Literature DB >> 19807910

Strong association between pseudogenization mechanisms and gene sequence length.

Amit N Khachane1, Paul M Harrison.   

Abstract

UNLABELLED: Pseudogenes arise from the decay of gene copies following either RNA-mediated duplication (processed pseudogenes) or DNA-mediated duplication (nonprocessed pseudogenes). Here, we show that long protein-coding genes tend to produce more nonprocessed pseudogenes than short genes, whereas the opposite is true for processed pseudogenes. Protein-coding genes longer than 3000 bp are 6 times more likely to produce nonprocessed pseudogenes than processed ones. REVIEWERS: This article was reviewed by Dr. Dan Graur and Dr. Craig Nelson (nominated by Dr. J Peter Gogarten).

Entities:  

Mesh:

Year:  2009        PMID: 19807910      PMCID: PMC2768697          DOI: 10.1186/1745-6150-4-38

Source DB:  PubMed          Journal:  Biol Direct        ISSN: 1745-6150            Impact factor:   4.540


  8 in total

1.  Nature and structure of human genes that generate retropseudogenes.

Authors:  I Gonçalves; L Duret; D Mouchiroud
Journal:  Genome Res       Date:  2000-05       Impact factor: 9.043

2.  Molecular fossils in the human genome: identification and analysis of the pseudogenes in chromosomes 21 and 22.

Authors:  Paul M Harrison; Hedi Hegyi; Suganthi Balasubramanian; Nicholas M Luscombe; Paul Bertone; Nathaniel Echols; Ted Johnson; Mark Gerstein
Journal:  Genome Res       Date:  2002-02       Impact factor: 9.043

3.  Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome.

Authors:  Zhaolei Zhang; Paul M Harrison; Yin Liu; Mark Gerstein
Journal:  Genome Res       Date:  2003-12       Impact factor: 9.043

4.  Genome-wide identification of genes likely to be involved in human genetic disease.

Authors:  Núria López-Bigas; Christos A Ouzounis
Journal:  Nucleic Acids Res       Date:  2004-06-04       Impact factor: 16.971

5.  Pseudogene.org: a comprehensive database and comparison platform for pseudogene annotation.

Authors:  John E Karro; Yangpan Yan; Deyou Zheng; Zhaolei Zhang; Nicholas Carriero; Philip Cayting; Paul Harrrison; Mark Gerstein
Journal:  Nucleic Acids Res       Date:  2006-11-11       Impact factor: 16.971

6.  Transcribed processed pseudogenes in the human genome: an intermediate form of expressed retrosequence lacking protein-coding ability.

Authors:  Paul M Harrison; Deyou Zheng; Zhaolei Zhang; Nicholas Carriero; Mark Gerstein
Journal:  Nucleic Acids Res       Date:  2005-04-28       Impact factor: 16.971

7.  Assessing the genomic evidence for conserved transcribed pseudogenes under selection.

Authors:  Amit N Khachane; Paul M Harrison
Journal:  BMC Genomics       Date:  2009-09-15       Impact factor: 3.969

8.  Analysis of the role of retrotransposition in gene evolution in vertebrates.

Authors:  Zhan Yu; David Morais; Mahine Ivanga; Paul M Harrison
Journal:  BMC Bioinformatics       Date:  2007-08-24       Impact factor: 3.169

  8 in total
  5 in total

Review 1.  LINEs, SINEs and other retroelements: do birds of a feather flock together?

Authors:  Astrid M Roy-Engel
Journal:  Front Biosci (Landmark Ed)       Date:  2012-01-01

2.  Genome-wide survey of pseudogenes in 80 fully re-sequenced Arabidopsis thaliana accessions.

Authors:  Long Wang; Weina Si; Yongfang Yao; Dacheng Tian; Hitoshi Araki; Sihai Yang
Journal:  PLoS One       Date:  2012-12-13       Impact factor: 3.240

3.  Pseudogenization of the chloroplast threonine (trnT-GGU) gene in the sunflower family (Asteraceae).

Authors:  Furrukh Mehmood; Parviz Heidari; Abdur Rahim; Ibrar Ahmed; Peter Poczai
Journal:  Sci Rep       Date:  2021-10-26       Impact factor: 4.379

4.  Genome-wide Identification and Characterization of Heat Shock Protein Family Reveals Role in Development and Stress Conditions in Triticum aestivum L.

Authors:  Ashish Kumar; Saloni Sharma; Venkatesh Chunduri; Amandeep Kaur; Satinder Kaur; Nikhil Malhotra; Aman Kumar; Payal Kapoor; Anita Kumari; Jaspreet Kaur; Humira Sonah; Monika Garg
Journal:  Sci Rep       Date:  2020-05-12       Impact factor: 4.379

Review 5.  Re-recognition of pseudogenes: From molecular to clinical applications.

Authors:  Xu Chen; Lin Wan; Wei Wang; Wen-Jin Xi; An-Gang Yang; Tao Wang
Journal:  Theranostics       Date:  2020-01-01       Impact factor: 11.556

  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.