The Zebrafish as Model for Deciphering the Regulatory Architecture of Vertebrate Genomes

被引:1
|
作者
Rastegar, S. [1 ]
Straehle, U. [1 ,2 ]
机构
[1] Karlsruhe Inst Technol, Inst Toxicol & Genet, Eggenstein Leopoldshafen, Germany
[2] Heidelberg Univ, Heidelberg, Germany
基金
欧盟地平线“2020”;
关键词
TRANSCRIPTION-FACTOR-BINDING; KEY DEVELOPMENTAL GENES; ENHANCER ACTIVITY MAPS; CIS-ACTING REGULATOR; SONIC-HEDGEHOG; WIDE ANALYSIS; FLOOR PLATE; CHIP-SEQ; ULTRACONSERVED ELEMENTS; INSERTIONAL MUTAGENESIS;
D O I
10.1016/bs.adgen.2016.04.003
中图分类号
S9 [水产、渔业];
学科分类号
0908 ;
摘要
Despite enormous progress to map cis-regulatory modules (CRMs), like enhancers and promoters in genomes, elucidation of the regulatory landscape of the developing embryo remains a challenge. The zebrafish embryo with its experimental virtues has a great potential to contribute to this endeavor. However, so far progress remained behind expectation. We discuss here available methods and their limitations and how the zebrafish embryo could contribute in the future to unravel the wiring of the vertebrate genome.
引用
收藏
页码:195 / 216
页数:22
相关论文
共 50 条
  • [1] DECIPHERING THE REGULATORY ARCHITECTURE OF MAMMALIAN GENOMES WITH CHROMOSOMAL ENGINEERING
    Spitz, Francois
    Aktas, Tugce
    Marinic, Mirna
    Ruf, Sandra
    Symmons, Orsolya
    CELLULAR ONCOLOGY, 2009, 31 (02) : 100 - 100
  • [2] Deciphering the regulatory codes in bacterial genomes
    Cho, Byung-Kwan
    Palsson, Bernhard
    Zengler, Karsten
    BIOTECHNOLOGY JOURNAL, 2011, 6 (09) : 1052 - 1063
  • [3] Identifying synonymous regulatory elements in vertebrate genomes
    Ovcharenko, I
    Nobrega, MA
    NUCLEIC ACIDS RESEARCH, 2005, 33 : W403 - W407
  • [4] Zebrafish as a model for vertebrate hematopoiesis
    Ellett, Felix
    Lieschke, Graham J.
    CURRENT OPINION IN PHARMACOLOGY, 2010, 10 (05) : 563 - 570
  • [5] Retroviral enhancer detection insertions in zebrafish combined with comparative genomics reveal genomic regulatory blocks - A fundamental feature of vertebrate genomes
    Kikuta H.
    Fredman D.
    Rinkwitz S.
    Lenhard B.
    Becker T.S.
    Genome Biology, 8 (Suppl 1)
  • [6] Retroviral enhancer detection insertions in zebrafish combined with comparative genomics reveal genomic regulatory blocks - a fundamental feature of vertebrate genomes
    Kikuta, Hiroshi
    Fredman, David
    Rinkwitz, Silke
    Lenhard, Boris
    Becker, Thomas S.
    GENOME BIOLOGY, 2007, 8
  • [7] Computational biology: Toward deciphering gene regulatory information in mammalian genomes
    Ji, Hongkai
    Wong, Wing Hung
    BIOMETRICS, 2006, 62 (03) : 645 - 663
  • [8] Vertebrate Genomes
    Alt, Kurt W.
    HOMO-JOURNAL OF COMPARATIVE HUMAN BIOLOGY, 2008, 59 (05) : 403 - 403
  • [9] Deciphering the genetic architecture of IRD by integrated analysis of 425 whole genomes
    Ayyagari, Radha
    Biswas, Pooja
    Hermida, Angel Soto
    Branham, Kari E.
    Matsui, Hiroko
    Villanueva, Adda L.
    Talenti, Amalio
    Alapati, Akhila
    Guru, Aditya Ayyagari
    Huang, Bonnie
    Riazuddin, Sheikh
    Heckenlively, John
    Sieving, Paul
    Duncan, Jacque L.
    Riazuddin, S. Amer
    Frazer, Kelly A.
    INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE, 2018, 59 (09)
  • [10] Zebrafish as a model vertebrate for investigating chemical toxicity
    Hill, AJ
    Teraoka, H
    Heideman, W
    Peterson, RE
    TOXICOLOGICAL SCIENCES, 2005, 86 (01) : 6 - 19