Introduction References 1 Remodeling Hypothesis of ERV Elements for Host Ge nome Jae-Won Huh 1 , Dae-Soo Kim 2 , and Heui-Soo Kim 1,2 1 Division of Biological Science, College of National Science, Pusan National University 2 PBBRC, Interdisciplinary Research Program of Bioinformatics, College of National Science, Pusan National University http:// www.primate.or.kr ERVs are the unique exterior elements which had been originated from germ line infection of ancient infectious exogenous retroviruses. They had been regarded harmful elements for host genome. However, the results of human genome project gave rise to a question why human genome allowed many portions of ERV elements compared to coding regions. To reveal the specific role of ERV elements, bioinformatic and evolutionary analyses were conducted. Totally, 67 genes were provided the transcript start sites by the ERV elements. Among them, 23 genes have different splicing variants, 33 genes were modified by ERV elements, and 11 genes were created by the ERV elements. Comparison of ERV gene and non-ERV gene showed the different trend of function and process by gene ontology analysis. Possible gene data sets of human (28176 transcripts), orangutan (4611 transcripts), macaca (2103 transcripts), rat (9767 transcripts), and mouse (19508 transcripts) were compared for different usagesof ERV elements. Different ERV elements were applied in different species for supplying the transcript start sites. From our analysis, we proposed the "remodeling hypothesis of ERV elements for host genome". During the species differentiation from common ancestor, many kinds of viral agents could invade the host genome. However, winner who survived from a fierce struggle for existence under the invasion of infective elements could acquire the privilege of using the outside resources for the promotion of their fitness through the remodeling of ERV elements.………………………….. GENOME INFORMATION LABORATORY Abstract Results & Discussion Materials & Methods Chromosomal location of HERV-related genes 3 Evolutionary analysis and remodeling hypothesis 2 Results & Discussion G O Function 0 5 10 15 20 25 30 35 W holeGeneFraction(% ) 0 2 4 6 8 10 12 14 16 18 Retroelement GeneFraction(% ) W hole G enes Retroelem ents Fusion G ene G O Com ponent 0 5 10 15 20 25 30 35 40 45 50 W hole Gene Fraction(%) 0 10 20 30 40 50 60 Retroelement GeneFraction(%) W hole G enes Retroelem ents Fusion G ene G O Function 0 5 10 15 20 25 30 35 W holeGeneFraction(% ) 0 2 4 6 8 10 12 14 16 18 Retroelement GeneFraction(% ) W hole G enes Retroelem ents Fusion G ene GO analysis 1. van de Lagemaat LN, Landry JR, Mager DL, Medstrand P (2003) Transposable elements in m ammals promote regulatory variation and diversification of genes with specialized func tions. Trends Genet. 19: 530-536 2. Mi S, Lee X, Li X, Veldman GM, Finnerty H, Racie L, LaVallie E, Tang XY, Edouard P, Ho wes S, Keith JC, McCoy M (2000) Syncytin is a captive retroviral envelope protein invo lved in human placental morphogenesis. Nature 403: 785-789
Introduction
Jan 03, 2016
Remodeling Hypothesis of ERV Elements for Host Genome Jae-Won Huh 1 , Dae-Soo Kim 2 , and Heui-Soo Kim 1,2 1 Division of Biological Science, College of National Science, Pusan National University - PowerPoint PPT Presentation
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Introduction
References
1
Remodeling Hypothesis of ERV Elements for Host Genome
Jae-Won Huh1, Dae-Soo Kim2, and Heui-Soo Kim1,2
1Division of Biological Science, College of National Science, Pusan National University2PBBRC, Interdisciplinary Research Program of Bioinformatics, College of National Science, Pusan National University
http:// www.primate.or.kr
ERVs are the unique exterior elements which had been originated from germ line infection of ancient infectious exogenous retroviruses. They had been regarded harmful elements for host genome. However, the results of human genome project gave rise to a question why human genome allowed many portions of ERV elements compared to coding regions. To reveal the specific role of ERV elements, bioinformatic and evolutionary analyses were conducted. Totally, 67 genes were provided the transcript start sites by the ERV elements. Among them, 23 genes have different splicing variants, 33 genes were modified by ERV elements, and 11 genes were created by the ERV elements. Comparison of ERV gene and non-ERV gene showed the different trend of function and process by gene ontology analysis. Possible gene data sets of human (28176 transcripts), orangutan (4611 transcripts), macaca (2103 transcripts), rat (9767 transcripts), and mouse (19508 transcripts) were compared for different usagesof ERV elements. Different ERV elements were applied in different species for supplying the transcript start sites. From our analysis, we proposed the "remodeling hypothesis of ERV elements for host genome". During the species differentiation from common ancestor, many kinds of viral agents could invade the host genome. However, winner who survived from a fierce struggle for existence under the invasion of infective elements could acquire the privilege of using the outside resources for the promotion of their fitness through the remodeling of ERV elements.…………………………..
GENOME INFORMATION LABORATORY
Abstract Results & Discussion
Materials & Methods
Chromosomal location of HERV-related genes
3
Evolutionary analysis and remodeling hypothesis
2
Results & Discussion
GO Function
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Who
le G
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Whole Genes Retroelements Fusion Gene
GO Component
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Whole Genes Retroelements Fusion Gene
GO Function
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Whole Genes Retroelements Fusion Gene
GO analysis
1. van de Lagemaat LN, Landry JR, Mager DL, Medstrand P (2003) Transposable elements in mammals promote regulatory variation and diversification of genes with specialized functions. Trends Genet. 19: 530-536
2. Mi S, Lee X, Li X, Veldman GM, Finnerty H, Racie L, LaVallie E, Tang XY, Edouard P, Howes S, Keith JC, McCoy M (2000) Syncytin is a captive retroviral envelope protein involved in human placental morphogenesis. Nature 403: 785-789
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