Generalized estimating equation approach for analyzing the effects of metal-derived products on survival and hatching of zebrafish embryos.

Abstract:

:Zebrafish embryos are widely used as a model to monitor the effect of chemicals on their survival and hatching at different time epochs. This experimental design generates longitudinal data in which the observations for a given subject are correlated and they are statistically independent across the subjects. This particular nature of the observations suggests the use of generalized estimating equation (GEE) methodology for performing meaningful statistical analysis. However, it has been observed that the researchers working in this area have been routinely employing statistical methodologies such as analysis of variance (ANOVA) if the data are continuous and logit or probit models if the data are discrete. In our opinion, it is grossly incorrect to use these methods as they do not take into account the correlation structure mentioned above. The sole purpose of this article is to bring out this serious flaw clearly to the attention of the researchers. For illustration, we have studied the effects of two Ayurvedic bhasmas-Tamra bhasma and Suwarnamakshik bhasma-on survival and hatching of zebrafish embryos over certain time duration. The statistical analysis using GEE reveals a weak promotional effect of Suwarnamakshik bhasma and an inhibitory effect of Tamra bhasma on hatching.

journal_name

Zebrafish

journal_title

Zebrafish

authors

Aparna C,Sanjeev S,Ajit J,Shantaram K,Jayesh B,Suresh AK

doi

10.1089/zeb.2013.0921

subject

Has Abstract

pub_date

2014-08-01 00:00:00

pages

353-64

issue

4

eissn

1545-8547

issn

1557-8542

journal_volume

11

pub_type

杂志文章
  • Intestinal Transit Time and Cortisol-Mediated Stress in Zebrafish.

    abstract::Intestinal motility, the spontaneous and rhythmic smooth muscle contraction, is a complex process that is regulated by overlapping and redundant regulatory mechanisms. Primary regulators intrinsic to the gastrointestinal tract include interstitial cells of Cajal, enteric neurons, and smooth muscle cells. Extrinsic pri...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2017.1440

    authors: Brady C,Denora M,Shannon I,Clark KJ,Rich A

    更新日期:2017-10-01 00:00:00

  • Zebrafish: modeling for herpes simplex virus infections.

    abstract::For many years, zebrafish have been the prototypical model for studies in developmental biology. In recent years, zebrafish has emerged as a powerful model system to study infectious diseases, including viral infections. Experiments conducted with herpes simplex virus type-1 in adult zebrafish or in embryo models are ...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2013.0920

    authors: Antoine TE,Jones KS,Dale RM,Shukla D,Tiwari V

    更新日期:2014-02-01 00:00:00

  • Targeted overexpression of CKI-insensitive cyclin-dependent kinase 4 increases functional β-cell number through enhanced self-replication in zebrafish.

    abstract::β-Cells of the islet of Langerhans produce insulin to maintain glucose homeostasis. Self-replication of β-cells is the predominant mode of postnatal β-cell production in mammals, with about 20% of rodent β cells dividing in a 24-hour period. However, replicating β-cells are rare in adults. Induction of self-replicatio...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2012.0816

    authors: Li M,Maddison LA,Crees Z,Chen W

    更新日期:2013-06-01 00:00:00

  • Materials for zebrafish research outreach activities in National Institute for Environmental Studies, Japan.

    abstract::To promote application of the fruits of zebrafish research, we need to cultivate understanding of the use of zebrafish not only in the research community but also among the general public. On Open Days at our institute, the National Institute for Environmental Studies (NIES), our zebrafish group exhibits our research ...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2008.0565

    authors: Aoki Y

    更新日期:2009-06-01 00:00:00

  • Histological and Transcriptomic Changes in Male Zebrafish Testes Due to Early Life Exposure to Low Level 2,3,7,8-Tetrachlorodibenzo-p-Dioxin.

    abstract::We have shown that zebrafish (Danio rerio) are an excellent model for evaluating the link between early life stage exposure to environmental chemicals and disease in adulthood and subsequent unexposed generations. Previously, we used this model to identify transgenerational effects of dioxin (2,3,7,8-tetrachlorodibenz...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2016.1275

    authors: Baker BB,Yee JS,Meyer DN,Yang D,Baker TR

    更新日期:2016-10-01 00:00:00

  • Fasted zebrafish mimic genetic and physiological responses in mammals: a model for obesity and diabetes?

    abstract::With worldwide rates of obesity and type-II diabetes increasing, it is essential to identify and understand the mechanisms involved during nutrient absorption and fuel allocation. Recent studies demonstrate that nutrients (e.g., lipids and carbohydrates) play a major regulatory role in gene transcription of glycolytic...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2011.0702

    authors: Craig PM,Moon TW

    更新日期:2011-09-01 00:00:00

  • 10th European Zebrafish Meeting 2017, Budapest: Husbandry Workshop Summary.

    abstract::A husbandry workshop on July 3, 2017, at the 10th European Zebrafish Meeting in Budapest, Hungary (July 3-July 7, 2017), focused on the standardization, optimization, and streamlining of fish facility procedures. Standardization can be achieved for example by developing novel software and hardware tools, such as a fis...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2017.1548

    authors: Oltová J,Barton C,Certal AC,Argenton F,Varga ZM

    更新日期:2018-04-01 00:00:00

  • An Open-Source Husbandry Repository.

    abstract::Electronic databases provide effective and efficient management of zebrafish colony operations, but commercially available options are expensive. In this study we have developed a free zebrafish management repository alternative using free Google applications. Husbandry information is logged into a Google Sheets-based...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2018.1583

    authors: LaCoursiere CM,Ullmann JFP,Poduri A

    更新日期:2018-12-01 00:00:00

  • Analysis of the Uptake, Metabolism, and Behavioral Effects of Cannabinoids on Zebrafish Larvae.

    abstract::The Cannabis sativa plant contains numerous phytocannabinoids and terpenes with known or potential biological activity. For decades, plant breeders have been breeding the Cannabis plant to control for a desired ratio of the major cannabinoids. A high-throughput in vivo model to understand the relationship between the ...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2017.1541

    authors: Achenbach JC,Hill J,Hui JPM,Morash MG,Berrue F,Ellis LD

    更新日期:2018-08-01 00:00:00

  • Cryptic speciation within the Neotropical cichlid Geophagus brasiliensis (Quoy & Gaimard, 1824) (Teleostei Cichlidae): a new paradigm in karyotypical and molecular evolution.

    abstract::The family Cichlidae is one of the most species-rich taxa in the Neotropics. However, the factors that determine these high levels of biodiversity remain unexplored. We have analyzed the morphological, cytogenetic, and molecular data from 62 specimens of a widespread cichlid, Geophagus brasiliensis, from three adjacen...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2014.0999

    authors: Alves-Silva AP,Dergam JA

    更新日期:2015-02-01 00:00:00

  • Germplasm cryobanking in zebrafish and other aquarium model species.

    abstract::During the last few years zebrafish and other aquarium fish have become more important model system species. In zebrafish valuable biotechnological lines are constantly emerging, and the creation of cryobanks of viable fish sperm, oocytes, and embryos from those lines is a constant and important demand. Cryopreservati...

    journal_title:Zebrafish

    pub_type: 杂志文章,评审

    doi:10.1089/zeb.2009.0592

    authors: Robles V,Cabrita E,Herráez MP

    更新日期:2009-09-01 00:00:00

  • Investigator profile. An interview with Pamela Raymond, Ph.D. Interview by Vicki Glaser.

    abstract::Pamela Raymond received her B.S., M.S., and Ph.D. degrees from the University of Michigan. She is currently Professor of Molecular, Cellular, and Developmental Biology in the College of Literature, Science, and the Arts at the University of Michigan. She has held academic appointments at Harvard Medical School and the...

    journal_title:Zebrafish

    pub_type: 面试

    doi:10.1089/zeb.2005.2.157

    authors: Raymond P

    更新日期:2005-01-01 00:00:00

  • A student team in a University of Michigan biomedical engineering design course constructs a microfluidic bioreactor for studies of zebrafish development.

    abstract::The zebrafish is a valuable model for teaching developmental, molecular, and cell biology; aquatic sciences; comparative anatomy; physiology; and genetics. Here we demonstrate that zebrafish provide an excellent model system to teach engineering principles. A seven-member undergraduate team in a biomedical engineering...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2008.0572

    authors: Shen YC,Li D,Al-Shoaibi A,Bersano-Begey T,Chen H,Ali S,Flak B,Perrin C,Winslow M,Shah H,Ramamurthy P,Schmedlen RH,Takayama S,Barald KF

    更新日期:2009-06-01 00:00:00

  • In Vivo Determination of Body Composition in Zebrafish (Danio rerio) by Quantitative Magnetic Resonance.

    abstract::Zebrafish (Danio rerio) as a model research organism continues to expand its relevance and role in multiple research disciplines, with recent work directed toward models of metabolism, nutrition, and energetics. Multiple technologies exist to assess body composition in animal research models at various levels of detai...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2015.1157

    authors: Fowler LA,Dennis LN,Barry RJ,Powell ML,Watts SA,Smith DL Jr

    更新日期:2016-06-01 00:00:00

  • Todralazine protects zebrafish from lethal effects of ionizing radiation: role of hematopoietic cell expansion.

    abstract::The Johns Hopkins Clinical Compound Library (JHCCL), a collection of Food and Drug Administration (FDA)-approved small molecules (1400), was screened in silico for identification of novel β2AR blockers and tested for hematopoietic stem cell (HSC) expansion and radioprotection in zebrafish embryos. Docking studies, fol...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2014.0992

    authors: Dimri M,Joshi J,Chakrabarti R,Sehgal N,Sureshbabu A,Kumar IP

    更新日期:2015-02-01 00:00:00

  • Zebrafish Transcription Factor ORFeome for Gene Discovery and Regulatory Network Elucidation.

    abstract::The completion of the zebrafish genome sequence and advances in miniaturization and multiplexing were essential to the creation of techniques such as RNA-seq, ChIP-seq, and high-throughput behavioral and chemical screens. Multiplexing was also instrumental in the recent enhancement of the classic yeast one-hybrid inte...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2017.1486

    authors: King J,Foster J,Davison JM,Rawls JF,Breton G

    更新日期:2018-04-01 00:00:00

  • Low-cost aquatic lab animal holding system.

    abstract::We have constructed a low-cost aquatic animal holding system that provides an alternative to expensive, commercially available systems. Our flow-through system is especially useful for programs that are limited in space and funding. The easy assembly and maintenance of the system are advantages for the researchers who...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2006.0501

    authors: Hohn C,Petrie-Hanson L

    更新日期:2007-07-01 00:00:00

  • CRISPR Guide RNA Validation In Vitro.

    abstract::Clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 has been applied to edit genomes in a wide variety of model systems. Although this process can be quite efficient, editing at precise locations in the genome remains difficult without a suitable single guide RNA (sgRNA). We have developed a method...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2016.1358

    authors: Grainger S,Lonquich B,Oon CH,Nguyen N,Willert K,Traver D

    更新日期:2017-08-01 00:00:00

  • Standardized Welfare Terms for the Zebrafish Community.

    abstract::Managing the welfare of laboratory animals is critical to animal health, vital in the understanding of phenotypes created by treatment or genetic alteration and ensures compliance of regulations. Part of an animal welfare assessment is the requirement to record observations, ensuring all those responsible for the anim...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2016.1248

    authors: Goodwin N,Karp NA,Blackledge S,Clark B,Keeble R,Kovacs C,Murray KN,Price M,Thompson P,Bussell J

    更新日期:2016-07-01 00:00:00

  • Zebrafish in Brazilian Science: Scientific Production, Impact, and Collaboration.

    abstract::By means of scientometric indicators, this study investigated the characteristics of scientific production and research collaboration involving zebrafish (Danio rerio) in Brazilian Science indexed by the Web of Science (WoS). Citation data were collected from the WoS and data regarding Impact Factor (IF) were gathered...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2015.1183

    authors: Gheno EM,Rosemberg DB,Souza DO,Calabró L

    更新日期:2016-06-01 00:00:00

  • Computer Animation Technology in Behavioral Sciences: A Sequential, Automatic, and High-Throughput Approach to Quantifying Personality in Zebrafish (Danio rerio).

    abstract::An emergent field of animal personality necessitates a method for repeated high-throughput quantification of behavioral traits across contexts. In this study, we have developed an automated video stimulus approach to sequentially present different contexts relevant to five "personality" traits (exploration, boldness, ...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2017.1532

    authors: Fangmeier ML,Noble DWA,O'Dea RE,Usui T,Lagisz M,Hesselson D,Nakagawa S

    更新日期:2018-04-01 00:00:00

  • Report of the 4th European Zebrafish Principal Investigator Meeting.

    abstract::The European Zebrafish Principal Investigator Meeting (EZPM) is an ideal forum for group leaders using this fantastic animal model not only to discuss science but also to strengthen their interactions, to push forward technological advances, and to define guidelines for the use of this fish in research. The city of Li...

    journal_title:Zebrafish

    pub_type:

    doi:10.1089/zeb.2016.1364

    authors: Lopes SS,Distel M,Linker C,Fior R,Monteiro R,Bianco IH,Portugues R,Strähle U,Saúde L

    更新日期:2016-12-01 00:00:00

  • Exploring differential gene expression in zebrafish to teach basic molecular biology skills.

    abstract::In an effort to engage students in original research while teaching them basic molecular biology skills, we have designed a course for upper level undergraduate students and beginning graduate students that employs in situ hybridization in whole-mount zebrafish embryos to explore the concept of differential gene regul...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2008.0574

    authors: Schmoldt A,Forecki J,Hammond DR,Udvadia AJ

    更新日期:2009-06-01 00:00:00

  • Preliminary evidence of the contribution of the intestinal microflora to biotin supply in zebrafish Danio rerio (Hamilton-Buchanan).

    abstract::A study was conducted to preliminarily assess the contribution of the intestinal microflora to biotin supply in zebrafish. Biotin and avidin were added to three isonitrogenous and isocaloric purified diets to provide molar avidin: biotin ratios of 0:0 (basal diet), 0:1 (biotin-supplemented diet), and 120:0. Another di...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2011.0706

    authors: Yossa R,Sarker PK,Vandenberg GW

    更新日期:2011-12-01 00:00:00

  • A Tol2 Gateway-Compatible Toolbox for the Study of the Nervous System and Neurodegenerative Disease.

    abstract::Currently there is a lack in fundamental understanding of disease progression of most neurodegenerative diseases, and, therefore, treatments and preventative measures are limited. Consequently, there is a great need for adaptable, yet robust model systems to both investigate elementary disease mechanisms and discover ...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2016.1321

    authors: Don EK,Formella I,Badrock AP,Hall TE,Morsch M,Hortle E,Hogan A,Chow S,Gwee SS,Stoddart JJ,Nicholson G,Chung R,Cole NJ

    更新日期:2017-02-01 00:00:00

  • Zebrafish in the tropical One-North.

    abstract::The zebrafish had landed in Singapore as an ornamental fish long before it became a fashionable model of scientific research. By the early 1990s, however, it became a part of the local scientific landscape. During the past decade the number of groups using zebrafish as a research model increased dramatically. In June ...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2005.1.327

    authors: You MS,Korzh V

    更新日期:2005-01-01 00:00:00

  • Visual behavior in zebrafish.

    abstract::The zebrafish mainly uses the sense of light to hunt for food and avoid predators. This reliance on vision necessitates the rapid development of the visual system. Therefore the early larva already exhibits a number of visually- mediated behaviors that can be used for a genetic analysis of vision. The present article ...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2006.3.191

    authors: Fleisch VC,Neuhauss SC

    更新日期:2006-01-01 00:00:00

  • The zebrafish embryo: a powerful model system for investigating matrix remodeling.

    abstract::Extracellular matrix (ECM) remodeling is a process that is crucial to the development of embryos, the growth and metastasis of tumors, and wound healing and homeostasis of tissues in adults. As such, it involves dozens of gene products that are regulated by mechanisms operating at transcriptional and multiple posttran...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2009.0609

    authors: Wyatt RA,Keow JY,Harris ND,Haché CA,Li DH,Crawford BD

    更新日期:2009-12-01 00:00:00

  • Efficient shRNA-mediated inhibition of gene expression in zebrafish.

    abstract::Despite the broad repertoire of loss of function (LOF) tools available for use in the zebrafish, there remains a need for a simple and rapid method that can inhibit expression of genes at later stages. RNAi would fulfill that role, and a previous report (Dong et al. 2009) provided encouraging data. The goal of this st...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2012.0770

    authors: De Rienzo G,Gutzman JH,Sive H

    更新日期:2012-09-01 00:00:00

  • Zebrafish (Danio rerio) as a Model for Understanding the Process of Caudal Fin Regeneration.

    abstract::After its introduction for scientific investigation in the 1950s, the cypriniform zebrafish, Danio rerio, has become a valuable model for the study of regenerative processes and mechanisms. Zebrafish exhibit epimorphic regeneration, in which a nondifferentiated cell mass formed after amputation is able to fully regene...

    journal_title:Zebrafish

    pub_type: 杂志文章

    doi:10.1089/zeb.2020.1926

    authors: Lebedeva L,Zhumabayeva B,Gebauer T,Kisselev I,Aitasheva Z

    更新日期:2020-12-01 00:00:00