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Thursday, March 22, 2007

Jun 2024
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Tue, Jun 25, 2024

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  Genetics, Bioinformatics & Computational Biology (GBCB) Seminar  

Speaker: Deng Pan, VT Postdoc in Computer Science Dept.

Title: Quantifying the Mechanisms of Recent Gene Duplications in the Human and Mouse Genomes

Abstract: Background:
Major mechanisms of recent gene duplication include unequal crossover and retroposition. To date, we still know little about their relative contributions to gene duplications. Meanwhile, previous estimations for recent gene duplication rate have limitations due to their ignorance of specific features of the duplicated genes generated from different mechanisms. To address these issues, we quantified unequal crossover in terms of tandemly arrayed genes and retroposition in terms of functional retrogenes in the human and mouse genomes, and we estimated the recent gene duplication rate by combining the different components of the rate that contributed by different mechanisms.

All the analysis were performed for both
gene families of all sizes and gene families of only size-two to compare previous estimations based on only small gene families. We showed that the two duplication mechanisms are largely independent and all together account for the majority of the duplicated genes. Unequal crossover has a higher overall contribution to recent gene duplications than retroposition in the whole genome, but lower in the size-two gene families. Duplicated genes due to unequal crossover are more likely to be preserved. The rates of recent gene duplication via retroposition are about ten times higher than those via unequal crossover in the size-two gene families, but not apparently higher in the entire genome. The overall recent gene duplication rate estimated per gene per billion years is about 0.5 to 1.2 in human and about 1.2 to 3.6 in mouse. The rates estimated from size-two gene families are always lower than those from the entire genome. Our strategy can minimize the influence of gene conversion even for large gene families.

Conclusions: Our results show that the two mechanisms act differently between small and large gene families on gene duplications. Thus, it is not appropriate to use small gene families to represent the entire genome. Our new strategy provides more reliable estimations of recent gene duplication rates than previous ones.

Public welcome, please come! Refreshments 3:15-3:50 pm,
seminar starts promptly at 4pm.

More information...

Location: VBI Auditorium
Price: FREE
Contact: Dennie Munson
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