Literature DB >> 12354649

An ultracentrifugation analysis of two hundred fish genomes.

Giuseppe Bucciarelli1, Giacomo Bernardi, Giorgio Bernardi.   

Abstract

The goal of this study was to provide a comprehensive view of the compositional characteristics of fish genomes. We therefore expanded the number of fish species that we had explored so far in their DNAs by analytical ultracentrifugation in CsCl density gradient from 122 to 201. This study included representatives from three out of nine orders of Elasmobranchs (sharks and rays), both orders of dipnoan lungfishes, and both orders of chondrosteans (sturgeons and bichirs). We also studied 19 out of 38 teleostean orders, which represent all but four (minor) superorders of the subdivision Teleostei, a group comprising about 23,600 species (96% of all extant fishes). This leaves for further studies two subclasses, Holocephali (chimaeras), and Coelacanthimorpha (gombessas). In spite of this substantial increase in the number of species and orders analysed, all average properties (the modal buoyant density, rho(0), the average buoyant density, <rho>, the CsCl profile asymmetry, A, and the compositional heterogeneity, H), and all their ranges were unchanged compared to a previous study [J. Mol. Evol. 31 (1990) 265]. This suggests that, in all likelihood, the properties reported in the present paper can be considered as generally valid for all fish genomes.

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Year:  2002        PMID: 12354649     DOI: 10.1016/s0378-1119(02)00733-3

Source DB:  PubMed          Journal:  Gene        ISSN: 0378-1119            Impact factor:   3.688


  10 in total

1.  Using analytical ultracentrifugation to study compositional variation in vertebrate genomes.

Authors:  Oliver Clay; Christophe J Douady; Nicolas Carels; Sandrine Hughes; Giuseppe Bucciarelli; Giorgio Bernardi
Journal:  Eur Biophys J       Date:  2003-04-09       Impact factor: 1.733

2.  Antarctic notothenioid fishes: genomic resources and strategies for analyzing an adaptive radiation.

Authors:  H W Detrich; Chris T Amemiya
Journal:  Integr Comp Biol       Date:  2010-07-12       Impact factor: 3.326

3.  Genome enablement of the notothenioidei: genome size estimates from 11 species and BAC libraries from 2 representative taxa.

Authors:  H William Detrich; Andrew Stuart; Michael Schoenborn; Sandra K Parker; Barbara A Methé; Chris T Amemiya
Journal:  J Exp Zool B Mol Dev Evol       Date:  2010-07-15       Impact factor: 2.656

4.  A third broad lineage of major histocompatibility complex (MHC) class I in teleost fish; MHC class II linkage and processed genes.

Authors:  Johannes Martinus Dijkstra; Takayuki Katagiri; Kazuyoshi Hosomichi; Kazuyo Yanagiya; Hidetoshi Inoko; Mitsuru Ototake; Takashi Aoki; Keiichiro Hashimoto; Takashi Shiina
Journal:  Immunogenetics       Date:  2007-02-23       Impact factor: 2.846

5.  Selective excision of 5-carboxylcytosine by a thymine DNA glycosylase mutant.

Authors:  Hideharu Hashimoto; Xing Zhang; Xiaodong Cheng
Journal:  J Mol Biol       Date:  2013-01-19       Impact factor: 5.469

6.  Sequencing the genome of the Atlantic salmon (Salmo salar).

Authors:  William S Davidson; Ben F Koop; Steven J M Jones; Patricia Iturra; Rodrigo Vidal; Alejandro Maass; Inge Jonassen; Sigbjorn Lien; Stig W Omholt
Journal:  Genome Biol       Date:  2010-09-30       Impact factor: 13.583

7.  High tandem repeat content in the genome of the short-lived annual fish Nothobranchius furzeri: a new vertebrate model for aging research.

Authors:  Kathrin Reichwald; Chris Lauber; Indrajit Nanda; Jeanette Kirschner; Nils Hartmann; Susanne Schories; Ulrike Gausmann; Stefan Taudien; Markus B Schilhabel; Karol Szafranski; Gernot Glöckner; Michael Schmid; Alessandro Cellerino; Manfred Schartl; Christoph Englert; Matthias Platzer
Journal:  Genome Biol       Date:  2009-02-11       Impact factor: 13.583

8.  Phylogenetic distribution of large-scale genome patchiness.

Authors:  José L Oliver; Pedro Bernaola-Galván; Michael Hackenberg; Pedro Carpena
Journal:  BMC Evol Biol       Date:  2008-04-11       Impact factor: 3.260

9.  Assignment of isochores for all completely sequenced vertebrate genomes using a consensus.

Authors:  Thorsten Schmidt; Dmitrij Frishman
Journal:  Genome Biol       Date:  2008-06-30       Impact factor: 13.583

10.  On the genome base composition of teleosts: the effect of environment and lifestyle.

Authors:  Andrea Tarallo; Claudia Angelini; Remo Sanges; Mitsuharu Yagi; Claudio Agnisola; Giuseppe D'Onofrio
Journal:  BMC Genomics       Date:  2016-03-02       Impact factor: 3.969

  10 in total

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