Purifying selection against gene conversions between the polyamine transport (TPO) genes of Saccharomyces species
详细信息    查看全文
  • 作者:Gowthami Sampathkumar (1)
    Guy Drouin (1)
  • 关键词:Saccharomyces cerevisiae ; Saccharomyces paradoxus ; Saccharomyces mikatae ; Gene conversions ; Polyamine transport genes ; TPO genes ; Yeasts ; Negative selection
  • 刊名:Current Genetics
  • 出版年:2015
  • 出版时间:February 2015
  • 年:2015
  • 卷:61
  • 期:1
  • 页码:67-72
  • 全文大小:774 KB
  • 参考文献:1. Alberts B, Bray D, Lewis J (2007) Molecular biology of the cell, 5th edn. Garland Science, New York
    2. Benovoy D, Drouin G (2009) Ectopic gene conversions in the human genome. Genomics 93:27鈥?2 CrossRef
    3. Bischof JM, Chiang AP, Scheetz TE, Stone EM, Casavant TL, Sheffield VC, Braun TA (2006) Genome-wide identification of pseudogenes capable of disease-causing gene conversion. Hum Mutat 27:545鈥?52 CrossRef
    4. Casola C, Zekonyte U, Phillips AD, Cooper DN, Hahn MW (2012) Interlocus gene conversion events introduce deleterious mutations in at least 1% of human genes associated with inherited disease. Genome Res 22:429鈥?35 CrossRef
    5. Chen J-M, Cooper DN, Chuzhanova N, F茅rec C, Patrinos GP (2007) Gene conversion: mechanisms, evolution and human disease. Nature Rev Genet 8:762鈥?75 CrossRef
    6. Cherry JM, Adler C, Ball C, Chervitz SA, Dwight SS, Hester ET, Jia Y, Juvik G, Roe TY, Schroeder M, Weng S, Botstein D (1998) SGD: / saccharomyces genome database. Nucleic Acids Res 26:73鈥?9 CrossRef
    7. Drouin G (2002) Characterization of the gene conversions between the multigene family members of the yeast genome. J Mol Evol 55:14鈥?3 CrossRef
    8. Drouin G, Prat F, Ell M, Clarke GD (1999) Detecting and characterizing gene conversions between multigene family members. Mol Biol Evol 16:1369鈥?390 CrossRef
    9. Guindon S, Gascuel O (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Sys Biol 52:696鈥?04 CrossRef
    10. Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 41:95鈥?8
    11. Hiwatashi T, Mikami A, Katsumura T, Suryobroto B, Perwitasari-Farajallah D, Malaivijitnond S, Siriaroonrat B, Oota H, Goto S, Kawamura S (2011) Gene conversion and purifying selection shape nucleotide variation in gibbon L/M opsin genes. BMC Evol Biol 11:312 CrossRef
    12. Igarashi K, Kashiwagi K (2010) Characteristics of cellular polyamine transport in prokaryotes and eukaryotes. Plant Physiol Biochem 48:506鈥?12 CrossRef
    13. Lole KS, Bollinger RC, Paranjape RS, Gadkari D, Kulkarni SS, Novak NG, Ingersoll R, Sheppard HW, Ray SC (1999) Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol 73:152鈥?60
    14. Morris RT, Drouin G (2010) Ectopic gene conversions in the genome of ten hemiascomycete yeast species. Int J Evol Biol 2011:970768
    15. Noonan JP, Grimwood J, Schmutz J, Dickson M, Myers RM (2004) Gene conversion and the evolution of protocadherin gene cluster diversity. Genome Res 14:354鈥?66 CrossRef
    16. Petronella N, Drouin G (2011) Gene conversions in the growth hormone gene family of primates: stronger homogenizing effects in the Hominidae lineage. Genomics 98:173鈥?81 CrossRef
    17. Petronella N, Drouin G (2014) Purifying selection against gene conversions in the folate receptor genes of primates. Genomics 103:40鈥?7 CrossRef
    18. Poulin R, Casero RA, Soulet D (2012) Recent advances in the molecular biology of metazoan polyamine transport. Amino Acids 42:711鈥?23 CrossRef
    19. Rokas A, Williams BL, King N, Carroll SB (2003) Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature 425:798鈥?04
    20. Sawyer SA (1999) GENECONV: A computer package for the statistical detection of gene conversion. Distributed by the author, Department of Mathematics, Washington University in St. Louis. Available at http://www.math.wustl.edu/~sawyer
    21. Tachihara K, Uemura T, Kashiwagi K, Igarashi K (2005) Excretion of putrescine and spermidine by the protein encoded by YKL174c (TPO5) in / Saccharomyces cerevisiae. J Biol Chem 280:12637鈥?2642 CrossRef
    22. The UniProt Consortium (2014) Activities at the universal protein resource (UniProt). Nucleic Acids Res 42:D191鈥揇198 CrossRef
    23. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific GAP penalties and weight matrix choice. Nucleic Acids Res 22:4673鈥?680 CrossRef
    24. Tomitori H, Kashiwagi K, Sakata K, Kakinuma Y, Igarashi K (1999) Identification of a gene for a polyamine transport protein in yeast. J Biol Chem 274:3265鈥?267 CrossRef
    25. Tomitori H, Kashiwagi K, Asakawa T, Yoshimi K, Michael AJ, Kazuei I (2001) Multiple polyamine transport systems on the vacuolar membrane in yeast. Biochem J 352:681鈥?88 CrossRef
    26. Uemura T, Tachihara K, Tomitori H, Kashiwagi K, Igarashi K (2005) Characteristics of the polyamine transporter TPO1 and regulation of its activity and cellular localization by phosphorylation. J Biol Chem 280:9646鈥?652 CrossRef
    27. Xu S, Clark T, Zheng H, Vang S, Li R, Wong GK, Wang J, Zheng X (2008) Gene conversion in the rice genome. BMC Genom 9:93 CrossRef
    28. Zid M, Drouin G (2013) Gene conversions are under purifying selection in the carcinoembryonic antigen immunoglobulin gene families of primates. Genomics 102:301鈥?09 CrossRef
    29. Zid M, Drouin G (2014) Gene conversions are frequent but not under positive selection in the Siglec gene families of primates. Genome (in press)
  • 作者单位:Gowthami Sampathkumar (1)
    Guy Drouin (1)

    1. D茅partement de biologie et Centre de recherche avanc茅e en g茅nomique environnementale, Universit茅 d鈥橭ttawa, 30 Marie Curie, Ottawa, ON, K1N 6N5, Canada
  • 刊物类别:Biomedical and Life Sciences
  • 刊物主题:Life Sciences
    Microbial Genetics and Genomics
    Microbiology
    Biochemistry
    Cell Biology
    Plant Sciences
    Proteomics
  • 出版者:Springer Berlin / Heidelberg
  • ISSN:1432-0983
文摘
Saccharomyces species have five TPO genes, TPO1 through TPO5, coding for proteins that are involved in up taking or excreting intracellular spermine, putrescine or spermidine. Here, we investigate the evolutionary fate and functional impacts of gene conversions between these genes. Our results show that gene conversions occurred only between the TPO2 and TPO3 genes of the six Saccharomyces species we studied. They also show that these gene conversions occurred independently in all six species. The facts that they only occur between closely related genes having similar function, and that they are limited to the transmembrane domain of these proteins, suggest that they have little functional impact. These gene conversions therefore likely represent neutral mutations which are not subject to purifying selection.

© 2004-2018 中国地质图书馆版权所有 京ICP备05064691号 京公网安备11010802017129号

地址:北京市海淀区学院路29号 邮编:100083

电话:办公室:(+86 10)66554848;文献借阅、咨询服务、科技查新:66554700