Su, Shao-Hua Yen, Hao-Yen Hsueh, Jen-Hau Yeh, Hui-Lan Hsu, Yi-Hui Tsai, Tzu-Yen Kuo, Song-Bin Chang, Kai-Yi Chen, Ming-Che Shih
The Orchidaceae is a diverse and ecologically important plant family. Approximately 69% of all orchid species are epiphytes, which provide diverse microhabitats for many small animals and fungi in the canopy of tropical rainforests. Moreover, many orchids are of economic importance as food flavorings or ornamental plants. Phalaenopsis aphrodite, an epiphytic orchid, is a major breeding parent of many commercial orchid hybrids. We provide a high-quality chromosome-scale assembly of the P. aphrodite genome. The total length of all scaffolds is 1025...
April 28, 2018: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/29675141/differential-hypomethylation-of-the-repetitive-tol2-alu-rich-sequences-in-the-genome-of-bodianus-species-labriformes-labridae
#16
Clóvis C Motta-Neto, André Marques, Gideão W W F Costa, Marcelo B Cioffi, Luiz A C Bertollo, Rodrigo X Soares, Kátia C Scortecci, Roberto F Artoni, Wagner F Molina
Representatives of the order Labriformes show karyotypes of extreme conservatism together with others with high chromosomal diversification. However, the cytological characterization of epigenetic modifications remains unknown for the majority of the species. In the family Labridae, the most abundant fishes on tropical reefs, the genomes of the genus Bodianus Bloch, 1790 have been characterized by the occurrence of a peculiar chromosomal region, here denominated BOD. This region is exceptionally decondensed, heterochromatic, argentophilic, GC-neutral and, in contrast to classical secondary constrictions, shows no signals of hybridization with 18S rDNA probes...
2018: Comparative Cytogenetics
https://www.readbyqxmd.com/read/29670140/moonlight-controls-lunar-phase-dependency-and-regular-oscillation-of-clock-gene-expressions-in-a-lunar-synchronized-spawner-fish-goldlined-spinefoot
#17
Yuki Takeuchi, Ryo Kabutomori, Chihiro Yamauchi, Hitomi Miyagi, Akihiro Takemura, Keiko Okano, Toshiyuki Okano
Goldlined spinefoot, Siganus guttatus, inhabits tropical and subtropical waters and synchronizes its spawning around the first quarter moon likely using an hourglass-like lunar timer. In previous studies, we have found that clock genes (Cryptochrome3 and Period1) could play the role of state variable in the diencephalon when determining the lunar phase for spawning. Here, we identified three Cry, two Per, two Clock, and two Bmal genes in S. guttatus and investigated their expression patterns in the diencephalon and pituitary gland...
April 18, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29643472/high-resolution-behavioral-mapping-of-electric-fishes-in-amazonian-habitats
#18
Manu S Madhav, Ravikrishnan P Jayakumar, Alican Demir, Sarah A Stamper, Eric S Fortune, Noah J Cowan
The study of animal behavior has been revolutionized by sophisticated methodologies that identify and track individuals in video recordings. Video recording of behavior, however, is challenging for many species and habitats including fishes that live in turbid water. Here we present a methodology for identifying and localizing weakly electric fishes on the centimeter scale with subsecond temporal resolution based solely on the electric signals generated by each individual. These signals are recorded with a grid of electrodes and analyzed using a two-part algorithm that identifies the signals from each individual fish and then estimates the position and orientation of each fish using Bayesian inference...
April 11, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29643393/on-the-wrong-track-ocean-acidification-attracts-larval-fish-to-irrelevant-environmental-cues
#19
Tullio Rossi, Jennifer C A Pistevos, Sean D Connell, Ivan Nagelkerken
Population replenishment of marine life largely depends on successful dispersal of larvae to suitable adult habitat. Ocean acidification alters behavioural responses to physical and chemical cues in marine animals, including the maladaptive deterrence of settlement-stage larval fish to odours of preferred habitat and attraction to odours of non-preferred habitat. However, sensory compensation may allow fish to use alternative settlement cues such as sound. We show that future ocean acidification reverses the attraction of larval fish (barramundi) to their preferred settlement sounds (tropical estuarine mangroves)...
April 11, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29643214/anemone-bleaching-increases-the-metabolic-demands-of-symbiont-anemonefish
#20
Tommy Norin, Suzanne C Mills, Amélie Crespel, Daphne Cortese, Shaun S Killen, Ricardo Beldade
Increased ocean temperatures are causing mass bleaching of anemones and corals in the tropics worldwide. While such heat-induced loss of algal symbionts (zooxanthellae) directly affects anemones and corals physiologically, this damage may also cascade on to other animal symbionts. Metabolic rate is an integrative physiological trait shown to relate to various aspects of organismal performance, behaviour and locomotor capacity, and also shows plasticity during exposure to acute and chronic stressors. As climate warming is expected to affect the physiology, behaviour and life history of animals, including ectotherms such as fish, we measured if residing in bleached versus unbleached sea anemones ( Heteractis magnifica ) affected the standard (i...
April 11, 2018: Proceedings. Biological Sciences
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