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https://www.readbyqxmd.com/read/29307115/bioinformatic-analyses-of-zona-pellucida-genes-in-vertebrates-and-their-expression-in-nile-tilapia
#1
Tianli Wu, Yunying Cheng, Zhilong Liu, Wenjing Tao, Shuqing Zheng, Deshou Wang
Zona pellucida (ZP) genes encode ZP glycoproteins which constitute the coat surrounding oocytes and early embryos. Genome-wide identification of ZP genes is still lacking in vertebrates, especially in fish species. Herein, we conducted bioinformatic analyses of the ZP genes of the Nile tilapia and other vertebrates. Totally 16, 9, 17, 27, 21, 20, 26, 19, 14,11, 24, 17, 9, 18, 8, 11, 9, 8, 5, and 4 ZP genes belonging to 5 subfamilies (ZPA, ZPB, ZPC, ZPD, and ZPAX) were found in the sea lamprey, elephant shark, coelacanth, spotted gar, zebrafish, medaka, stickleback, Nile tilapia, Amazon molly, platyfish, seahorse, Northern snakehead, cavefish, tetraodon, clawed frog, turtle, chicken, platypus, kangaroo rat, and human genomes, respectively...
January 6, 2018: Fish Physiology and Biochemistry
https://www.readbyqxmd.com/read/29290830/constructing-a-chromonome-of-yellowtail-seriola-quinqueradiata-for-comparative-analysis-of-chromosomal-rearrangements
#2
Junya Kawase, Jun-Ya Aoki, Kazuo Araki
To investigate chromosome evolution in fish species, we newly mapped 181 markers that allowed us to construct a yellowtail (Seriola quinqueradiata) radiation hybrid (RH) physical map with 1,713 DNA markers, which was far denser than a previous map, and we anchored the de novo assembled sequences onto the RH physical map. Finally, we mapped a total of 13,977 expressed sequence tags (ESTs) on a genome sequence assembly aligned with the physical map. Using the high-density physical map and anchored genome sequences, we accurately compared the yellowtail genome structure with the genome structures of five model fishes to identify characteristics of the yellowtail genome...
2018: Journal of Genomics
https://www.readbyqxmd.com/read/29282805/when-structure-leads-to-sex-untangling-signals-in-population-genetic-data-sets
#3
Julian Catchen
A robust signal of population structure often provides the first glimpse into the evolutionary history of a species and its populations. In this issue of Molecular Ecology, new work from Louis Bernatchez's group (Benestan et al., ) starts with an investigation of apparent structure in two marine species and concludes with an identification of sex-linked genes, and in the process provides a model for robust analysis. Structure is the genetic signal left by natural selection as well as by neutral processes like migration and gene flow...
December 2017: Molecular Ecology
https://www.readbyqxmd.com/read/29282710/the-dimensionality-of-individual-niche-variation
#4
Travis Ingram, Raul Costa-Pereira, Márcio S Araújo
The inherently multidimensional nature of the niche has not yet been integrated into the investigation of individual niche specialization within populations. We propose a framework for modeling the between- and within-individual components of the population niche as a set of variance-covariance matrices, which can be visualized with ellipses or ellipsoids. These niche components can be inferred using multiple response mixed models, and can incorporate diverse types of data, including diet composition, stable isotopes, spatial location, and other continuous measures of niche dimensions...
December 28, 2017: Ecology
https://www.readbyqxmd.com/read/29282542/using-hidden-markov-models-to-characterise-intermittent-social-behaviour-in-fish-shoals
#5
Nikolai W F Bode, Michael J Seitz
The movement of animals in groups is widespread in nature. Understanding this phenomenon presents an important problem in ecology with many applications that range from conservation to robotics. Underlying all group movements are interactions between individual animals and it is therefore crucial to understand the mechanisms of this social behaviour. To date, despite promising methodological developments, there are few applications to data of practical statistical techniques that inferentially investigate the extent and nature of social interactions in group movement...
December 27, 2017: Die Naturwissenschaften
https://www.readbyqxmd.com/read/29273769/differential-mirna-expression-in-the-three-spined-stickleback-response-to-environmental-changes
#6
S M Rastorguev, A V Nedoluzhko, N M Gruzdeva, E S Boulygina, F S Sharko, A S Ibragimova, S V Tsygankova, A V Artemov, K G Skryabin, E B Prokhortchouk
miRNAs play important role in the various physiological and evolutionary processes, however, there is no data allowing comparison of evolutionary differences between various ecotypes adapted to different environmental conditions and specimen demonstrating immediate physiological response to the environmental changes. We compared miRNA expression profiles between marine and freshwater stickleback populations of the three-spined stickleback to identify the evolutionary differences. To study the immediate physiological response to foreign environment, we explored the changes induced by transfer of marine sticklebacks into freshwater environment and vice versa...
December 22, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29238536/body-macronutrient-composition-is-predicted-by-lipid-and-not-protein-content-of-the-diet
#7
Joshua P Moatt, Catherine Hambly, Elizabeth Heap, Anna Kramer, Fiona Moon, John R Speakman, Craig A Walling
Diet is an important determinant of fitness-related traits including growth, reproduction, and survival. Recent work has suggested that variation in protein:lipid ratio and particularly the amount of protein in the diet is a key nutritional parameter. However, the traits that mediate the link between dietary macronutrient ratio and fitness-related traits are less well understood. An obvious candidate is body composition, given its well-known link to health. Here, we investigate the relationship between dietary and body macronutrient composition using a first-generation laboratory population of a freshwater fish, the three-spine stickleback (Gasterosteus aculeatus)...
December 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/29237811/long-term-uvb-exposure-promotes-predator-inspection-behaviour-in-a-fish
#8
Simon Vitt, Janina E Zierul, Theo C M Bakker, Ingolf P Rick
Ultraviolet-B radiation (UVB) reaching the earth's surface has increased due to human-caused stratospheric ozone depletion. Whereas the harmful effects of UVB on aquatic organisms are well studied at the molecular and cellular level, recent studies have also begun to address behavioural changes caused by sublethal amounts of UVB. However, the behavioural consequences of long-term exposure to ecologically relevant UVB levels over several life stages are virtually unknown, particularly with regard to predator-prey behaviour...
December 2017: Biology Letters
https://www.readbyqxmd.com/read/29229672/detecting-differential-copy-number-variation-between-groups-of-samples
#9
Craig B Lowe, Nicelio Sanchez-Luege, Timothy R Howes, Shannon D Brady, Rhea R Richardson, Felicity C Jones, Michael A Bell, David M Kingsley
We present a method to detect copy number variants (CNVs) that are differentially present between two groups of sequenced samples. We use a finite-state transducer where the emitted read depth is conditioned on the mappability and GC-content of all reads that occur at a given base position. In this model, the read depth within a region is a mixture of binomials, which in simulations matches the read depth more closely than the often-used negative binomial distribution. The method analyzes all samples simultaneously, preserving uncertainty as to the breakpoints and magnitude of CNVs present in an individual when it identifies CNVs differentially present between the two groups...
December 11, 2017: Genome Research
https://www.readbyqxmd.com/read/29212540/dorsal-spine-evolution-in-threespine-sticklebacks-via-a-splicing-change-in-msx2a
#10
Timothy R Howes, Brian R Summers, David M Kingsley
BACKGROUND: Dorsal spine reduction in threespine sticklebacks (Gasterosteus aculeatus) is a classic example of recurrent skeletal evolution in nature. Sticklebacks in marine environments typically have long spines that form part of their skeletal armor. Many derived freshwater populations have evolved shorter spines. Changes in spine length are controlled in part by a quantitative trait locus (QTL) previously mapped to chromosome 4, but the causative gene and mutations underlying the repeated evolution of this interesting skeletal trait have not been identified...
December 7, 2017: BMC Biology
https://www.readbyqxmd.com/read/29203698/beautiful-piles-of-bones-an-interview-with-2017-genetics-society-of-america-medal-recipient-david-m-kingsley
#11
David M Kingsley
The Genetics Society of America Medal is awarded to an individual for outstanding contributions to the field of genetics in the last 15 years. Recipients of the GSA Medal are recognized for elegant and highly meaningful contributions to modern genetics, exemplifying the ingenuity of GSA membership. The 2017 recipient is David M. Kingsley, whose work in mouse, sticklebacks, and humans has shifted paradigms about how vertebrates evolve. Kingsley first fell in love with genetics in graduate school, where he worked on receptor mediated endocytosis with Monty Krieger...
December 2017: Genetics
https://www.readbyqxmd.com/read/29196675/low-temperature-and-low-salinity-drive-putatively-adaptive-growth-differences-in-populations-of-threespine-stickleback
#12
Taylor C Gibbons, Seth M Rudman, Patricia M Schulte
Colonisation can expose organisms to novel combinations of abiotic and biotic factors and drive adaptive divergence. Yet, studies investigating the interactive effects of multiple abiotic factors on the evolution of physiological traits remain rare. Here we examine the effects of low salinity, low temperature, and their interaction on the growth of three North American populations of threespine stickleback (Gasterosteus aculeatus). In north-temperate freshwater habitats, stickleback populations experience a combination of low salinity and low winter temperatures that are not experienced by the ancestral marine and anadromous populations...
December 1, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29182972/endocrine-disruption-and-differential-gene-expression-in-sentinel-fish-on-st-lawrence-island-alaska-health-implications-for-indigenous-residents
#13
Frank A von Hippel, Pamela K Miller, David O Carpenter, Danielle Dillon, Lauren Smayda, Ioanna Katsiadaki, Tom A Titus, Peter Batzel, John H Postlethwait, C Loren Buck
People living a subsistence lifestyle in the Arctic are highly exposed to persistent organic pollutants, including polychlorinated biphenyls (PCBs). Formerly Used Defense (FUD) sites are point sources of PCB pollution; the Arctic contains thousands of FUD sites, many co-located with indigenous villages. We investigated PCB profiles and biological effects in freshwater fish (Alaska blackfish [Dallia pectoralis] and ninespine stickleback [Pungitius pungitius]) living upstream and downstream of the Northeast Cape FUD site on St...
November 25, 2017: Environmental Pollution
https://www.readbyqxmd.com/read/29149730/divergence-of-insulin-superfamily-ligands-receptors-and-igf-binding-proteins-in-marine-versus-freshwater-stickleback-evidence-of-selection-in-known-and-novel-genes
#14
Tim Pellissier, Hend Al Nafea, Sara V Good
Three-spine stickleback (Gasterosteus aculeatus) is a teleost model for understanding genetic, physiological and morphological changes accompanying freshwater (FW) adaptation. There is growing evidence that the insulin superfamily plays important roles in traits involved in marine and FW adaptation. We performed a candidate gene analysis to look for evidence of selection on 33 insulin superfamily ligand-receptor genes and insulin-like growth factor binding proteins (Igfbp's) in stickleback. Using genotype data from 11 marine and 10 FW populations, we calculated the number of SNPs per site in regulatory and intronic regions, the number of synonymous and nonsynonymous mutations in coding regions, Wright's fixation index (Fst), and performed t-tests to identify SNPs with divergent genotype frequencies between marine/FW versus Atlantic/Pacific populations...
November 10, 2017: Comparative Biochemistry and Physiology. Part D, Genomics & Proteomics
https://www.readbyqxmd.com/read/29126411/thermal-conditions-during-early-life-influence-seasonal-maternal-strategies-in-the-three-spined-stickleback
#15
Sin-Yeon Kim, Neil B Metcalfe, Alberto da Silva, Alberto Velando
BACKGROUND: Conditions experienced by a female during early life may affect her reproductive strategies and maternal investment later in life. This effect of early environmental conditions is a potentially important mechanism by which animals can compensate for the negative impacts of climate change. In this study, we experimentally tested whether three-spined sticklebacks (Gasterosteus aculeatus) change their maternal strategy according to environmental temperatures experienced earlier in life...
November 10, 2017: BMC Ecology
https://www.readbyqxmd.com/read/29117505/changes-in-behavior-and-brain-immediate-early-gene-expression-in-male-threespined-sticklebacks-as-they-become-fathers
#16
Molly Kent, Alison M Bell
Motherhood is a period of intense behavioral and brain activity. However, we know less about the neural and molecular mechanisms associated with the demands of fatherhood. Here, we report the results of two experiments designed to track changes in behavior and brain activation associated with fatherhood in male threespined stickleback fish (Gasterosteus aculeatus), a species in which fathers are the sole providers of parental care. In experiment 1, we tested whether males' behavioral reactions to different social stimuli depends on parental status, i...
November 14, 2017: Hormones and Behavior
https://www.readbyqxmd.com/read/29115024/developmental-timing-differences-underlie-armor-loss-across-threespine-stickleback-populations
#17
Mark C Currey, Susan Bassham, Stephen Perry, William A Cresko
Comparing ontogenetic patterns within a well-described evolutionary context aids in inferring mechanisms of change, including heterochronies or deletion of developmental pathways. Because selection acts on phenotypes throughout ontogeny, any within-taxon developmental variation has implications for evolvability. We compare ontogenetic order and timing of locomotion and defensive traits in three populations of threespine stickleback that have evolutionarily divergent adult forms. This analysis adds to the growing understanding of developmental genetic mechanisms of adaptive change in this evolutionary model species by delineating when chondrogenesis and osteogenesis in two derived populations begin to deviate from the developmental pattern in their immediate ancestors...
November 2017: Evolution & Development
https://www.readbyqxmd.com/read/29093174/metabolic-depression-and-the-evolution-of-hypoxia-tolerance-in-threespine-stickleback-gasterosteus-aculeatus
#18
Matthew D Regan, Ivan S Gill, Jeffrey G Richards
Anthropogenic increases in global temperature and agricultural runoff are increasing the prevalence of aquatic hypoxia throughout the world. We investigated the potential for a relatively rapid evolution of hypoxia tolerance using two isolated (for less than 11 000 years) populations of threespine stickleback: one from a lake that experiences long-term hypoxia (Alta Lake, British Columbia) and one from a lake that does not (Trout Lake, British Columbia). Loss-of-equilibrium (LOE) experiments revealed that the Alta Lake stickleback were significantly more tolerant of hypoxia than the Trout Lake stickleback, and calorimetry experiments revealed that the enhanced tolerance of Alta Lake stickleback may be associated with their ability to depress metabolic rate (as indicated by metabolic heat production) by 33% in hypoxia...
November 2017: Biology Letters
https://www.readbyqxmd.com/read/29059215/dna-metabarcoding-reveals-diverse-diet-of-the-three-spined-stickleback-in-a-coastal-ecosystem
#19
Eglė Jakubavičiūtė, Ulf Bergström, Johan S Eklöf, Quiterie Haenel, Sarah J Bourlat
The three-spined stickleback (Gasterosteus aculeatus L., hereafter 'stickleback') is a common mesopredatory fish in marine, coastal and freshwater areas. In large parts of the Baltic Sea, stickleback densities have increased >10-fold during the last decades, and it is now one of the dominating fish species both in terms of biomass and effects on lower trophic levels. Still, relatively little is known about its diet-knowledge which is essential to understand the increasing role sticklebacks play in the ecosystem...
2017: PloS One
https://www.readbyqxmd.com/read/29058178/developmental-exposure-to-the-ssri-citalopram-causes-long-lasting-behavioural-effects-in-the-three-spined-stickleback-gasterosteus-aculeatus
#20
M Kellner, T Porseryd, I Porsch-Hällström, B Borg, C Roufidou, K H Olsén
Selective Serotonin re-uptake inhibitors (SSRIs) are a class of psychotropic drugs used to treat depression in both adolescents and pregnant or breast-feeding mothers as well as in the general population. Recent research on rodents points to long-lasting behavioural effects of pre- and perinatal exposure to SSRIs which last into adulthood. In fish however, studies on effects of developmental exposure to SSRIs appears to be non-existent. In order to study effects of developmental SSRI exposure in fish, three-spine sticklebacks were exposed to 1...
October 23, 2017: Ecotoxicology
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