Literature DB >> 15851668

Genomes, phylogeny, and evolutionary systems biology.

Mónica Medina1.   

Abstract

With the completion of the human genome and the growing number of diverse genomes being sequenced, a new age of evolutionary research is currently taking shape. The myriad of technological breakthroughs in biology that are leading to the unification of broad scientific fields such as molecular biology, biochemistry, physics, mathematics, and computer science are now known as systems biology. Here, I present an overview, with an emphasis on eukaryotes, of how the postgenomics era is adopting comparative approaches that go beyond comparisons among model organisms to shape the nascent field of evolutionary systems biology.

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Year:  2005        PMID: 15851668      PMCID: PMC1131869          DOI: 10.1073/pnas.0501984102

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  81 in total

Review 1.  The origin and evolution of model organisms.

Authors:  S Blair Hedges
Journal:  Nat Rev Genet       Date:  2002-11       Impact factor: 53.242

Review 2.  Photosynthetic eukaryotes unite: endosymbiosis connects the dots.

Authors:  Debashish Bhattacharya; Hwan Su Yoon; Jeremiah D Hackett
Journal:  Bioessays       Date:  2004-01       Impact factor: 4.345

3.  Variation in gene expression within and among natural populations.

Authors:  Marjorie F Oleksiak; Gary A Churchill; Douglas L Crawford
Journal:  Nat Genet       Date:  2002-09-03       Impact factor: 38.330

Review 4.  cis-Regulatory control circuits in development.

Authors:  Meredith L Howard; Eric H Davidson
Journal:  Dev Biol       Date:  2004-07-01       Impact factor: 3.582

Review 5.  The unicellular ancestry of animal development.

Authors:  Nicole King
Journal:  Dev Cell       Date:  2004-09       Impact factor: 12.270

Review 6.  Systems biology.

Authors:  Mitchell P Levesque; Philip N Benfey
Journal:  Curr Biol       Date:  2004-03-09       Impact factor: 10.834

7.  The phytophthora genome initiative database: informatics and analysis for distributed pathogenomic research.

Authors:  M Waugh; P Hraber; J Weller; Y Wu; G Chen; J Inman; D Kiphart; B Sobral
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

8.  Embryonic epsilon and gamma globin genes of a prosimian primate (Galago crassicaudatus). Nucleotide and amino acid sequences, developmental regulation and phylogenetic footprints.

Authors:  D A Tagle; B F Koop; M Goodman; J L Slightom; D L Hess; R T Jones
Journal:  J Mol Biol       Date:  1988-09-20       Impact factor: 5.469

9.  Population genetic variation in genome-wide gene expression.

Authors:  Jeffrey P Townsend; Duccio Cavalieri; Daniel L Hartl
Journal:  Mol Biol Evol       Date:  2003-04-25       Impact factor: 16.240

10.  Phylogenetic footprinting reveals a nuclear protein which binds to silencer sequences in the human gamma and epsilon globin genes.

Authors:  D L Gumucio; H Heilstedt-Williamson; T A Gray; S A Tarlé; D A Shelton; D A Tagle; J L Slightom; M Goodman; F S Collins
Journal:  Mol Cell Biol       Date:  1992-11       Impact factor: 4.272

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  22 in total

1.  Systematics and the origin of species: an introduction.

Authors:  Jody Hey; Walter M Fitch; Francisco J Ayala
Journal:  Proc Natl Acad Sci U S A       Date:  2005-04-25       Impact factor: 11.205

2.  Unifying measures of gene function and evolution.

Authors:  Yuri I Wolf; Liran Carmel; Eugene V Koonin
Journal:  Proc Biol Sci       Date:  2006-06-22       Impact factor: 5.349

Review 3.  On the origin and functions of RNA-mediated silencing: from protists to man.

Authors:  Heriberto Cerutti; J Armando Casas-Mollano
Journal:  Curr Genet       Date:  2006-05-12       Impact factor: 3.886

4.  From evidence to inference: probing the evolution of protein interaction networks.

Authors:  Oliver Ratmann; Carsten Wiuf; John W Pinney
Journal:  HFSP J       Date:  2009-10-19

Review 5.  It's more than stamp collecting: how genome sequencing can unify biological research.

Authors:  Stephen Richards
Journal:  Trends Genet       Date:  2015-05-20       Impact factor: 11.639

6.  Cyanobacterial phylogenetic analysis based on phylogenomics approaches render evolutionary diversification and adaptation: an overview of representative orders.

Authors:  Ratna Prabha; Dhananjaya P Singh
Journal:  3 Biotech       Date:  2019-02-15       Impact factor: 2.406

7.  Ancient origin of four-domain voltage-gated Na+ channels predates the divergence of animals and fungi.

Authors:  Xinjiang Cai
Journal:  J Membr Biol       Date:  2012-01-19       Impact factor: 1.843

Review 8.  The sociobiology of molecular systems.

Authors:  Kevin R Foster
Journal:  Nat Rev Genet       Date:  2011-02-08       Impact factor: 53.242

9.  Darwinian evolution in the light of genomics.

Authors:  Eugene V Koonin
Journal:  Nucleic Acids Res       Date:  2009-02-12       Impact factor: 16.971

10.  The meanings of 'function' in biology and the problematic case of de novo gene emergence.

Authors:  Diane Marie Keeling; Patricia Garza; Charisse Michelle Nartey; Anne-Ruxandra Carvunis
Journal:  Elife       Date:  2019-11-01       Impact factor: 8.140

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