Characterization of Pax3 and Pax7 genes and their expression patterns during different development and growth stages of Japanese pufferfish Takifugu rubripes.

PubMed

Akolkar, Dadasaheb B; Asaduzzaman, Md; Kinoshita, Shigeharu; Asakawa, Shuichi; Watabe, Shugo

2016-01-01

Pax3 and Pax7 are the regulators and markers of muscle progenitors and satellite cells that contribute to the embryonic development and postembryonic growth of skeletal muscle in vertebrates, as well as to its repair and regeneration. However, information regarding them in vertebrate genome model, torafugu Takifugu rubripes, has remained unknown. Therefore, as an initial step, here we characterized Pax3 and Pax7 from torafugu and investigated their expression patterns during different developmental stages by RT-PCR. In silico analysis with the Fugu genome database (ver. 4.0) yielded two distinct genes each for Pax3 (Pax3a and Pax3b) and Pax7 (Pax7a and Pax7b). The 75th amino acid, glutamine (Gln75), from the N-terminus was replaced by proline in the paired box domain (PD) of Pax3a. One single cDNA clone encoding Pax3a had deletion of Gln75 in PD, suggesting the presence of alternatively spliced variants (Q+/Q-). This was further supported by identification of two adjacent alternative 3' splice acceptor sites which produce Pax3b Q+ (aagCAGGGA) and Q- (aagcagGGA) variants. Interestingly, torafugu Pax7a, but not Pax7b, had an insert encoding five amino acid residues (SGEAS) in a C-terminal region of PD in two out of three cDNA clones. Genomic analysis showed two alternate splice donor sites at exon 4 of Pax7a. In synteny analysis, torafugu Pax3a showed syntenic relationship with the corresponding regions in other teleosts only, whereas Pax3b and Pax7b showed high syntenic relationship with the corresponding regions of both mammals and other teleosts. RT-PCR revealed that expression of Pax3a and Pax3b transcripts was restricted to embryonic stages only, whereas those of Pax7a and Pax7b was continued to be expressed in larvae and importantly those of Pax7a were found in adult skeletal muscles. Therefore, Pax3 appears to be most important for primary myogenesis and Pax7 for secondary myogenesis and growth by hyperplasia in fish. In this regard, the transcripts of

Diurnal and circadian oscillations in expression of kisspeptin, kisspeptin receptor and gonadotrophin-releasing hormone 2 genes in the grass puffer, a semilunar-synchronised spawner.

PubMed

Ando, H; Ogawa, S; Shahjahan, Md; Ikegami, T; Doi, H; Hattori, A; Parhar, I

2014-07-01

In seasonally breeding animals, the circadian and photoperiodic regulation of neuroendocrine system is important for precisely-timed reproduction. Kisspeptin, encoded by the Kiss1 gene, acts as a principal positive regulator of the reproductive axis by stimulating gonadotrophin-releasing hormone (GnRH) neurone activity in vertebrates. However, the precise mechanisms underlying the cyclic regulation of the kisspeptin neuroendocrine system remain largely unknown. The grass puffer, Takifugu niphobles, exhibits a unique spawning rhythm: spawning occurs 1.5-2 h before high tide on the day of spring tide every 2 weeks, and the spawning rhythm is connected to circadian and lunar-/tide-related clock mechanisms. The grass puffer has only one kisspeptin gene (kiss2), which is expressed in a single neural population in the preoptic area (POA), and has one kisspeptin receptor gene (kiss2r), which is expressed in the POA and the nucleus dorsomedialis thalami. Both kiss2 and kiss2r show diurnal variations in expression levels, with a peak at Zeitgeber time (ZT) 6 (middle of day time) under the light/dark conditions. They also show circadian expression with a peak at circadian time 15 (beginning of subjective night-time) under constant darkness. The synchronous and diurnal oscillations of kiss2 and kiss2r expression suggest that the action of Kiss2 in the diencephalon is highly dependent on time. Moreover, midbrain GnRH2 gene (gnrh2) but not GnRH1 or GnRH3 genes show a unique semidiurnal oscillation with two peaks at ZT6 and ZT18 within a day. The cyclic expression of kiss2, kiss2r and gnrh2 may be important in the control of the precisely-timed diurnal and semilunar spawning rhythm of the grass puffer, possibly through the circadian clock and melatonin, which may transmit the photoperiodic information of daylight and moonlight to the reproductive neuroendocrine centre in the hypothalamus. © 2014 British Society for Neuroendocrinology.

Draft sequencing and analysis of the genome of pufferfish Takifugu flavidus.

PubMed

Gao, Yang; Gao, Qiang; Zhang, Huan; Wang, Lingling; Zhang, Fuchong; Yang, Chuanyan; Song, Linsheng

2014-12-01

The pufferfish Takifugu flavidus is an important economic species due to its outstanding flavour and high market value. It has been regarded as an excellent model of genetic study for decades as well. In the present study, three mate-pair libraries of T. flavidus genome were sequenced by the SOLiD 4 next-generation sequencing platform, and the draft genome was constructed with the short reads using an assisted assembly strategy. The draft consists of 50,947 scaffolds with an N50 value of 305.7 kb, and the average GC content was 45.2%. The combined length of repetitive sequences was 26.5 Mb, which accounted for 6.87% of the genome, indicating that the compactness of T. flavidus genome was approximative with that of T. rubripes genome. A total of 1,253 non-coding RNA genes and 30,285 protein-encoding genes were assigned to the genome. There were 132,775 and 394 presumptive genes playing roles in the colour pattern variation, the relatively slow growth and the lipid metabolism, respectively. Among them, genes involved in the microtubule-dependent transport system, angiogenesis, decapentaplegic pathway and lipid mobilization were significantly expanded in the T. flavidus genome. This draft genome provides a valuable resource for understanding and improving both fundamental and applied research with pufferfish in the future. © The Author 2014. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.

Ecological conversion efficiency and its influencers in twelve species of fish in the Yellow Sea Ecosystem

NASA Astrophysics Data System (ADS)

Tang, Qisheng; Guo, Xuewu; Sun, Yao; Zhang, Bo

2007-09-01

The ecological conversion efficiencies in twelve species of fish in the Yellow Sea Ecosystem, i.e., anchovy ( Engraulis japonicus), rednose anchovy ( Thrissa kammalensis), chub mackerel ( Scomber japonicus), halfbeak ( Hyporhamphus sajori), gizzard shad ( Konosirus punctatus), sand lance ( Ammodytes personatus), red seabream ( Pagrus major), black porgy ( Acanthopagrus schlegeli), black rockfish ( Sebastes schlegeli), finespot goby ( Chaeturichthys stigmatias), tiger puffer ( Takifugu rubripes), and fat greenling ( Hexagrammos otakii), were estimated through experiments conducted either in situ or in a laboratory. The ecological conversion efficiencies were significantly different among these species. As indicated, the food conversion efficiencies and the energy conversion efficiencies varied from 12.9% to 42.1% and from 12.7% to 43.0%, respectively. Water temperature and ration level are the main factors influencing the ecological conversion efficiencies of marine fish. The higher conversion efficiency of a given species in a natural ecosystem is acquired only under the moderate environment conditions. A negative relationship between ecological conversion efficiency and trophic level among ten species was observed. Such a relationship indicates that the ecological efficiency in the upper trophic levels would increase after fishing down marine food web in the Yellow Sea ecosystem.

Periodic regulation of expression of genes for kisspeptin, gonadotropin-inhibitory hormone and their receptors in the grass puffer: Implications in seasonal, daily and lunar rhythms of reproduction.

PubMed

Ando, Hironori; Shahjahan, Md; Kitahashi, Takashi

2018-04-03

The seasonal, daily and lunar control of reproduction involves photoperiodic, circadian and lunar changes in the activity of kisspeptin, gonadotropin-inhibitory hormone (GnIH) and gonadotropin-releasing hormone (GnRH) neurons. These changes are brought through complex networks of light-, time- and non-photic signal-dependent control mechanisms, which are mostly unknown at present. The grass puffer, Takifugu alboplumbeus, a semilunar spawner, provides a unique and excellent animal model to assess this question because its spawning is synchronized with seasonal, daily and lunar cycles. In the diencephalon, the genes for kisspeptin, GnIH and their receptors showed similar expression patterns with clear seasonal and daily oscillations, suggesting that they are regulated by common mechanisms involving melatonin, circadian clock and water temperature. For implications in semilunar-synchronized spawning rhythm, melatonin receptor genes showed ultradian oscillations in expression with the period of 14.0-15.4 h in the pineal gland. This unique ultradian rhythm might be driven by circatidal clock. The possible circatidal clock and circadian clock in the pineal gland may cooperate to drive circasemilunar rhythm to regulate the expression of the kisspeptin, GnIH and their receptor genes. On the other hand, high temperature (over 28 °C) conditions, under which the expression of the kisspeptin and its receptor genes is markedly suppressed, may provide an environmental signal that terminates reproduction at the end of breeding period. Taken together, the periodic regulation of the kisspeptin, GnIH and their receptor genes by melatonin, circadian clock and water temperature may be important in the precisely-timed spawning of the grass puffer. Copyright © 2018 Elsevier Inc. All rights reserved.

Susceptibility of cultured juveniles of several marine fish to the sevenband grouper nervous necrosis virus.

PubMed

Tanaka, S; Kuriyama, I; Nakai, T; Miyazaki, T

2003-02-01

Piscine nodaviruses (betanodaviruses) have been tentatively divided into four genotypes (SJNNV, RGNNV, TPNNV and BFNNV) and it is suggested that host specificity is different among these genotypes. In the present study, a betanodavirus [sevenband grouper nervous necrosis virus (SGNNV)] belonging to the redspotted grouper nervous necrosis virus (RGNNV) genotype, to which most betanodaviruses from warm water fish are identified, was evaluated for its pathogenicity to hatchery-reared juveniles of several marine fish species. When challenged with the virus by a bath method (10(5.1) TCID50 mL(-1)), sevenband grouper, Epinephelus septemfasciatus, Japanese flounder, Paralichthys olivaceus, and tiger puffer, Takifugu rubripes, displayed behavioural abnormalities and mortalities with distinct histopathological signs of viral nervous necrosis and heavily immunostained cells were observed in the central nervous tissues and retina. Bath-challenged rock fish, Sebastiscus marmoratus, and a hybrid of sevenband grouper and kelp grouper, E. moara, did not display any behavioural abnormality or mortality during the experimental period, although many fish showed slight signs of viral infection in nerve cells. Kelp grouper and red sea bream, Pagrus major, showed no behavioural abnormality, mortality or immunohistopathological changes after the virus challenge. These results are, in part, consistent with the natural host range of RGNNV, indicating the complexity in the host specificity of betanodaviruses.

A Tetrodotoxin-Producing Vibrio Strain, LM-1, from the Puffer Fish Fugu vermicularis radiatus

PubMed Central

Lee, Myoung-Ja; Jeong, Dong-Youn; Kim, Woo-Seong; Kim, Hyun-Dae; Kim, Cheorl-Ho; Park, Won-Whan; Park, Yong-Ha; Kim, Kyung-Sam; Kim, Hyung-Min; Kim, Dong-Soo

2000-01-01

Identification of tetrodotoxin (TTX) and its derivatives produced from a Vibrio strain in the intestine of the puffer fish Fugu vermicularis radiatus was performed by thin-layer chromatography, electrophoresis, high-performance liquid chromatography, and gas chromatography-mass spectrometry, together with a mouse bioassay for toxicity. It was demonstrated that the isolated bacterium produced TTX, 4-epi-TTX, and anhTTX during cultivation, suggesting that Vibrio strains are responsible for the toxification of the puffer fish. PMID:10742263

Puff and bite: the relationship between the glucocorticoid stress response and anti-predator performance in checkered puffer (Sphoeroides testudineus).

PubMed

Cull, Felicia; O'Connor, Constance M; Suski, Cory D; Shultz, Aaron D; Danylchuk, Andy J; Cooke, Steven J

2015-04-01

Individual variation in the endocrine stress response has been linked to survival and performance in a variety of species. Here, we evaluate the relationship between the endocrine stress response and anti-predator behaviors in wild checkered puffers (Sphoeroides testudineus) captured at Eleuthera Island, Bahamas. The checkered puffer has a unique and easily measurable predator avoidance strategy, which is to inflate or 'puff' to deter potential predators. In this study, we measured baseline and stress-induced circulating glucocorticoid levels, as well as bite force, a performance measure that is relevant to both feeding and predator defence, and 'puff' performance. We found that puff performance and bite force were consistent within individuals, but generally decreased following a standardized stressor. Larger puffers were able to generate a higher bite force, and larger puffers were able to maintain a more robust puff performance following a standardized stressor relative to smaller puffers. In terms of the relationship between the glucocorticoid stress response and performance metrics, we found no relationship between post-stress glucocorticoid levels and either puff performance or bite force. However, we did find that baseline glucocorticoid levels predicted the ability of a puffer to maintain a robust puff response following a repeated stressor, and this relationship was more pronounced in larger individuals. Our work provides a novel example of how baseline glucocorticoids can predict a fitness-related anti-predator behavior. Copyright © 2015 Elsevier Inc. All rights reserved.

Erratum: Erratum to: Recovery of gonadal development in tiger puffer Takifugu rubripes after exposure to 17β-estradiol during early life stages

NASA Astrophysics Data System (ADS)

Hu, Peng; Liu, Bin; Meng, Zhen; Liu, Xinfu; Jia, Yudong; Yang, Zhi; Lei, Jilin

2017-09-01

A mistake was found in Section 2.2. The current expression is "In each treatment group, juveniles were exposed to E2 at the set concentration for 2 h once a day from 15 to 100 dph." The correct version should be "In each treatment group, juveniles were exposed to E2 at the set concentration for 2 h once two days from 15 to 100 dph."

Structural phylogenetic analysis of activation-induced deaminase function.

PubMed

Ichikawa, H Travis; Sowden, Mark P; Torelli, Andrew T; Bachl, Jürgen; Huang, Pinwei; Dance, Geoffrey S C; Marr, Shauna H; Robert, Jacques; Wedekind, Joseph E; Smith, Harold C; Bottaro, Andrea

2006-07-01

In mammals, activation-induced deaminase (AID) initiates somatic hypermutation (SHM) and class switch recombination (CSR) of Ig genes. SHM and CSR activities require separate regions within AID. A chromosome region maintenance 1 (CRM1)-dependent nuclear export signal (NES) at the AID C terminus is necessary for CSR, and has been suggested to associate with CSR-specific cofactors. CSR appeared late in AID evolution, during the emergence of land vertebrates from bony fish, which only display SHM. Here, we show that AID from African clawed frog (Xenopus laevis), but not pufferfish (Takifugu rubripes), can induce CSR in AID-deficient mouse B cells, although both are catalytically active in bacteria and mammalian cell systems, albeit at decreased level. Like mammalian AID, Takifugu AID is actively exported from the cell nucleus by CRM1, and the Takifugu NES can substitute for the equivalent region in human AID, indicating that all the CSR-essential NES motif functions evolutionarily predated CSR activity. We also show that fusion of the Takifugu AID catalytic domain to the entire human noncatalytic domain restores activity in mammalian cells, suggesting that AID features mapping within the noncatalytic domain, but outside the NES, influence its function.

[Study on tetrodotoxin detection and toxic puffer fish identification of roasted fish fillet at the retail in Beijing and Qingdao].

PubMed

Shen, Qing; Jiang, Tao; Li, Nan; Wang, Jiahui; Han, Chunhui; Zhang, Jing; Xu, Jin; Zhang, Dongfeng; Li, Fengqin

2014-11-01

The roasted fish fillet sample at the retail collected in Beijing and Qingdao were detected for TTX, and the TTX positive samples was analyzed for fish species identification. TTX was tested by EUSA method and the cytochrome c oxidase I (COI) genome of TTX-positive samples was extracted and identified by DNA barcode. Totally, 90 samples were tested by EUSA and 58 (64.4%) samples were positive for TTX with the levels ranging from 0.10 mg/kg to 63.81 mg/kg. Among the TTX positive samples, 24 (41.3%) were identified containing toxic puffer fish and 21 (87.5%) were Lagocephalus lunaris, the highly toxic puffer fish. Some roasted fish fillet samples obtained from the retail in two cities were positive for TTX and contained toxic puffer fish. Based on these results, we suggest that roasted fish fillet producers should prevent toxic puffer fish from mixing in the raw material and the I regulators should strengthen the TTX surveillance and product labeling supervision of roasted fish fillet.

LC/MS Analysis of Tetrodotoxin and Its Deoxy Analogs in the Marine Puffer Fish Fugu niphobles from the Southern Coast of Korea, and in the Brackishwater Puffer Fishes Tetraodon nigroviridis and Tetraodon biocellatus from Southeast Asia

PubMed Central

Jang, Jun-Ho; Lee, Jong-Soo; Yotsu-Yamashita, Mari

2010-01-01

Tetrodotoxin (TTX) and its deoxy analogs, 5-deoxyTTX, 11-deoxyTTX, 6,11-dideoxyTTX, and 5,6,11-trideoxyTTX, were quantified in the tissues of three female and three male specimens of the marine puffer fish, Fugu niphobles, from the southern coast of Korea, and in the whole body of the brackishwater puffer fishes, Tetraodon nigroviridis (12 specimens) and Tetrodon biocellatus (three specimens) from Southeast Asia using LC/MS in single ion mode (SIM). Identification of these four deoxy analogs in the ovarian tissue of F. niphobles were further confirmed by LC/MS/MS. TTX and 5,6,11-trideoxyTTX were detected in all three puffer fish species as the major TTX analogs, similar to Japanese Fugu pardalis. While 6,11-dideoxyTTX was also found to be a major analog in almost all tissues of Korean F. niphobles, this analog was minor in the two Tetraodon species and Japanese F. pardalis. Among the tissues of F. niphobles, the concentrations of TTXs were highest in the ovaries (female) and skin (female and male). PMID:20479966

Tetrodotoxin poisoning outbreak from imported dried puffer fish--Minneapolis, Minnesota, 2014.

PubMed

Cole, Jon B; Heegaard, William G; Deeds, Jonathan R; McGrath, Sara C; Handy, Sara M

2015-01-02

On June 13, 2014, two patients went to the Hennepin County Medical Center Emergency Department in Minneapolis, Minnesota, with symptoms suggestive of tetrodotoxin poisoning (i.e., oral paresthesias, weakness, and dyspnea) after consuming dried puffer fish (also known as globefish) purchased during a recent visit to New York City. The patients said two friends who consumed the same fish had similar, although less pronounced, symptoms and had not sought care. The Minnesota Department of Health conducted an investigation to determine the source of the product and samples were sent to the Food and Drug Administration (FDA) Center for Food Safety and Applied Nutrition for chemical and genetic analysis. Genetic analysis identified the product as puffer fish (Lagocephalus lunaris) and chemical analysis determined it was contaminated with high levels of tetrodotoxin. A traceback investigation was unable to determine the original source of the product. Tetrodotoxin is a deadly, potent poison; the minimum lethal dose in an adult human is estimated to be 2-3 mg. Tetrodotoxin is a heat-stable and acid-stable, nonprotein, alkaloid toxin found in many species of the fish family Tetraodontidae (puffer fish) as well as in certain gobies, amphibians, invertebrates, and the blue-ringed octopus. Tetrodotoxin exerts its effects by blocking voltage-activated sodium channels, terminating nerve conduction and muscle action potentials, leading to progressive paralysis and, in extreme cases, to death from respiratory failure. Because these fish were reportedly purchased in the United States, they pose a substantial U.S. public health hazard given the potency of the toxin and the high levels of toxin found in the fish.

Dramatic improvement in genome assembly achieved using doubled-haploid genomes.

PubMed

Zhang, Hong; Tan, Engkong; Suzuki, Yutaka; Hirose, Yusuke; Kinoshita, Shigeharu; Okano, Hideyuki; Kudoh, Jun; Shimizu, Atsushi; Saito, Kazuyoshi; Watabe, Shugo; Asakawa, Shuichi

2014-10-27

Improvement in de novo assembly of large genomes is still to be desired. Here, we improved draft genome sequence quality by employing doubled-haploid individuals. We sequenced wildtype and doubled-haploid Takifugu rubripes genomes, under the same conditions, using the Illumina platform and assembled contigs with SOAPdenovo2. We observed 5.4-fold and 2.6-fold improvement in the sizes of the N50 contig and scaffold of doubled-haploid individuals, respectively, compared to the wildtype, indicating that the use of a doubled-haploid genome aids in accurate genome analysis.

The effects of temperature and salinity on larval development of Armases rubripes Rathbun, 1897 (Brachyura, Grapsoidea, Sesarmidae), and the southern limit of its geographical distribution

NASA Astrophysics Data System (ADS)

Luppi, T. A.; Spivak, E. D.; Bas, C. C.

2003-11-01

The southernmost stable population of Armases (= Metasesarma) rubripes (Brachyura, Grapsoidea, Sesarmidae) is found in Montevideo, Uruguay, in the northeastern coast of the Rio de la Plata estuary. Isolated individuals have seldom been collected in the southwestern coast of this huge estuary. Since pelagic larvae are primarily responsible for the dispersion of A. rubripes, and crab larvae are generally less tolerant than adults to extreme environmental conditions, we tested the survival and intermolt period of zoeae in different combinations of salinity (10, 20, and 30 psu) and temperature (16 and 20 °C). These salinity and temperature conditions are usually found in the estuary and adjacent waters during spring and summer. We found that the survival rate of the larvae increased and they developed faster at 30 psu and 20 °C. It is unlikely that larvae from the Montevideo population of A. rubripes could be transported south and westward due to the hydrographic conditions of the region. The Rio de la Plata seems to function as a biogeographic barrier to A. rubripes, and probably to other crab species as well. However, this barrier is not absolute: it hinders, but does not entirely prevent, the dispersal of larvae.

The evolution of vertebrate Toll-like receptors

USGS Publications Warehouse

Roach, J.C.; Glusman, G.; Rowen, L.; Kaur, A.; Purcell, M.K.; Smith, K.D.; Hood, L.E.; Aderem, A.

2005-01-01

The complete sequences of Takifugu Toll-like receptor (TLR) loci and gene predictions from many draft genomes enable comprehensive molecular phylogenetic analysis. Strong selective pressure for recognition of and response to pathogen-associated molecular patterns has maintained a largely unchanging TLR recognition in all vertebrates. There are six major families of vertebrate TLRs. This repertoire is distinct from that of invertebrates. TLRs within a family recognize a general class of pathogen-associated molecular patterns. Most vertebrates have exactly one gene ortholog for each TLR family. The family including TLR1 has more species-specific adaptations than other families. A major family including TLR11 is represented in humans only by a pseudogene. Coincidental evolution plays a minor role in TLR evolution. The sequencing phase of this study produced finished genomic sequences for the 12 Takifugu rubripes TLRs. In addition, we have produced > 70 gene models, including sequences from the opossum, chicken, frog, dog, sea urchin, and sea squirt. ?? 2005 by The National Academy of Sciences of the USA.

Survival of female black ducks, Anas rubripes, during the breeding season

USGS Publications Warehouse

Ringelman, J.K.; Longcore, J.R.

1983-01-01

The Mayfield method was used to estimate the survival rate of 19 radio-marked, female Black Ducks (Anas rubripes) in southcentral Maine during 1977-80. An overall survival rate of 0.74 was estimated for the 121-day monitoring period that included the pre-laying and laying, incubation, brood rearing, and post-rearing stages. No differences in survival rates were detected among these stages. Two instrumented hens were killed by Red-shouldered Hawks (Buteo lineatus) and a third was killed by an unknown predator. We found no evidence that the attachment of radio transmitters affected hen survival.

The flounder organic anion transporter fOat has sequence, function, and substrate specificity similarity to both mammalian Oat1 and Oat3

PubMed Central

Aslamkhan, Amy G.; Thompson, Deborah M.; Perry, Jennifer L.; Bleasby, Kelly; Wolff, Natascha A.; Barros, Scott; Miller, David S.; Pritchard, John B.

2007-01-01

The flounder renal organic anion transporter (fOat) has substantial sequence homology to mammalian basolateral organic anion transporter orthologs (OAT1/Oat1 and OAT3/Oat3), suggesting that fOat may have functional properties of both mammalian forms. We therefore compared uptake of various substrates by rat Oat1 and Oat3 and human OAT1 and OAT3 with the fOat clone expressed in Xenopus oocytes. These data confirm that estrone sulfate is an excellent substrate for mammalian OAT3/Oat3 transporters but not for OAT1/Oat1 transporters. In contrast, 2,4-dichlorophenoxyacetic acid and adefovir are better transported by mammalian OAT1/Oat1 than by the OAT3/Oat3 clones. All three substrates were well transported by fOat-expressing Xenopus oocytes. fOat Km values were comparable to those obtained for mammalian OAT/Oat1/3 clones. We also characterized the ability of these substrates to inhibit uptake of the fluorescent substrate fluorescein in intact teleost proximal tubules isolated from the winter flounder (Pseudopleuronectes americanus) and killifish (Fundulus heteroclitus). The rank order of the IC50 values for inhibition of cellular fluorescein accumulation was similar to that for the Km values obtained in fOat-expressing oocytes, suggesting that fOat may be the primary teleost renal basolateral Oat. Assessment of the zebrafish (Danio rerio) genome indicated the presence of a single Oat (zfOat) with similarity to both mammalian OAT1/Oat1 and OAT3/Oat3. The puffer fish (Takifugu rubripes) also has an Oat (pfOat) similar to mammalian OAT1/Oat1 and OAT3/Oat3 members. Furthermore, phylogenetic analyses argue that the teleost Oat1/3-like genes diverged from a common ancestral gene in advance of the divergence of the mammalian OAT1/Oat1, OAT3/Oat3, and, possibly, Oat6 genes. PMID:16857889

Identification and lateral membrane localization of cyclin M3, likely to be involved in renal Mg2+ handling in seawater fish

PubMed Central

Islam, Zinia; Hayashi, Naoko; Inoue, Hana; Umezawa, Takahiro; Kimura, Yuuri; Doi, Hiroyuki; Romero, Michael F.; Hirose, Shigehisa

2014-01-01

The kidney of marine teleosts is the major site of Mg2+ excretion and produces urine with a high Mg2+ concentration. However, the transporters involved in Mg2+ excretion are poorly understood. The cyclin M (Cnnm; also known as ancient conserved domain protein) family comprises membrane proteins homologous to the bacterial Mg2+ and Co2+ efflux protein, CorC. To understand the molecular mechanism of Mg2+ homeostasis in marine teleosts, we analyzed the expression of the Cnnm family genes in the seawater (SW) pufferfish, torafugu (Takifugu rubripes), and the closely related euryhaline species, mefugu (Takifugu obscurus). Database mining and phylogenetic analysis indicated that the Takifugu genome contains six members of the Cnnm family: two orthologs of Cnnm1, one of Cnnm2, one of Cnnm3, and two of Cnnm4. RT-PCR analyses indicated that Cnnm2, Cnnm3, and Cnnm4a are expressed in the kidney, whereas other members are mainly expressed in the brain. Renal expression of Cnnm3 was upregulated in SW mefugu, whereas renal expression of Cnnm2 was upregulated in freshwater (FW) mefugu. No significant difference was observed in renal expression of Cnnm4a between SW and FW mefugu. In situ hybridization and immunohistochemical analyses of the SW mefugu kidney revealed that Cnnm3 is expressed in the proximal tubule, and its product localizes to the lateral membrane. When Cnnm3 was expressed in Xenopus laevis oocytes, whole cellular Mg2+ content and free intracellular Mg2+ activity significantly decreased. These results suggest that Cnnm3 is involved in body fluid Mg2+ homeostasis in marine teleosts. PMID:24965791

Updating movement estimates for American black ducks (Anas rubripes)

USGS Publications Warehouse

Robinson, Orin J.; McGowan, Conor P.; Devers, Patrick K.

2016-01-01

Understanding migratory connectivity for species of concern is of great importance if we are to implement management aimed at conserving them. New methods are improving our understanding of migration; however, banding (ringing) data is by far the most widely available and accessible movement data for researchers. Here, we use band recovery data for American black ducks (Anas rubripes) from 1951–2011 and analyze their movement among seven management regions using a hierarchical Bayesian framework. We showed that black ducks generally exhibit flyway fidelity, and that many black ducks, regardless of breeding region, stopover or overwinter on the Atlantic coast of the United States. We also show that a non-trivial portion of the continental black duck population either does not move at all or moves to the north during the fall migration (they typically move to the south). The results of this analysis will be used in a projection modeling context to evaluate how habitat or harvest management actions in one region would propagate throughout the continental population of black ducks. This analysis may provide a guide for future research and help inform management efforts for black ducks as well as other migratory species.

Comparative toxicity of lead shot in black ducks (Anas rubripes) and mallards (Anas platyrhynchos)

USGS Publications Warehouse

Rattner, B.A.; Fleming, W.J.; Bunck, C.M.

1989-01-01

In winter, pen-reared and wild black ducks (Anas rubripes), and game farm and wild mallards (Anas platyrhynchos), maintained on pelleted feed, were sham-dosed or given one number 4 lead shot. After 14 days, dosed birds were redosed with two or four additional lead shot. This dosing regimen also was repeated in summer using pen-reared black ducks and game farm mallards. Based upon mortality, overt intoxication, weight change, delta-aminolevulinic acid dehydratase activity and protoporphyrin concentration, black ducks and mallards were found to be equally tolerant to lead shot. However, captive wild ducks were more sensitive than their domesticated counterparts, as evidenced by greater mortality and weight loss following lead shot administration. This difference may be related to stress associated with captivity and unnatural diet.

Difference in Uptake of Tetrodotoxin and Saxitoxins into Liver Tissue Slices among Pufferfish, Boxfish and Porcupinefish

PubMed Central

Nagashima, Yuji; Ohta, Akira; Yin, Xianzhe; Ishizaki, Shoichiro; Doi, Hiroyuki; Ishibashi, Toshiaki

2018-01-01

Although pufferfish of the family Tetraodontidae contain high levels of tetrodotoxin (TTX) mainly in the liver, some species of pufferfish, boxfish of the family Ostraciidae, and porcupinefish of the family Diodontidae do not. To clarify the mechanisms, uptake of TTX and saxitoxins (STXs) into liver tissue slices of pufferfish, boxfish and porcupinefish was examined. Liver tissue slices of the pufferfish (toxic species Takifugu rubripes and non-toxic species Lagocephalus spadiceus, L. cheesemanii and Sphoeroides pachygaster) incubated with 50 µM TTX accumulated TTX (0.99–1.55 µg TTX/mg protein) after 8 h, regardless of the toxicity of the species. In contrast, in liver tissue slices of boxfish (Ostracion immaculatus) and porcupinefish (Diodon holocanthus, D. liturosus, D. hystrix and Chilomycterus reticulatus), TTX content did not increase with incubation time, and was about 0.1 µg TTX/mg protein. When liver tissue slices were incubated with 50 µM STXs for 8 h, the STXs content was <0.1 µg STXs/mg protein, irrespective of the fish species. These findings indicate that, like the toxic species of pufferfish T. rubripes, non-toxic species such as L. spadiceus, L. cheesemanii and S. pachygaster, potentially take up TTX into the liver, while non-toxic boxfish and porcupinefish do not take up either TTX or STXs. PMID:29316695

Contribution to the feeding ecology of the banded puffer fish Colomesus psittacus (Tetraodontidae) in north Brazilian mangrove creeks.

PubMed

Krumme, U; Keuthen, H; Saint-Paul, U; Villwock, W

2007-08-01

Stomach contents were examined from 102 banded puffer, Colomesus psittacus (Tetraodontidae), caught from intertidal mangrove creeks at diurnal neap tides between June and September, 1997 (early dry season) near Bragança (north Brazil). The study found that C. psittacus were specialized predators of Cirripedia (Balanus spp.) and Brachyuran crabs (Uca spp., Pachygrapsus gracilis) (mean: 58 and 38% by dry weight, respectively), emphasizing a short food chain in the mangrove system. Cirripedia and Brachyura dominated the diet in all size classes, however, the prey spectrum narrowed with fish size. The mean daily consumption of Cirripedia and Brachyura was 6.2% body weight of C. psittacus. On average C. psittacus consumed 100.3 g x ha(-1) x d(-1) of Cirripedia and 178.7 g x ha(-1) x d(-1) of Brachyura (wet weight). The predation on Brachyuran crabs--a significant driver of fluxes of organic matter and energy in the system--provides C. psittacus with an important ecological function in the mangrove food web. A plant-animal interaction is proposed where C. psittacus exerts a mutually beneficial cleaning function on the Aufwuchs (Cirripedia and associated epibiota) of Rhizophora mangle stilt roots. Our results and those of other studies suggest that C. psittacus encounter optimum foraging conditions in the mangrove at high inundations at daylight (spring tide-day) whereas darkness and low inundations are linked to poor foraging conditions (neap tide-night). The C. psittacus resource could be used as an alternative income in the region in terms of i) sustainable catch and filet processing for exports to East Asia, ii) developing certified aquaculture methods for breeding puffers for the aquarium trade.

WGSSAT: A High-Throughput Computational Pipeline for Mining and Annotation of SSR Markers From Whole Genomes.

PubMed

Pandey, Manmohan; Kumar, Ravindra; Srivastava, Prachi; Agarwal, Suyash; Srivastava, Shreya; Nagpure, Naresh S; Jena, Joy K; Kushwaha, Basdeo

2018-03-16

Mining and characterization of Simple Sequence Repeat (SSR) markers from whole genomes provide valuable information about biological significance of SSR distribution and also facilitate development of markers for genetic analysis. Whole genome sequencing (WGS)-SSR Annotation Tool (WGSSAT) is a graphical user interface pipeline developed using Java Netbeans and Perl scripts which facilitates in simplifying the process of SSR mining and characterization. WGSSAT takes input in FASTA format and automates the prediction of genes, noncoding RNA (ncRNA), core genes, repeats and SSRs from whole genomes followed by mapping of the predicted SSRs onto a genome (classified according to genes, ncRNA, repeats, exonic, intronic, and core gene region) along with primer identification and mining of cross-species markers. The program also generates a detailed statistical report along with visualization of mapped SSRs, genes, core genes, and RNAs. The features of WGSSAT were demonstrated using Takifugu rubripes data. This yielded a total of 139 057 SSR, out of which 113 703 SSR primer pairs were uniquely amplified in silico onto a T. rubripes (fugu) genome. Out of 113 703 mined SSRs, 81 463 were from coding region (including 4286 exonic and 77 177 intronic), 7 from RNA, 267 from core genes of fugu, whereas 105 641 SSR and 601 SSR primer pairs were uniquely mapped onto the medaka genome. WGSSAT is tested under Ubuntu Linux. The source code, documentation, user manual, example dataset and scripts are available online at https://sourceforge.net/projects/wgssat-nbfgr.

Accumulation of hydroxyl lipids and 4-hydroxy-2-hexenal in live fish infected with fish diseases.

PubMed

Tanaka, Ryusuke; Shigeta, Kazuhiro; Sugiura, Yoshimasa; Hatate, Hideo; Matsushita, Teruo

2014-04-01

Hydroxy lipids (L-OH) and 4-hydroxy-2-hexenal (HHE) levels as well as other parameters such as lipid level, lipid class, fatty acid composition, and other aldehydes levels in the liver of diseased fish were investigated. Although significant differences in lipid level, lipid class, fatty acid composition, and other aldehyde levels were not always observed between normal and diseased fish, L-OH and HHE levels were significantly higher in the liver of the diseased fish than in that of the normal fish cultured with the same feeds under the same conditions. In the liver of puffer fish (Fugu rubripes) infected with Trichodina, L-OH and HHE levels significantly increased from 25.29±5.04 to 47.70 ± 5.27 nmol/mg lipid and from 299.79±25.25 to 1,184.40±60.27 nmol/g tissue, respectively. When the levels of HHE and other aldehydes in the liver of the normal and diseased puffer fish were plotted, a linear relationship with a high correlation coefficient was observed between HHE and propanal (r2=0.9447). Increased L-OH and HHE levels in the liver of the diseased fish and a high correlation between HHE and propanal in the liver of the normal and diseased fish were also observed in flat fish (Paralichthys olivaceus) infected with streptococcus, yellowtail (Seriola quinqueradiata) infected with jaundice, and amberjack (S. purpurascens) infected with Photobacterium damselae subsp. piscicida.

Whitespotted puffer Arothron hispidus, a new host for lymphocystis in Qingdao Aquarium of China.

PubMed

Sheng, Xiu-zhen; Zhan, Wen-bin; Wang, Yue

2007-03-29

In April 2004 white nodular lesions were found on the fins of whitespotted puffer Arothron hispidus (Linnaeus). Diagnostic studies were carried out to confirm the disease using light and electron microscopy, histochemical methods and PCR. The results revealed that the nodules were composed of giant cells up to 400 microm in diameter. These cells were surrounded by a periodic acid-Schiff (PAS)-positive hyaline capsule containing dot-shaped, Feulgen-positive inclusion bodies in the cytoplasm and an irregular nucleus. Numerous virus particles 200 nm in diameter and with hexagonal profiles were observed in the cytoplasm. These features were consistent with those of lymphocystis disease. Additionally, based on the gene sequences of major capsid protein (MCP) of lymphocystis disease virus (LCDV) from Japanese flounder Paralichthys olivaceus, 2 pair primers were designed; after a nested PCR was performed for detection of LCDV in A. hispidus, a positive amplified product was obtained showing the presence of LCDV. Therefore, the white nodules were the lymphocystis lesions caused by LCDV infection and A. hispidus was demonstrated to be a new host for LCDV.

SalmonDB: a bioinformatics resource for Salmo salar and Oncorhynchus mykiss

PubMed Central

Di Génova, Alex; Aravena, Andrés; Zapata, Luis; González, Mauricio; Maass, Alejandro; Iturra, Patricia

2011-01-01

SalmonDB is a new multiorganism database containing EST sequences from Salmo salar, Oncorhynchus mykiss and the whole genome sequence of Danio rerio, Gasterosteus aculeatus, Tetraodon nigroviridis, Oryzias latipes and Takifugu rubripes, built with core components from GMOD project, GOPArc system and the BioMart project. The information provided by this resource includes Gene Ontology terms, metabolic pathways, SNP prediction, CDS prediction, orthologs prediction, several precalculated BLAST searches and domains. It also provides a BLAST server for matching user-provided sequences to any of the databases and an advanced query tool (BioMart) that allows easy browsing of EST databases with user-defined criteria. These tools make SalmonDB database a valuable resource for researchers searching for transcripts and genomic information regarding S. salar and other salmonid species. The database is expected to grow in the near feature, particularly with the S. salar genome sequencing project. Database URL: http://genomicasalmones.dim.uchile.cl/ PMID:22120661

SalmonDB: a bioinformatics resource for Salmo salar and Oncorhynchus mykiss.

PubMed

Di Génova, Alex; Aravena, Andrés; Zapata, Luis; González, Mauricio; Maass, Alejandro; Iturra, Patricia

2011-01-01

SalmonDB is a new multiorganism database containing EST sequences from Salmo salar, Oncorhynchus mykiss and the whole genome sequence of Danio rerio, Gasterosteus aculeatus, Tetraodon nigroviridis, Oryzias latipes and Takifugu rubripes, built with core components from GMOD project, GOPArc system and the BioMart project. The information provided by this resource includes Gene Ontology terms, metabolic pathways, SNP prediction, CDS prediction, orthologs prediction, several precalculated BLAST searches and domains. It also provides a BLAST server for matching user-provided sequences to any of the databases and an advanced query tool (BioMart) that allows easy browsing of EST databases with user-defined criteria. These tools make SalmonDB database a valuable resource for researchers searching for transcripts and genomic information regarding S. salar and other salmonid species. The database is expected to grow in the near feature, particularly with the S. salar genome sequencing project. Database URL: http://genomicasalmones.dim.uchile.cl/

The checkered puffer (Spheroides testudineus) and its helminths as bioindicators of chemical pollution in Yucatan coastal lagoons.

PubMed

Pech, Daniel; Vidal-Martínez, Víctor M; Aguirre-Macedo, M Leopoldina; Gold-Bouchot, Gerardo; Herrera-Silveira, Jorge; Zapata-Pérez, Omar; Marcogliese, David J

2009-03-15

The suitability of using helminth communities as bioindicators of environmental quality of the Yucatan coastal lagoons status was tested on the checkered puffer (Spheroides testudineus) in four coastal lagoons along the Yucatan coast. The concentration of chemical pollutants in sediments, water quality parameters, helminth infracommunity characteristics, as well as fish physiological biomarkers, including EROD (7-ethoxyresorufin-O-deethylase) and catalase activities, were measured. Results from sediment analyses demonstrated the presence of hydrocarbons, organochlorine pesticides and polychlorinated biphenyls at varying concentrations, some of which exceeded the Probability Effect Level (PEL). Significant negative associations among organochlorine pesticides, infracommunity characteristics and fish physiological responses were observed in most of the lagoons. Results suggest that EROD activity and parasite infracommunity characteristics could be useful tools to evaluate the effects of chemical pollutants on the fish host and in the environment. Importantly, certain parasites appear to influence biomarker measurements, indicating that parasites should be considered in ecotoxicological studies.

Ultradian oscillation in expression of four melatonin receptor subtype genes in the pineal gland of the grass puffer, a semilunar-synchronized spawner, under constant darkness.

PubMed

Ikegami, Taro; Maruyama, Yusuke; Doi, Hiroyuki; Hattori, Atsuhiko; Ando, Hironori

2015-01-01

Melatonin receptor gene expression as well as melatonin synthesis and secretion activities were examined in the pineal gland of the grass puffer, which exhibits unique lunar/tidal cycle-synchronized mass spawing: spawning occurs before high tide on the day of spring tide during spawing season. Melatonin synthesizing activity was assessed by the abundance of arylalkylamine N-acetyltransferase 2 (AANAT2) mRNA. The amount of aanat2 mRNA was low during light phase and initiated to increase after the light was turned off. The secretion of melatonin from primary pineal organ culture was stimulated after the light was turned off and ceased immediately after the light was turned on. The expression levels of four melatonin receptor subtype genes (mel 1a 1.4, mel 1a 1.7, mel1b, and mel1c) showed synchronous variations, and the levels tended to be high during the dark phase under light/dark conditions. These results suggest that the action of melatonin on the pineal gland is highly dependent on light and photoperiod, possibly with stronger action during night time. Under constant darkness, the expression of four melatonin receptor subtype genes showed unique ultradian oscillations with the period of 14.0-15.4 h, suggesting the presence of a circatidal oscillator in the pineal gland. The present results indicate that melatonin may serve local chronobiological functions in the pineal gland. These cyclic expressions of melatonin receptor genes in the pineal gland may be important in the control of the lunar/tidal cycle-synchronized mass spawning in the grass puffer.

Ultradian oscillation in expression of four melatonin receptor subtype genes in the pineal gland of the grass puffer, a semilunar-synchronized spawner, under constant darkness

PubMed Central

Ikegami, Taro; Maruyama, Yusuke; Doi, Hiroyuki; Hattori, Atsuhiko; Ando, Hironori

2015-01-01

Melatonin receptor gene expression as well as melatonin synthesis and secretion activities were examined in the pineal gland of the grass puffer, which exhibits unique lunar/tidal cycle-synchronized mass spawing: spawning occurs before high tide on the day of spring tide during spawing season. Melatonin synthesizing activity was assessed by the abundance of arylalkylamine N-acetyltransferase 2 (AANAT2) mRNA. The amount of aanat2 mRNA was low during light phase and initiated to increase after the light was turned off. The secretion of melatonin from primary pineal organ culture was stimulated after the light was turned off and ceased immediately after the light was turned on. The expression levels of four melatonin receptor subtype genes (mel1a1.4, mel1a1.7, mel1b, and mel1c) showed synchronous variations, and the levels tended to be high during the dark phase under light/dark conditions. These results suggest that the action of melatonin on the pineal gland is highly dependent on light and photoperiod, possibly with stronger action during night time. Under constant darkness, the expression of four melatonin receptor subtype genes showed unique ultradian oscillations with the period of 14.0–15.4 h, suggesting the presence of a circatidal oscillator in the pineal gland. The present results indicate that melatonin may serve local chronobiological functions in the pineal gland. These cyclic expressions of melatonin receptor genes in the pineal gland may be important in the control of the lunar/tidal cycle-synchronized mass spawning in the grass puffer. PMID:25688184

High temperature induces apoptosis and oxidative stress in pufferfish (Takifugu obscurus) blood cells.

PubMed

Cheng, Chang-Hong; Yang, Fang-Fang; Liao, Shao-An; Miao, Yu-Tao; Ye, Chao-Xia; Wang, An-Li; Tan, Jia-Wen; Chen, Xiao-Yan

2015-10-01

Water temperature is an important environmental factor in aquaculture farming that affects the survival and growth of organisms. The change in culture water temperature may not only modify various chemical and biological processes but also affect the status of fish populations. In previous studies, high temperature induced apoptosis and oxidative stress. However, the precise mechanism and the pathways that are activated in fish are still unclear. In the present study, we investigated the effects of high temperature (34°C) on the induction of apoptosis and oxidative stress in pufferfish (Takifugu obscurus) blood cells. The data showed that high temperature exposure increased oxygen species (ROS), cytoplasmic free-Ca(2+) concentration and cell apoptosis. To test the apoptotic pathway, the expression pattern of some key apoptotic related genes including P53, Bax, caspase 9 and caspase 3 were examined. The results showed that acute high temperature stress induced up-regulation of these genes, suggesting that the p53-Bax pathway and the caspase-dependent apoptotic pathway could be involved in apoptosis induced by high temperature stress. Furthermore, the gene expression of antioxidant enzymes (Cu/Zn-SOD, Mn-SOD, CAT, GPx, and GR) and heat shock proteins (HSP90 and HSP70) in the blood cells were induced by high temperature stress. Taken together, our results showed that high temperature-induced oxidative stress may cause pufferfish blood cells apoptosis, and cooperatively activated p53-Bax and caspase-dependent apoptotic pathway. Copyright © 2015 Elsevier Ltd. All rights reserved.

Application of a puffer fish skin gelatin film containing Moringa oleifera Lam. leaf extract to the packaging of Gouda cheese.

PubMed

Lee, Ka-Yeon; Yang, Hyun-Ju; Song, Kyung Bin

2016-11-01

This study aims to develop a puffer fish skin gelatin (PSG) film that contains Moringa oleifera Lam. leaf extract (ME) as a new biodegradable film. With the increase in ME concentration, the tensile strength and elongation at break of the PSG film increased, whereas the oxygen permeability and water vapor permeability decreased. In addition, the PSG film with ME exhibited antimicrobial activity against Listeria monocytogenes and antioxidant activity. To apply the ME-containing PSG film to food packaging, Gouda cheese was wrapped with the ME-containing PSG film. During storage, the cheese packaging with the ME-containing PSG film effectively inhibited the microbial growth and retarded the lipid oxidation of cheese compared with the control sample. Thus, the ME-containing PSG film can be used as an antimicrobial and antioxidative packaging material to improve the quality of food products.

Habitat use and movements of postfledging American black ducks (Anas rubripes) in the St. Lawrence estuary, Quebec

USGS Publications Warehouse

Clugston, D.A.; Longcore, J.R.; McAuley, D.G.; Dupuis, P.

1994-01-01

We used radiotelemetry to determine habitat use and movements of 38 female juvenile American black ducks (Anas rubripes) on the north shore of the St. Lawrence estuary, Quebec, from 28 August to 15 November 1991. Ducks separated into three groups based on habitat use: inland, estuarine, and those using a mixture of habitats. Ducks using mixed habitats used the greatest variety of habitat types, flew the greatest distances and most often between night roosts and day foraging areas, and were unlikely to be shot. The mean distance flown between night-use and day-use areas for all ducks increased nearly 50% after the hunting season began (overall mean = 6104 m, range 1500 - 26384 m). Mean home range size was 27.6 t 6.5 (SE) km2. Ducks exhibited stronger fidelity to wetlands used at night than to those used during the day. Ducks that were shot spent a high percentage of their time on the estuary (90.1 t 7.4 %) and exhibited high fidelity to a day-use area before the hunting season (73 t 7.3 %).

Mortality and hematology associated with the ingestion of one number four lead shot in black ducks, Anas rubripes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pain, D.J.; Rattner, B.A.

The black duck (anas rubripes) is a dabbling duck endemic to North America. Since population surveys of this species began in the early 1950's, numbers have declined steadily at the rate of approximately 1.5% a year. In 1980 the North American population was estimated to be only 42% of that recorded in 1952. Several reasons have been suggested for this decline. One environmental contaminant that may be contributing to the decline is spent lead gunshot. The ingestion of gunshot by waterfowl is well documented and is thought to kill an estimated 1.6-3.8 million waterfowl each year in North America. Theremore » has been little research concerning the toxicity of lead gunshot to the black duck and the present significance of lead poisoning as a mortality factor in this species. This study reports the results of an experiment in which captive black ducks were dosed with one number four lead shot. Mortality rates and hematological effects are discussed in relation to lead toxicity.« less

Different phylogenomic approaches to resolve the evolutionary relationships among model fish species.

PubMed

Negrisolo, Enrico; Kuhl, Heiner; Forcato, Claudio; Vitulo, Nicola; Reinhardt, Richard; Patarnello, Tomaso; Bargelloni, Luca

2010-12-01

Comparative genomics holds the promise to magnify the information obtained from individual genome sequencing projects, revealing common features conserved across genomes and identifying lineage-specific characteristics. To implement such a comparative approach, a robust phylogenetic framework is required to accurately reconstruct evolution at the genome level. Among vertebrate taxa, teleosts represent the second best characterized group, with high-quality draft genome sequences for five model species (Danio rerio, Gasterosteus aculeatus, Oryzias latipes, Takifugu rubripes, and Tetraodon nigroviridis), and several others are in the finishing lane. However, the relationships among the acanthomorph teleost model fishes remain an unresolved taxonomic issue. Here, a genomic region spanning over 1.2 million base pairs was sequenced in the teleost fish Dicentrarchus labrax. Together with genomic data available for the above fish models, the new sequence was used to identify unique orthologous genomic regions shared across all target taxa. Different strategies were applied to produce robust multiple gene and genomic alignments spanning from 11,802 to 186,474 amino acid/nucleotide positions. Ten data sets were analyzed according to Bayesian inference, maximum likelihood, maximum parsimony, and neighbor joining methods. Extensive analyses were performed to explore the influence of several factors (e.g., alignment methodology, substitution model, data set partitions, and long-branch attraction) on the tree topology. Although a general consensus was observed for a closer relationship between G. aculeatus (Gasterosteidae) and Di. labrax (Moronidae) with the atherinomorph O. latipes (Beloniformes) sister taxon of this clade, with the tetraodontiform group Ta. rubripes and Te. nigroviridis (Tetraodontiformes) representing a more distantly related taxon among acanthomorph model fish species, conflicting results were obtained between data sets and methods, especially with respect

FoxK1 splice variants show developmental stage-specific plasticity of expression with temperature in the tiger pufferfish.

PubMed

Fernandes, Jorge M O; MacKenzie, Matthew G; Kinghorn, James R; Johnston, Ian A

2007-10-01

FoxK1 is a member of the highly conserved forkhead/winged helix (Fox) family of transcription factors and it is known to play a key role in mammalian muscle development and myogenic stem cell function. The tiger pufferfish (Takifugu rubripes) orthologue of mammalian FoxK1 (TFoxK1) has seven exons and is located in a region of conserved synteny between pufferfish and mouse. TFoxK1 is expressed as three alternative transcripts: TFoxK1-alpha, TFoxK1-gamma and TFoxK1-delta. TFoxK1-alpha is the orthologue of mouse FoxK1-alpha, coding for a putative protein of 558 residues that contains the forkhead and forkhead-associated domains typical of Fox proteins and shares 53% global identity with its mammalian homologue. TFoxK1-gamma and TFoxK1-delta arise from intron retention events and these transcripts translate into the same 344-amino acid protein with a truncated forkhead domain. Neither are orthologues of mouse FoxK1-beta. In adult fish, the TFoxK1 splice variants were differentially expressed between fast and slow myotomal muscle, as well as other tissues, and the FoxK1-alpha protein was expressed in myogenic progenitor cells of fast myotomal muscle. During embryonic development, TFoxK1 was transiently expressed in the developing somites, heart, brain and eye. The relative expression of TFoxK1-alpha and the other two alternative transcripts varied with the incubation temperature regime for equivalent embryonic stages and the differences were particularly marked at later developmental stages. The developmental expression pattern of TFoxK1 and its localisation to mononuclear myogenic progenitor cells in adult fast muscle indicate that it may play an essential role in myogenesis in T. rubripes.

Longevity and viability of Taenia solium eggs in the digestive system of the beetle Ammophorus rubripes.

PubMed

Gomez-Puerta, Luis Antonio; Lopez-Urbina, Maria Teresa; Garcia, Hector Hugo; Gonzalez, Armando Emiliano

2014-03-01

The present study evaluated the capacity of Ammophorus rubripes beetles to carry Taenia solium eggs, in terms of duration and viability of eggs in their digestive system. One hundred beetles were distributed into five polyethylene boxes, and then they were infected with T. solium eggs. Gravid proglottids of T. solium were crushed and then mixed with cattle feces. One gram of this mixture was placed in each box for 24 hours, after which each group of beetles was transferred into a new clean box. Then, five beetles were dissected every three days. Time was strongly associated with viability (r=0.89; P<0.001) and the calculated time to cero viability is 36 days. The eggs in the intestinal system of each beetle were counted and tested for viability. Taenia solium eggs were present in the beetle's digestive system for up to 39 days (13th sampling day out of 20), gradually reducing in numbers and viability, which was 0 on day 36 post-infection. Egg viability was around 40% up to day 24 post-infection, with a median number of eggs of 11 per beetle at this time. Dung beetles may potentially contribute towards dispersing T. solium eggs in endemic areas.

LONGEVITY AND VIABILITY OF Taenia solium EGGS IN THE DIGESTIVE SYSTEM OF THE BEETLE Ammophorus rubripes

PubMed Central

Gomez-Puerta, Luis Antonio; Lopez-Urbina, Maria Teresa; Garcia, Hector Hugo; Gonzalez, Armando Emiliano

2015-01-01

The present study evaluated the capacity of Ammophorus rubripes beetles to carry Taenia solium eggs, in terms of duration and viability of eggs in their digestive system. One hundred beetles were distributed into five polyethylene boxes, and then they were infected with T. solium eggs. Gravid proglottids of T. solium were crushed and then mixed with cattle feces. One gram of this mixture was placed in each box for 24 hours, after which each group of beetles was transferred into a new clean box. Then, five beetles were dissected every three days. Time was strongly associated with viability (r=0.89; P<0.001) and the calculated time to cero viability is 36 days. The eggs in the intestinal system of each beetle were counted and tested for viability. Taenia solium eggs were present in the beetle’s digestive system for up to 39 days (13th sampling day out of 20), gradually reducing in numbers and viability, which was 0 on day 36 post-infection. Egg viability was around 40% up to day 24 post-infection, with a median number of eggs of 11 per beetle at this time. Dung beetles may potentially contribute towards dispersing T. solium eggs in endemic areas. PMID:24728368

Effects of ammonia exposure on apoptosis, oxidative stress and immune response in pufferfish (Takifugu obscurus).

PubMed

Cheng, Chang-Hong; Yang, Fang-Fang; Ling, Ren-Zhi; Liao, Shao-An; Miao, Yu-Tao; Ye, Chao-Xia; Wang, An-Li

2015-07-01

Ammonia is one of major environmental pollutants in the freshwater aquatic system that affects the survival and growth of organisms. In the present study, we investigated the effects of ammonia exposure on apoptosis, oxidative stress and immune response in pufferfish (Takifugu obscurus). Fish were exposed to various concentrations of ammonia (0, 1.43, 3.57, 7.14mM) for 72h. The date showed that ammonia exposure could induce intracellular reactive oxygen species (ROS), interrupt intracellular Ca(2+) (cf-Ca(2+)) homeostasis, and subsequently lead to DNA damage and cell apoptosis. To test the apoptotic pathway, the expression patterns of some key apoptotic related genes including P53, Bax Bcl2, Caspase 9, Caspase 8 and Caspase 3 in the liver were examined. The results showed that ammonia stress could change these genes transcription, associated with increasing of cell apoptosis, suggesting that the P53-Bax-Bcl2 pathway and caspase-dependent apoptotic pathway could be involved in cell apoptosis induced by ammonia stress. In addition, ammonia stress could induced up-regulation of inflammatory cytokines (BAFF, TNF-α, IL-6 and IL-12) transcription, indicating that innate immune system play important roles in ammonia-induced toxicity in fish. Furthermore, the gene expressions of antioxidant enzymes (Mn-SOD, CAT, GPx, and GR) and heat shock proteins (HSP90 and HSP70) in the liver were induced by ammonia stress, suggesting that antioxidant system and heat shock proteins tried to protect cells from oxidative stress and apoptosis induced by ammonia stress. Our results will be helpful to understand the mechanism of aquatic toxicology induced by ammonia in fish. Copyright © 2015 Elsevier B.V. All rights reserved.

New approach for fish breeding by chemical mutagenesis: establishment of TILLING method in fugu (Takifugu rubripes) with ENU mutagenesis.

PubMed

Kuroyanagi, Miwa; Katayama, Takashi; Imai, Tadashi; Yamamoto, Yoshihisa; Chisada, Shin-ichi; Yoshiura, Yasutoshi; Ushijima, Tomokazu; Matsushita, Tomonao; Fujita, Masashi; Nozawa, Aoi; Suzuki, Yuzuru; Kikuchi, Kiyoshi; Okamoto, Hiroyuki

2013-11-13

In fish breeding, it is essential to discover and generate fish exhibiting an effective phenotype for the aquaculture industry, but screening for natural mutants by only depending on natural spontaneous mutations is limited. Presently, reverse genetics has become an important tool to generate mutants, which exhibit the phenotype caused by inactivation of a gene. TILLING (Targeting Induced Local Lesions IN Genomes) is a reverse genetics strategy that combines random chemical mutagenesis with high-throughput discovery technologies for screening the induced mutations in target genes. Although the chemical mutagenesis has been used widely in a variety of model species and also genetic breeding of microorganisms and crops, the application of the mutagenesis in fish breeding has been only rarely reported. In this study, we developed the TILLING method in fugu with ENU mutagenesis and high-resolution melting (HRM) analysis to detect base pair changes in target sequences. Fugu males were treated 3 times at weekly intervals with various ENU concentrations, and then the collected sperm after the treatment was used to fertilize normal female for generating the mutagenized population (F1). The fertilization and the hatching ratios were similar to those of the control and did not reveal a dose dependency of ENU. Genomic DNA from the harvested F1 offspring was used for the HRM analysis. To obtain a fish exhibiting a useful phenotype (e.g. high meat production and rapid growth), fugu myostatin (Mstn) gene was examined as a target gene, because it has been clarified that the mstn deficient medaka exhibited double-muscle phenotype in common with MSTN knockout mice and bovine MSTN mutant. As a result, ten types of ENU-induced mutations were identified including a nonsense mutation in the investigated region with HRM analysis. In addition, the average mutation frequency in fugu Mstn gene was 1 mutant per 297 kb, which is similar to values calculated for zebrafish and medaka TILLING libraries. These results demonstrate that the TILLING method in fugu was established. We anticipate that this TILLING approach can be used to generate a wide range of mutant alleles, and be applicable to many farmed fish that can be chemically mutagenized.

Takifugu rubripes cation independent mannose 6-phosphate receptor: Cloning, expression and functional characterization of the IGF-II binding domain.

PubMed

A, Ajith Kumar; Nadimpalli, Siva Kumar

2018-07-01

Mannose 6-phosphate/IGF-II receptor mediated lysosomal clearance of insulin-like growth factor-II is significantly associated with the evolution of placental mammals. The protein is also referred to as the IGF-II receptor. Earlier studies suggested relatively low binding affinity between the receptor and ligand in prototherian and metatherian mammals. In the present study, we cloned the IGF-II binding domain of the early vertebrate fugu fish and expressed it in bacteria. A 72000Da truncated receptor containing the IGF-II binding domain was obtained. Analysis of this protein (covering domains 11-13 of the CIMPR) for its affinity to fish and human IGF-II by ligand blot assays and ELISA showed that the expressed receptor can specifically bind to both fish and human IGF-II. Additionally, a peptide-specific antibody raised against the region of the IGF-II binding domain also was able to recognize the IGF-II binding regions of mammalian and non-mammalian cation independent MPR protein. These interactions were further characterized by Surface Plasma resonance support that the receptor binds to fish IGF-II, with a dissociation constant of 548nM. Preliminary analysis suggests that the binding mechanism as well as the affinity of the fish and human receptor for IGF-II may have varied according to different evolutionary pressures. Copyright © 2018. Published by Elsevier B.V.

Nervous system disruption and concomitant behavioral abnormality in early hatched pufferfish larvae exposed to heavy oil.

PubMed

Kawaguchi, Masahumi; Sugahara, Yuki; Watanabe, Tomoe; Irie, Kouta; Ishida, Minoru; Kurokawa, Daisuke; Kitamura, Shin-Ichi; Takata, Hiromi; Handoh, Itsuki C; Nakayama, Kei; Murakami, Yasunori

2011-08-01

Spills of heavy oil (HO) over the oceans have been proven to have an adverse effect on marine life. It has been hypothesized that exposure of early larvae of sinking eggs to HO leads largely to normal morphology, whereas abnormal organization of the developing neural scaffold is likely to be found. HO-induced disruption of the nervous system, which controls animal behavior, may in turn cause abnormalities in the swimming behavior of hatched larvae. To clarify the toxicological effects of HO, we performed exposure experiments and morphological and behavioral analyses in pufferfish (Takifugu rubripes) larvae. Fertilized eggs of pufferfish were exposed to 50 mg/L of HO for 8 days and transferred to fresh seawater before hatching. The hatched larvae were observed for their swimming behavior, morphological appearance, and construction of muscles and nervous system. In HO-exposed larvae, we did not detect any anomaly of body morphology. However, they showed an abnormal swimming pattern and disorganized midbrain, a higher center controlling movement. Our results suggest that HO-exposed fishes suffer developmental disorder of the brain that triggers an abnormal swimming behavior and that HO may be selectively toxic to the brain and cause physical disability throughout the life span of these fishes.

Growth performance and protective effect of vitamin E on oxidative stress pufferfish (Takifugu obscurus) following by ammonia stress.

PubMed

Cheng, Chang-Hong; Guo, Zhi-Xun; Wang, An-Li

2018-04-01

This study was conducted to determine the effects of vitamin E on growth performance, biochemical parameters, and antioxidant capacity of pufferfish (Takifugu obscurus) exposed to ammonia stress. The experimental basal diets supplemented with vitamin E at the rates of 2.31 (control), 21.84, 40.23, 83.64, 158.93, and 311.64 mg kg -1 dry weight were fed to fish for 60 days. After the feeding trial, the fish were exposed to 100 mg L -1 ammonia-nitrogen for 48 h. The results shown that the vitamin E group significantly improved weight gain, specific growth rate, and the expression levels of growth hormone receptors and insulin-like growth factor. Fish fed with the vitamin E-supplemented diets could increase plasma alkaline phosphatase activities and decrease plasma glutamicoxalacetic transaminase and glutamic-pyruvic transaminase activities. The relative expression levels of heat shock proteins (40.23-311.64 mg kg -1 vitamin E diet group), manganese superoxide dismutase (83.64-158.93 mg kg -1 vitamin E diet group), catalase (40.23-311.64 mg kg -1 vitamin E diet group), and glutathione reductase (40.23-311.64 mg kg -1 vitamin E diet group) were upregulated. On the other hand, the decreased level of reactive oxygen species (ROS) was observed in the 83.64-311.64 mg kg -1 vitamin E additive group. These results showed that vitamin E might have a potentially useful role as an effective antioxidant to improve resistance in pufferfish.

Effect of dietary astaxanthin on the growth performance, non-specific immunity, and antioxidant capacity of pufferfish (Takifugu obscurus) under high temperature stress.

PubMed

Cheng, Chang-Hong; Guo, Zhi-Xun; Ye, Chao-Xia; Wang, An-Li

2018-02-01

The present study was conducted to investigate the effects of astaxanthin on growth performance, biochemical parameters, ROS production, and immune-related gene expressions of the pufferfish (Takifugu obscurus) under high temperature stress. The experimental basal diets supplemented with astaxanthin at the rates of 0 (control), 20, 40, 80, 160, and 320 mg kg -1 were fed to fish for 8 weeks. The results showed that the fish fed diet with 80, 160, and 320 mg kg -1 astaxanthin significantly improved weight gain and specific growth rate. Furthermore, fish fed the moderate dietary astaxanthin increased plasma alkaline phosphatase activities, and decrease plasma aspartate aminotransferase and alanine aminotransferase activities. After the feeding trial, the fish were exposed to high temperature stress for 48 h. The results shown that astaxanthin could suppress ROS production induced by high temperature stress. Meanwhile, compared with the control group, the astaxanthin groups increased SOD, CAT, and HSP70 mRNA levels under high temperature stress. These results showed that the basal diet supplemented with 80-320 mg kg -1 astaxanthin could enhance growth, nonspecific immune responses, and antioxidant defense system and improve resistance against high temperature stress in pufferfish.

Effects of mating disruption treatments on navel orangeworm (Lepidoptera: Pyralidae) sexual communication and damage in almonds and pistachios.

PubMed

Higbee, Bradley S; Burks, Charles S

2008-10-01

Two experiments in 2003 examined the effects of different ways of dispensing the principal sex pheromone component on sexual communication among and crop damage by the navel orangeworm, Amyelois transitella (Walker) (Lepidoptera: Pyralidae) in Nonpareil almonds and pistachios. A third experiment in 2004 compared the effect on navel orangeworm damage to several almond varieties using one of these dispensing systems by itself or with phosmet, phosmet alone, and an untreated control. Additional data are presented estimating release rates from timed aerosol release devices (PuffersNOW, Suterra LLC, Bend, OR) and hand-applied membrane dispensers. In 2003, puffers placed peripherally around 16-ha blocks, evenly spaced Puffers, and hand-applied dispensers reduced males captured in virgin-baited traps by > or = 95% and mating in sentinel females by > or = 69%, with evenly placed Puffers showing greater reduction of males captured and females mated compared with the other dispensing systems. Mating disruption with gridded Puffers or hand-applied devices in almonds resulted in an approximately 37% reduction of navel orangeworm damage (not significant), whereas peripheral Puffers resulted in a 16% reduction of navel orangeworm damage to almonds. In pistachios neither peripheral nor gridded Puffers reduced navel orangeworm damage, whereas insecticide reduced damage by 56%. In 2004, Puffers alone, insecticide alone, and both in combination significantly reduced navel orangeworm damage in Nonpareil almonds. In other, later harvested varieties, the insecticide treatments reduced damage, whereas the mating disruption treatment alone did not. We discuss application of these findings to management of navel orangeworm in these two crops.

Occurrence of tetrodotoxin-binding high molecular weight substances in the body fluid of shore crab (Hemigrapsus sanguineus).

PubMed

Shiomi, K; Yamaguchi, S; Kikuchi, T; Yamamori, K; Matsui, T

1992-12-01

The shore crab (Hemigrapsus sanguineus) is highly resistant to tetrodotoxin (TTX) although it contains no detectable amount of TTX (less than 5 MU/g, where 1 MU is defined as the amount of TTX killing a 20 g mouse in 30 min). Its body fluid was examined for neutralizing effects against the lethal activity of TTX. When the mixture of the body fluid and TTX was injected i.p. into mice, the lethal activity of TTX was significantly reduced; 1 ml of the body fluid was evaluated to neutralize 3.6-4.0 MU of TTX. Higher neutralizing activity (7.2-12.5 MU/ml of the body fluid) was exhibited by i.v. administration of the body fluid into mice before or after i.p. challenge of TTX. The lethal effect of paralytic shellfish poisons was not counteracted by the body fluid. Analysis by gel filtration on Sepharose 6B revealed that the body fluid contained TTX-binding high mol. wt substances (> 2,000,000) responsible for the neutralizing activity of the body fluid against TTX, which accounts for the high resistibility of the crab to TTX. When the crude toxin extracted from the liver of puffer (Takifugu niphobles) was mixed with the body fluid and chromatographed on Sepharose 6B, almost pure TTX was obtained from the fractions containing the TTX-binding high mol. wt substances, suggesting that the TTX-binding high mol. wt substances could be useful in purification of TTX from biological samples.

Evolutionary origins of the endocannabinoid system.

PubMed

McPartland, John M; Matias, Isabel; Di Marzo, Vincenzo; Glass, Michelle

2006-03-29

Endocannabinoid system evolution was estimated by searching for functional orthologs in the genomes of twelve phylogenetically diverse organisms: Homo sapiens, Mus musculus, Takifugu rubripes, Ciona intestinalis, Caenorhabditis elegans, Drosophila melanogaster, Saccharomyces cerevisiae, Arabidopsis thaliana, Plasmodium falciparum, Tetrahymena thermophila, Archaeoglobus fulgidus, and Mycobacterium tuberculosis. Sequences similar to human endocannabinoid exon sequences were derived from filtered BLAST searches, and subjected to phylogenetic testing with ClustalX and tree building programs. Monophyletic clades that agreed with broader phylogenetic evidence (i.e., gene trees displaying topographical congruence with species trees) were considered orthologs. The capacity of orthologs to function as endocannabinoid proteins was predicted with pattern profilers (Pfam, Prosite, TMHMM, and pSORT), and by examining queried sequences for amino acid motifs known to serve critical roles in endocannabinoid protein function (obtained from a database of site-directed mutagenesis studies). This novel transfer of functional information onto gene trees enabled us to better predict the functional origins of the endocannabinoid system. Within this limited number of twelve organisms, the endocannabinoid genes exhibited heterogeneous evolutionary trajectories, with functional orthologs limited to mammals (TRPV1 and GPR55), or vertebrates (CB2 and DAGLbeta), or chordates (MAGL and COX2), or animals (DAGLalpha and CB1-like receptors), or opisthokonta (animals and fungi, NAPE-PLD), or eukaryotes (FAAH). Our methods identified fewer orthologs than did automated annotation systems, such as HomoloGene. Phylogenetic profiles, nonorthologous gene displacement, functional convergence, and coevolution are discussed.

First records of parasitic copepods (Crustacea, Siphonostomatoida) from marine fishes in Korea.

PubMed

Venmathi Maran, B A; Soh, H Y; Hwang, U W; Chang, C Y; Myoung, J G

2015-06-01

The knowledge of the biodiversity of parasitic copepods in South Korea is increasing. Interestingly we report here, some parasitic copepods considered as the first record of findings from Korea. Nine species of parasitic copepods (Siphonostomatoida) including six genera of three different families [Caligidae (7), Lernaeopodidae (1), Lernanthropidae (1)] were recovered from eight species of wild fishes in Korea: 1) Caligus hoplognathi Yamaguti & Yamasu, 1959 (♀, ♂) from the body surface of barred knifejaw Oplegnathus fasciatus (Temminck & Schlegel); 2) Caligus lagocephali Pillai, 1961 (♀) from the gills of panther puffer Takifugu pardalis (Temminck & Schlegel); 3) Euryphorus brachypterus (Gerstaecker, 1853) (♀, ♂) from the opercular cavity of Atlantic bluefin tuna Thunnus thynnus (Linnaeus); 4) Euryphorus nordmanni Milne Edwards, 1840 (♀, ♂) from the opercular cavity of common dolphin fish Coryphaena hippurus Linnaeus; 5) Gloiopotes huttoni (Thomson) (♀, ♂) from the body surface of black marlin Istiompax indica (Cuvier); 6) Lepeophtheirus hapalogenyos Yamaguti & Yamasu, 1959 (♀) from the gill filaments of O. fasciatus; 7) Lepeophtheirus sekii Yamaguti, 1936 (♀, ♂) from the body surface of red seabream Pagrus major (Temminck & Schlegel); 8) Brachiella thynni Cuvier, 1830 (♀) from the body surface of longfin tuna or albacore Thunnus alalunga (Bonnaterre); 9) Lernanthropinus sphyraenae (Yamaguti & Yamasu, 1959) (♀) from the gill filaments of moon fish Mene maculata (Bloch & Schneider). Since the female was already reported in Korea, it is a new record for the male of C. hoplognathi. A checklist for the parasitic copepods of the family Caligidae, Lernaeopodidae and Lernanthropidae of Korea is provided.

Behavior and space utilization of two common fishes within Caribbean mangroves: implications for the protective function of mangrove habitats

NASA Astrophysics Data System (ADS)

MacDonald, J. A.; Shahrestani, S.; Weis, J. S.

2009-09-01

Behaviors, activity budgets, and spatial locations of reef-associated schoolmaster snapper ( Lutjanus apodus) and non-reef-associated checkered puffer ( Sphoeroides testudineus) were cataloged in mangrove forests in Caribbean Honduras to see how and where they spent their time and whether this changed as they grew. For schoolmasters, swimming was the most common behavior, while checkered puffers spent the majority of their time resting. Both remained completely within (as opposed to outside) the mangrove roots and in the lower half of the water column most of the time. However, as the size of the fish increased there was a clear decrease in the time spent both within the root system and closer to the substrate; the larger fish spent more time higher up in the water column and outside the root system. This was observed in both the schoolmaster and the puffer; the schoolmaster subsequently moves to reefs while the puffer does not. Coupled with limited feeding, the results suggest a primarily protective function for mangroves.

Conservation of synteny between the genome of the pufferfish (Fugu rubripes) and the region on human chromosome 14 (14q24.3) associated with familial Alzheimer disease (AD3 locus)

PubMed

Trower, M K; Orton, S M; Purvis, I J; Sanseau, P; Riley, J; Christodoulou, C; Burt, D; See, C G; Elgar, G; Sherrington, R; Rogaev, E I; St George-Hyslop, P; Brenner, S; Dykes, C W

1996-02-20

The genome of the pufferfish (Fugu rubripes) (400 Mb) is approximately 7.5 times smaller than the human genome, but it has a similar gene repertoire to that of man. If regions of the two genomes exhibited conservation of gene order (i.e., were syntenic), it should be possible to reduce dramatically the effort required for identification of candidate genes in human disease loci by sequencing syntenic regions of the compact Fugu genome. We have demonstrated that three genes (dihydrolipoamide succinyltransferase, S31iii125, and S20i15), which are linked to FOS in the familial Alzheimer disease focus (AD3) on human chromosome 14, have homologues in the Fugu genome adjacent to Fugu cFOS. The relative gene order of cFOS, S31iii125, and S20i15 was the same in both genomes, but in Fugu these three genes lay within a 12.4-kb region, compared to >600 kb in the human AD3 locus. These results demonstrate the conservation of synteny between the genomes of Fugu and man and highlight the utility of this approach for sequence-based identification of genes in human disease loci.

Effect of tributyltin chloride (TBT-Cl) exposure on expression of HSP90β1 in the river pufferfish (Takifugu obscurus): Evidences for its immunologic function involving in exploring process.

PubMed

Dong-Po, Xu; Di-An, Fang; Chang-Sheng, Zhao; Shu-Lun, Jiang; Hao-Yuan, Hu

2018-08-05

HSP90β1 (known as glyco-protein 96, GP96) is a vital endoplasmic reticulum (ER) depended chaperonin among the HSPs (heat shock proteins) family. Furthermore, it always processes and presents antigen of the tumor and keeps balance for the intracellular environment. In the present study, we explored the effect of tributyltin chloride (TBT-Cl) exposure on HSP90β1 expression in river pufferfish, Takifugu obscurus. The full length of To-HSP90β1 was gained with 2775 bp in length, with an ORF (open reading frame) encoding an 803 aa polypeptide. A phylogenetic tree was constructed and showed the close relationship to other fish species. The HSP90β1 mRNA transcript was expressed in all tissues investigated with higher level in the gill and liver. After the acute and chronic exposure of TBT-Cl, the To-HSP90β1 mRNA transcript significantly was up-regulated in gills. Moreover, the histology study indicated the different injury degree of TBT-Cl in liver and gill. Immunohistochemistry (IHC) staining results implied the cytoplasm reorganization after TBT-Cl stress and the function of immunoregulation for To-HSP90β1 to TBT-Cl exposure. All the results indicated that HSP90β1 may be involved in the resistance to the invasion of TBT-Cl for keeping autoimmune homeostasis. Copyright © 2018. Published by Elsevier B.V.

Regulation of gene expression mediating indeterminate muscle growth in teleosts.

PubMed

Ahammad, A K Shakur; Asaduzzaman, Md; Asakawa, Shuichi; Watabe, Shugo; Kinoshita, Shigeharu

2015-08-01

Teleosts are unique among vertebrates due to their indeterminate muscle growth, i.e., continued production of neonatal muscle fibers until death. However, the molecular mechanism(s) underlying this property is unknown. Here, we focused on the torafugu (Takifugu rubripes) myosin heavy chain gene, MYHM2528-1, which is specifically expressed in neonatal muscle fibers produced by indeterminate muscle growth. We examined the flanking region of MYHM2528-1 through an in vivo reporter assay using zebrafish (Danio rerio) and identified a 2100 bp 5'-flanking sequence that contained sufficient promoter activity to allow specific gene expression. The effects of enhanced promoter activity were observed at the outer region of the fast muscle and the dorsal edge of slow muscle in zebrafish larvae. At the juvenile stage, the promoter was specifically activated in small diameter muscle fibers scattered throughout fast muscle and in slow muscle near the septum separating slow and fast muscles. This spatio-temporal promoter activity overlapped with known myogenic zones involved in teleost indeterminate muscle growth. A deletion mutant analysis revealed that the -2100 to -600 bp 5'flanking sequence of MYHM2528-1 is essential for promoter activity. This region contains putative binding sites for several representative myogenesis-related transcription factors and nuclear factor of activated T-cell (NFAT), a transcription activator involved in regeneration of mammalian adult skeletal muscle. A significant reduction in the promoter activity of the MYHM2528-1 deletion constructs was observed in accordance with a reduction in the number of these binding sites, suggesting the involvement of specific transcription factors in indeterminate muscle growth. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Characterization and evolutionary analysis of tributyltin-binding protein and pufferfish saxitoxin and tetrodotoxin-binding protein genes in toxic and nontoxic pufferfishes.

PubMed

Hashiguchi, Y; Lee, J M; Shiraishi, M; Komatsu, S; Miki, S; Shimasaki, Y; Mochioka, N; Kusakabe, T; Oshima, Y

2015-05-01

Understanding the evolutionary mechanisms of toxin accumulation in pufferfishes has been long-standing problem in toxicology and evolutionary biology. Pufferfish saxitoxin and tetrodotoxin-binding protein (PSTBP) is involved in the transport and accumulation of tetrodotoxin and is one of the most intriguing proteins related to the toxicity of pufferfishes. PSTBPs are fusion proteins consisting of two tandem repeated tributyltin-binding protein type 2 (TBT-bp2) domains. In this study, we examined the evolutionary dynamics of TBT-bp2 and PSTBP genes to understand the evolution of toxin accumulation in pufferfishes. Database searches and/or PCR-based cDNA cloning in nine pufferfish species (6 toxic and 3 nontoxic) revealed that all species possessed one or more TBT-bp2 genes, but PSTBP genes were found only in 5 toxic species belonging to genus Takifugu. These toxic Takifugu species possessed two or three copies of PSTBP genes. Phylogenetic analysis of TBT-bp2 and PSTBP genes suggested that PSTBPs evolved in the common ancestor of Takifugu species by repeated duplications and fusions of TBT-bp2 genes. In addition, a detailed comparison of Takifugu TBT-bp2 and PSTBP gene sequences detected a signature of positive selection under the pressure of gene conversion. The complicated evolutionary dynamics of TBT-bp2 and PSTBP genes may reflect the diversity of toxicity in pufferfishes. © 2015 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2015 European Society For Evolutionary Biology.

Conservation of a vitellogenin gene cluster in oviparous vertebrates and identification of its traces in the platypus genome.

PubMed

Babin, Patrick J

2008-04-30

Vitellogenin (Vtg) derivatives are the main egg-yolk proteins in most oviparous animal species, and are, therefore, key players in reproduction and embryo development. Conserved synteny and phylogeny were used to identify a Vtg gene cluster (VGC) that had been evolutionarily conserved in most oviparous vertebrates, encompassing the three linked Vtgs on chicken (Gallus gallus) chromosome 8. Tandem arranged homologs to chicken VtgII and VtgIII were retrieved in similar locations in Xenopus (Xenopus tropicalis) and homologous transcribed inverted genes were found in medaka (Oryzias latipes), stickleback (Gasterosteus aculeatus), pufferfish (Takifugu rubripes), and Tetrahodon (Tetraodon nigroviridis), while zebrafish (Danio rerio) Vtg3 may represent a residual trace of VGC in this genome. Vtgs were not conserved in the paralogous chromosomal segment attributed to a whole-genome duplication event in the ancestor of teleosts, while tandem duplicated forms have survived the recent African clawed frog (Xenopus laevis) tetraploidization. Orthologs to chicken VtgI were found in similar locations in teleost fish, as well as in the platypus (Ornithorhynchus anatinus). Additional Vtg fragments found suggested that VGC had been conserved in this egg-laying mammal. A low ratio of nonsynonymous-to-synonymous substitution values and the paucity of pseudogene features suggest functional platypus Vtg products. Genomic identification of Vtgs, Apob, and Mtp in this genome, together with maximum likelihood and Bayesian inference phylogenetic analyses, support the existence of these three large lipid transfer protein superfamily members at the base of the mammalian lineage. In conclusion, the establishment of a VGC in the vertebrate lineage predates the divergence of ray-finned fish and tetrapods and the shift in reproductive and developmental strategy observed between prototherians and therians may be associated with its loss, as shown by its absence from the genomic resources currently

Comparative genomics of duplicate γ-glutamyl transferase genes in teleosts: medaka (Oryzias latipes), stickleback (Gasterosteus aculeatus), green spotted pufferfish (Tetraodon nigroviridis), fugu (Takifugu rubripes), and zebrafish (Danio rerio).

PubMed

Law, Sheran Hiu Wan; Redelings, Benjamin David; Kullman, Seth William

2012-01-15

The availability of multiple teleost (bony fish) genomes is providing unprecedented opportunities to understand the diversity and function of gene duplication events using comparative genomics. Here we examine multiple paralogous genes of γ-glutamyl transferase (GGT) in several distantly related teleost species including medaka, stickleback, green spotted pufferfish, fugu, and zebrafish. Through mining genome databases, we have identified multiple GGT orthologs. Duplicate (paralogous) GGT sequences for GGT1 (GGT1 a and b), GGTL1 (GGTL1 a and b), and GGTL3 (GGTL3 a and b) were identified for each species. Phylogenetic analysis suggests that GGTs are ancient proteins conserved across most metazoan phyla and those paralogous GGTs in teleosts likely arose from the serial 3R genome duplication events. A third GGTL1 gene (GGTL1c) was found in green spotted pufferfish; however, this gene is not present in medaka, stickleback, or fugu. Similarly, one or both paralogs of GGTL3 appear to have been lost in green spotted pufferfish, fugu, and zebrafish. Syntenic relationships were highly maintained between duplicated teleost chromosomes, among teleosts and across ray-finned (Actinopterygii) and lobe-finned (Sarcopterygii) species. To assess subfunction partitioning, six medaka GGT genes were cloned and assessed for developmental and tissue-specific expression. On the basis of these data, we propose a modification of the "duplication-degeneration-complementation" model of subfunction partitioning where quantitative differences rather than absolute differences in gene expression are observed between gene paralogs. Our results demonstrate that multiple GGT genes have been retained within teleost genomes. Questions remain, however, regarding the functional roles of multiple GGTs in these species. Copyright © 2011 Wiley Periodicals, Inc., A Wiley Company.

Monitoring responses to variation in food supply for a migratory waterfowl: American Black Duck (Anas rubripes) in winter.

PubMed

Barboza, Perry S; Jorde, Dennis G

2018-05-26

Wintering Black Ducks (Anas rubripes) concentrate in wetlands along the Atlantic coast where natural and anthropogenic disturbances have increased over the last 50 years, a period in which the population of Black Ducks has declined. We studied the sensitivity of Black Ducks to perturbations in food supply that often result from disturbances by storms, predators, and people. In the paper, we characterize the responses of captive Black Ducks to shifts in food quality and availability during winter and apply those measures to a comparison of wild birds. Captive ducks that were fed intermittently (3 consecutive days/week) compensated for fasted days to achieve similar body mass and body fat to control birds that were fed every day on both animal- and plant-based diets. However, birds that were fed intermittently expended 15% more energy each day than controls when both groups were fed (536 vs. 464 kJ/kg 0.75 ), which indicates that variable food supply increases the costs of maintenance and thus reduces the number of birds that can be supported on the same resource of food without interruptions to foraging. Egg production was not affected by diet quality provided in spring or by the frequency of feeding during the preceding winter months. Black Ducks lost body fat through winter in captivity and in the wild. Fat stores of birds in New Jersey were greater than those of birds in Maine (13.3 vs. 8.3% of body mass) in January, which reflected the high energy demands of cold temperatures in Maine. Values for ∂ 15 N were greater in Maine than in New Jersey for both red blood cells and plasma, which indicated a consistent diet of marine invertebrates in Maine. Greater isotopic variation in red blood cells indicated that diets were more diverse in New Jersey than in Maine for both ∂ 15 N (9.7 ± 1.1 vs. 11.2 ± 0.4‰) and for ∂ 13 C (- 15.1 ± 2.2 vs. - 13.8 ± 1.4‰). Plasma ∂ 13 C was enriched over red blood cells in wild birds especially those

Establishment of oct4:gfp transgenic zebrafish line for monitoring cellular multipotency by GFP fluorescence.

PubMed

Kato, Hiroyuki; Abe, Kota; Yokota, Shinpei; Matsuno, Rinta; Mikekado, Tsuyoshi; Yokoi, Hayato; Suzuki, Tohru

2015-01-01

The establishment of induced pluripotent stem (iPS) cell technology in fish could facilitate the establishment of novel cryopreservation techniques for storing selected aquaculture strains as frozen cells. In order to apply iPS cell technology to fish, we established a transgenic zebrafish line, Tg(Tru.oct4:EGFP), using green fluorescent protein (GFP) expression under the control of the oct4 gene promoter as a marker to evaluate multipotency in iPS cell preparations. We used the oct4 promoter from fugu (Takifugu rubripes) due to the compact nature of the fugu genome and to facilitate future applications of this technology in marine fishes. During embryogenesis, maternal GFP fluorescence was observed at the cleavage stage and zygotic GFP expression was observed from the start of the shield stage until approximately 24 h after fertilization. gfp messenger RNA (mRNA) was expressed by whole embryonic cells at the shield stage, and then restricted to the caudal neural tube in the latter stages of embryogenesis. These observations showed that GFP fluorescence and the regulation of gfp mRNA expression by the exogenous fugu oct4 promoter are well suited for monitoring endogenous oct4 mRNA expression in embryos. Bisulfite sequencing revealed that the rate of CpG methylation in the transgenic oct4 promoter was high in adult cells (98%) and low in embryonic cells (37%). These findings suggest that, as with the endogenous oct4 promoter, demethylation and methylation both take place normally in the transgenic oct4 promoter during embryogenesis. The embryonic cells harvested at the shield stage formed embryonic body-like cellular aggregates and maintained GFP fluorescence for 6 d when cultured on Transwell-COL Permeable Supports or a feeder layer of adult fin cells. Loss of GFP fluorescence by cultured cells was correlated with cellular differentiation. We consider that the Tg(Tru.oct4:EGFP) zebrafish line established here is well suited for monitoring multipotency in

Bioaccumulation Study at Puffer Pond

DTIC Science & Technology

1994-10-01

organism if the rate of intake of the pollutant is greater than the rate of excretion and/or metabolism . The result is an increase in body burden...PARAMETERS FOR FISH TISSUE SAMPLES Method Analyte Estimated Method Detection Limit (pg/g) ORGANOPHOSPHORUS PESTICIDES ATRAZINE 2.5 VAPONA 4.5 MALATHION

Do physical habitat complexity and predator cues influence the baseline and stress-induced glucocorticoid levels of a mangrove-associated fish?

PubMed

Magel, Jennifer M T; Pleizier, Naomi; Wilson, Alexander D M; Shultz, Aaron D; Vera Chang, Marilyn N; Moon, Thomas W; Cooke, Steven J

2017-01-01

As human populations continue to expand, increases in coastal development have led to the alteration of much of the world's mangrove habitat, creating problems for the multitude of species that inhabit these unique ecosystems. Habitat alteration often leads to changes in habitat complexity and predation risk, which may serve as additional stressors for those species that rely on mangroves for protection from predators. However, few studies have been conducted to date to assess the effects of these specific stressors on glucocorticoid (GC) stress hormone levels in wild fish populations. Using the checkered puffer as a model, our study sought to examine the effects of physical habitat complexity and predator environment on baseline and acute stress-induced GC levels. This was accomplished by examining changes in glucose and cortisol concentrations of fish placed in artificial environments for short periods (several hours) where substrate type and the presence of mangrove roots and predator cues were manipulated. Our results suggest that baseline and stress-induced GC levels are not significantly influenced by changes in physical habitat complexity or the predator environment using the experimental protocol that we applied. Although more research is required, the current study suggests that checkered puffers may be capable of withstanding changes in habitat complexity and increases in predation risk without experiencing adverse GC-mediated physiological effects, possibly as a result of the puffers' unique morphological and chemical defenses that help them to avoid predation in the wild. Copyright © 2016 Elsevier Inc. All rights reserved.

Managing Codling Moth Clearly and Precisely with Semiochemicals

USDA-ARS?s Scientific Manuscript database

Site-specific management practices for codling moth were implemented in ‘Comice’ pear orchards treated with aerosol puffers releasing sex pheromone in southern Oregon during 2008 and 2009. The density of monitoring traps baited with sex pheromone and pear ester was increased and insecticide sprays w...

Evolution of the myosin heavy chain gene MYH14 and its intronic microRNA miR-499: muscle-specific miR-499 expression persists in the absence of the ancestral host gene.

PubMed

Bhuiyan, Sharmin Siddique; Kinoshita, Shigeharu; Wongwarangkana, Chaninya; Asaduzzaman, Md; Asakawa, Shuichi; Watabe, Shugo

2013-07-06

A novel sarcomeric myosin heavy chain gene, MYH14, was identified following the completion of the human genome project. MYH14 contains an intronic microRNA, miR-499, which is expressed in a slow/cardiac muscle specific manner along with its host gene; it plays a key role in muscle fiber-type specification in mammals. Interestingly, teleost fish genomes contain multiple MYH14 and miR-499 paralogs. However, the evolutionary history of MYH14 and miR-499 has not been studied in detail. In the present study, we identified MYH14/miR-499 loci on various teleost fish genomes and examined their evolutionary history by sequence and expression analyses. Synteny and phylogenetic analyses depict the evolutionary history of MYH14/miR-499 loci where teleost specific duplication and several subsequent rounds of species-specific gene loss events took place. Interestingly, miR-499 was not located in the MYH14 introns of certain teleost fish. An MYH14 paralog, lacking miR-499, exhibited an accelerated rate of evolution compared with those containing miR-499, suggesting a putative functional relationship between MYH14 and miR-499. In medaka, Oryzias latipes, miR-499 is present where MYH14 is completely absent in the genome. Furthermore, by using in situ hybridization and small RNA sequencing, miR-499 was expressed in the notochord at the medaka embryonic stage and slow/cardiac muscle at the larval and adult stages. Comparing the flanking sequences of MYH14/miR-499 loci between torafugu Takifugu rubripes, zebrafish Danio rerio, and medaka revealed some highly conserved regions, suggesting that cis-regulatory elements have been functionally conserved in medaka miR-499 despite the loss of its host gene. This study reveals the evolutionary history of the MYH14/miRNA-499 locus in teleost fish, indicating divergent distribution and expression of MYH14 and miR-499 genes in different teleost fish lineages. We also found that medaka miR-499 was even expressed in the absence of its host gene

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

This paper reports on an automated metering/proving system for custody transfer of crude oil at the Phillips 66 Co. tanker unloading terminal in Freeport, Texas. It is described as one of the most sophisticated systems developed. The menu-driven, one-button automation removes the proving sequence entirely from manual control. The system also is the to be cost-effective and versatile compared to a dedicated flow computer with API calculation capabilities. Developed by Puffer-Sweiven, systems integrators, the new technology additionally is thought to be the first custody transfer system to employ a programmable logic controller (PLC). The PLC provides the automation, gathers andmore » stores all raw data, and prints alarms. Also the system uses a personal computer operator interface (OI) that runs on the Intel iRMX real time operating system. The OI is loaded with Puffer-Sweiven application software that performs API meter factor and volume correction calculations as well as present color graphics and generate reports.« less

Microsoft Word - PufferAdvisory_TCH.docx

Center for Food Safety and Applied Nutrition (CFSAN)

... 因應特殊情況， 每年進口至美國二至三次。 ， 由一家經美國食品藥物管理局／ 日本 政府協定， 所核可的紐約州進口商「 」 負責。 Wako International 這是 ...

AN INVESTIGATION OF POISONOUS AND VENOMOUS FISHES AT PALMYRA ISLAND, LINE ISLANDS, DURING 13 APRIL TO 2 MAY 1953

DTIC Science & Technology

puffers were edible . Collections were made in April during the reproduction period when toxicity was at a maximum. Hook and line, spear, dynamite, and...flavimarginatus; the sea bass Variola louti; the pomacentrids Abudefduf spp. and lethrinids. Underwater movies were taken for food chain studies. A shipment of reef fishes of Fanning Island was also procured.

Reading Strategies and CLIL: The Effect of Training in Formal Instruction

ERIC Educational Resources Information Center

de Zarobe, Yolanda Ruiz; Zenotz, Victoria

2015-01-01

Content and Language Integrated Learning (CLIL) is a multifaceted educational approach which has emerged as a major innovation in improving language learning and subject learning in the curriculum. In order to analyse the effect of this approach, a number of studies (Dalton Puffer, C., T. Nikula and U. Smit, eds. 2010. "Language Use and…

50 CFR 91.4 - Eligible species.

Code of Federal Regulations, 2014 CFR

2014-10-01

...-Ducks. (1) Fulvous Whistling-Duck (Dendrocygna bicolor) (2) Black-bellied Whistling-Duck (Dendrocygna...) Dabbling Ducks. (1) Wood Duck (Aix sponsa) (2) American Wigeon (Anas americana) (3) Gadwall (Anas strepera...) Mottled Duck (Anas fulvigula) (7) American Black Duck (Anas rubripes) (8) Northern Pintail (Anas acuta) (9...

50 CFR 91.4 - Eligible species.

Code of Federal Regulations, 2012 CFR

2012-10-01

...-Ducks. (1) Fulvous Whistling-Duck (Dendrocygna bicolor) (2) Black-bellied Whistling-Duck (Dendrocygna...) Dabbling Ducks. (1) Wood Duck (Aix sponsa) (2) American Wigeon (Anas americana) (3) Gadwall (Anas strepera...) Mottled Duck (Anas fulvigula) (7) American Black Duck (Anas rubripes) (8) Northern Pintail (Anas acuta) (9...

50 CFR 91.4 - Eligible species.

Code of Federal Regulations, 2013 CFR

2013-10-01

...-Ducks. (1) Fulvous Whistling-Duck (Dendrocygna bicolor) (2) Black-bellied Whistling-Duck (Dendrocygna...) Dabbling Ducks. (1) Wood Duck (Aix sponsa) (2) American Wigeon (Anas americana) (3) Gadwall (Anas strepera...) Mottled Duck (Anas fulvigula) (7) American Black Duck (Anas rubripes) (8) Northern Pintail (Anas acuta) (9...

Seasonal carcass composition and energy balance of female black ducks in Maine

Treesearch

Kenneth J. Reinecke; Timothy L. Stone; Ray B., Jr. Owen

1982-01-01

Female Black Ducks (Anas rubripes) collected in Maine during the summer, fall, and winter of 1974-1976 showed significant seasonal variation in body weight, nonfat dry weight, gizzard and pectoral muscle weight, and fat, moisture, and protein content. Variation of body weight within and among seasons was correlated more strongly with carcass protein...

Peroxiredoxin 1 (Prx1) is a dual-function enzyme by possessing Cys-independent catalase-like activity

PubMed Central

Sun, Cen-Cen; Dong, Wei-Ren; Shao, Tong; Li, Jiang-Yuan; Zhao, Jing; Nie, Li

2017-01-01

Peroxiredoxin (Prx) was previously known as a Cys-dependent thioredoxin. However, we unexpectedly observed that Prx1 from the green spotted puffer fish Tetraodon nigroviridis (TnPrx1) was able to reduce H2O2 in a manner independent of Cys peroxidation and reductants. This study aimed to validate a novel function for Prx1, delineate the biochemical features and explore its antioxidant role in cells. We have confirmed that Prx1 from the puffer fish and humans truly possesses a catalase (CAT)-like activity that is independent of Cys residues and reductants, but dependent on iron. We have identified that the GVL motif was essential to the CAT-like activity of Prx1, but not to the Cys-dependent thioredoxin peroxidase (POX) activity, and generated mutants lacking POX and/or CAT-like activities for individual functional validation. We discovered that the TnPrx1 POX and CAT-like activities possessed different kinetic features in the reduction of H2O2. The overexpression of wild-type TnPrx1 and mutants differentially regulated the intracellular levels of reactive oxygen species (ROS) and the phosphorylation of p38 in HEK-293T cells treated with H2O2. Prx1 is a dual-function enzyme by acting as POX and CAT with varied affinities towards ROS. This study extends our knowledge on Prx1 and provides new opportunities to further study the biological roles of this family of antioxidants. PMID:28219939

Interpreting Mammalian Evolution using Fugu Genome Comparisons

DOE Office of Scientific and Technical Information (OSTI.GOV)

Stubbs, L; Ovcharenko, I; Loots, G G

2004-04-02

Comparative sequence analysis of the human and the pufferfish Fugu rubripes (fugu) genomes has revealed several novel functional coding and noncoding regions in the human genome. In particular, the fugu genome has been extremely valuable for identifying transcriptional regulatory elements in human loci harboring unusually high levels of evolutionary conservation to rodent genomes. In such regions, the large evolutionary distance between human and fishes provides an additional filter through which functional noncoding elements can be detected with high efficiency.

Altered avoidance behavior of young black ducks fed cadmium

USGS Publications Warehouse

Heinz, G.H.; Haseltine, S.D.; Sileo, L.

1983-01-01

Pairs of adult black ducks (Anas rubripes) were fed a diet containing 0, 4 or 40 ppm cadmium as cadmium chloride. One-week-old ducklings that had been fed thc same dietary concentrations of cadmium as had their parents were tested for avoidance of a fright stimulus. Ducklings fed 4 ppm cadmium ran significantly farther from the stimulus than did controls or ducklings fed 40 ppm cadmium. Such an alteration in behavior could have harmful effects on wild birds.

Three new species of blood flukes (Digenea: Aporocotylidae) infecting pufferfishes (Teleostei: Tetraodontidae) from off Bali, Indonesia.

PubMed

Yong, R Q-Y; Cutmore, S C; Bray, R A; Miller, T L; Semarariana, I W Y; Palm, H W; Cribb, T H

2016-10-01

We describe three new species of blood flukes (Aporocotylidae) and propose their classification within the genus Psettarium Goto & Ozaki, 1929. All three species were collected from the circulatory systems of pufferfishes caught off Bali, central Indonesia. Psettarium pulchellum n. sp. was found in the gills of both the narrow-lined puffer (Arothron manilensis de Procé) and the spiny blaasop (Tylerius spinosissimus Regan), while P. ogawai n. sp. and P. jimbaranense n. sp. were found in the gills of the reticulated puffer (Arothron reticularis Bloch & Schneider). The morphological characteristics of these taxa necessitated emendation of the diagnosis for the genus Psettarium, to accommodate the presence of an oral sucker, multiple or entirely post-caecal testes and a degenerate posterior testis. Features such as proportion of body length occupied by the oesophagus, and posterior caeca being ≥7× the length of anterior caeca, are no longer regarded as useful genus-level characters. Additionally, Sasala nolani is reassigned to this genus as Psettarium nolani n. comb. In phylogenetic analyses of the 28S and ITS2 rDNA regions, all three new taxa form a well-supported clade, together with Psettarium sinense and Psettarium nolani n. comb., the two other species of tetraodontid-infecting aporocotylids for which comparative rDNA data were available. The short branch lengths within this clade, despite dramatic morphological differences between the five species, suggest that rapid morphological diversification has occurred among the tetraodontid-infecting aporocotylids. The genus Psettarium has long been considered problematic. Further commentary is given on the history of this genus and how the issues presented might be resolved. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

Conditioned aversion of aluminum sulfate in black ducks

USGS Publications Warehouse

Sparling, D.W.

1990-01-01

Three experiments were conducted to determine if reduced consumption of foods with elevated Al levels by black ducks (Anas rubripes) was due to taste aversion, conditioned taste aversion or malaise. Black ducks preferred a diet with 1,000 ppm Al over a control diet but ate less of a diet with 5,000 ppm Al. Prior experience with the high Al diet enhanced preference for the control diet. Changes in body weight and food consumption through time suggested that aversion to the high Al diet was a conditioned response to mild malaise.

An outbreak of duck virus enteritis (duck plague) in a captive flock of mixed waterfowl

USGS Publications Warehouse

Montgomery, Roy D.; Stein, George; Novilla, Meliton N.; Hurley, Sarah S.; Fink, Robert J.

1981-01-01

An outbreak of duck virus enteritis occurred in a flock of captive waterfowl composed of mallards (Anas platyrhynchos), black ducks (Anas rubripes), and Canada geese (Branta canadensis). Although all three species were housed together, morbidity and mortality were confined to the 227 black ducks and Canada geese, of which 180 died and the rest were left in a weakened condition. Lesions are given for 20 black ducks and 4 Canada geese dying from DVE. In addition, both horizontal and vertical transmission are discussed as possible sources of the virus that caused this outbreak.

Object Synthesis in Conway's Game of Life and Other Cellular Automata

NASA Astrophysics Data System (ADS)

Niemiec, Mark D.

Of the very large number of cellular automata rules in existence, a relatively small number of rules may be considered interesting. Some of the features that make such rules interesting permit patterns to expand, contract, separate into multiple sub-patterns, or combine with other patterns. Such rules generally include still-lifes, oscillators, spaceships, spaceship guns, and puffer trains. Such structures can often be used to construct more complicated computational circuitry, and rules that contain them can often be shown to be computationally universal. Conway's Game of Life is one rule that has been well-studied for several decades, and has been shown to be very fruitful in this regard.

[Nocturnal hypoxemia and arrhythmia in patients with chronic obstructive lung diseases (COLD)].

PubMed

Skwarski, K

1989-05-01

A decrease in the arterial blood saturation by oxygen in patients with POChP is a frequent phenomenon. It is more serious in patients type blue boaters and less frequent among patients type pink puffers. The aim of the paper was to compare the arterial blood saturation by oxygen in the groups examined during two nights: during the first night the patients breathed atmospheric air whereas during the second night they were given oxygen. The author also studied the influence of oxygenation of an organism on the frequency of cardiac rhythm disorders (ZRS). The author examined a group of 20 patients with the predominance of chronic bronchitis--blue boaters (average VC was 1.95 l, FEV1--0.81 l, PaO2 while breathing atmospheric air 52 mm Hg and 68 mm Hg after giving oxygen, PaCO2 47 and 51 mm Hg respectively) and 20 patients with the predominance of emphysema--pink puffers (average VC--2.30 l, FEV1--0.86 l, PaO2 while breathing atmospheric air 60 mm Hg and 70 mm Hg after giving oxygen, PaCO2 39 and 40 mm respectively). It was found that the patients with heavy hypoxaemia and hypercapnia had worse arterial blood saturation by oxygen during the two nights of investigation in comparison with the other group. The author also found more frequent cardiac rhythm disorders in this group of patients. Giving oxygen improved blood oxygenation in the two groups and lowered the frequency of cardiac rhythm disorders. The results obtained indicate to the need of oxygen therapy in patients with advanced POChP, especially during the night so as to avoid nocturnal hypoxaemia of an organism.

Enzyme activities in plasma, liver, and kidney of black ducks and mallards

USGS Publications Warehouse

Franson, J. Christian

1982-01-01

Activities of alanine aminotransferase (ALT), aspartate aminotransferase (AST), creatine phosphokinase (CPK), alkaline phosphatase (ALP), and lactate dehydrogenase (LDH) were measured in plasma, liver, and kidney, and gamma-glutamyl transferase (GGT) was measured in liver and kidney of black ducks (Anas rubripes). Activities of ALT, AST, GGT, and ornithine carbamyl transferase (OCT) were assayed in plasma, liver, and kidney of game-farm mallards (Anas platyrhynchos). Appreciable OCT and AST activity occurred in both liver and kidney. Activities of ALT, CPK, ALP and GGT were higher in kidney, while LDH was higher in liver, GGT was detected in plasma from one of four mallards.

Building a Sustainable Primary Care Workforce: Where Do We Go from Here?

PubMed

Linzer, Mark; Poplau, Sara

2017-01-01

The article by Puffer et al in this month's JABFM confirms a high burnout rate (25%) among family physicians renewing their credentials, with a higher rate among young and female doctors. Recent reports confirm high burnout rates among general internists. Thus, mechanisms to monitor and improve worklife in primary care are urgently needed. We describe the Mini Z (for "zero burnout program") measure, designed for these purposes, and suggest interventions that might improve satisfaction and sustainability in primary care, including longer visits, clinician control of work schedules, scribe support for electronic medical record work, team-based care, and an explicit emphasis on work-home balance. © Copyright 2017 by the American Board of Family Medicine.

Tetrodotoxin: Chemistry, Toxicity, Source, Distribution and Detection

PubMed Central

Bane, Vaishali; Lehane, Mary; Dikshit, Madhurima; O’Riordan, Alan; Furey, Ambrose

2014-01-01

Tetrodotoxin (TTX) is a naturally occurring toxin that has been responsible for human intoxications and fatalities. Its usual route of toxicity is via the ingestion of contaminated puffer fish which are a culinary delicacy, especially in Japan. TTX was believed to be confined to regions of South East Asia, but recent studies have demonstrated that the toxin has spread to regions in the Pacific and the Mediterranean. There is no known antidote to TTX which is a powerful sodium channel inhibitor. This review aims to collect pertinent information available to date on TTX and its analogues with a special emphasis on the structure, aetiology, distribution, effects and the analytical methods employed for its detection. PMID:24566728

Intestinal absorption of 5 chromium compounds in young black ducks (Anas rubripes)

USGS Publications Warehouse

Eastin, W.C.; Haseltine, S.D.; Murray, H.C.

1980-01-01

An in vivo intestinal perfusion technique was used to measure the absorption rates of five Cr compounds in black ducks. Cr was absorbed from saline solutions of KCr(SO4 )2 and CrO3 at a rate about 1.5 to 2.0 times greater than from solutions of Cr, Cr(NO3 )3, and Cr(C5H7O2)3. These results suggest the ionic form of Cr in solution may be an important factor in determining absorption of Cr compounds from the small intestine.

Biochemical identification of the mallard, Anas platyrhynchos, and black duck, A. rubripes

USGS Publications Warehouse

Morgan, R.P.; Noe, L.A.; Henny, C.J.

1976-01-01

1. Eleven tissue systems from mallards and black ducks were examined for soluble proteins, lactate dehydrogenases and non-specific esterases through discontinuous polyacrylamide techniques.2. Biochemical relationships between the black duck and mallard are extremely similar.3. Hemoglobins and lactate dehydrogenase appear to be common in electrophoretic mobility between the two species.4. Approximately 89% of the soluble proteins and 58% of the non-specific esterases are common among the two species, indicating both biochemical similarity at the genus level and species-specificity.

Organophosphate inhibition of avian salt gland Na, K-ATPase activity

USGS Publications Warehouse

Eastin, W.C.; Fleming, W.J.; Murray, H.C.

1982-01-01

1. Adult black ducks (Anas rubripes) were given freshwater or saltwater (1.5% NaCl) for 11 days and half of each group was also given an organophosphate (17 p.p.m. fenthion) in the diet on days 6–11.2. After 11 days, ducks drinking saltrwater had lost more weight and had higher plasma Na and uric acid concentration and osmolalities than birds drinking freshwater.3. Saltwater treatment stimulated the salt gland to increased weight and Na, K-ATPase activity.4. Fenthion generally reduced plasma and brain cholinesterase activity and depressed cholinesterase and Na, K-ATPase activities in salt glands of birds drinking saltwater.

AIRS Maps from Space Processing Software

NASA Technical Reports Server (NTRS)

Thompson, Charles K.; Licata, Stephen J.

2012-01-01

This software package processes Atmospheric Infrared Sounder (AIRS) Level 2 swath standard product geophysical parameters, and generates global, colorized, annotated maps. It automatically generates daily and multi-day averaged colorized and annotated maps of various AIRS Level 2 swath geophysical parameters. It also generates AIRS input data sets for Eyes on Earth, Puffer-sphere, and Magic Planet. This program is tailored to AIRS Level 2 data products. It re-projects data into 1/4-degree grids that can be combined and averaged for any number of days. The software scales and colorizes global grids utilizing AIRS-specific color tables, and annotates images with title and color bar. This software can be tailored for use with other swath data products for the purposes of visualization.

Efficient bioremediation of total organic carbon (TOC) in integrated aquaculture system by marine sponge Hymeniacidon perleve.

PubMed

Fu, Wantao; Wu, Yichun; Sun, Liming; Zhang, Wei

2007-08-15

The aim of this study is to investigate the potential of using marine sponge Hymeniacidon perleve to remove total organic carbon (TOC) in integrated aquaculture ecosystems. In sterilized natural seawater (SNSW) with different concentrations of TOC, H. perleve removed approximately 44-61% TOC during 24 h, with retention rates of ca. 0.19-1.06 mg/h .g-fresh sponge, however no particulate selectivity was observed. The highest initial TOC concentration, in which about 2.7 g fresh sponges could remove TOC effectively in 0.5-L SNSW, is 214.3-256.9 mg/L. The highest capacity of TOC removal and clearance rate (CR) by H. perleve is ca. 25.50 mg-TOC/g-fresh sponge and 7.64 mL/h . g-fresh sponge within 24 h, respectively. Until reaching the highest TOC removal capacity, the TOC removal capacity and clearance rate of H. perleve increased with initial TOC concentration, and dropped dramatically thereafter. After reaching the highest removal capacity, H. perleve could only remove relatively lower TOC concentration in seawater in subsequent run. The TOC removal kinetics in SNSW by H. perleve fitted very well with a S-shaped curve and a Logistic model equation (R(2) = 0.999). In different volumes of SNSW with a fixed initial TOC concentration, the weight/volume ratio of sponge biomass and SFNSW was optimized at 1.46 g-fresh sponge/1-L SNSW to achieve the maximum TOC removal. When co-cultured with marine fish Fugu rubripes for 15 days, H. perleve removed TOC excreted by F. rubripes with similar retention rates of ca. 0.15 mg/h . g-fresh sponge, and the sponge biomass increased by 22.8%. (c) 2007 Wiley Periodicals, Inc.

Carabid beetle diversity and distribution in Boston Harbor Islands national park area (Coleoptera, Carabidae)

PubMed Central

Davidson, Robert L.; Rykken, Jessica; Farrell, Brian

2011-01-01

Abstract As part of an All Taxa Biodiversity Inventory in Boston Harbor Islands national park area, an inventory of carabid beetles on 13 islands was conducted. Intensive sampling on ten of the islands, using an assortment of passive traps and limited hand collecting, resulted in the capture of 6,194 specimens, comprising 128 species. Among these species were seven new state records for Massachusetts (Acupalpus nanellus, Amara aulica, Amara bifrons, Apenes lucidulus, Bradycellus tantillus, Harpalus rubripes and Laemostenus terricola terricola—the last also a new country record; in passing we report also new state records for Harpalus rubripes from New York and Pennsylvania, Amara ovata from Pennsylvania, and the first mainland New York records for Asaphidion curtum). For most islands, there was a clear relationship between species richness and island area. Two islands, however, Calf and Grape, had far more species than their relatively small size would predict. Freshwater marshes on these islands, along with a suite of hygrophilous species, suggested that habitat diversity plays an important role in island species richness. Introduced species (18) comprised 14.0% of the total observed species richness, compared to 5.5% (17 out of 306 species) documented for Rhode Island. We surmise that the higher proportion of introduced species on the islands is, in part, due to a higher proportion of disturbed and open habitats as well as high rates of human traffic. We predict that more active sampling in specialized habitats would bring the total carabid fauna of the Boston Harbor Islands closer to that of Rhode Island or eastern Massachusetts in richness and composition; however, isolation, human disturbance and traffic, and limited habitat diversity all contribute to reducing the species pool on the islands relative to that on the mainland. PMID:22371673

Bone development in black ducks as affected by dietary toxaphene

USGS Publications Warehouse

Mehrle, P.M.; Finley, M.T.; Ludke, J.L.; Mayer, F.L.; Kaiser, T.E.

1979-01-01

Black ducks, Anas rubripes, were exposed to dietary toxaphene concentrations of 0, 10, or 50 μg/g of food for 90 days prior to laying and through the reproductive season. Toxaphene did not affect reproduction or survival, but reduced growth and impaired backbone development in ducklings. Collagen, the organic matrix of bone, was decreased significantly in cervical vertebrae of ducklings fed 50 μg/g, and calcium conentrations increased in vertebrae of ducklings fed 10 or 50 μg/g. The effects of toxaphene were observed only in female ducklings. In contrast to effects on vertebrae, toxaphene exposure did not alter tibia development. Toxaphene residues in carcasses of these ducklings averaged slightly less than the dietary levels.

Food habits of fishes on an exposed sandy beach at Fukiagehama, South-West Kyushu Island, Japan

NASA Astrophysics Data System (ADS)

Nakane, Yukinori; Suda, Yusuke; Sano, Mitsuhiko

2011-06-01

To clarify the feeding habits and major food sources of sandy beach fishes, the gut contents of 55 fish species collected on a sandy beach at Fukiagehama, South-West Kyushu Island, Japan, were examined. Ontogenetic changes in food preference were recognized in nine species ( Hypoatherina valenciennei, Lateolabrax japonicus, Trachurus japonicus, Sillago japonica, Sphyraena japonica, Paralichthys olivaceus, Heteromycteris japonica, Paraplagusia japonica, and Takifugu niphobles). A cluster analysis based on dietary overlaps showed that the sandy beach fish assemblage comprised six trophic groups (mysid, amphipod, zooplankton, juvenile fish, terrestrial insect, and mollusk feeders). Of these, the first three groups were the most abundantly represented, whereas the last two were represented by only a single species. These results indicated that epibenthic macrofauna, such as mysids and gammaridean amphipods, and zooplankton, were important food resources for the fish assemblage at the study site, but infaunal macrobenthos, such as polychaetes and bivalves, being relatively unimportant.

Imaging Techniques for Dense 3D reconstruction of Swimming Aquatic Life using Multi-view Stereo

NASA Astrophysics Data System (ADS)

Daily, David; Kiser, Jillian; McQueen, Sarah

2016-11-01

Understanding the movement characteristics of how various species of fish swim is an important step to uncovering how they propel themselves through the water. Previous methods have focused on profile capture methods or sparse 3D manual feature point tracking. This research uses an array of 30 cameras to automatically track hundreds of points on a fish as they swim in 3D using multi-view stereo. Blacktip sharks, sting rays, puffer fish, turtles and more were imaged in collaboration with the National Aquarium in Baltimore, Maryland using the multi-view stereo technique. The processes for data collection, camera synchronization, feature point extraction, 3D reconstruction, 3D alignment, biological considerations, and lessons learned will be presented. Preliminary results of the 3D reconstructions will be shown and future research into mathematically characterizing various bio-locomotive maneuvers will be discussed.

[Strengthening the capacity of reference in response to violence in society and within the family].

PubMed

Suess, G J

2003-05-01

Results of longitudinal studies in developmental psychology have shown the importance of protective factors especially within high risk samples for adaptive development as they serve as puffers against many risks. An outstanding protective factor is a secure parent-child attachment relationship. This article outlines the different ways how attachment relationships can serve as protective mechanisms and especially how disorganized attachment relationships are leading to maladaptation and hostile attitudes and behaviors. In doing so it underscores the special importance of attachment experiences in early infancy. The concept of attachment relationship is described as opposed to the bonding concept with regard to its implications for practice. One of the first is to intervene early. In the final part the evidence based early intervention program "STEEP" is described as an application of attachment research on a poverty sample and as a response to violence.

The occurrence of mycoplasmas in selected wild North American waterfowl

USGS Publications Warehouse

Goldberg, Diana R.; Samuel, M.D.; Thomas, C.B.; Sharp, P.; Krapu, G.L.; Robb, J.R.; Kenow, K.P.; Korschgen, C.E.; Chipley, W.H.; Conroy, M.J.; Kleven, S.H.

1995-01-01

We determined the prevalence of mycoplasma infection in breeding mallard (Anas platyrhynchos) and canvasback (Aythya valisineria) hens and their broods from the central United States (1988 to 1990); and wintering American black duck (Anas rubripes) and mallard hens from the eastern United States (1990 to 1993). Mycoplasmas were isolated by culturing tracheal swabs from 656 live birds and tissue samples from 112 dead waterfowl. Nine (18%) of 51 mycoplasma isolates were identified as Mycoplasma anatis; M. anatis was recovered from four mallards, a black duck, and a gadwall (Anas strepera) duckling. Nineteen (37%) of 51 mycoplasma isolates were identified as Mycoplasma cloacale; these isolates were obtained from mallard, canvasback, and black duck adults, and from a mallard duckling. Additional unspeciated mycoplasmas were isolated from mallards, black ducks, and one canvasback.

A survey of North American migratory waterfowl for duck plague (duck virus enteritis) virus

USGS Publications Warehouse

Brand, Christopher J.; Docherty, Douglas E.

1984-01-01

A survey of migratory waterfowl for duck plague (DP) virus was conducted in the Mississippi and Central flyways during 1982 and in the Atlantic and Pacific flyways during 1983. Cloacal and pharyngeal swabs were collected from 3,169 migratory waterfowl in these four flyways, principally mallards (Anas platyrhynchos L.), black ducks (Anas rubripes Brewster), and pintails (Anas acuta L). In addition 1,033 birds were sampled from areas of recurrent DP outbreaks among nonmigratory and captive waterfowl, and 590 from Lake Andes National Wildlife Refuge, the site of the only known major DP outbreak in migratory waterfowl. Duck plague virus was not found in any of the samples. Results support the hypothesis that DP is not established in North American migratory waterfowl as an enzootic disease.

Nationwide residues of organochlorine compounds in wings of adult mallards and black ducks, 1979-80

USGS Publications Warehouse

Cain, B.W.

1981-01-01

Organochlorine residues in wings of adult mallards (Anas platyrhynchos) and black ducks (Anas rubripes) were monitored nationwide from birds harvested during the 1979-80 hunting season. DDE residues were found in all samples. DDT residues had declined from levels reported in 1976 on a flyway basis but the decline was significant (P less than 0.05) only in the Pacific Flyway. Levels of DDT, DDE, TDE, and dieldrin were low on a flyway basis, and all but DDE declined significantly (P less than 0.05) in the percent occurrence. Polychlorinated biphenyls (PCB) levels were lower in mallard wings from all flyways compared with 1976 data, but percent occurrence had significantly (P less than 0.05) increased. Pools from Alabama and New Mexico continued to show higher DDE residues than pools from other areas.

Trophic transference of microplastics under a low exposure scenario: Insights on the likelihood of particle cascading along marine food-webs.

PubMed

Santana, M F M; Moreira, F T; Turra, A

2017-08-15

Microplastics are emergent pollutants in marine environments, whose risks along food-web still need to be understood. Within this knowledge gap, MPs transference and persistence along trophic levels are key processes. We assessed the potential occurrence of these processes considering a less extreme scenario of exposure than used previously, with microplastics present only in the hemolymph of prey (the mussel Perna perna) and absent in the gut cavity. Predators were the crab Callinectes ornatus and the puffer fish Spheoeroides greeleyi. Transference of microplastics occurred from prey to predators but without evidences of particle persistence in their tissues after 10days of exposure. This suggests a reduced likelihood of trophic cascading of particles and, consequently, a reduced risk of direct impacts of microplastics on higher trophic levels. However, the contact with microplastics along food-webs is still concerning, modulated by the concentration of particles in prey and predators' depuration capacity and rate. Copyright © 2017. Published by Elsevier Ltd.

Waterfowl exposure to lead and steel shot on selected hunting areas

USGS Publications Warehouse

White, D.H.; Stendell, R.C.

1977-01-01

Gizzards and wingbones from immature mallards (Anas platyrhynchos), pintails (Anas acuta), black ducks (A. rubripes), and Canada geese (Branta canadensis) were collected from 12 national and stat hunting are.as during the hunting season of 1974-75. The gizzards were examined for the occurrence of lead and steel shot and the wingbones were analyzed for lead residues. Incidence of lead shot in gizzards ranged from 1.3 percent in mallards from Monte Vista National Wildlife Refuge to 29 percent in pintails from Sauvie Island Wildlife Management Area. Lead in wingbones ranged from trace residues (<0.5 ppm) to 345 ppm. The incidence of steel shot in gizzards surpassed lead shot on some refuges that have had mandatory steel shot programs. There was a significant correlation between frequency of lead shot in gizzards and lead residues in wingbones.

American black duck summer range versus winter range: a dichotomy of riches

USGS Publications Warehouse

Longcore, J.R.; Perry, Matthew C.

2002-01-01

The status of the American black duck (Anas rubripes) population has more often been attributed to a single event than to multiple events over time and throughout space. The difference in the quality of the habitat, however defined, within breeding areas in the North and in the southerly wintering areas, especially Chesapeake Bay, also has been proposed as affecting black duck status. The obvious question is 'What variable cuts across all habitats, time, and space to affect black ducks?' This paper attempts to answer that question by examining the connectivity of seemingly unrelated variables and events associated with the black duck's summer range and its winter range relative to population change. Insights from examples of relations among these variables reveal how results may be confounded and even misleading. A perspective that may be required to ensure future black duck populations is discussed.

Maximum likelihood methods for investigating reporting rates of rings on hunter-shot birds

USGS Publications Warehouse

Conroy, M.J.; Morgan, B.J.T.; North, P.M.

1985-01-01

It is well known that hunters do not report 100% of the rings that they find on shot birds. Reward studies can be used to estimate what this reporting rate is, by comparison of recoveries of rings offering a monetary reward, to ordinary rings. A reward study of American Black Ducks (Anas rubripes) is used to illustrate the design, and to motivate the development of statistical models for estimation and for testing hypotheses of temporal and geographic variation in reporting rates. The method involves indexing the data (recoveries) and parameters (reporting, harvest, and solicitation rates) by geographic and temporal strata. Estimates are obtained under unconstrained (e.g., allowing temporal variability in reporting rates) and constrained (e.g., constant reporting rates) models, and hypotheses are tested by likelihood ratio. A FORTRAN program, available from the author, is used to perform the computations.

Exposure of wild waterfowl to Mycoplasma anatis

USGS Publications Warehouse

Samuel, M.D.; Goldberg, Diana R.; Thomas, C.B.; Sharp, P.; Robb, J.R.; Krapu, G.L.; Nersessian, B.N.; Kenow, K.P.; Korschgen, C.E.; Chipley, W.H.; Conroy, M.J.

1996-01-01

We developed an ELISA procedure to assess the presence of M. Anatis-specific serum antibody in ducks. Sera from exposed and unexposed Pekin ducks (Anas platyrhynchos) were used to standardize tile ELISA and to establish reference ranges to classify ELISA results as exposed or not exposed. We conducted serological surveys of female waterfowl in the central and eastern United States between 1988 and 1992 to assess the frequency of exposure in wild waterfowl. Adult breeding mallards (Anas platyrhynchos), wintering mallards, and black ducks (Anas rubripes) had high prevalences of exposure to M. Anatis (25% to >80%). In comparison, none of the breeding adult canvasbacks (Aythya valisineria) had serum antibody levels indicating exposure. Approximately 50% of the juvenile mallards and black ducks were exposed to M. Anatis by 8 months of age, indicating high transmission rates among wild birds.

Growth/differentiation factor-11: an evolutionary conserved growth factor in vertebrates.

PubMed

Funkenstein, Bruria; Olekh, Elena

2010-11-01

Growth and differentiation factor-11 (GDF-11) is a member of the transforming growth factor-β superfamily and is thought to be derived together with myostatin (known also as GDF-8) from an ancestral gene. In the present study, we report the isolation and characterization of GDF-11 homolog from a marine teleost, the gilthead sea bream Sparus aurata, and show that this growth factor is highly conserved throughout vertebrates. Using bioinformatics, we identified GDF-11 in Tetraodon, Takifugu, medaka, and stickleback and found that they are highly conserved at the amino acid sequence as well as gene organization. Moreover, we found conservation of syntenic relationships among vertebrates in the GDF-11 locus. Transcripts for GDF-11 can be found in eggs and early embryos, albeit at low levels, while in post-hatching larvae expression levels are high and decreases as development progresses, suggesting that GDF-11 might have a role during early development of fish as found in tetrapods and zebrafish. Finally, GDF-11 is expressed in various tissues in the adult fish including muscle, brain, and eye.

Organochlorine residues in adult mallard and black duck wings, 1981-1982

USGS Publications Warehouse

Prouty, R.M.; Bunck, C.M.

1986-01-01

Ten organochlorine compounds were identified in pools of black duck (Anas rubripes) and mallard (A. platyrhynchos) wings from the 1981–82 hunting season. Most organochlorine compounds occurred very infrequently. Among those compounds positively identified by mass spectrometry, DDE and, secondarily, PCB had the highest frequencies of occurrence. Other compounds, positively identified and occurring less frequently, included DDT, DDD, DDMU, dieldrin, heptachlor epoxide, trans-nonachlor, cis-chlordane and mirex. Compounds looked for but not positively identified include oxychlordane, cis-nonachlor, endrin, hexachlorobenzene and toxaphene. PCB levels in black duck wings declined between the 1979–80 and 1981–82 collections. PCB levels in black duck wings from the northern region of the Atlantic Flyway were higher than those in wings from the southern region. Mean DDE residues in mallard wings declined between collections and differed among flyways and regions. PCB levels in mallard wings differed only among flyways and regions.

Insights from Human/Mouse genome comparisons

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pennacchio, Len A.

2003-03-30

Large-scale public genomic sequencing efforts have provided a wealth of vertebrate sequence data poised to provide insights into mammalian biology. These include deep genomic sequence coverage of human, mouse, rat, zebrafish, and two pufferfish (Fugu rubripes and Tetraodon nigroviridis) (Aparicio et al. 2002; Lander et al. 2001; Venter et al. 2001; Waterston et al. 2002). In addition, a high-priority has been placed on determining the genomic sequence of chimpanzee, dog, cow, frog, and chicken (Boguski 2002). While only recently available, whole genome sequence data have provided the unique opportunity to globally compare complete genome contents. Furthermore, the shared evolutionary ancestrymore » of vertebrate species has allowed the development of comparative genomic approaches to identify ancient conserved sequences with functionality. Accordingly, this review focuses on the initial comparison of available mammalian genomes and describes various insights derived from such analysis.« less

Growth and blood chemistry of ducklings reared on acidified wetlands

USGS Publications Warehouse

Rattner, B.A.; Haramis, G.; Linder, G.; Chu, D.

1985-01-01

Acid deposition is one factor that may be responsible for the decline of some waterfowl populations. Growth and physiological condition were monitored in captive-reared black ducks (Anas rubripes) exposed for 10-day trials (day 11-20 of life) on control (pH 6.8) and acidified (pH 5.0) man-made emergent wetlands. Impaired growth (body weight, culmen and tarsus length) and increased mortality (50%) were apparent in broods (hen + 4 ducklings) reared on acidified wetIands. Ducklings exbibiting poor growth had reduced hematocrit, plasma protein and cholesterol levels. This subset of birds had elevated plasma uric acid concentration and creatine kinase activity (perhaps due to enhanced protein and nucleotide catabolism). and elevated pIasma K+ levels. Based upon overt appearance, growth and blood chemistry, ducklings exposed to acidified wetlands were concluded to be in poorer condittion than those exposed on circumneutral pH wetlands.

Science, population ecology, and the management of the American black duck

USGS Publications Warehouse

Nichols, J.D.

1991-01-01

This essay deals with the relevance of some of the ideas of Romesburg (1981) to population ecology and management of the American black duck (Anas rubripes). Most investigations dealing with the effects of hunting regulations on black duck populations have used the hypothetico-deductive (H-D) approach of specifying a priori hypotheses and associated deduced predictions. These investigations have not used manipulative experimentation, however, but have involved severely constrained analyses of historical data and have thus produced weak inferences. The 1982 lawsuit over black duck hunting regulations, the current uncertainty about appropriate black duck management actions, and the frequent skirmishes in the published literature of black duck population ecology are natural consequences of these weak inferences. I suggest that we attempt to take advantage of management and other manipulations by treating them as an opportunity to learn something via experimentation, as recommended by Macnab (1983) and Walters (1986).

Pufferfish mortality associated with novel polar marine toxins in Hawaii

USGS Publications Warehouse

Work, Thierry M.; Moeller, Perer D. R.; Beauchesne, Kevin R.; Dagenais, Julie; Breeden, Renee; Rameyer, Robert; Walsh, Willliam A.; Abecassis, Melanie; Kobayashi, Donald R.; Conway, Carla M.; Winton, James

2017-01-01

Fish die-offs are important signals in tropical marine ecosystems. In 2010, a mass mortality of pufferfish in Hawaii (USA) was dominated by Arothron hispidus showing aberrant neurological behaviors. Using pathology, toxinology, and field surveys, we implicated a series of novel, polar, marine toxins as a likely cause of this mass mortality. Our findings are striking in that (1) a marine toxin was associated with a kill of a fish species that is itself toxic; (2) we provide a plausible mechanism to explain clinical signs of affected fish; and (3) this epizootic likely depleted puffer populations. Whilst our data are compelling, we did not synthesize the toxin de novo, and we were unable to categorically prove that the polar toxins caused mortality or that they were metabolites of an undefined parent compound. However, our approach does provide a template for marine fish kill investigations associated with marine toxins and inherent limitations of existing methods. Our study also highlights the need for more rapid and cost-effective tools to identify new marine toxins, particularly small, highly polar molecules.

Pufferfish mortality associated with novel polar marine toxins in Hawaii.

PubMed

Work, Thierry M; Moeller, Peter D R; Beauchesne, Kevin R; Dagenais, Julie; Breeden, Renee; Rameyer, Robert; Walsh, William J; Abecassis, Melanie; Kobayashi, Donald R; Conway, Carla; Winton, James

2017-03-06

Fish die-offs are important signals in tropical marine ecosystems. In 2010, a mass mortality of pufferfish in Hawaii (USA) was dominated by Arothron hispidus showing aberrant neurological behaviors. Using pathology, toxinology, and field surveys, we implicated a series of novel, polar, marine toxins as a likely cause of this mass mortality. Our findings are striking in that (1) a marine toxin was associated with a kill of a fish species that is itself toxic; (2) we provide a plausible mechanism to explain clinical signs of affected fish; and (3) this epizootic likely depleted puffer populations. Whilst our data are compelling, we did not synthesize the toxin de novo, and we were unable to categorically prove that the polar toxins caused mortality or that they were metabolites of an undefined parent compound. However, our approach does provide a template for marine fish kill investigations associated with marine toxins and inherent limitations of existing methods. Our study also highlights the need for more rapid and cost-effective tools to identify new marine toxins, particularly small, highly polar molecules.

Rapid detection of chemical hazards (toxins, dioxins, and PCBs) in seafood.

PubMed

Arvanitoyannis, Ioannis S; Kotsanopoulos, Konstantinos V; Papadopoulou, Anna

2014-01-01

Among the various hazards occurring in fish and seafood chemical hazards and in particular toxins (ciguatera, scombroid fish poisoning, paralytic shellfish poisoning, neurotoxic (brevetoxic) shellfish poisoning, puffer fish poisoning, diarrhetic shellfish poisoning) have an important place in food poisoning cases. On the other hand, some of the chemical hazards are often due to the pollution of the environment (heavy metals, dioxins, polychlorinated biphenyls, and halogenated aromatic hydrocarbons) and their detection is neither rapid nor facile. As a result there was a great need for developing new rapid and effective methods toward the chemical hazards determination mainly because of their high toxicity. The aim of this review is to provide the information about the new up-to-date detection techniques (Immunological, Chemical and Biochemical, and Molecular assays) in conjunction with detection limits. The latter is made possible by means of inclusion of seven comprehensive and, in most case cases, very extended tables. A reference is also made on the risk characterization of toxins as regards their importance to food contamination or poisoning.

A hierarchical model for regional analysis of population change using Christmas Bird Count data, with application to the American Black Duck

USGS Publications Warehouse

Link, W.A.; Sauer, J.R.; Niven, D.K.

2006-01-01

Analysis of Christmas Bird Count (CBC) data is complicated by the need to account for variation in effort on counts and to provide summaries over large geographic regions. We describe a hierarchical model for analysis of population change using CBC data that addresses these needs. The effect of effort is modeled parametrically, with parameter values varying among strata as identically distributed random effects. Year and site effects are modeled hierarchically, accommodating large regional variation in number of samples and precision of estimates. The resulting model is complex, but a Bayesian analysis can be conducted using Markov chain Monte Carlo techniques. We analyze CBC data for American Black Ducks (Anas rubripes), a species of considerable management interest that has historically been monitored using winter surveys. Over the interval 1966-2003, Black Duck populations showed distinct regional patterns of population change. The patterns shown by CBC data are similar to those shown by the Midwinter Waterfowl Inventory for the United States.

Black Ducks and Their Chesapeake Bay Habitats: Proceedings of a Symposium

USGS Publications Warehouse

Perry, Matthew C.

2002-01-01

The symposium 'Black Ducks and Their Chesapeake Bay Habitats,' held October 4,2000, provided a forum for scientists to share research about the American black duck (Anas rubripes), an important breeding and wintering waterfowl species dependent upon the Chesapeake Bay habitats. American black ducks have declined significantly in the last 50 years and continue to be a species of management concern. The symposium, sponsored by the Wildfowl Trust of North America and the U.S. Geological Survey, highlighted papers and posters on a range of topics, from the traditional concerns of hunting, habitat, and hybridization to the more recent concerns of human disturbance and neophobia. Other presentations provided a historical perspective of black duck management. The direction that black duck conservation initiatives could and/or should take in the future was also discussed. As populations of humans in the Chesapeake Bay region continue to increase, we can expect that these subjects will receive increased discussion in the future.

Survival of postfledging female American black ducks

USGS Publications Warehouse

Longcore, J.R.; McAuley, D.G.; Frazer, C.

1991-01-01

We equipped 106 hatching-year (HY), female, black ducks (Anas rubripes) with transmitters during 1985-87 and monitored survival from late August to mid-December on a lightly hunted area on the Maine-New Brunswick border. The 1985-87 estimate of survival (hunting losses included) was 0.593, and when losses from hunting were censored it was 0.694. Survival in August-September was 0.987; by 31 October survival declined to 0.885, and by 30 November it was 0.718. Most nonhunting mortality was caused by predators (21/41, 53.2%); there were 14 deaths (34.1%) from mammals or unknown predators and 7 (17.1%) from raptors. Hunting caused 13 (31. 7%) deaths. Ducks with lowest mass had the lowest survival. The estimate of survival for postfledging female black ducks, when multiplied with interval survival rates for hunting, winter, and breeding periods, produced an annual survival estimate of 0.262, about 12% lower than that (0.38) based on analysis of banding data.

Food use and nutrition of black ducks nesting in Maine

USGS Publications Warehouse

Reinecke, K.J.; Owen, R.B.

1980-01-01

Based on 32 adult black ducks (Anas rubripes) collected during the nesting seasons of 1974-76, the proportion of macro invertebrates (as aggregate [average] percent of dry weight) in the diet of males, egg-laying females, and postlaying females was 60, 75, and 55%, respectivey. Sample sizes were small, and the differences associated with sex and reproductive condition were not signficant. Molluscs, Isopods, ephemeropteran and odonate nymphs, and coleopteran, trichopteran, and dipteran larvae contributed 74% of the dry weight and 64% of the gross energy ingested. Data from proximate analyses of 9 invertebrate and 9 plant foods were combined with food habits data to estimate the nutrients available to breeding hens. We concluded that females with access to an adequate amount of natural food including invertebrates and the seeds and tubers of aquatic plants would obtain sufficient minerals, protein, and energy for reproduction. Food quality does not appear to limit the density of black ducks nesting in Maine.

Seasonal Changes of Fish Assemblages in a Subtropical Lagoon in the SE Gulf of California

PubMed Central

Amezcua, F.; Amezcua-Linares, F.

2014-01-01

The composition and seasonal changes of the fish assemblage in a coastal lagoon system in southeastern Gulf of California were assessed from December 2001 to July 2005. A total of 20,877 organisms belonging to 191 species and 47 families were analyzed. We determined that almost all the species inhabiting the system were found; however some rare species were not captured in our study. The majority of the species found were demersal but in every season at least one pelagic or benthopelagic species showed high abundances. The moonfish, Selene peruviana, was the most abundant species, whilst the puffer, Sphoeroides annulatus, was the main species in terms of biomass. The species composition changed seasonally; results from the Simpson diversity index and the cumulative species curve show that seasonally almost all the species in the system for a given season were found. These changes were also reflected in the multivariate results. The seasonal variations could be attributed to the migration of species out of the system as they grow and the arrival of new ones, which could also be related to temperature patterns since this environmental factor changes considerably through the year. PMID:24672403

Macroglial cells of the teleost central nervous system: a survey of the main types.

PubMed

Cuoghi, Barbara; Mola, Lucrezia

2009-12-01

Following our previous review of teleost microglia, we focus here on the morphological and histochemical features of the three principal macroglia types in the teleost central nervous system (ependymal cells, astrocyte-like cells/radial glia and oligodendrocytes). This review is concerned with recent literature and not only provides insights into the various individual aspects of the different types of macroglial cells plus a comparison with mammalian glia, but also indicates the several potentials that the neural tissue of teleosts exhibits in neurobiological research. Indeed, some areas of the teleost brain are particularly suitable in terms of the establishment of a "simple" but complete research model (i.e. the visual pathway complex and the supramedullary neuron cluster in puffer fish). The relationships between neurons and glial cells are considered in fish, with the aim of providing an integrated picture of the complex ways in which neurons and glia communicate and collaborate in normal and injured neural tissues. The recent setting up of successful protocols for fish glia and mixed neuron-glia cultures, together with the molecular facilities offered by the knowledge of some teleost genomes, should allow consistent input towards the achievement of this aim.

Five new species of philometrid nematodes (Philometridae) from marine fishes off Java, Indonesia.

PubMed

Moravec, Frantisek; Walter, Thorsten; Yuniar, Asri Trisnani

2012-06-01

Based on light and scanning electron microscopical studies, the following five species of the Philometridae (Nematoda: Dracunculoidea) are described from female specimens collected from marine fishes off the southwestern coast of Java, Indonesia: Philometra lobotidis sp. n. from the abdominal cavity of the Atlantic tripletail Lobotes surinamensis (Bloch) (Lobotidae, Perciformes); Philometra javaensis sp. n. from the abdominal cavity of the immaculate puffer Arothron immaculatus (Bloch et Schneider) (Tetraodontidae, Tetraodontiformes); Philometra psettoditis sp. n. from the musculature of the Indian spiny turbot Psettodes erumei (Bloch et Schneider) (Psettodidae, Pleuronectiformes); Philometroides indonesiensis sp. n. from the musculature of the hound needlefish Tylosurus crocodilus crocodilus (Péron et Lesueur) (Belonidae, Beloniformes); and Philometroides trichiuri sp. n. from the dorsal fin of the largehead hairtail Trichiurus lepturus Linnaeus (type host) and the savalai hairtail Lepturacanthus savala (Cuvier) (both Trichiuridae, Perciformes). All these new species are distinguished from their congeners parasitizing marine fishes by morphological (mainly the shape and structure of the cephalic and caudal ends and of the oesophagus) and biometrical features. Besides previously known Philometra pellucida (Jägerskiöld, 1893) and Philometra ocularis Moravec, Ogawa, Suzuki, Miyazaki et Donai, 2002, they are the only nominal philometrid species recorded from Indonesian waters.

Seasonal changes of fish assemblages in a subtropical lagoon in the SE Gulf of California.

PubMed

Amezcua, F; Amezcua-Linares, F

2014-01-01

The composition and seasonal changes of the fish assemblage in a coastal lagoon system in southeastern Gulf of California were assessed from December 2001 to July 2005. A total of 20,877 organisms belonging to 191 species and 47 families were analyzed. We determined that almost all the species inhabiting the system were found; however some rare species were not captured in our study. The majority of the species found were demersal but in every season at least one pelagic or benthopelagic species showed high abundances. The moonfish, Selene peruviana, was the most abundant species, whilst the puffer, Sphoeroides annulatus, was the main species in terms of biomass. The species composition changed seasonally; results from the Simpson diversity index and the cumulative species curve show that seasonally almost all the species in the system for a given season were found. These changes were also reflected in the multivariate results. The seasonal variations could be attributed to the migration of species out of the system as they grow and the arrival of new ones, which could also be related to temperature patterns since this environmental factor changes considerably through the year.

Snake oil and venoms for medical research

NASA Astrophysics Data System (ADS)

Wolpert, H. D.

2011-04-01

Some think that using derivatives of snake venom for medical purposes is the modern version of snake oil but they are seriously misjudging the research potentials of some of these toxins in medicines of the 2000's. Medical trials, using some of the compounds has proven their usefulness. Several venoms have shown the possibilities that could lead to anticoagulants, helpful in heart disease. The blood clotting protein from the taipan snake has been shown to rapidly stop excessive bleeding. The venom from the copperhead may hold an answer to breast cancer. The Malaysian pit viper shows promise in breaking blood clots. Cobra venom may hold keys to finding cures for Parkinson's disease and Alzheimer's. Rattlesnake proteins from certain species have produced blood pressure medicines. Besides snake venoms, venom from the South American dart frog, mollusks (i.e. Cone Shell Snail), lizards (i.e. Gila Monster & Komodo Dragon), some species of spiders and tarantulas, Cephalopods, mammals (i.e. Platypus & Shrews), fish (i.e. sting rays, stone fish, puffer fish, blue bottle fish & box jelly fish), intertidal marine animals (echinoderms)(i.e. Crown of Thorn Star Fish & Flower Urchin) and the Honeybee are being investigated for potential medical benefits.

Reconsidering sex-based stereotypes of COPD.

PubMed

Ohar, Jill; Fromer, Leonard; Donohue, James F

2011-12-01

Chronic obstructive pulmonary disease (COPD) has historically been considered a disease of older, white, male smokers, as illustrated in Frank Netter's classic images of the 'pink puffer' and 'blue bloater'. However, women may be more susceptible to COPD than men, and the disease course may be reflective of that increased susceptibility. From a review of epidemiological data of COPD, we found differences in the way men and women present with COPD symptoms, a bias in the way COPD symptoms are treated in men and women, and differences in susceptibility to airway obstruction based on age, sex, and smoking history. These data show that classic stereotypes of COPD - including male predominance - should be abandoned, and that there are not two but multiple COPD phenotypes, which are characterised by differences between women and men in susceptibility, symptoms, and disease progression. These differences impact on physician perception. Although further research into this concept is needed, the differences we found should prompt, in the short term, changes in the way (and in whom) COPD is evaluated, diagnosed, and treated; in the long term, these differences should prompt research into the prognosis of COPD based on sex differences.

Computer simulation models as tools for identifying research needs: A black duck population model

USGS Publications Warehouse

Ringelman, J.K.; Longcore, J.R.

1980-01-01

Existing data on the mortality and production rates of the black duck (Anas rubripes) were used to construct a WATFIV computer simulation model. The yearly cycle was divided into 8 phases: hunting, wintering, reproductive, molt, post-molt, and juvenile dispersal mortality, and production from original and renesting attempts. The program computes population changes for sex and age classes during each phase. After completion of a standard simulation run with all variable default values in effect, a sensitivity analysis was conducted by changing each of 50 input variables, 1 at a time, to assess the responsiveness of the model to changes in each variable. Thirteen variables resulted in a substantial change in population level. Adult mortality factors were important during hunting and wintering phases. All production and mortality associated with original nesting attempts were sensitive, as was juvenile dispersal mortality. By identifying those factors which invoke the greatest population change, and providing an indication of the accuracy required in estimating these factors, the model helps to identify those variables which would be most profitable topics for future research.

Comprehensive identification and profiling of host miRNAs in response to Singapore grouper iridovirus (SGIV) infection in grouper (Epinephelus coioides).

PubMed

Guo, Chuanyu; Cui, Huachun; Ni, Songwei; Yan, Yang; Qin, Qiwei

2015-10-01

microRNAs (miRNAs) are an evolutionarily conserved class of non-coding RNA molecules that participate in various biological processes. Employment of high-throughput screening strategies greatly prompts the investigation and profiling of miRNAs in diverse species. In recent years, grouper (Epinephelus spp.) aquaculture was severely affected by iridoviral diseases. However, knowledge regarding the host immune responses to viral infection, especially the miRNA-mediated immune regulatory roles, is rather limited. In this study, by employing Solexa deep sequencing approach, we identified 116 grouper miRNAs from grouper spleen-derived cells (GS). As expected, these miRNAs shared high sequence similarity with miRNAs identified in zebrafish (Danio rerio), pufferfish (Fugu rubripes), and other higher vertebrates. In the process of Singapore grouper iridovirus (SGIV) infection, 45 and 43 miRNAs with altered expression (>1.5-fold) were identified by miRNA microarray assays in grouper spleen tissues and GS cells, respectively. Furthermore, target prediction revealed 189 putative targets of these grouper miRNAs. Copyright © 2015 Elsevier Ltd. All rights reserved.

Dabbling duck behavior and aircraft activity in coastal North Carolina

USGS Publications Warehouse

Conomy, J.T.; Collazo, J.A.; Dubovsky, J.A.; Fleming, W.J.

1998-01-01

Requests to increase military aircraft activity in some training facilities in the United States have prompted the need to determine if waterfowl and other wildlife are adversely affected by aircraft disturbance. We quantified behavioral responses of wintering American black ducks (Anas rubripes), American wigeon (A. americana), gadwall (A. strepera), and American green-winged teal (A. crecca carolinensis) exposed to low-level flying military aircrafts at Piney and Cedar islands, North Carolina, in 1991 and 1992. Waterfowl spent ???1.4% of their time responding to aircraft, which included flying, swimming, and alert behaviors. Mean duration of responses by species ranged from 10 to 40 sec. Costs to each species were deemed low because disruptions represented a low percentage of their time-activity budgets only a small proportion of birds reacted to disturbance (13/672; 2%); and the likelihood of resuming the activity disrupted by an aircraft disturbance event was high (64%). Recorded levels of aircraft disturbance (i.e., x?? = 85.1 dBA) were not adversely affecting the time-activity budgets of selected waterfowl species wintering at Piney and Cedar islands.

Structural and functional analysis of the putative pH sensor in the Kir1.1 (ROMK) potassium channel.

PubMed

Rapedius, Markus; Haider, Shozeb; Browne, Katharine F; Shang, Lijun; Sansom, Mark S P; Baukrowitz, Thomas; Tucker, Stephen J

2006-06-01

The pH-sensitive renal potassium channel Kir1.1 is important for K+ homeostasis. Disruption of the pH-sensing mechanism causes type II Bartter syndrome. The pH sensor is thought to be an anomalously titrated lysine residue (K80) that interacts with two arginine residues as part of an 'RKR triad'. We show that a Kir1.1 orthologue from Fugu rubripes lacks this lysine and yet is still highly pH sensitive, indicating that K80 is not the H+ sensor. Instead, K80 functionally interacts with A177 on transmembrane domain 2 at the 'helix-bundle crossing' and controls the ability of pH-dependent conformational changes to induce pore closure. Although not required for pH inhibition, K80 is indispensable for the coupling of pH gating to the extracellular K+ concentration, explaining its conservation in most Kir1.1 orthologues. Furthermore, we demonstrate that instead of interacting with K80, the RKR arginine residues form highly conserved inter- and intra-subunit interactions that are important for Kir channel gating and influence pH sensitivity indirectly.

Sea otters past and present perspectives

USGS Publications Warehouse

Bodkin, James L.

2000-01-01

During the 1961 waterfowl hunting season, 360 stomachs of 10 duck species were collected from hunters near the Santee National Wildlife Refuge, Lake Marion, South Carolina. Based on percentage of total volume, 20 of the most important foods are listed. The six most important duck species in the kill were: mallard (Anas platyrhynchos), wood duck (Aix sponsa), widgeon (Mareca americam), pintail (Anas acuta) , black duck ( Anas rubripes) , and green-winged teal (Anas carolinensis). Six plant species made up 5 percent or more of the total volume of food items found in the stomachs of all ducks. Only seeds of oaks (Quercus sp.), corn, sweet gum (Liquidambar Styraciflua), and buttonbush (Cephalanthus occidentalis) were consumed. Some seed, but mostly the vegetative portions of hydrochloa (Hydrochloa carolinensis) and only the vegetative portions of southern rice cutgrass (Leersia hexandra) were taken. The more important game ducks concentrated on the refuge farmlands when water levels were below 72 feet mean sea level (msl). When levels reached 75 feet msl, natural foods became available, ducks dispersed from refuge areas, and hunting success increased greatly.

Fall food habits of ducks near Santee Refuge, South Carolina

USGS Publications Warehouse

McGilvrey, F.B.

1966-01-01

During the 1961 waterfowl hunting season, 360 stomachs of 10 duck species were collected from hunters near the Santee National Wildlife Refuge, Lake Marion, South Carolina. Based on percentage of total volume, 20 of the most important foods are listed. The six most important duck species in the kill were: mallard (Anas platyrhynchos), wood duck (Aix sponsa), widgeon (Mareca americam), pintail (Anas acuta) , black duck ( Anas rubripes) , and green-winged teal (Anas carolinensis). Six plant species made up 5 percent or more of the total volume of food items found in the stomachs of all ducks. Only seeds of oaks (Quercus sp.), corn, sweet gum (Liquidambar Styraciflua), and buttonbush (Cephalanthus occidentalis) were consumed. Some seed, but mostly the vegetative portions of hydrochloa (Hydrochloa carolinensis) and only the vegetative portions of southern rice cutgrass (Leersia hexandra) were taken. The more important game ducks concentrated on the refuge farmlands when water levels were below 72 feet mean sea level (msl). When levels reached 75 feet msl, natural foods became available, ducks dispersed from refuge areas, and hunting success increased greatly.

Geographic and temporal differences in band reporting rates for American black ducks

USGS Publications Warehouse

Conroy, M.J.; Blandin, W.W.

1984-01-01

Recoveries of reward- and standard-banded American black ducks (Anas rubripes) were used to estimate band reporting rates and to investigate geographic and temporal variability in reporting rate for 1978-80. Reporting rates were higher close ( 20 km) to the parent banding site in 3 of 42 samples and were higher close to the nearest black duck banding site in 3 of 35 samples., Reporting rates were higher P 0.05) in Canada than in the Atlantic Flyway for the pre-huntIng season 1980-banded sample, but were otherwise similar among regions. Temporal differences over the duration of the study occured, but there were no consistent trends over time. The small number of rejections suggests that there is little evidence of differences in band reporting rate by proximity to banding sites, geographic location, or over time. Thus, the best estimate of band reporting rate for black ducks is a constant 0.43. This estimate should be used with caution, because we believe that it overestimates reporting rate due to the unknown proportion of reward bands found that were not reported.

A conserved gene family encodes transmembrane proteins with fibronectin, immunoglobulin and leucine-rich repeat domains (FIGLER)

PubMed Central

Munfus, Delicia L; Haga, Christopher L; Burrows, Peter D; Cooper, Max D

2007-01-01

Background In mouse the cytokine interleukin-7 (IL-7) is required for generation of B lymphocytes, but human IL-7 does not appear to have this function. A bioinformatics approach was therefore used to identify IL-7 receptor related genes in the hope of identifying the elusive human cytokine. Results Our database search identified a family of nine gene candidates, which we have provisionally named fibronectin immunoglobulin leucine-rich repeat (FIGLER). The FIGLER 1–9 genes are predicted to encode type I transmembrane glycoproteins with 6–12 leucine-rich repeats (LRR), a C2 type Ig domain, a fibronectin type III domain, a hydrophobic transmembrane domain, and a cytoplasmic domain containing one to four tyrosine residues. Members of this multichromosomal gene family possess 20–47% overall amino acid identity and are differentially expressed in cell lines and primary hematopoietic lineage cells. Genes for FIGLER homologs were identified in macaque, orangutan, chimpanzee, mouse, rat, dog, chicken, toad, and puffer fish databases. The non-human FIGLER homologs share 38–99% overall amino acid identity with their human counterpart. Conclusion The extracellular domain structure and absence of recognizable cytoplasmic signaling motifs in members of the highly conserved FIGLER gene family suggest a trophic or cell adhesion function for these molecules. PMID:17854505

Identification and Classification of Conserved RNA Secondary Structures in the Human Genome

PubMed Central

Pedersen, Jakob Skou; Bejerano, Gill; Siepel, Adam; Rosenbloom, Kate; Lindblad-Toh, Kerstin; Lander, Eric S; Kent, Jim; Miller, Webb; Haussler, David

2006-01-01

The discoveries of microRNAs and riboswitches, among others, have shown functional RNAs to be biologically more important and genomically more prevalent than previously anticipated. We have developed a general comparative genomics method based on phylogenetic stochastic context-free grammars for identifying functional RNAs encoded in the human genome and used it to survey an eight-way genome-wide alignment of the human, chimpanzee, mouse, rat, dog, chicken, zebra-fish, and puffer-fish genomes for deeply conserved functional RNAs. At a loose threshold for acceptance, this search resulted in a set of 48,479 candidate RNA structures. This screen finds a large number of known functional RNAs, including 195 miRNAs, 62 histone 3′UTR stem loops, and various types of known genetic recoding elements. Among the highest-scoring new predictions are 169 new miRNA candidates, as well as new candidate selenocysteine insertion sites, RNA editing hairpins, RNAs involved in transcript auto regulation, and many folds that form singletons or small functional RNA families of completely unknown function. While the rate of false positives in the overall set is difficult to estimate and is likely to be substantial, the results nevertheless provide evidence for many new human functional RNAs and present specific predictions to facilitate their further characterization. PMID:16628248

Marine antivenoms.

PubMed

Currie, Bart J

2003-01-01

There is an enormous diversity and complexity of venoms and poisons in marine animals. Fatalities have occurred from envenoming by sea snakes, jellyfish, venomous fish such as stonefish, cone snails, and blue-ringed octopus. Deaths have also followed ingestion of toxins in shellfish, puffer fish (Fugu), and ciguatoxin-containing fish. However antivenoms are generally only available for envenoming by certain sea snakes, the major Australian box jellyfish (Chironex fleckeri) and stonefish. There have been difficulties in characterizing the toxins of C. fleckeri venom, and there are conflicting animals studies on the efficacy of C. fleckeri antivenom. The vast majority of C. fleckeri stings are not life-threatening, with painful skin welts the major finding. However fatalities that do occur usually do so within 5 to 20 minutes of the sting. This unprecedented rapid onset of cardiotoxicity in clinical envenoming suggests that antivenom may need to be given very early (within minutes) and possibly in large doses if a life is to be saved. Forty years of anecdotal experience supports the beneficial effect of stonefish antivenom in relieving the excruciating pain after stonefish spine penetration. It remains uncertain whether stonefish antivenom is efficacious in stings from spines of other venomous fish, and the recommendation of giving the antivenom intramuscularly needs reassessment.

Acid precipitation and food quality: Inhibition of growth and survival in black ducks and mallards by dietary aluminum, calcium and phosphorus

USGS Publications Warehouse

Robbins, C.S.

1990-01-01

In areas impacted by acid precipitation, water chemistry of acidic ponds and streams often changes, resulting in increased mobilization of aluminum and decreased concentration of calcium carbonate. Aluminum binds with phosphorus and inhibits its uptake by organisms. Thus, invertebrate food organisms used by waterfowl may have inadequate Ca and P or elevated Al for normal growth and development. Acid rain and its effects may be one of the factors negatively impacting American black ducks (Anas rubripes) in eastern North America. One-day old mallards (A. platyrhynchos) and black ducks were placed on one of three Ca:P regimens: low:low (LL), normal:normal (NN), and low:high (LH) with each regimen divided further into three or four Al levels for 10 weeks. Forty-five % of the black ducks died on nine different diets whereas only 28% of the mallards died on three different diets. Mortality was significantly related to diet in both species. Growth rates for body weight, culmens, wings, and tarsi of both species on control diets exceeded those on many treatment diets but the differences were less apparent for mallards than for black ducks. Differences among treatments were due to both Ca:P and Al levels.

Organochlorine and heavy metal residues in black duck eggs from the Atlantic Flyway, 1978

USGS Publications Warehouse

Haseltine, S.D.; Mulhern, B.M.; Stafford, C.

1980-01-01

Black duck (Anas rubripes) eggs were collected during 1978 in the Atlantic Flyway. One egg from each of 49 clutches was analyzed for organochlorine compounds and mercury. DDE was detected in 39 eggs, ranging from 0.09 ppm to 3.4 ppm, wet weight. DDE residues were highest in eggs from Delaware, where the mean DDE level was 2.0 ppm. DDT and TDE were present at Iow levels in only five and four eggs, respectively. PCBs resembling Aroclor 1260 were detected in 24 eggs and ranged from 0.43 ppm to 2.9 ppm. Eggs from Massachusetts and Rhode Island contained an average of >1.0 ppm PCBs, but eggs from Nova Scotia, Pennsylvania, Maryland, and Virginia contained no detectable PCBs. Dieldrin, oxychlordane, and heptachlor epoxide were present in a few samples at low levels. Mercury was detected in 31 eggs, ranging from 0.07 ppm to 0.34 ppm, wet weight. Twenty eggs analyzed for chromium, copper, and arsenic contained averages of 0.64 ppm, 1.7 ppm, and 0.18 ppm, respectively. No geographic pattern was observed in these metal residue levels. Eggshell thickness (0.347 mm) was identical to the pre-1946 norm.

The truth about mouse, human, worms and yeast

PubMed Central

2004-01-01

Genome comparisons are behind the powerful new annotation methods being developed to find all human genes, as well as genes from other genomes. Genomes are now frequently being studied in pairs to provide cross-comparison datasets. This 'Noah's Ark' approach often reveals unsuspected genes and may support the deletion of false-positive predictions. Joining mouse and human as the cross-comparison dataset for the first two mammals are: two Drosophila species, D. melanogaster and D. pseudoobscura; two sea squirts, Ciona intestinalis and Ciona savignyi; four yeast (Saccharomyces) species; two nematodes, Caenorhabditis elegans and Caenorhabditis briggsae; and two pufferfish (Takefugu rubripes and Tetraodon nigroviridis). Even genomes like yeast and C. elegans, which have been known for more than five years, are now being significantly improved. Methods developed for yeast or nematodes will now be applied to mouse and human, and soon to additional mammals such as rat and dog, to identify all the mammalian protein-coding genes. Current large disparities between human Unigene predictions (127,835 genes) and gene-scanning methods (45,000 genes) still need to be resolved. This will be the challenge during the next few years. PMID:15601543

The truth about mouse, human, worms and yeast.

PubMed

Nelson, David R; Nebert, Daniel W

2004-01-01

Genome comparisons are behind the powerful new annotation methods being developed to find all human genes, as well as genes from other genomes. Genomes are now frequently being studied in pairs to provide cross-comparison datasets. This 'Noah's Ark' approach often reveals unsuspected genes and may support the deletion of false-positive predictions. Joining mouse and human as the cross-comparison dataset for the first two mammals are: two Drosophila species, D. melanogaster and D. pseudoobscura; two sea squirts, Ciona intestinalis and Ciona savignyi; four yeast (Saccharomyces) species; two nematodes, Caenorhabditis elegans and Caenorhabditis briggsae; and two pufferfish (Takefugu rubripes and Tetraodon nigroviridis). Even genomes like yeast and C. elegans, which have been known for more than five years, are now being significantly improved. Methods developed for yeast or nematodes will now be applied to mouse and human, and soon to additional mammals such as rat and dog, to identify all the mammalian protein-coding genes. Current large disparities between human Unigene predictions (127,835 genes) and gene-scanning methods (45,000 genes) still need to be resolved. This will be the challenge during the next few years.

A full annual cycle modeling framework for American black ducks

USGS Publications Warehouse

Robinson, Orin J.; McGowan, Conor P.; Devers, Patrick K.; Brook, Rodney W.; Huang, Min; Jones, Malcom; McAuley, Daniel G.; Zimmerman, Guthrie S.

2016-01-01

American black ducks (Anas rubripes) are a harvested, international migratory waterfowl species in eastern North America. Despite an extended period of restrictive harvest regulations, the black duck population is still below the population goal identified in the North American Waterfowl Management Plan (NAWMP). It has been hypothesized that density-dependent factors restrict population growth in the black duck population and that habitat management (increases, improvements, etc.) may be a key component of growing black duck populations and reaching the prescribed NAWMP population goal. Using banding data from 1951 to 2011 and breeding population survey data from 1990 to 2014, we developed a full annual cycle population model for the American black duck. This model uses the seven management units as set by the Black Duck Joint Venture, allows movement into and out of each unit during each season, and models survival and fecundity for each region separately. We compare model population trajectories with observed population data and abundance estimates from the breeding season counts to show the accuracy of this full annual cycle model. With this model, we then show how to simulate the effects of habitat management on the continental black duck population.

Growth and physiological condition of black ducks reared on acidified wetlands

USGS Publications Warehouse

Rattner, B.A.; Haramis, G.M.; Chu, D.S.; Bunck, C.M.; Scanes, C.G.

1987-01-01

Acid deposition has been identified as one of several possible factors contributing to the decline of some waterfowl populations in North America. In an effort to examine the effects of acidification on black duck (Anas rubripes) recruitment, growth and physiological condition were monitored in ducklings foraging for a 10-day trial (days 10-20 of life) on acidified (pH 5.0) and : circumneutral (pH 6.8) fish-free emergent wetlands. Acidification of these wetlands suppressed phytoplankton and algal growth, and reduced invertebrate biomass. Ducklings maintained on acidified wetlands grew poorly compared with ducklings reared on circumneutral wetlands, as evidenced by lower final body weight and culmen and tarsus length. Plasma growth hormone concentration was elevated and triiodothyronine levels were lower in stunted ducklings, in part substantiating impairment of growth-regulating processes. Ducklings exhibiting poor growth tended to have lower hematocrit, lower plasma protein, glucose, and cholesterol concentrations, and higher uric acid levels, presumably reflecting alterations in metabolism and development due to inanition. These findings suggest that acid deposition may lower food production in wetlands and ultimately impair duckling growth, condition, and survival.

Shell thinning and reproductive impairment in black ducks after cessation of DDE dosage

USGS Publications Warehouse

Longcore, J.R.; Stendell, R.C.

1977-01-01

Captive black ducks (anas rubripes) were fed dietary DDE [1,1-dichloro-2,2-bis (p-chlorophenyl)ethylene] at 10 ppm (dry weight; about 2 ppm on a natural diet basis) for 2 breeding seasons, then untreated feed for 2 succeeding years. Residues of DDE in the carcasses of adults declined 90% during the 2-year clean-up period. Following 2 years of dietary DDE, mean residues in eggs reached 64.9 ppm. Even after 2 years on clean feed, DDE residues in the eggs averaged 6.2 ppm or 9.5% of the mean DDE level reached after 2 years on treated feed. Shells of eggs from treated hens were about 20% thinner than shells of eggs from controls. Stoppage of DDE dosage resulted in progressively thicker shells, yet even after 2 years on untreated feed hens laid eggs with shells about 10% thinner than control hens. After DDE was removed from the diet, DDE residues in the eggs decreased, shell thickness increased, and reproductive success improved. Hens previously exposed to DDE, but then fed clean feed for 2 years, still produced significantly fewer surviving ducklings than did control hens.

Osmoregulatory function in ducks following ingestion of the organophosphorus insecticide fenthion

USGS Publications Warehouse

Rattner, B.A.; Fleming, W.J.; Murray, H.C.

1983-01-01

Salt gland function and osmoregulation in aquatic birds drinking hyperosmotic water has been suggested to be impaired by organophosphorus insecticides. To test this hypothesis, adult black ducks (Anas rubripes) were provided various regimens of fresh or salt (1.5% NaCl) water before, during, and after ingestion of mash containing 21 ppm fenthion. Ducks were bled by jugular venipuncture after I, 7. and 12 days of treatment, and were then killed. Brain and salt gland acetylcholinesterase activities were substantially inhibited (44-61% and 14-36%) by fenthion. However, salt gland weight and Na + -K + -ATPase activity, and plasma Na + , CI- , and osmolality, were uniformly elevated in all groups receiving salt water including those ingesting fenthion. In a second study, salt gland Na + -K + -ATPase activity in mallards (A. platyrhynchos) was not affected after in vitro incubation with either fenthion or fenthion oxon at concentrations ranging from 0.04 to 400 ?M, but was reduced in the presence of 40 and 400 ?M DDE (positive control). These findings suggest that environmentally realistic concentrations of organophosphorus insecticides do not markedly affect osmoregulatory function in adult black ducks.

[Dangerous marine animals].

PubMed

Antensteiner, G

1999-01-01

Sea-biological basic knowledge for divers is offered only in special lessons for advanced scuba divers. According to statistics, however, five per cent of the deadly diving accidents are caused by underwater organisms. This number could be reduced to a fraction, by correct behaviour during the dive and after an accident. The most frequent accidents with sea animals during water sports are not by unprovoked shark attacks, which cause six deaths world-wide per year on the average, but turn out with usually well camouflaged sea inhabitants, that do not attack humans, rather by their inadvertence coincidentally get in contact with it. The various defense instruments of the often small, inconspicuous organisms reach from teeth over poison stings, pricks, spines, scalpelles, nettle injections and chemical weapons up to poison arrows. Due to that variety of the maritime life, the most important representatives of its type are explained including severity level of the caused injury or contamination. Both, diagnostic position and therapy possibility are described as follows: 1. Porifera (sponge), 2. Hydrozoa (white weed, yellow flower head), Actinaria (sea anemones), 3. Conidae (cone shells), Tridocna (giant clam), octopoda (octopus), 4. Acanthaster planci (crown of thorns), Echinodea (sea urchins), Holothurioidea (sea cucumber), 5. Selachoidei (shark), Batoidei (Ray), Muraenidae (moray), Plotosidae (barbel eels), Synanciidae (stonefish), Scorpaenidae (scorpionfish), Pterois (lion fish), Sphyraena Spec. (barracuda), Balistidae (triggerfish), Ostracionidae (puffer).

Osmoregulation and salt gland Na, K-ATPase activity following exposure to the anticholinesterase fenthion

USGS Publications Warehouse

Rattner, B.A.; Fleming, W.J.; Murray, H.C.

1982-01-01

Salt gland function and osmoregulation in aquatic birds drinking hyperosmotic water has been suggested to be impaired by organophosphorus insecticides. To test this hypothesis, adult ducks (Anas rubripes) were provided various regimens of fresh or salt (1.5% NaCl) water (FW, SW) and mash containing vehicle or 21 ppm fenthion (Fn) on days 1-7 and 7-12 of this study. The 8 treatments (day 1-7:day 7-12) included :FW:FW, FW:FW+Fn, FW:SW, FW+Fn:SW, FW:SW+Fn, FW+Fn:SW+FN, SW;SW, and SW:5W+Fn. Ducks were bled by jugular venipuncture on days 1,7 and 12, and then sacrificed. Brain and salt gland acetylcholinesterase activities were substantially inhibited (44-52% and 14-26%) by Fn. However, plasma Na, Cl and osmolality, as indirect but cumulative indices of salt gland function, were uniformly elevated in all SW groups including those receiving Fn. In a second experiment, salt gland Na,K-ATPase activity was reduced after in vitro incubation with DDE (40 and 400 ?M; positive control), but was unaffected by Fn and its oxygen analog (0.04-400 ?M). The present findings suggest that environmentally realistic concentrations of organophosphorus insecticides do not affect osmoregulatory function in adult ducks.

Experimental porcine cysticercosis using infected beetles with Taenia solium eggs.

PubMed

Gomez-Puerta, Luis A; Garcia, Hector H; Gonzalez, Armando E

2018-07-01

Beetles are intermediate hosts for human and animal parasites, and several beetle species have been shown to carry Taenia eggs. An experimental porcine cysticercosis infection model was developed using beetles (Ammophorus rubripes) infected with Taenia solium eggs and then using these beetles for oral pig challenge. A total of 18 three months-old Landrace pigs were divided in four groups. Pigs from groups 1, 2, and 3 (n = 6 pigs per group) were challenged with one, three, and six beetles infected with T. solium eggs, containing approximately 52, 156 or 312 eggs respectively. Pigs were necropsied 12 weeks after infection to assess the presence of T. solium metacestode. Porcine cysticercosis by T. solium was produced in 17 out of 18 pigs (94.4%) challenged with infected beetles, all infected pigs had viable cysts. Only one pig from group 1 was negative to the presence of cysts. The median number of metacestodes per pig in groups 1, 2, and 3 were 2 (range 0-71), 26 (range 5-33) and 40 cysts (range 4-111), respectively. Experimental porcine cysticercosis infection is consistently obtained using beetles as mechanical vectors for T. solium eggs. Copyright © 2018 Elsevier B.V. All rights reserved.

Feeding ecology and development of juvenile black ducks in Maine

USGS Publications Warehouse

Reinecke, Kenneth J.

1979-01-01

Data from 41 juvenile Black Ducks (Anas rubripes) collected in the Penobscot River valley of Maine from June through August 1974-76 were used to estimate the proportion of aquatic invertebrates in the prefledging diet and the allometric growth rates of the tarsi, flight muscles, and alimentary system. The proportion of aquatic invertebrates in the diet of downy and partially feathered juveniles averaged 88 and 91% of dry weight, but decreased to 43% for fully feathered young. The most important invertebrate food organisms for juvenile Black Ducks were asellid isopods, molluscs, nymphs of Ephemeroptera and Odonata, and larvae of Coleoptera, Trichoptera, and Diptera. A high proportion of invertebrates was consumed during the period of fastest absolute and relative growth. Estimation of allometric growth rates with the power formula (Y = a·$X_{b}$) showed that (1) the legs were relatively large at hatching and developed slowly; (2) the flight muscles, which were relatively small at hatching, grew slowly until the 4-week period preceding fledging, when they increased as the 4.75 power of body weight; and (3) growth of the liver and gizzard was approximately proportional to body weight. The data support Ricklefs' thesis that delayed functional maturity of the wings permits an increase in the overall growth rate of waterfowl.

Comparative Analysis of Vertebrate Dystrophin Loci Indicate Intron Gigantism as a Common Feature

PubMed Central

Pozzoli, Uberto; Elgar, Greg; Cagliani, Rachele; Riva, Laura; Comi, Giacomo P.; Bresolin, Nereo; Bardoni, Alessandra; Sironi, Manuela

2003-01-01

The human DMD gene is the largest known to date, spanning > 2000 kb on the X chromosome. The gene size is mainly accounted for by huge intronic regions. We sequenced 190 kb of Fugu rubripes (pufferfish) genomic DNA corresponding to the complete dystrophin gene (FrDMD) and provide the first report of gene structure and sequence comparison among dystrophin genomic sequences from different vertebrate organisms. Almost all intron positions and phases are conserved between FrDMD and its mammalian counterparts, and the predicted protein product of the Fugu gene displays 55% identity and 71% similarity to human dystrophin. In analogy to the human gene, FrDMD presents several-fold longer than average intronic regions. Analysis of intron sequences of the human and murine genes revealed that they are extremely conserved in size and that a similar fraction of total intron length is represented by repetitive elements; moreover, our data indicate that intron expansion through repeat accumulation in the two orthologs is the result of independent insertional events. The hypothesis that intron length might be functionally relevant to the DMD gene regulation is proposed and substantiated by the finding that dystrophin intron gigantism is common to the three vertebrate genes. [Supplemental material is available online at www.genome.org.] PMID:12727896

Monitoring pesticides in wildlife

USGS Publications Warehouse

Dustman, E.H.; Martin, W.E.; Heath, R.G.; Reichel, W.L.

1971-01-01

Early in the development of the wildlife monitoring program, certain criteria were recognized as being important in the selection of species of wild animals suitable for pesticide monitoring purposes. Ideally, the forms selected should be geographically well distributed, and they should be reasonably abundant and readily available for sampling. In addition, animals occurring near the top of food chains have the capacity to reflect residues in organisms occurring at lower levels in the same food chains. Based on these criteria, species chosen for monitoring include the starling (Sturnus vulgaris), mallard (Anas platyrhynchos) and black ducks (Anas rubripes), and the bald eagle (Haliaeetus leucocephalus). The black duck is substituted for the mallard in States where suitable numbers of mallards cannot be obtained. The Bureau of Sport Fisheries and Wildlife is held responsible for the execution of the wildlife portion of the National Pesticide Monitoring Program. The primary objective is to ascertain on a nationwide basis and independent of specific treatments the levels and trends of certain pesticidal chemicals and other pollutants in the bodies of selected forms of wildlife. The program was first described by Johnson et al. (4) in 1967. The purpose of this report is to update and redescribe the wildlife monitoring program and briefly review accomplishments.

Toxicity of Lead and Proposed Substitute Shot to Mallards

USGS Publications Warehouse

Longcore, J.R.; Andrews, R.; Locke, L.N.; Bagley, George E.; Young, L.T.

1974-01-01

Poisoning of North American waterfowl resulting from the ingestion of lead shot by ducks, geese, and swans causes an estimated annual mortality of 2 to 3% of the population (Bellrose 1959). To alleviate this problem the search for a suitable substitute for lead has been underway since the early 1950's. Proposed substitutes for lead shot were evaluated in a series of acute toxicity tests with pen-reared mallards (Anas platyrhynchos). Most candidate materials were as toxic to ducks as commercial lead shot. Coating or alloying lead with other metals only delayed mortality among dosed ducks. The reputedly 'disintegrable' lead shot with the water-soluble binder and the lead containing biochemical additives were also as toxic to mallards as the commercial lead shot. Mortality was not significantly different among lead-dosed adult or first-year hen and drake pen-reared mallards; lead-dosed adult, wild mallards of both sexes; and lead-dosed adult, male black ducks (Anas rubripes). The ingestion of one lead shot, size 4, by each of 80 pen-reared mallards caused an average 19% mortality. The presence and type of grit in the gizzard had a measurable effect on erosion of ingested shot and on shot retention among dosed mallards. Significantly fewer lead-dosed ducks died when fed crushed oystershell grit than when fed either quartz grit or no grit.

Duck plague epizootics in the United States, 1967-1995

USGS Publications Warehouse

Converse, K.A.; Kidd, Gregory A.

2001-01-01

In 1967, the first confirmed diagnosis of duck plague (DP) in the USA was made from pekin ducks (Anas platyrhynchos domesticus) on commercial duck farms on Long Island, New York. Within 10 mo, DP was confirmed as the cause of death in migratory waterfowl on a Long Island bay. This paper reviews 120 DP epizootics reported from 1967 to 1995 that involved waterfowl species native to North America or were reported in areas with free-flying waterfowl at risk. Duck plague epizootics occurred in 21 states with the greatest number reported in Maryland (29), New York (18), California (16), and Pennsylvania (13). The greatest frequency of epizootics (86%) was detected during the months of March to June. At least 40 waterfowl species were affected with the highest frequency of epizootics reported in captive or captive-reared ducks including muscovy ducks (Cairina moschata) (68%), mallard ducks (A. platyrhynchos) (18%) and black ducks (A. rubripes) (14%). The greatest number of waterfowl died in three epizootics that involved primarily migratory birds in 1967 and 1994 in New York (USA) and 1973 in South Dakota (USA). The greatest number of DP epizootics reported since 1967 appear to have involved flocks of non-migratory rather than migratory waterfowl; therefore, in our opinion it remains unknown if DP is enzootic in either non-migratory or migratory waterfowl.

Islands at bay: Rising seas, eroding islands, and waterbird habitat loss in Chesapeake Bay (USA)

USGS Publications Warehouse

Erwin, R.M.; Brinker, D.F.; Watts, B.D.; Costanzo, G.R.; Morton, D.D.

2011-01-01

Like many resources in the Chesapeake Bay region of the U. S., many waterbird nesting populations have suffered over the past three to four decades. In this study, historic information for the entire Bay and recent results from the Tangier Sound region were evaluated to illustrate patterns of island erosion and habitat loss for 19 breeding species of waterbirds. Aerial imagery and field data collected in the nesting season were the primary sources of data. From 1993/1994 to 2007/2008, a group of 15 islands in Tangier Sound, Virginia were reduced by 21% in area, as most of their small dunes and associated vegetation and forest cover were lost to increased washovers. Concurrently, nesting American black ducks (Anas rubripes) declined by 66%, wading birds (herons-egrets) by 51%, gulls by 72%, common terns (Sterna hirundo) by 96% and black skimmers (Rynchops niger) by about 70% in this complex. The declines noted at the larger Bay-wide scale suggest that this study area maybe symptomatic of a systemic limitation of nesting habitat for these species. The island losses noted in the Chesapeake have also been noted in other Atlantic U. S. coastal states. Stabilization and/or restoration of at least some of the rapidly eroding islands at key coastal areas are critical to help sustain waterbird communities. ?? 2010 US Government.

Poplar Island Environmental Restoration Project: Challenges in waterbird restoration on an island in Chesapeake Bay

USGS Publications Warehouse

Erwin, R.M.; Miller, J.; Reese, J.G.

2007-01-01

At 460 hectares, the Paul Sarbanes Environmental Restoration Project at Poplar Island, Talbot County, Maryland, represents the largest 'beneficial use' dredged material project of the U. S. Army Corps of Engineers (a cooperative project with Maryland Port Administration). Begun in 1998, the 15-year restoration project will ultimately consist of roughly 220 ha of uplands and 220 ha of tidal wetland habitats, with limited areas of dike roads, perimeter riprap, and unvegetated mudflats. Wetland restoration began in one small section (or 'cell') in 2002, but not all cells will be filled with dredged material until at least 2013. As a major objective of the restoration, six species of waterbirds were identified as 'priority species' for Chesapeake Bay: American black duck (Anas rubripes), snowy egret (Egretta thula), cattle egret (Bubulcus ibis), osprey (Pandion haliaetus), common tern (Sterna hirundo), and least tern (S. antillarum). Monitoring of nesting activities of these species from 2002 to 2005 indicated that all species except black ducks colonized the site rapidly. More than 800 pairs of common terns nested in 2003 to 2004. Because of predation by red fox (Vulpes vulpes) and great horned owl (Bubo virginianus), reproductive success was very low for the terns. Trapping was effective in removing the foxes, and other controls have been applied to opportunistic nesting species including herring gulls (Larus argentatus) and Canada geese (Branta canadensis). An effective public education program on the island has helped address concerns about animal control.

Acid precipitation and food quality: Effects of dietary Al, Ca and P on bone and liver characteristics in American black ducks and mallards

USGS Publications Warehouse

Sparling, D.W.

1991-01-01

American black ducks (Anas rubripes) and mallards (A. platyrhynchos) were fed diets varying in concentrations of aluminum (Al). calcium (Ca), and phosphorus (P) for 10 weeks to identify toxic effects of Al under conditions representative of areas with acid precipitation. Femur and liver tissues were analyzed for Al. Ca, and P concentrations and structural characteristics. At two weeks of age, both species demonstrated pronounced differences in femur Al and P concentrations and femur mass from dietary Al and interaction between Ca:P regimen and Al:Low Ca:Low P enhanced Al storage and decreased P and mass in femurs. Femur Ca was lowest in the Low Ca:Low P regimen but was not affected by dietary Al. At 10 weeks, femur and liver Al continued to vary with dietary Al. Elevated Al and reduced Ca lowered modulus of elasticity. Femur P increased with elevated dietary P in black ducks. Elevated dietary P negated some of the effects of dietary A! on femur mass in black ducks. Reduced Ca concentrations weakened bones of both species and lowered both Ca and P. An array of clinical signs including lameness, discoloration of the upper mandible, complete and greenstick fractures, and death were responses to elevated Al and Ca:P regimen. Black ducks seemed to display these signs over a wider range of diets than mallards. Diets of 1,000 mg/kg Al had toxic effects on both species, particularly when combined with diets low in Ca and P.

Nest and brood attentiveness in female black ducks

USGS Publications Warehouse

Ringelman, J.K.; Longcore, J.R.; Owen, R.B.

1982-01-01

Incubation rhythms and brood attentiveness of radio-marked Black Ducks (Anas rubripes) were studied in southcentral Maine during 1977-1980. Recess duration and frequency differed between three females nesting near wetlands (x = 82 min, 2.3 recesses/day) and two nesting at upland sites(x = 183 min, I. I recesses/day), but incubation constancy was similar for all birds (x = 86.7%). A fourth wetland-nesting female apparently responded to the absence of down and concealing cover at the nest site by taking shorter and fewer recesses (x= 34 min, 1.0 recesses/day) than did other wetland-nesters with typical nests. Wetland-nesters took longer recesses with increasing air temperature and following long incubation sessions. After their ducklings were two weeks old, two brood-rearing females began leaving their broods to forage on nearby wetlands. Duration of rearing recess (x = 56 min) and total recess time (x = 94 min/day) were less during this mid-rearing stage than during the latter part of rearing (x = 265 min, 488 min/day). The two hen-brood bonds terminated at 43 and 48 days. We suggest that small endogenous nutrient reserves and the low density of invertebrate foods, typical of Black Duck breeding habitat, were critical factors affecting the evolution of Black Duck incubation behavior. Bouts of inattention during brood rearing may have also evolved in relation to food requirements; by foraging on wetlands away from their broods, females avoid competing with offspring for common food resources.

Protein A from orange-spotted nervous necrosis virus triggers type I interferon production in fish cell.

PubMed

Huang, Runqing; Zhou, Qiong; Shi, Yan; Zhang, Jing; He, Jianguo; Xie, Junfeng

2018-05-04

Family Nodaviridae consists of two genera: Alphanodavirus and Betanodavirus, and the latter is classified into four genotypes, including red-spotted grouper nervous necrosis virus, tiger puffer nervous necrosis virus, striped jack nervous necrosis virus, and barfin flounder nervous necrosis virus. Type I interferons (IFNs) play a central role in the innate immune system and antiviral responses, and the interactions between IFN and NNV have been investigated in this study. We have found that the RNA-dependent RNA polymerase (RdRp) from orange-spotted nervous necrosis virus (OGNNV), named protein A, was capable of activating IFN promoter in fathead minnow (FHM) cells. Transient expression of protein A was found to induce IFN expression and secretion, endowing FHM cells with anti-tiger frog virus ability. Protein A from SJNNV can also induce IFN expression in FHM cells but that from Flock House virus (FHV), a well-studied representative species of genus Alphanodavirus, cannot. RdRp activity and mitochondrial localization were shown to be required for protein A to induce IFN expression by means of activating IRF3 but not NFκB. Furthermore, DsRNA synthesized in vitro transcription and poly I:C activated IFN promoter activity when transfected into FHM cells, and dsRNA were also detected in NNV-infected cells. We postulated that dsRNA, a PAMP, was produced by protein A, leading to activation of innate immune response. These results suggest that protein As from NNV are the agonists of innate immune response. This is the first work to demonstrate the interaction between NNV protein A and innate immune system, and may help to understand pathogenesis of NNV. Copyright © 2018 Elsevier Ltd. All rights reserved.

Conserved small mRNA with an unique, extended Shine-Dalgarno sequence

PubMed Central

Hahn, Julia; Migur, Anzhela; von Boeselager, Raphael Freiherr; Kubatova, Nina; Kubareva, Elena; Schwalbe, Harald

2017-01-01

ABSTRACT Up to now, very small protein-coding genes have remained unrecognized in sequenced genomes. We identified an mRNA of 165 nucleotides (nt), which is conserved in Bradyrhizobiaceae and encodes a polypeptide with 14 amino acid residues (aa). The small mRNA harboring a unique Shine-Dalgarno sequence (SD) with a length of 17 nt was localized predominantly in the ribosome-containing P100 fraction of Bradyrhizobium japonicum USDA 110. Strong interaction between the mRNA and 30S ribosomal subunits was demonstrated by their co-sedimentation in sucrose density gradient. Using translational fusions with egfp, we detected weak translation and found that it is impeded by both the extended SD and the GTG start codon (instead of ATG). Biophysical characterization (CD- and NMR-spectroscopy) showed that synthesized polypeptide remained unstructured in physiological puffer. Replacement of the start codon by a stop codon increased the stability of the transcript, strongly suggesting additional posttranscriptional regulation at the ribosome. Therefore, the small gene was named rreB (ribosome-regulated expression in Bradyrhizobiaceae). Assuming that the unique ribosome binding site (RBS) is a hallmark of rreB homologs or similarly regulated genes, we looked for similar putative RBS in bacterial genomes and detected regions with at least 16 nt complementarity to the 3′-end of 16S rRNA upstream of sORFs in Caulobacterales, Rhizobiales, Rhodobacterales and Rhodospirillales. In the Rhodobacter/Roseobacter lineage of α-proteobacteria the corresponding gene (rreR) is conserved and encodes an 18 aa protein. This shows how specific RBS features can be used to identify new genes with presumably similar control of expression at the RNA level. PMID:27834614

Balancing life and work by unbending gender: Early American women psychologists' struggles and contributions.

PubMed

Johnston, Elizabeth; Johnson, Ann

2017-07-01

Women's participation in the work force shifted markedly throughout the twentieth century, from a low of 21 percent in 1900 to 59 percent in 1998. The influx of women into market work, particularly married women with children, put pressure on the ideology of domesticity: an ideal male worker in the outside market married to a woman taking care of children and home (Williams, 2000). Here, we examine some moments in the early-to-mid-twentieth century when female psychologists contested established norms of life-work balance premised on domesticity. In the 1920s, Ethel Puffer Howes, one of the first generation of American women psychologists studied by Scarborough and Furumoto (1987), challenged the waste of women's higher education represented by the denial of their interests outside of the confines of domesticity with pioneering applied research on communitarian solutions to life-work balance. Prominent second-generation psychologists, such as Leta Hollingworth, Lillian Gilbreth, and Florence Goodenough, sounded notes of dissent in a variety of forums in the interwar period. At mid-century, the exclusion of women psychologists from war work galvanized more organized efforts to address their status and life-work balance. Examination of the ensuing uneasy collaboration between psychologist and library scholar Alice Bryan and the influential male gatekeeper E. G. Boring documents gendered disparities in life-work balance and illuminates how the entrenched ideology of domesticity was sustained. We conclude with Jane Loevinger's mid-century challenge to domesticity and mother-blaming through her questioning of Boring's persistent focus on the need for job concentration in professional psychologists and development of a novel research focus on mothering. © 2017 Wiley Periodicals, Inc.

Acidification of experimental wetlands: Effects on wetland productivity and survival of juvenile black ducks

USGS Publications Warehouse

Haramis, G.M.; Chu, D.S.; Bunck, C.M.; Mingo, T.M.; Schaffner, W.W.R.

1997-01-01

Six man-made wetlands (0.02 ha each) and pen-reared broods of American black ducks (Anas rubripes) were used to assess the effects of reduced pH on the quality of fish- free, palustrine habitat for brood rearing. Acid treatment was assigned randomly among newly constructed wetlands during April through June 1984-85, to simulate depressed pH from snowmelt and spring rain. Sampling of chlorophyll epiphytic growth, zooplankton and macroinvertebrates confirmed reduced productivity of acidified (pH 5.0) versus control (pH 6.8) wetlands. Primary productivity was particularly reduced in acidified wetlands in early spring as indicated by high water transparency and low chlorophyll a concentrations. Chlrophyll a concentrations showed treatment (p = 0.01) and date (p = 0.05) effects, but no interaction, and dry weight of epiphytic growth was lower (p = 0.03) in acidified versus control wetlands. Numbers of zooplankton were similar in experimental wetlands, although controls generally exceeded acidified wetlands in abundance; only a single treatment effect for cladocerans (p = 0.1) was detected. Sweep net samples yielded greater numbers (p = 0.03), taxa (p = 0.01) and biomass (p = 0.07) of macroinvertebrates in control wetlands with gastropods, pelecypods and leeches notably reduced by acidification. Placement of 18 broods (female with four 10-day-old ducklings) for 10-day trials on experimental wetlands revealed limited growth, altered behaviour and marked reduction in survival of ducklings on acidified wetlands. An inadequate number of invertebrates is indicated as the cause for poor duckling productivity on acidified wetlands

Organochlorines accumulate in heron and egret chicks sampled in the Houston Ship Channel

USGS Publications Warehouse

Custer, T.W.; Shipley, Frank S.; Kiesling, Russell W.

1991-01-01

The National Contaminant Monitoring Program (NCBP) is an effort of the U.S. Fish and Wildlife Service to measure concentrations of DDT and other persistent chemicals in the environment and to quantify changes in these levels. The NCBP has established a network of sampling stations in segments of the environment for which Federal agencies have authority. The wildlife component of this program, administered by the Patuxent Wildlife Research Center, includes the periodic sampling of European starlings (Sturnus vulgaris), mallards (Anas platyrhynchos), and American black ducks (Anas rubripes). In order to include an estuarine component into the NCBP, herons and egrets are being evaluated. Eggs and chicks (five, ten, and 15 days of age) of snowy egrets (Egretta thula), and black-crowned night-herons (Nycticorax nycticorax) were collected in Naragansett Bay, RI; the Houston Ship Channel (HSC), TX; and San Francisco Bay, CA. Great egret (Casmerodius albus) eggs and chicks also were collected at the Texas colony. Eggs and chicks were analyzed for organochlorines; trace element and petroleum hydrocarbon analyses are pending. DDE and polychlorinated biphenyls (PCBs) were detected in all eggs and chicks, and they accumulated as the chicks grew. At each location, black-crowned nightheron chicks accumulated both DDE and PCBs more rapidly than snowy egrets or great egrets. PCBs accumulated more rapidly in night-heron chicks in Rhode Island than California; however, PCB accumulation for snowy egret chicks did not differ among locations. Contaminant accumulation rates in heron and egret chicks could be used as a new wetland component of the NCBP.

Metal and sediment ingestion by dabbling ducks

USGS Publications Warehouse

Beyer, W.N.; Spann, J.; Day, D.

1999-01-01

The chemical analysis of intestinal digesta from hunter-killed carcasses or of wildlife scat is a promising means of estimating the exposure of wildlife to those environmental contaminants that, like lead, are poorly absorbed in the digestive tract. When evaluating contaminants at a site, biologists may find the results of this non-destructive approach more straightforward to interpret in terms of exposure to wildlife than would be analyses of soils, sediments, water, or wildlife tissues. To illustrate the approach, we collected digesta from 47 waterfowl shot by hunters at Prime Hook National Wildlife Refuge, in Delaware, USA. The waterfowl digesta contained an average of approximately 2.4% sediment, estimated from the Al concentrations in the digesta, a marker for sediment. Al concentrations were significantly correlated with concentrations of Cr (Spearman's rank correlation coefficient, r=0.57), V (r=0.70), Ni (r=0.31), and Pb (r=0.55), and we concluded that these metals were ingested mainly with sediment. American widgeon (Anas americana) ingested sediment at a rate of about four times that of three other species of dabbling ducks (Anas crecca, A. acuta, A. rubripes) and had several times the exposure to the sediment-associated metals. The digesta of one American black duck contained a high concentration of lead (70 mg/kg, dry wt.), presumably from lead shot, but none of the other samples had notably elevated metal concentrations. We suggest that scat and digesta be analyzed more widely by biologists and resource managers seeking a simple, inexpensive assessment of contaminants in local wildlife habitat.

Nanos genes and their role in development and beyond.

PubMed

De Keuckelaere, Evi; Hulpiau, Paco; Saeys, Yvan; Berx, Geert; van Roy, Frans

2018-06-01

The hallmark of Nanos proteins is their typical (CCHC) 2 zinc finger motif (zf-nanos). Animals have one to four nanos genes. For example, the fruit fly and demosponge have only one nanos gene, zebrafish and humans have three, and Fugu rubripes has four. Nanos genes are mainly known for their evolutionarily preserved role in germ cell survival and pluripotency. Nanos proteins have been reported to bind the C-terminal RNA-binding domain of Pumilio to form a post-transcriptional repressor complex. Several observations point to a link between the miRNA-mediated repression complex and the Nanos/Pumilio complex. Repression of the E2F3 oncogene product is, indeed, mediated by cooperation between the Nanos/Pumilio complex and miRNAs. Another important interaction partner of Nanos is the CCR4-NOT deadenylase complex. Besides the tissue-specific contribution of Nanos proteins to normal development, their ectopic expression has been observed in several cancer cell lines and various human cancers. An inverse correlation between the expression levels of human Nanos1 and Nanos3 and E-cadherin was observed in several cancer cell lines. Loss of E-cadherin, an important cell-cell adhesion protein, contributes to tumor invasion and metastasis. Overexpression of Nanos3 induces epithelial-mesenchymal transition in lung cancer cell lines partly by repressing E-cadherin. Other than some most interesting data from Nanos knockout mice, little is known about mammalian Nanos proteins, and further research is needed. In this review, we summarize the main roles of Nanos proteins and discuss the emerging concept of Nanos proteins as oncofetal antigens.

Resource protection for waterbirds in Chesapeake Bay

USGS Publications Warehouse

Erwin, R.M.; Haramis, G.M.; Krementz, D.G.; Funderburk, S.L.

1993-01-01

Many living resources in the Chesapeake Bay estuary have deteriorated over the past 50 years. As a result, many governmental committees, task forces, and management plans have been established. Most of the recommendations for implementing a bay cleanup focus on reducing sediments and nutrient flow into the watershed. We emphasize that habitat requirements other than water quality are necessary for the recovery of much of the bay's avian wildlife, and we use a waterbird example as illustration. Some of these needs are: (1) protection of fast-eroding islands, or creation of new ones by dredge deposition to improve nesting habitat for American black ducks(Anas rubripes), great blue herons(Ardea herodias), and other associated wading birds; (2) conservation of remaining brackish marshes, especially near riparian areas, for feeding black ducks, wading birds, and wood ducks(Aix sponsa); (3) establishment of sanctuaries in open-water, littoral zones to protect feeding and/or roosting areas for diving ducks such as canvasbacks(Aythya valisineria) and redheads(Aythya americana), and for bald eagles(Haliaeetus leucocephalus); and (4) limitation of disturbance by boaters around nesting islands and open-water feeding areas. Land (or water) protection measures for waterbirds need to include units at several different spatial scales, ranging from ?points? (e.g., a colony site) to large-area resources (e.g., a marsh or tributary for feeding). Planning to conserve large areas of both land and water can be achieved following a biosphere reserve model. Existing interagency committees in the Chesapeake Bay Program could be more effective in developing such a model for wildlife and fisheries resources.

Resource protection for waterbirds in Chesapeake bay

NASA Astrophysics Data System (ADS)

Erwin, R. Michael; Haramis, G. Michael; Krementz, David G.; Funderburk, Steven L.

1993-09-01

Many living resources in the Chesapeake Bay estuary have deteriorated over the past 50 years. As a result, many governmental committees, task forces, and management plans have been established. Most of the recommendations for implementing a bay cleanup focus on reducing sediments and nutrient flow into the watershed. We emphasize that habitat requirements other than water quality are necessary for the recovery of much of the bay's avian wildlife, and we use a waterbird example as illustration. Some of these needs are: (1) protection of fast-eroding islands, or creation of new ones by dredge deposition to improve nesting habitat for American black ducks (Anas rubripes), great blue herons (Ardea herodias), and other associated wading birds; (2) conservation of remaining brackish marshes, especially near riparian areas, for feeding black ducks, wading birds, and wood ducks (Aix sponsa); (3) establishment of sanctuaries in open-water, littoral zones to protect feeding and/or roosting areas for diving ducks such as canvasbacks (Aythya valisineria) and redheads (Aythya americana), and for bald eagles (Haliaeetus leucocephalus); and (4) limitation of disturbance by boaters around nesting islands and open-water feeding areas. Land (or water) protection measures for waterbirds need to include units at several different spatial scales, ranging from “points” (e.g., a colony site) to large-area resources (e.g., a marsh or tributary for feeding). Planning to conserve large areas of both land and water can be achieved following a biosphere reserve model. Existing interagency committees in the Chesapeake Bay Program could be more effective in developing such a model for wildlife and fisheries resources.

The nuclear OXPHOS genes in insecta: a common evolutionary origin, a common cis-regulatory motif, a common destiny for gene duplicates

PubMed Central

Porcelli, Damiano; Barsanti, Paolo; Pesole, Graziano; Caggese, Corrado

2007-01-01

Background When orthologous sequences from species distributed throughout an optimal range of divergence times are available, comparative genomics is a powerful tool to address problems such as the identification of the forces that shape gene structure during evolution, although the functional constraints involved may vary in different genes and lineages. Results We identified and annotated in the MitoComp2 dataset the orthologs of 68 nuclear genes controlling oxidative phosphorylation in 11 Drosophilidae species and in five non-Drosophilidae insects, and compared them with each other and with their counterparts in three vertebrates (Fugu rubripes, Danio rerio and Homo sapiens) and in the cnidarian Nematostella vectensis, taking into account conservation of gene structure and regulatory motifs, and preservation of gene paralogs in the genome. Comparative analysis indicates that the ancestral insect OXPHOS genes were intron rich and that extensive intron loss and lineage-specific intron gain occurred during evolution. Comparison with vertebrates and cnidarians also shows that many OXPHOS gene introns predate the cnidarian/Bilateria evolutionary split. The nuclear respiratory gene element (NRG) has played a key role in the evolution of the insect OXPHOS genes; it is constantly conserved in the OXPHOS orthologs of all the insect species examined, while their duplicates either completely lack the element or possess only relics of the motif. Conclusion Our observations reinforce the notion that the common ancestor of most animal phyla had intron-rich gene, and suggest that changes in the pattern of expression of the gene facilitate the fixation of duplications in the genome and the development of novel genetic functions. PMID:18315839

Impacts of chemicals on waterfowl reproduction and survival

USGS Publications Warehouse

White, D.H.; Stickel, L.F.

1975-01-01

Residues of organochlorine pesticides, PCB's, heavy metals, and other toxic chemicals are ubiquitous in the biosphere and are commonly found in tissues and eggs of wild birds. This paper reviews research on the effects of these chemicals, with particular reference to waterfowl. Extensive mortality of waterfowl has occurred in the Gulf Coast region as a result of ingestion of aldrin-treated rice seed. Populations of fulvous tree ducks (Dendrocygna bicolor) have declined in recent years in that area. DDE impaired reproduction of both mallards (Anas platyrhynchos) and black ducks (Arias rubripes) in experimental studies, resulting in thin shells, cracked eggs, and poor hatching success. Eggs incubated by the hens broke and cracked more frequently than those in incubators. In the field, residues are higher in ducks that feed on animal material than in vegetarians; differences are pronounced both geographically and among species. Mercury at levels that occur in certain heavily polluted areas in the United States and Canada has, in experimental studies, lowered the reproductive success of mallards and black ducks and reduced the survival of ducklings. Oil spills have killed many waterfowl as a result of oiled feathers and the intake of oil and more indirect physiological effects have been shown experimentally. Pollutants may affect waterfowl indirectly by changing the habitat and directly as a result of intake of toxic substances. They are unlikely to have been directly limiting factors in populations of such species as mallards. Their involvement with problem of other species, including canvasbacks (Aythya valisineria) and mergansers has still to be explored.

Benefits, costs, and determinants of dominance in American black ducks

USGS Publications Warehouse

Hepp, G.R.

1989-01-01

Behavioural dominance was studied in captive American black ducks (Anas rubripes) during October-December 1984. Eighty ducks were marked individually, and groups of 10 ducks consisting of 5 adults (3 males and 2 females) and 5 juveniles (3 males and 2 females) were assigned to each of 8 experimental pens. Ducks in 4 pens received an ad libitum diet, and ducks in the other 4 pens were given a restricted diet. Dominance structure within pens was linear. Adults were dominant to young, and body mass had no influence on dominance rank. The effect of sex on dominance rank was age-specific. Adult males were dominant to adult females and to young black ducks of both sexes; however, dominance rank of young males did not differ from adult or young females. Paired adults were dominant to unpaired adults and to young individuals that were either paired or unpaired. Paired young black ducks were similar in dominance rank to unpaired adults and unpaired young indicating that pairing did not make these individuals more dominant. Ducks on the restricted diet gained less body mass than ducks on the ad libitum diet, but dominant and subordinate black ducks within treatment groups experienced similar changes in body mass during the early winter. Dominant black ducks interacted more frequently and were more likely to form pair bonds than subordinates, thus higher energy costs of dominant individuals may explain the poor relationship between physical condition and dominance rank. There was a significant positive association between the dominance ranks of pair members.

Band reporting probablilities of mallards, American black ducks, and wood ducks in eastern North America

USGS Publications Warehouse

Garrettson, Pamela R.; Raftovich, Robert V.; Hines, James; Zimmerman, Guthrie S.

2014-01-01

Estimates of band reporting probabilities are used for managing North American waterfowl to convert band recovery probabilities into harvest probabilities, which are used to set harvest regulations. Band reporting probability is the probability that someone who has shot and retrieved a banded bird will report the band. This probability can vary relative to a number of factors, particularly the inscription on the band and the ease with which it can be reported. Other factors, such as geographic reporting region, and species and sex of the bird may also play a role. We tested whether reporting probabilities of wood ducks (Aix sponsa) and American black ducks (black ducks; Anas rubripes) differed from those of mallards (Anas platyrhynchos) and whether band reporting varied geographically or by the sex of the banded bird. In the analysis of spatially comparable wood duck and mallard data, a band reporting probability of 0.73 (95% CI = 0.67–0.78) was appropriate for use across species, sex, and reporting region within the United States. In the black duck–mallard comparison, the band reporting probability of black ducks in Eastern Canada (0.50, 95% CI = 0.44–0.57) was lower than in the Eastern United States (0.73, 95% CI = 0.62–0.83). These estimates reflected an increase in overall band reporting probability following the addition of a toll-free telephone number to band inscriptions. Lower reporting in Eastern Canada may be because of cultural, linguistic, or logistical barriers.

Seasonal carcass composition and energy balance of female black ducks in Maine

USGS Publications Warehouse

Reinecke, K.J.; Stone, T.L.; Owen, R.B.

1982-01-01

Female Black Ducks (Anas rubripes) collected in Maine during the summer, fall, and winter of 1974-1976 showed significant seasonal variation in body weight, nonfat dry weight, gizzard and pectoral muscle weight, and fat, moisture, and protein content. Variation of body weight within and among seasons was correlated more strongly with carcass protein content, and with fat content during seasons of heavy lipid deposition, than with three structural size variables (culmen, tarsus, and sternum). Regression equations including fat and protein as independent variables accounted for 80-90% of the annual and seasonal variation in body weight; structural size variables alone accounted for less than 30%. Immature females averaged 54 and 99 g lighter, and carried 54 and 59 g less fat than adults during the fall and winter. Ducks of both age classes lost weight in December and January. Adult and immature females metabolized 59 and 64 g of fat and 17 and 25 g of protein in winter compared with 46 g of fat during the nesting season. Nutrient reserves are thus equally as important for the winter survival of these birds as for successfurl eproduction. Seasonal changes in carcass composition suggest that (1) fat deposited in late fall provides an energy reserve during winter, (2) a reduction in lean weight during winter may lower daily energy requirements and increase the effective amount of energy reserves, and (3) declining body weights during late winter may be an endogenous rhythm that reflects a shift in the expected benefits of an energy reserve compared to the costs of carrying additional weight,

Effects of body weight and age on the time and pairing of American black ducks

USGS Publications Warehouse

Hepp, G.R.

1986-01-01

I used captive young and adult American Black Ducks (Anas rubripes) during October-February 1984-1985 to test whether body weight and age affected time of pair-bond formation. Eighty ducks were marked individually, and 10 ducks (6 males and 4 females, half of each age class) were assigned to each of 8 experimental pens. Ducks in 4 pens received an ad libitum diet of commercial duck food, and ducks in the other 4 pens received a restricted ration of the same food. During early winter ducks in both groups gained weight, but ducks on the restricted diet gained less than birds on the ad libitum diet; peak winter weight of ducks on the ad libitum diet averaged 22% greater than initial body weight compared with 6.5% for ducks on the restricted diet. In late winter ducks on the restricted diet lost 28.7% of peak winter weight, and ducks on the ad libitum diet lost 19.3%. Weight loss of ducks on the ad libitum diet began before weather conditions became severe and coincided with a reduction in food consumption. This result supports the idea that weight loss of waterfowl in late winter is controlled endogenously. Individuals on the ad libitum diet paired earlier than those on the restricted diet, and pair bonds were stronger. Adults of both sexes paired earlier than young ducks, but differences for females were not significant statistically. Age and energy constraints are factors that can affect intraspecific variation in pairing chronology.

Tetraodon nigroviridis: A model of Vibrio parahaemolyticus infection.

PubMed

Peng, Wan; Shi, Yu; Li, Gao-Fei; He, Liang-Ge; Liang, Yao-Si; Zhang, Yong; Zhou, Li-Bin; Lin, Hao-Ran; Lu, Dan-Qi

2016-09-01

Vibriosis is the most common bacterial diseases and brings great economic loss on aquaculture. Vibrio parahaemolyticus (V. parahaemolyticus), a gram-negative bacterium, has been identified as one main pathogens of Vibriosis. The pathogenic mechanism of V. parahaemolyticus is not entirely clear now. In our study, a model of V. parahaemolyticus infection of green-spotted puffer fish (Tetraodon nigroviridis) was established. T. nigroviridis were injected intraperitoneally (i.p.) with 200 μL of V. parahaemolyticus (8 × 10(10) CFU/mL). V. parahaemolyticus infection caused 64% mortality and infected some organs of T. nigroviridis. Histopathology studies revealed V. parahaemolyticus infection induced tissue structural changes, including adipose hollow space in the liver. Immunohistochemistry showed V. parahaemolyticus were present in infected tissue such as liver, head kidney and spleen. In livers of T. nigroviridis infected by V. parahaemolyticus, the alkaline phosphatases (ALP) activity first gradually increased and then backed to normal level, a trend that was on the contrary to the expression profile of the miR-29b. Quantitative real-time PCR analysis showed that the expression level of TLR1, TLR2, TLR5, TLR9, TLR21, NOD1, NOD2 and IL-6 in response to V. parahaemolyticus infection decreased compared to that of non-infected fish. The establishment of the T. nigroviridis model of V. parahaemolyticus infection further confirmed V. parahaemolyticus spreads through the blood circulation system primary as an extracellular pathogen. Meanwhile, liver is an important target organ when infected by V. parahaemolyticus. miR-29b in liver was involved in the progress of liver steatosis during V. parahaemolyticus infection. Moreover, V. parahaemolyticus infection in vivo may have an effect of immunosuppression on host. Copyright © 2016 Elsevier Ltd. All rights reserved.

Non-emphysematous chronic obstructive pulmonary disease is associated with diabetes mellitus.

PubMed

Hersh, Craig P; Make, Barry J; Lynch, David A; Barr, R Graham; Bowler, Russell P; Calverley, Peter M A; Castaldi, Peter J; Cho, Michael H; Coxson, Harvey O; DeMeo, Dawn L; Foreman, Marilyn G; Han, MeiLan K; Harshfield, Benjamin J; Hokanson, John E; Lutz, Sharon; Ramsdell, Joe W; Regan, Elizabeth A; Rennard, Stephen I; Schroeder, Joyce D; Sciurba, Frank C; Steiner, Robert M; Tal-Singer, Ruth; van Beek, Edwin; Silverman, Edwin K; Crapo, James D

2014-10-24

Chronic obstructive pulmonary disease (COPD) has been classically divided into blue bloaters and pink puffers. The utility of these clinical subtypes is unclear. However, the broader distinction between airway-predominant and emphysema-predominant COPD may be clinically relevant. The objective was to define clinical features of emphysema-predominant and non-emphysematous COPD patients. Current and former smokers from the Genetic Epidemiology of COPD Study (COPDGene) had chest computed tomography (CT) scans with quantitative image analysis. Emphysema-predominant COPD was defined by low attenuation area at -950 Hounsfield Units (LAA-950) ≥10%. Non-emphysematous COPD was defined by airflow obstruction with minimal to no emphysema (LAA-950 < 5%). Out of 4197 COPD subjects, 1687 were classified as emphysema-predominant and 1817 as non-emphysematous; 693 had LAA-950 between 5-10% and were not categorized. Subjects with emphysema-predominant COPD were older (65.6 vs 60.6 years, p < 0.0001) with more severe COPD based on airflow obstruction (FEV1 44.5 vs 68.4%, p < 0.0001), greater exercise limitation (6-minute walk distance 1138 vs 1331 ft, p < 0.0001) and reduced quality of life (St. George's Respiratory Questionnaire score 43 vs 31, p < 0.0001). Self-reported diabetes was more frequent in non-emphysematous COPD (OR 2.13, p < 0.001), which was also confirmed using a strict definition of diabetes based on medication use. The association between diabetes and non-emphysematous COPD was replicated in the ECLIPSE study. Non-emphysematous COPD, defined by airflow obstruction with a paucity of emphysema on chest CT scan, is associated with an increased risk of diabetes. COPD patients without emphysema may warrant closer monitoring for diabetes, hypertension, and hyperlipidemia and vice versa. Clinicaltrials.gov identifiers: COPDGene NCT00608764, ECLIPSE NCT00292552.

Comparative mapping for bighead carp (Aristichthys nobilis) against model and non-model fishes provides insights into the genomic evolution of cyprinids.

PubMed

Zhu, Chuankun; Tong, Jingou; Yu, Xiaomu; Guo, Wenjie

2015-08-01

Comparative mapping provides an efficient method to connect genomes of non-model and model fishes. In this study, we used flanking sequences of the 659 microsatellites on a genetic map of bighead carp (Aristichthys nobilis) to comprehensively study syntenic relationships between bighead carp and nine model and non-model fishes. Of the five model and two food fishes with whole genome data, Cyprinus carpio showed the highest rate of positive BLAST hits (95.3 %) with bighead carp map, followed by Danio rerio (70.9 %), Oreochromis niloticus (21.7 %), Tetraodon nigroviridis (6.4 %), Gasterosteus aculeatus (5.2 %), Oryzias latipes (4.7 %) and Fugu rubripes (3.5 %). Chromosomal syntenic analyses showed that inversion was the basic chromosomal rearrangement during genomic evolution of cyprinids, and the extent of inversions and translocations was found to be positively correlated with evolutionary relationships among fishes studied. Among the five investigated cyprinids, linkage groups (LGs) of bighead carp, Hypophthalmichthys molitrix and Ctenopharyngodon idella exhibited a one-to-one relationship. Besides, LG 9 of bighead carp and homologous LGs of silver carp and grass carp all corresponded to the chromosomes 10 and 22 of zebrafish, suggesting that chromosomal fission may have occurred in the ancestor of zebrafish. On the other hand, LGs of bighead carp and common carp showed an approximate one-to-two relationship with extensive translocations, confirming the occurrence of a 4th whole genome duplication in common carp. This study provides insights into the understanding of genome evolution among cyprinids and would aid in transferring positional and functional information of genes from model fish like zebrafish to non-model fish like bighead carp.

Intermittent fasting during winter and spring affects body composition and reproduction of a migratory duck

USGS Publications Warehouse

Barboza, P.S.; Jorde, Dennis G.

2002-01-01

We compared food intake, body mass and body composition of male and female black ducks (Anas rubripes) during winter (January-March). Birds were fed the same complete diet ad libitum on consecutive days each week without fasting (control; nine male; nine female) or with either short fasts (2 day.week-1; nine male; nine female), or long fasts (4 day.week-1; eleven male; twelve female). We continued treatments through spring (March-May) to measure the effect of intermittent fasts on body mass and egg production. Daily food intake of fasted birds was up to four times that of unfasted birds. Weekly food intake of males was similar among treatments (364 g.kg-1.week-1) but fasted females consumed more than unfasted females in January (363 g.kg-1.week-1 vs. 225 g.kg-1.week-1). Although both sexes lost 10-14% body mass, fasted females lost less mass and lipid than unfasted females during winter. Total body nitrogen was conserved over winter in both sexes even though the heart and spleen lost mass while the reproductive tract and liver gained mass. Intermittent fasting increased liver, intestinal tissue and digesta mass of females but not of males. Fasting delayed egg production in spring but did not affect size, fertility or hatching of the clutch. Females on long fasts were still heavier than controls after laying eggs. Thus black ducks combine flexibility of food intake with plasticity of digestive tract, liver and adipose tissue when food supply is interrupted during winter. Females modulate body mass for survival and defer reproduction when food supply is interrupted in spring.

Euryhaline pufferfish NBCe1 differs from nonmarine species NBCe1 physiology

PubMed Central

Plata, Consuelo; Kurita, Yukihiro; Kato, Akira; Hirose, Shigehisa; Romero, Michael F.

2012-01-01

Marine fish drink seawater and eliminate excess salt by active salt transport across gill and gut epithelia. Euryhaline pufferfish (Takifugu obscurus, mefugu) forms a CaCO3 precipitate on the luminal gut surface after transitioning to seawater. NBCe1 (Slc4a4) at the basolateral membrane of intestinal epithelial cell plays a major role in transepithelial intestinal HCO3− secretion and is critical for mefugu acclimation to seawater. We assayed fugu-NBCe1 (fNBCe1) activity in the Xenopus oocyte expression system. Similar to NBCe1 found in other species, fNBCe1 is an electrogenic Na+/HCO3− cotransporter and sensitive to the stilbene inhibitor DIDS. However, our experiments revealed several unique and distinguishable fNBCe1 transport characteristics not found in mammalian or other teleost NBCe1-orthologs: electrogenic Li+/nHCO3− cotransport; HCO3− independent, DIDS-insensitive transport; and increased basal intracellular Na+ accumulation. fNBCe1 is a voltage-dependent Na+/nHCO3− cotransporter that rectifies, independently from the extracellular Na+ or HCO3− concentration, around −60 mV. Na+ removal (0Na+ prepulse) is necessary to produce the true HCO3−-elicited current. HCO3− addition results in huge outward currents with quick current decay. Kinetic analysis of HCO3− currents reveals that fNBCe1 has a much higher transport capacity (higher maximum current) and lower affinity (higher Km) than human kidney NBCe1 (hkNBCe1) does in the physiological range (membrane potential = −80 mV; [HCO3−] = 10 mM). In this state, fNBCe1 is in favor of operating as transepithelial HCO3− secretion, opposite of hkNBCe1, from blood to the luminal side. Thus, fugu-NBCe1 represents the first ortholog-based tool to study amino acid substitutions in NBCe1 and how those change ion and voltage dependence. PMID:22159080

Description and identification of American Black Duck, Mallard, and hybrid wing plumage

USGS Publications Warehouse

Kirby, R.E.; Reed, A.; Dupuis, P.; Obrecht, H.H.; Quist, W.J.

2000-01-01

We developed a key to identify wings of hybrids between American Black Ducks (Anas rubripes) and Mallards (A. platyrhynchos). Material for analysis included review of historical descriptions dating from the late 1700's, older museum collections in Europe and North America, wings collected from hunters in North America and Great Britain, birds banded in Canada and the United States, and a flock of propagated hybrids. All first filial generation (F1) American Black Duck x Mallard hybrids were identified correctly with the key. A lower proportion of other hybrid cohorts (i.e., backcrosses of F1, to parental forms (P1), and second and third filial generations (F2, F3, etc.) were identified. We successfully identified a larger portion of male than female hybrids for all hybrid progeny cohorts examined except F1. The new key identified 2.37 times more hybrids in the 1977 U.S. Fish and Wildlife Service Parts Collection Survey (annual determination of the species, age, and sex composition of the waterfowl harvest using detached wings contributed by hunters) than were identified by standard techniques. The proportion of American Black Duck x Mallard hybrids to the American Black Duck parental population (the ratio: hybrids/[hybrids + American Black Ducks]) may therefore be closer to 0.132 than 0.056, the historically reported value. The hybrid key is suggested for use from North Carolina north in the Atlantic Flyway and Arkansas and Tennessee north in the Mississippi Flyway (areas where other members of the Mallard group will not confound assessment). We provide suggestions for further research that would assist identification of wings in parts collection surveys and permit estimation of the proportional representation of Mallard genes in the American Black Duck gene pool.

Hierarchical model analysis of the Atlantic Flyway Breeding Waterfowl Survey

USGS Publications Warehouse

Sauer, John R.; Zimmerman, Guthrie S.; Klimstra, Jon D.; Link, William A.

2014-01-01

We used log-linear hierarchical models to analyze data from the Atlantic Flyway Breeding Waterfowl Survey. The survey has been conducted by state biologists each year since 1989 in the northeastern United States from Virginia north to New Hampshire and Vermont. Although yearly population estimates from the survey are used by the United States Fish and Wildlife Service for estimating regional waterfowl population status for mallards (Anas platyrhynchos), black ducks (Anas rubripes), wood ducks (Aix sponsa), and Canada geese (Branta canadensis), they are not routinely adjusted to control for time of day effects and other survey design issues. The hierarchical model analysis permits estimation of year effects and population change while accommodating the repeated sampling of plots and controlling for time of day effects in counting. We compared population estimates from the current stratified random sample analysis to population estimates from hierarchical models with alternative model structures that describe year to year changes as random year effects, a trend with random year effects, or year effects modeled as 1-year differences. Patterns of population change from the hierarchical model results generally were similar to the patterns described by stratified random sample estimates, but significant visibility differences occurred between twilight to midday counts in all species. Controlling for the effects of time of day resulted in larger population estimates for all species in the hierarchical model analysis relative to the stratified random sample analysis. The hierarchical models also provided a convenient means of estimating population trend as derived statistics from the analysis. We detected significant declines in mallard and American black ducks and significant increases in wood ducks and Canada geese, a trend that had not been significant for 3 of these 4 species in the prior analysis. We recommend using hierarchical models for analysis of the Atlantic

Modeling movement and fidelity of American black ducks

USGS Publications Warehouse

Zimpfer, N.L.; Conroy, M.J.

2006-01-01

Spatial relationships among stocks of breeding waterfowl can be an important component of harvest management. Prediction and optimal harvest management under adaptive harvest management (AHM) requires information on the spatial relationships among breeding populations (fidelity and inter-year exchange), as well as rates of movements from breeding to harvest regions. We used band-recovery data to develop a model to estimate probabilities of movement for American black ducks (Anas rubripes) among 3 Canadian breeding strata and 6 harvest regions (3 in Canada, and 3 in the United States) over the period 1965-1998. Model selection criteria suggested that models containing area-, year-, and age-specific recovery rates with area- and sex-specific movement rates were the best for modeling movement. Movement by males to southern harvest areas was variable depending on the originating area. Males from the western breeding area predominantly moved to the Mississippi Flyway or southern Atlantic Flyway (??ij = 0.353, SE = 0.0187 and ??ij = 0.473, SE = 0.037, respectively), whereas males that originated in the eastern and central breeding strata moved to the northern Atlantic flyway (??ij = 0.842, SE = 0.010 and ??ij = 0.578, SE = 0.0222, respectively). We used combined recoveries and recaptures in Program MARK to estimate fidelity to the 3 Canadian breeding strata. Information criteria identified a model containing sex- and age-specific fidelity for black ducks. Estimates of fidelity were 0.9695 (SE = 0.0249) and 0.9554 (SE = 0.0434) for adult males and females, respectively. Estimates of fidelity for juveniles were slightly lower at 0.9210 (SE = 0.0931) and 0.8870 (SE = 0.0475) for males and females, respectively. These models have application to the development of spatially stratified black duck harvest management models for use in AHM.

Hybrid and Rogue Kinases Encoded in the Genomes of Model Eukaryotes

PubMed Central

Rakshambikai, Ramaswamy; Gnanavel, Mutharasu; Srinivasan, Narayanaswamy

2014-01-01

The highly modular nature of protein kinases generates diverse functional roles mediated by evolutionary events such as domain recombination, insertion and deletion of domains. Usually domain architecture of a kinase is related to the subfamily to which the kinase catalytic domain belongs. However outlier kinases with unusual domain architectures serve in the expansion of the functional space of the protein kinase family. For example, Src kinases are made-up of SH2 and SH3 domains in addition to the kinase catalytic domain. A kinase which lacks these two domains but retains sequence characteristics within the kinase catalytic domain is an outlier that is likely to have modes of regulation different from classical src kinases. This study defines two types of outlier kinases: hybrids and rogues depending on the nature of domain recombination. Hybrid kinases are those where the catalytic kinase domain belongs to a kinase subfamily but the domain architecture is typical of another kinase subfamily. Rogue kinases are those with kinase catalytic domain characteristic of a kinase subfamily but the domain architecture is typical of neither that subfamily nor any other kinase subfamily. This report provides a consolidated set of such hybrid and rogue kinases gleaned from six eukaryotic genomes–S.cerevisiae, D. melanogaster, C.elegans, M.musculus, T.rubripes and H.sapiens–and discusses their functions. The presence of such kinases necessitates a revisiting of the classification scheme of the protein kinase family using full length sequences apart from classical classification using solely the sequences of kinase catalytic domains. The study of these kinases provides a good insight in engineering signalling pathways for a desired output. Lastly, identification of hybrids and rogues in pathogenic protozoa such as P.falciparum sheds light on possible strategies in host-pathogen interactions. PMID:25255313

Disentangling density-dependent dynamics using full annual cycle models and Bayesian model weight updating

USGS Publications Warehouse

Robinson, Orin J.; McGowan, Conor P.; Devers, Patrick K.

2017-01-01

Density dependence regulates populations of many species across all taxonomic groups. Understanding density dependence is vital for predicting the effects of climate, habitat loss and/or management actions on wild populations. Migratory species likely experience seasonal changes in the relative influence of density dependence on population processes such as survival and recruitment throughout the annual cycle. These effects must be accounted for when characterizing migratory populations via population models.To evaluate effects of density on seasonal survival and recruitment of a migratory species, we used an existing full annual cycle model framework for American black ducks Anas rubripes, and tested different density effects (including no effects) on survival and recruitment. We then used a Bayesian model weight updating routine to determine which population model best fit observed breeding population survey data between 1990 and 2014.The models that best fit the survey data suggested that survival and recruitment were affected by density dependence and that density effects were stronger on adult survival during the breeding season than during the non-breeding season.Analysis also suggests that regulation of survival and recruitment by density varied over time. Our results showed that different characterizations of density regulations changed every 8–12 years (three times in the 25-year period) for our population.Synthesis and applications. Using a full annual cycle, modelling framework and model weighting routine will be helpful in evaluating density dependence for migratory species in both the short and long term. We used this method to disentangle the seasonal effects of density on the continental American black duck population which will allow managers to better evaluate the effects of habitat loss and potential habitat management actions throughout the annual cycle. The method here may allow researchers to hone in on the proper form and/or strength of

Do black ducks and wood ducks habituate to aircraft disturbance?

USGS Publications Warehouse

Conomy, J.T.; Dubovsky, J.A.; Collazo, J.A.; Fleming, W.J.

1998-01-01

Requests to increase military aircraft activity in some training facilities in the United States have raised the need to determine if waterfowl and other wildlife are adversely affected by aircraft disturbance. We hypothesized that habituation was a possible proximate factor influencing the low proportion of free-ranging ducks reacting to military aircraft activities in a training range in coastal North Carolina during winters 1991 and 1992. To test this hypothesis, we subjected captive, wild-strain American black ducks (Anas rubripes) and wood ducks (Aix sponsa) to actual and simulated activities of jet aircraft. In the first experiment, we placed black ducks in an enclosure near the center of aircraft activities on Piney Island, a military aircraft target range in coastal North Carolina. The proportion of times black ducks reacted (e.g., alert posture, fleeing response) to visual and auditory aircraft activity decreased from 38 to 6% during the first 17 days of confinement. Response rates remained stable at 5.8% thereafter. In the second experiment, black ducks and wood ducks were exposed to 6 different recordings of jet noise. The proportion of times black ducks reacted to noise decreased (P 0.05) in time-activity budgets of black ducks between pre-exposure to noise and 24 hr after first exposure. Unlike black ducks, wood duck responses to jet noise did not decrease uniformly among experimental groups following initial exposure to noise (P = 0.01). We conclude that initial exposure to aircraft noise elicits behavioral responses from black ducks and wood ducks. With continued exposure of aircraft noise, black ducks may become habituated. However, wood ducks did not exhibit the same pattern of response, suggesting that the ability of waterfowl to habituate to aircraft noise may be species specific.

Jule from the fish Xiphophorus is the first complete vertebrate Ty3/Gypsy retrotransposon from the Mag family.

PubMed

Volff, J N; Körting, C; Altschmied, J; Duschl, J; Sweeney, K; Wichert, K; Froschauer, A; Schartl, M

2001-02-01

Jule is the second complete long-terminal-repeat (LTR) Ty3/Gypsy retrotransposon identified to date in vertebrates. Jule, first isolated from the poeciliid fish Xiphophorus maculatus, is 4.8 kb in length, is flanked by two 202-bp LTRs, and encodes Gag (structural core protein) and Pol (protease, reverse transcriptase, RNase H, and integrase, in that order) but no envelope. There are three to four copies of Jule per haploid genome in X. maculatus. Two of them are located in a subtelomeric region of the sex chromosomes, where they are associated with the Xmrk receptor tyrosine kinase genes, of which oncogenic versions are responsible for the formation of hereditary melanoma in Xiphophorus. One almost intact copy of Jule was found in the first intron of the X-chromosomal allele of the Xmrk proto-oncogene, and a second, more corrupted copy is present only 56 nt downstream of the polyadenylation signal of the Xmrk oncogene. Jule-related elements were detected by Southern blot hybridization with less than 10 copies per haploid genome in numerous other poeciliids, as well as in more divergent fishes, including the medakafish Oryzias latipes and the tilapia Oreochromis niloticus. Database searches also identified Jule-related sequences in the zebrafish Danio rerio and in both genome project pufferfishes, Fugu rubripes and Tetraodon nigroviridis. Phylogenetic analysis revealed that Jule is the first member of the Mag family of Ty3/Gypsy retrotransposons described to date in vertebrates. This family includes the silkworm Mag and sea urchin SURL retrotransposons, as well as sequences from the nematode Caenorhabditis elegans. Additional related elements were identified in the genomes of the malaria mosquito Anopheles gambiae and the nematode Ascaris lumbricoides. Phylogeny of Mag-related elements suggested that the Mag family of retrotransposons is polyphyletic and is constituted of several ancient lineages that diverged before their host genomes more than 600 MYA.

Description and identification of American Black Duck, Mallard, and hybrid wing plumage

USGS Publications Warehouse

Kirby, Ronald E.; Reed, Austin; Dupuis, Pierre; Obrecht, Holliday H.; Quist, Walter J.

2000-01-01

We developed a key to identify wings of hybrids between American Black Ducks (Anas rubripes) and Mallards (A. platyrhynchos). Material for analysis included review of historical descriptions dating from the late 1700's, older museum collections in Europe and North America, wings collected from hunters in North America and Great Britain, birds banded in Canada and the United States, and a flock of propagated hybrids. All first filial generation (F1) American Black Duck - Mallard hybrids were identified correctly with the key. A lower proportion of other hybrid cohorts (i.e., backcrosses of F1 to parental forms (P1), and second and third filial generations (F2, F3, etc.) were identified. We successfully identified a larger portion of male than female hybrids for all hybrid progeny cohorts examined except F1. The new key identified 2.37 times more hybrids in the 1977 U.S. Fish and Wildlife Service Parts Collection Survey (annual determination of the species, age, and sex composition of the waterfowl harvest using detached wings contributed by hunters) than were identified by standard techniques. The proportion of American Black Duck - Mallard hybrids to the American Black Duck parental population (the ratio: hybrids/[hybrids + American Black Ducks]) may therefore be closer to 0.132 than 0.056, the historically reported value. The hybrid key is suggested for use from North Carolina north in the Atlantic Flyway and Arkansas and Tennessee north in the Mississippi Flyway (areas where other members of the Mallard group will not confound assessment). We provide suggestions for further research that would assist identification of wings in parts collection surveys and permit estimation of the proportional representation of Mallard genes in the American Black Duck gene pool.

Waterbird use of saltmarsh ponds created for open marsh water management

USGS Publications Warehouse

Erwin, R.M.; Hatfield, J.S.; Howe, M.A.; Klugman, S.K.

1994-01-01

Open Marsh Water Management (OMWM) as an alternative to pesticides for mosquito control in saltmarshes along the Atlantic Coast has created debate among biologists. We designed an experiment to determine waterbird (American black duck (Anas rubripes) and other waterfowl, wading birds, shorebirds, gulls, and terns) use (during daylight) of ponds created for mosquito control compared with use of pre-existing water bodies (i.e., natural tidal ponds, creeks, old ditches) and refuge impoundments. We also evaluated the influence of pond size and depth on waterbird use of wetlands. We documented bird use of different habitats for 1 year. The highest densities of waterfowl, in autumn, occurred in 0.030.06ha ponds (P lt 0.05) versus ponds either lt 0.02 ha or gt 0.08 ha; highest shorebird densities occurred in summer in ponds gt 0.10 ha (P lt 0.05). Pond depth affected shorebird and other waterfowl use in some seasons. Comparisons of mean number of birds using created (OMWM) ponds with mean number of birds using other water bodies revealed that most species showed no pattern (P gt 0.05) of disproportionate use versus availability. At high tidal levels, most species groups used OMWM ponds in the marsh more often (P lt 0.05) than other water bodies. Black ducks and other waterfowl used nearby refuge impoundments in higher densities than they did OMWM ponds, for nesting and during autumn-winter (all Ps lt 0.05). Creating small ( lt 0.1 ha) ponds for mosquito control does not enhance waterbird habitat, at least not where large impoundments are in close proximity. We recommend that in areas where OMWM practices seem appropriate, fewer large ( gt 0.10 ha) ponds be constructed with shallow ( lt 15 cm) basins and sloping sides.

Studies on vertical and horizontal transmission of duck plague virus in apparently healthy waterfowl

USGS Publications Warehouse

Burgess, Elizabeth C.

1978-01-01

Healthy waterfowl were found to be carriers of duck plague (DP) virus. Black ducks (Anas rubripes) and Canada geese (Branta canadensis) surviving a natural outbreak of DP at Coloma, Wisconsin, in 1973 yielded DP virus in cloacal swabs taken four years postinfection. Experimental infection of previously unexposed mallard ducks (Anas platyrhynochos) with the Coloma strain of DP virus CO-WI (73) also produced cloacal virus shedding for up to four years after infection. A second DP virus strain, LA-SD (73) from the Lake Andes, South Dakota, epornitic, was detected from cloacal swabs of pintail ducks (Anas acuta), gadwall ducks (Anas strepera), wood ducks (Aix sponsa), and Canada geese infected experimentally one year before. The frequency of swabs positive for DP virus varied between individuals within each of the tested species. The amount of detectable DP virus shed was about 100 plaqueforming units of virus percloacal swab. Oral erosions were present in all species tested except Canada geese and gadwall ducks. Erosions occurred at the openings of the sublingual salivary gland ducts. DP virus was isolated from erosions. All ducks with lesions proved to shed DP virus, although not necessarily at the time they had the lesion. Three pintail ducks treated with dexamethasone for ten days, shed DP virus daily for 19 days after the first day of treatment. These birds also shed DP virus the one time they were tested prior to dexamethosone treatment. An acute lethal outbreak occurred in CO-WI (73) carrier birds. Both DP virus and specific lesions were found in dead birds. The deaths coincided with a change in housing and with the simultaneous introduction of co-housed LA-SD (73) infected ducklings. DP virus was isolated from the chorio-allantoic (CA) fluid of a fourteen day pekin embryo and from five of ten infertile pekin eggs laid by DP carrier birds.

A second generation genetic linkage map of Japanese flounder (Paralichthys olivaceus)

PubMed Central

2010-01-01

Background Japanese flounder (Paralichthys olivaceus) is one of the most economically important marine species in Northeast Asia. Information on genetic markers associated with quantitative trait loci (QTL) can be used in breeding programs to identify and select individuals carrying desired traits. Commercial production of Japanese flounder could be increased by developing disease-resistant fish and improving commercially important traits. Previous maps have been constructed with AFLP markers and a limited number of microsatellite markers. In this study, improved genetic linkage maps are presented. In contrast with previous studies, these maps were built mainly with a large number of codominant markers so they can potentially be used to analyze different families and populations. Results Sex-specific genetic linkage maps were constructed for the Japanese flounder including a total of 1,375 markers [1,268 microsatellites, 105 single nucleotide polymorphisms (SNPs) and two genes]; 1,167 markers are linked to the male map and 1,067 markers are linked to the female map. The lengths of the male and female maps are 1,147.7 cM and 833.8 cM, respectively. Based on estimations of map lengths, the female and male maps covered 79 and 82% of the genome, respectively. Recombination ratio in the new maps revealed F:M of 1:0.7. All linkage groups in the maps presented large differences in the location of sex-specific recombination hot-spots. Conclusions The improved genetic linkage maps are very useful for QTL analyses and marker-assisted selection (MAS) breeding programs for economically important traits in Japanese flounder. In addition, SNP flanking sequences were blasted against Tetraodon nigroviridis (puffer fish) and Danio rerio (zebrafish), and synteny analysis has been carried out. The ability to detect synteny among species or genera based on homology analysis of SNP flanking sequences may provide opportunities to complement initial QTL experiments with candidate gene

Breeding productivity of Smith Island black ducks

USGS Publications Warehouse

Haramis, G.M.; Jorde, Dennis G.; Olsen, Glenn H.; Stotts, D.B.; Harrison, M.K.; Perry, M.C.

2002-01-01

We investigated the breeding performance of American black ducks (Anas rubripes) on Smith Island, Chesapeake Bay, to improve our understanding of island black duck breeding ecology and to make management recommendations to enhance productivity. During 1995-96, we implanted 56 female black ducks with 20-g radio transmitters and tracked 35 of the individuals through the breeding season to locate nests, determine nest fate, and identify brood habitat. We also increased preseason banding efforts and compared capture characteristics over 12 years with those from the Deal Island Wildlife Management Area, a banding site on the mainland of Tangier Sound. A low rate of nesting (37%), lack of renesting, and poor hatching success (31%) indicated that island salt marsh habitats present a harsh environment for breeding black ducks. Black ducks located 11 of 13 nests (85%) in black needlerush (Juncus roemerianus) marsh where they were vulnerable to flooding from extreme tides and to egg predators. No nests were found on forested tree hammocks, a feature that distinguishes Smith Island from nearby South Marsh and Bloodsworth Islands. Nest predators included red foxes (Vulpes vulpes), herring gulls (Larus argentams), fish crows (Corvus ossifragus), and, potentially, Norway rats (Rattus norvegicus). Unlike mainland red foxes, foxes radio tracked on Smith Island were found to be capable swimmers and effective low marsh predators. We found shoreline meadows of widgeon grass (Ruppia maritima) to be important foraging sites for black ducks and suspected that the virtual absence of fresh water in this high salinity environment (1217+ ppt) to incur some cost in terms of growth and survival of ducklings. Preseason bandings revealed a high proportion of banded adults and a strong positive correlation in age ratios with the Deal Island banding site. This latter finding strongly suggests a negative universal effect of storm tides on nest success for Tangier Sound black ducks. Management to

Identification and correction of abnormal, incomplete and mispredicted proteins in public databases.

PubMed

Nagy, Alinda; Hegyi, Hédi; Farkas, Krisztina; Tordai, Hedvig; Kozma, Evelin; Bányai, László; Patthy, László

2008-08-27

Despite significant improvements in computational annotation of genomes, sequences of abnormal, incomplete or incorrectly predicted genes and proteins remain abundant in public databases. Since the majority of incomplete, abnormal or mispredicted entries are not annotated as such, these errors seriously affect the reliability of these databases. Here we describe the MisPred approach that may provide an efficient means for the quality control of databases. The current version of the MisPred approach uses five distinct routines for identifying abnormal, incomplete or mispredicted entries based on the principle that a sequence is likely to be incorrect if some of its features conflict with our current knowledge about protein-coding genes and proteins: (i) conflict between the predicted subcellular localization of proteins and the absence of the corresponding sequence signals; (ii) presence of extracellular and cytoplasmic domains and the absence of transmembrane segments; (iii) co-occurrence of extracellular and nuclear domains; (iv) violation of domain integrity; (v) chimeras encoded by two or more genes located on different chromosomes. Analyses of predicted EnsEMBL protein sequences of nine deuterostome (Homo sapiens, Mus musculus, Rattus norvegicus, Monodelphis domestica, Gallus gallus, Xenopus tropicalis, Fugu rubripes, Danio rerio and Ciona intestinalis) and two protostome species (Caenorhabditis elegans and Drosophila melanogaster) have revealed that the absence of expected signal peptides and violation of domain integrity account for the majority of mispredictions. Analyses of sequences predicted by NCBI's GNOMON annotation pipeline show that the rates of mispredictions are comparable to those of EnsEMBL. Interestingly, even the manually curated UniProtKB/Swiss-Prot dataset is contaminated with mispredicted or abnormal proteins, although to a much lesser extent than UniProtKB/TrEMBL or the EnsEMBL or GNOMON-predicted entries. MisPred works efficiently in

Avian metapneumovirus subtype C in Wild Waterfowl in Ontario, Canada.

PubMed

Jardine, C M; Parmley, E J; Buchanan, T; Nituch, L; Ojkic, D

2018-02-18

Avian metapneumovirus (aMPV) is an emerging poultry pathogen that has a significant economic impact on poultry production worldwide. The geographic range of the virus continues to expand, and wild birds have been implicated as reservoirs of aMPV that have the potential to spread the virus over long distances. Our objective was to determine the apparent prevalence of aMPV subtype C in wild waterfowl in Ontario, Canada. Wild waterfowl were captured in August and September, 2016 as part of routine migratory waterfowl population monitoring by the Ontario Ministry of Natural Resources and Forestry. Oropharyngeal and cloacal swabs were collected from each bird and placed together for aMPV testing using real-time RT-PCR. A total of 374 live wild birds from 23 lakes were sampled and tested for aMPV. Among all ducks tested, 84 (22%) were positive for aMPV. The proportion of samples that tested positive ranged from 0% in ring-necked ducks (Aythya collaris) and green-winged teal (Anas carolinensis) to 44% (8 of 18) in American black ducks (A. rubripes). Waterfowl positive for aMPV were found at 14 of 23 lakes in the study area and the percent positive at these 14 lakes ranged between 5% and 84%. Although subtype C aMPV has been detected in a variety of wild birds in North America, this is the first report of aMPV in wild ducks in Ontario, Canada. The high apparent prevalence, particularly in mallards and American black ducks (37 and 44%, respectively), suggests that these species may be important reservoirs of aMPV. Given the potential impact of aMPV on domestic poultry and the potential role of wild birds as reservoirs of the virus, further investigation of the geographic distribution, risk factors associated with aMPV carriage in wild waterfowl and potential role of other birds in the epidemiology of aMPV in Canada is warranted. © 2018 Blackwell Verlag GmbH.

An empirical evaluation of landscape energetic models: Mallard and American black duck space use during the non-breeding period

USGS Publications Warehouse

Beatty, William S.; Webb, Elisabeth B.; Kesler, Dylan C.; Naylor, Luke W.; Raedeke, Andrew H.; Humburg, Dale D.; Coluccy, John M.; Soulliere, G.

2015-01-01

Bird conservation Joint Ventures are collaborative partnerships between public agencies and private organizations that facilitate habitat management to support waterfowl and other bird populations. A subset of Joint Ventures has developed energetic carrying capacity models (ECCs) to translate regional waterfowl population goals into habitat objectives during the non-breeding period. Energetic carrying capacity models consider food biomass, metabolism, and available habitat to estimate waterfowl carrying capacity within an area. To evaluate Joint Venture ECCs in the context of waterfowl space use, we monitored 33 female mallards (Anas platyrhynchos) and 55 female American black ducks (A. rubripes) using global positioning system satellite telemetry in the central and eastern United States. To quantify space use, we measured first-passage time (FPT: time required for an individual to transit across a circle of a given radius) at biologically relevant spatial scales for mallards (3.46 km) and American black ducks (2.30 km) during the non-breeding period, which included autumn migration, winter, and spring migration. We developed a series of models to predict FPT using Joint Venture ECCs and compared them to a biological null model that quantified habitat composition and a statistical null model, which included intercept and random terms. Energetic carrying capacity models predicted mallard space use more efficiently during autumn and spring migrations, but the statistical null was the top model for winter. For American black ducks, ECCs did not improve predictions of space use; the biological null was top ranked for winter and the statistical null was top ranked for spring migration. Thus, ECCs provided limited insight into predicting waterfowl space use during the non-breeding season. Refined estimates of spatial and temporal variation in food abundance, habitat conditions, and anthropogenic disturbance will likely improve ECCs and benefit conservation planners

Differentiation of chondrocytes and scleroblasts during dorsal fin skeletogenesis in flounder larvae.

PubMed

Suzuki, Tohru; Haga, Yutaka; Takeuchi, Toshio; Uji, Susumu; Hashimoto, Hisashi; Kurokawa, Tadahide

2003-01-01

msxb-positive cells in pufferfish, Fugu rubripes, embryos. That the positive cells commonly arrive at the proximal part of the fin fold does not contradict the suggestion, but their final destiny as radial chondrocytes or lepidotrichia scleroblasts, should be further investigated.

Profiles of alpha-melanocyte-stimulating hormone in the Japanese flounder as revealed by a newly developed time-resolved fluoroimmunoassay and immunohistochemistry.

PubMed

Amiya, Noriko; Amano, Masafumi; Takahashi, Akiyoshi; Yamanome, Takeshi; Yamamori, Kunio

2007-03-01

Profiles of alpha-melanocyte-stimulating hormone (alpha-MSH) in the Japanese flounder were examined by a newly developed time-resolved fluoroimmunoassay (TR-FIA) and immunohistochemistry. A TR-FIA for alpha-MSH was newly developed, and its levels in the pituitary gland and plasma of Japanese flounder reared in a white or black tank for 5 months were compared. A competitive assay using two antibodies was performed among secondary antibodies in the solid phase, alpha-MSH antibodies, samples, and europium-labeled Des-Ac-alpha-MSH. The sensitivity of the assay, defined as twice the standard deviation at a zero dose, was 0.98 ng/ml (49 pg/well). The intra- and interassay coefficients of variation of the assay were 8.8% (n=8) and 17.3% (n=5), respectively, at about 50% binding. Cross-reactivities of Des-Ac-alpha-MSH and Di-Ac-alpha-MSH were about 100%. Cross-reactivities of adrenocorticotropic hormone, salmon gonadotropin-releasing hormone (sGnRH), and chicken GnRH-II were less than 0.2%, and that of melanin-concentrating hormone was less than 2.0% at 50% binding. Displacement curves of serially twofold-diluted hypothalamus extract, pituitary gland extract, and plasma extract of Japanese flounder with the assay buffer were parallel to the alpha-MSH standard curve. Moreover, displacement curves of serially twofold-diluted hypothalamus and/or pituitary gland extract of masu salmon, goldfish, red seabream, Japanese eel, tiger puffer, and barfin flounder with the assay buffer were also parallel to the alpha-MSH standard. In Japanese flounder, total immunoreactive (ir)-alpha-MSH levels in the pituitary gland were lower in the black tank, whereas those in the plasma tended to be higher in the black tank, suggesting that the synthesis and release of alpha-MSH are higher in the black tank. alpha-MSH-ir cells were detected in the pars intermedia and a small part of the pars distalis of the pituitary gland. alpha-MSH-ir cell bodies were located in the basal hypothalamus and alpha

Fishers' knowledge on the coast of Brazil.

PubMed

Begossi, Alpina; Salivonchyk, Svetlana; Lopes, Priscila F M; Silvano, Renato A M

2016-06-01

Although fishers' knowledge has been recently considered into management programmes, there is still the need to establish a better understanding of fishers' perceptions and cognition. Fishers can provide novel information on the biology and ecology of species, which can potentially be used in the management of fisheries. The knowledge fishers have and how they classify nature is empirically based. It is common, for example, to observe that fishers' taxonomy is often represented by the generic level, one of the hierarchical categories of folk classification that is somewhat analogous to the Linnean genus, as it groups organisms of a higher rank than the folk species.In this study we compiled the knowledge fishers have on local fish, such as their folk names, diet and habitat. Five coastal communities widely distributed along the Brazilian coast were studied: two from the northeast (Porto Sauípe and Itacimirim, in Bahia State, n of interviewees = 34), two from the southeast (Itaipu at Niterói and Copacabana at Rio de Janeiro, Rio de Janeiro State, n = 35) and one from the south coast (Pântano do Sul, in Santa Catarina State, n = 23). Fish pictures were randomly ordered and the same order was presented to all interviewees (n = 92), when they were then asked about the species name and classification and its habitat and diet preferences. Fishers make clusters of fish species, usually hierarchically; fishers of the coast of Brazil use mostly primary lexemes (generic names) to name fish; and fishers did not differentiate between scientific species, since the same folk generic name included two different scientific species. Fishers provide information on species to which there is scarce or no information on diet and habitat, such as Rhinobatos percellens (chola guitarfish, arraia viola or cação viola), Sphoeroides dorsalis (marbled puffer, baiacu), Mycteroperca acutirostris (comb grouper, badejo) and Dasyatis guttata (longnose stingray, arraia, arraia

Molecular characterization of kappa class glutathione S-transferase from the disk abalone (Haliotis discus discus) and changes in expression following immune and stress challenges.

PubMed

Sandamalika, W M Gayashani; Priyathilaka, Thanthrige Thiunuwan; Liyanage, D S; Lee, Sukkyoung; Lim, Han-Kyu; Lee, Jehee

2018-06-01

Glutathione S-transferase (GST; EC 2.5.1.18) isoenzymes represent a complex group of proteins that are involved in phase II detoxification in several organisms. In this study, GST kappa (GSTκ) from the disk abalone (Haliotis discus discus; AbGSTκ) was characterized at both the transcriptional and functional levels to determine its potential capacity to perform as a detoxification agent under conditions of different stress. The predicted AbGSTκ protein consists of 227 amino acids, with a predicted molecular weight of 25.6 kDa and a theoretical isoelectric point (pI) of 7.78. In silico analysis reveals that AbGSTκ is a disulfide bond formation protein A (DsbA), consisting of a thioredoxin domain, GSH binding sites (G-sites), and a catalytic residue. In contrast, no hydrophobic ligand binding site (H-site), or signal peptides, were detected. AbGSTκ showed the highest sequence identity with the orthologue from pufferfish (Takifugu obscurus) (60.0%). In a phylogenetic tree, AbGSTκ clustered closely together with other fish GSTκs, and was evolutionarily distanced from other cytosolic GSTs. The predicted three-dimensional structure clearly demonstrates that the dimer adopts a butterfly-like shape. A tissue distribution analysis revealed that GSTκ was highly expressed in the digestive tract, suggesting it has detoxification ability. Depending on the tissue and time, AbGSTκ showed different expression patterns, and levels of expression, following challenge of the abalone with immune stimulants. Enzyme kinetics of the purified recombinant proteins demonstrated its conjugating ability using 1-Chloro-2,4-dinitrobenzene (CDNB) and glutathione (GSH) as substrates, and suggested it has a low affinity for both substrates. The optimum temperature and pH for the rAbGSTκ GSH: CDNB conjugating activity were found to be 35 °C and pH 8, respectively indicating that the abalone is well adapted to a wide range of environmental conditions. Cibacron blue (100 μM) was

Sex chromosome diversity in Armenian toad grasshoppers (Orthoptera, Acridoidea, Pamphagidae)

PubMed Central

Bugrov, Alexander G.; Jetybayev, Ilyas E.; Karagyan, Gayane H.; Rubtsov, Nicolay B.

2016-01-01

Abstract Although previous cytogenetic analysis of Pamphagidae grasshoppers pointed to considerable karyotype uniformity among most of the species in the family, our study of species from Armenia has discovered other, previously unknown karyotypes, differing from the standard for Pamphagidae mainly in having unusual sets of sex chromosomes. Asiotmethis turritus (Fischer von Waldheim, 1833), Paranocaracris rubripes (Fischer von Waldheim, 1846), and Nocaracris cyanipes (Fischer von Waldheim, 1846) were found to have the karyotype 2n♂=16+neo-XY and 2n♀=16+neo-XX, the neo-X chromosome being the result of centromeric fusion of an ancient acrocentric X chromosome and a large acrocentric autosome. The karyotype of Paranothrotes opacus (Brunner von Wattenwyl, 1882) was found to be 2n♂=14+X1X2Y and 2n♀=14+X1X1X2X2., the result of an additional chromosome rearrangement involving translocation of the neo-Y and another large autosome. Furthermore, evolution of the sex chromosomes in these species has involved different variants of heterochromatinization and miniaturization of the neo-Y. The karyotype of Eremopeza festiva (Saussure, 1884), in turn, appeared to have the standard sex determination system described earlier for Pamphagidae grasshoppers, 2n♂=18+X0 and 2n♀=18+XX, but all the chromosomes of this species were found to have small second C-positive arms. Using fluorescent in situ hybridization (FISH) with 18S rDNA and telomeric (TTAGG)n DNA repeats to yield new data on the structural organization of chromosomes in the species studied, we found that for most of them, clusters of repeats homologous to 18S rDNA localize on two, three or four pairs of autosomes and on the X. In Eremopeza festiva, however, FISH with labelled 18S rDNA painted C-positive regions of all autosomes and the X chromosome; clusters of telomeric repeats localized primarily on the ends of the chromosome arms. Overall, we conclude that the different stages of neo-Y degradation revealed in

Zygote arrest 1 (Zar1) is an evolutionarily conserved gene expressed in vertebrate ovaries.

PubMed

Wu, Xuemei; Wang, Pei; Brown, Christopher A; Zilinski, Carolyn A; Matzuk, Martin M

2003-09-01

Zygote arrest 1 (ZAR1) is an ovary-specific maternal factor that plays essential roles during the oocyte-to-embryo transition. In mice, the Zar1 mRNA is detected as a 1.4-kilobase (kb) transcript that is synthesized exclusively in growing oocytes. To further understand the functions of ZAR1, we have cloned the orthologous Zar1 cDNA and/or genes for mouse, rat, human, frog, zebrafish, and pufferfish. The entire mouse Zar1 gene and a related pseudogene span approximately 4.0 kb, contain four exons, and map to adjacent loci on mouse chromosome 5. The human ZAR1 orthologous gene similarly consists of four exons and resides on human chromosome 4p12, which is syntenic with the mouse Zar1 chromosomal locus. Rat (Rattus norvegicus) and pufferfish (Fugu rubripes) Zar1 genes were recognized by database mining and deduced protein alignment analysis. The rat Zar1 gene also maps to a region that is syntenic with the mouse Zar1 gene locus on rat chromosome 14. Frog (Xenopus laevis) and zebrafish (Danio rerio) Zar1 orthologs were cloned by reverse transcription-polymerase chain reaction and rapid amplification of cDNA ends analysis of ovarian mRNA. Unlike mouse and human, the frog Zar1 is detected in multiple tissues, including lung, muscle, and ovary. The Zar1 mRNA appears in the cytoplasm of oocytes and persists until the tailbud stage during frog embryogenesis. Mouse, rat, human, frog, zebrafish, and pufferfish Zar1 genes encode proteins of 361, 361, 424, 295, 329, and 320 amino acids, respectively, and share 50.8%-88.1% amino acid identity. Regions of the N-termini of these ZAR1 orthologs show high sequence identity among these various proteins. However, the C-terminal 103 amino acids of these proteins, encoded by exons 2-4, contain an atypical eight-cysteine Plant Homeo Domain motif and are highly conserved, sharing 80.6%-98.1% identity among these species. These findings suggest that the carboxyl-termini of these ZAR1 proteins contain an important functional domain that is

Survival of American Black Ducks radiomarked in Quebec, Nova Scotia and Vermont

USGS Publications Warehouse

Longcore, J.R.; McAuley, D.G.; Clugston, D.A.; Bunck, C.M.; Giroux, J.-F.; Ouellet, C.; Parker, G.R.; Dupuis, P.; Stotts, D.B.; Goldsberry, J.R.

2000-01-01

We monitored survival of 397 radiomarked juvenile American black ducks (Anas rubripes) distributed among Les Escoumins (n = 75) and Kamouraska, Quebec (n = 84), Amherst Point, Nova Scotia (n = 89), and a site on the Vermont-Quebec border (n = 149) during autumn 1990 and 1991. Eighty-six percent (215 of 250) of all confirmed mortalities during the study was from hunting; 72% of marked ducks were shot and retrieved and 14% were shot and unretrieved. We tested for differences in survival in relation to sex, body mass, year (1990-91, 1991-92), and among the 4 locations for each of 2 monitoring periods (early, EMP; late, LMP). With data from the EMP for Vermont-Quebec in 1990 and 1991, Les Escoumins in 1990, and Amherst Point in 1991, survival of hatching-year (HY) males and females did not differ (P = 0.357). For sexes combined for the EMP, survival of ducks was greater in 1991 than 1990 (P = 0.086), and differed among locations (P = 0.013). Survival (years combined) was greater at Amherst Point than at Kamouraska (P = 0.003) and Vermont-Quebec (P = 0.002) during the EMP. The highest survival rate at Amherst Point (0.545 ? 0.056 [SE]) was associated with the latest date (8 Oct) of season opening; the lowest survival rate (0.395 ? 0.043) was at the Vermont-Quebec border, where hunter numbers and activity were greatest. For the LMP, no interaction between years and locations was detected (P = 0.942), and no differences in survival existed between years (P = 0.102) and among locations (P = 0.349). No association was detected between body mass at capture and survival of combined males and females during the EMP (P = 0.572) or during the LMP (P = 0.965). When we censored hunting losses for combined years for each period, EMP or LMP, all survival estimates exceeded 0.800 (0.809-0.965). These data emphasize need for an improved harvest strategy for American black ducks in North America to allow for increases in breeding populations to achieve population goals.

Dynamic use of wetlands by black ducks and mallards: evidence against competitive exclusion

USGS Publications Warehouse

McAuley, D.G.; Clugston, D.A.; Longcore, J.R.

2004-01-01

The decline of the American black duck (Anas rubripes) has been attributed to competition from mallards (A. platyrhynchos) that led to exclusive use of fertile wetlands by mallards. Data from annual breeding waterfowl surveys provide instantaneous, single observations of breeding pairs, which are used to estimate breeding population size and evaluate the condition of habitat. Data from these surveys have been used to document habitat use by black ducks and mallards. We used quiet-observation surveys from elevated platforms to study sympatric black ducks and mallards in northern Maine during the breeding season. Our objectives were to document occupancy of wetlands by breeding black ducks and mallards throughout the day during prenesting and early nesting periods to determine whether 1) wetlands were occupied by only a single species, 2) pairs of the same species occupied wetlands throughout the period, and 3) single observations of short duration adequately determine numbers and species using a wetland. We observed ducks at 5-minute intervals from elevated platforms on wetland margins to determine numbers and species of indicated pairs using each wetland over time. We visited 80% of the wetlands >2 times, with mean total time per wetland averaging 267 minutes. For each wetland we determined the most frequently observed grouping of black ducks and mallards from all combinations recorded during all intervals (e.g., 1 black duck [BO] pair during 9 intervals; 2 mallard [MA] pairs and 1 BO pair during 22 intervals; 0 pairs during 3 intervals). A single pair, a lone male, or no ducks were recorded during 34% of the 5-minute intervals. For wetlands with >2 hours of observations (n=65), all but 2 were used by >2 different combinations of ducks. On most wetlands, the most frequent grouping was observed during 2 hours were used by both species, random visits detected both species on only 27 wetlands. Our data do not support assertions that the mallard has caused the decline

The neurologic effects of noxious marine creatures.

PubMed

Southcott, R V

1975-01-01

The concept of the sea as a source of noxious agents is perhaps not a familiar one to clinical neurologists, judging by the lack of reference to these agents in standard textbooks. Chemical, physiologic, and pharmacologic laboratories are increasingly investigating the properties of marine toxins, finding in them compounds with interesting and novel structures or unusual physiologic effects. Such substances are seen as possible agents for biologic and, more particularly, physiologic research, and as possible sources of new pharmaceuticals. These include hormone-like substances and antiviral or antitumor agents. Despite these specialized developments, which are in large measure a consequence of the technological advances of the present century, the clinician is at times directly concerned with the effects of marine toxic substances. For example, in Japan, puffer fish or tetrodotoxic poisoning is one of the major causes of deaths from food poisoning. Another marine toxin that has caused many explosive outbreaks of food poisoning. with many deaths in various parts of the world, comes from clams or mussels. This toxin, saxitoxin, is produced by species of marine protozoa including Gonyaulax, and is concentrated in filter-feeding molluscs. These two examples were of significant interest in medicine long before the technologic developments of the twentieth century. In the last few decades, entirely new problems of marine intoxication have arisen as a result of marine pollution from the disposal of industrial wastes in the sea. The most striking example of a man-made marine intoxication has been the outbreak of Minamata disease. In Minamata, Japan, the disposal of mercury-contaminated industrial wastes from a plastics factory into an enclosed bay, followed by human consumption of the contaminated fishes, crabs, or shellfish, led to many instances of acute cerebral degeneration. With the increasing exploration of the sea for both pleasure and economic exploitation, which

Stress field modeling of the Carpathian Basin based on compiled tectonic maps

NASA Astrophysics Data System (ADS)

Albert, Gáspár; Ungvári, Zsuzsanna; Szentpéteri, Krisztián

2014-05-01

The estimation of the stress field in the Carpathian Basin is tackled by several authors. Their modeling methods usually based on measurements (borehole-, focal mechanism- and geodesic data) and the result is a possible structural pattern of the region. Our method works indirectly: the analysis is aimed to project a possible 2D stress field over the already mapped/known/compiled lineament pattern. This includes a component-wise interpolation of the tensor-field, which is based on the generated irregular point cloud in the puffer zone of the mapped lineaments. The interpolated values appear on contour and tensor maps, and show the relative stress field of the area. In 2006 Horváth et al. compiled the 'Atlas of the present-day geodynamics of the Pannonian basin'. To test our method we processed the lineaments of the 1:1 500 000 scale 'Map of neotectonic (active) structures' published in this atlas. The geodynamic parameters (i.e. normal, reverse, right- and left lateral strike-slip faults, etc.) of the lines on this map were mostly explained in the legend. We classified the linear elements according to these parameters and created a geo-referenced mapping database. This database contains the polyline sections of the map lineaments as vectors (i.e. line sections), and the directions of the stress field as attributes of these vectors. The directions of the dip-parallel-, strike-parallel- and vertical stress-vectors are calculated from the geodynamical parameters of the line section. Since we created relative stress field properties, the eigenvalues of the vectors were maximized to one. Each point in the point cloud inherits the stress property of the line section, from which it was derived. During the modeling we tried several point-cloud generating- and interpolation methods. The analysis of the interpolated tensor fields revealed that the model was able to reproduce a geodynamic synthesis of the Carpathian Basin, which can be correlated with the synthesis of the

Early Mesozoic cooling from low temperature thermochronology in N Spain and N Africa

NASA Astrophysics Data System (ADS)

Grobe, R.; Alvarez-Marrón, J.; Glasmacher, U. A.; Menéndez-Duarte, R.

2009-04-01

, Volume 94, Issue 2, pp.193-203. Ghorbal, B.; Bertotti, G.; Foeken, J.; Andriessen, P. (2008). Unexpected Jurassic to Neogene vertical movements in ‘stable' parts of NW Africa revealed by low temperature geochronology. Terra Nova, Volume 20, Number 5, October 2008 , pp. 355-363(9). Jourdan, F.; Marzoli, A.; Bertrand, H.; Cosca, M.; Fontignie, D. (2003). The Northernmost CAMP: 40Ar/39Ar Age, petrology and Sr-Nd-Pb isotope geochemistry of the Kerforne Dike, Brittany, France. In: Hames, W.E., McHone, J.G., Renne, P.R., Ruppel, C. (Eds.), The Central Atlantic Magmatic Province: Insights From Fragments of Pangea. AGU, Geophys. Mon., vol. 136, pp. 209-226. Juez-Larré, J. (2003). Post Late Paleozoic tectonothermal evolution of the northeastern margin of Iberia, assessed by fission-track and (U-T)/He analysis: a case history from the Catalan Coastal Ranges. Ph.D. thesis, Free University of Amsterdam. 200 pp. Marzoli, A.; Renne, P.R.; Piccirillo, E.M.; Ernesto, M.; Bellieni, G.; De Min, A. (1999). Extensive 200-million-year-old continental food basalts of the Central Atlantic magmatic province. Science 284, 616-618. Pe-Piper, G.; Jansa, L.F.; Lambert, R.St.-J. (1992). Early Mesozoic magmatism of the Eastern Canadian margin. In: Puffer, J.H., Ragland, P.C. (Eds.), Eastern North American Mesozoic magmatism. Geol. Soc. Am., Spec. Paper, vol. 268, pp. 13-36. Wilson, M. (1997). Thermal evolution of the Central Atlantic passive margins: continental break-up above a Mesozoic super-plume. J. Geol. Soc. (Lond.) 154, 491-495.

High tides and rising seas: potential effects on estuarine waterbirds

USGS Publications Warehouse

Erwin, R.M.; Sanders, G.M.; Prosser, D.J.; Cahoon, D.R.; Greenberg, Russell; Maldonado, Jesus; Droege, Sam; McDonald, M.V.

2006-01-01

Coastal waterbirds are vulnerable to water-level changes especially under predictions of accelerating sea-level rise and increased storm frequency in the next century. Tidal and wind-driven fluctuations in water levels affecting marshes, their invertebrate communities, and their dependent waterbirds are manifested in daily, monthly, seasonal, annual, and supra-annual (e.g., decadal or 18.6-yr) periodicities. Superimposed on these cyclic patterns is a long-term (50?80 yr) increase in relative sea-level rise that varies from about 2?4 + mm/yr along the Atlantic coastline. At five study sites selected on marsh islands from Cape Cod, Massachusetts to coastal Virginia, we monitored marsh elevation changes and flooding, tide variations over time, and waterbird use. We found from longterm marsh core data that marsh elevations at three of five sites may not be sufficient to maintain pace with current sea-level rise. Results of the short-term (3?4 yr) measures using surface elevation tables suggest a more dramatic difference, with marsh elevation change at four of five sites falling below relative sea-level rise. In addition, we have found a significant increase (in three of four cases) in the rate of surface marsh flooding in New Jersey and Virginia over the past 70?80 yr during May?July when waterbirds are nesting on or near the marsh surface. Short-term, immediate effects of flooding will jeopardize annual fecundity of many species of concern to federal and state agencies, most notably American Black Duck (Anas rubripes), Nelson?s Sharp-tailed Sparrow (Ammodramus nelsoni), Saltmarsh Sharp-tailed Sparrow (A. caudacutus), Seaside Sparrow (A. maritima), Coastal Plain Swamp Sparrow (Melospiza georgiana nigrescens), Black Rail (Laterallus jamaicensis), Forster?s Tern (Sterna forsteri), Gull-billed Tern (S. nilotica), Black Skimmer (Rynchops niger), and American Oystercatcher (Haemotopus palliatus). Forster?s Terns are probably most at risk given the large proportion of their

Catalogue of Tenebrionidae (Coleoptera) of North America.

PubMed

Bousquet, Yves; Thomas, Donald B; Bouchard, Patrice; Smith, Aaron D; Aalbu, Rolf L; Johnston, M Andrew; Steiner, Warren E

2017-01-01

[= Blapstinus sulcatus LeConte, 1851]; Blapstinus hospes Casey, 1890 [= Blapstinus vestitus LeConte, 1859]; Notibius reflexus Horn, 1894 [= Conibius opacus (LeConte, 1866)]; Notibius affinis Champion, 1885 [= Conibius rugipes (Champion, 1885)]; Conibius parallelus LeConte, 1851 [= Conibius seriatus LeConte, 1851]; Nocibiotes rubripes Casey, 1895 [= Nocibiotes caudatus Casey, 1895]; Nocibiotes gracilis Casey, 1895 and Nocibiotes acutus Casey, 1895 [= Nocibiotes granulatus (LeConte, 1851)]; Conibius alternatus Casey, 1890 [= Tonibius sulcatus (LeConte, 1851)]; Pedinus suturalis Say, 1824 [= Alaetrinus minimus (Palisot de Beauvois, 1817)]; Menedrio longipennis Motschulsky, 1872 [= Tenebrio obscurus Fabricius, 1792]; Hymenophorus megops Hatch, 1965 and Telesicles magnus Hatch, 1965 [= Hymenorus sinuatus Fall, 1931]; Andrimus concolor Casey, 1891 and Andrimus convergens Casey, 1891 [= Andrimus murrayi (LeConte, 1866)]; Mycetochara marshalli Campbell, 1978 [= Mycetochara perplexata Marshall, 1970]; Phaleria globosa LeConte, 1857 [= Phaleria picta Mannerheim, 1843]. The following subspecies of Trogloderus costatus LeConte, 1879 are given species rank: Trogloderus nevadus La Rivers, 1943, Trogloderus tuberculatus Blaisdell, 1909, and Trogloderus vandykei La Rivers, 1946. The following taxa, previously thought to be junior synonyms, are considered valid: Amphidora Eschscholtz, 1829; Xysta Eschscholtz, 1829; Helops confluens (Casey, 1924). Two new combinations are proposed: Stenomorpha spinimana (Champion, 1892) and Stenomorpha tenebrosa (Champion, 1892) [from the genus Parasida Casey, 1912]. The type species [placed in square brackets] of the following 12 genus-group taxa are designated for the first time: Lagriola Kirsch, 1874 [ Lagriola operosa Kirsch, 1874]; Locrodes Casey, 1907 [ Emmenastus piceus Casey, 1890]; Falacer Laporte, 1840 [ Acanthopus cupreus Laporte, 1840 (= Helops contractus Palisot de Beauvois, 1812)]; Blapylis Horn, 1870 [ Eleodes cordata Eschscholtz, 1829

Catalogue of Tenebrionidae (Coleoptera) of North America

PubMed Central

Bousquet, Yves; Thomas, Donald B.; Bouchard, Patrice; Smith, Aaron D.; Aalbu, Rolf L.; Johnston, M. Andrew; Jr., Warren E. Steiner

2018-01-01

, 1890 [= Blapstinus sulcatus LeConte, 1851]; Blapstinus hospes Casey, 1890 [= Blapstinus vestitus LeConte, 1859]; Notibius reflexus Horn, 1894 [= Conibius opacus (LeConte, 1866)]; Notibius affinis Champion, 1885 [=Conibius rugipes (Champion, 1885)]; Conibius parallelus LeConte, 1851 [= Conibius seriatus LeConte, 1851]; Nocibiotes rubripes Casey, 1895 [=Nocibiotes caudatus Casey, 1895]; Nocibiotes gracilis Casey, 1895 and Nocibiotes acutus Casey, 1895 [=Nocibiotes granulatus (LeConte, 1851)]; Conibius alternatus Casey, 1890 [= Tonibius sulcatus (LeConte, 1851)]; Pedinus suturalis Say, 1824 [= Alaetrinus minimus (Palisot de Beauvois, 1817)]; Menedrio longipennis Motschulsky, 1872 [= Tenebrio obscurus Fabricius, 1792]; Hymenophorus megops Hatch, 1965 and Telesicles magnus Hatch, 1965 [= Hymenorus sinuatus Fall, 1931]; Andrimus concolor Casey, 1891 and Andrimus convergens Casey, 1891 [= Andrimus murrayi (LeConte, 1866)]; Mycetochara marshalli Campbell, 1978 [= Mycetochara perplexata Marshall, 1970]; Phaleria globosa LeConte, 1857 [= Phaleria picta Mannerheim, 1843]. The following subspecies of Trogloderus costatus LeConte, 1879 are given species rank: Trogloderus nevadus La Rivers, 1943, Trogloderus tuberculatus Blaisdell, 1909, and Trogloderus vandykei La Rivers, 1946. The following taxa, previously thought to be junior synonyms, are considered valid: Amphidora Eschscholtz, 1829; Xysta Eschscholtz, 1829; Helops confluens (Casey, 1924). Two new combinations are proposed: Stenomorpha spinimana (Champion, 1892) and Stenomorpha tenebrosa (Champion, 1892) [from the genus Parasida Casey, 1912]. The type species [placed in square brackets] of the following 12 genus-group taxa are designated for the first time: Lagriola Kirsch, 1874 [Lagriola operosa Kirsch, 1874]; Locrodes Casey, 1907 [Emmenastus piceus Casey, 1890]; Falacer Laporte, 1840 [Acanthopus cupreus Laporte, 1840 (= Helops contractus Palisot de Beauvois, 1812)]; Blapylis Horn, 1870 [Eleodes cordata Eschscholtz, 1829