A comparative, BAC end sequence enabled map of the genome of the American mink (Neovison vison)

Bernhard F. Benkel; Amanda Smith; Knud Christensen; Razvan Marian Anistoroaei; Ye Zhang; Christoph W. Sensen; Hossain Farid; Lyn Paterson; Ronald M. Teather

doi:10.1007/s13258-011-0160-8

A comparative, BAC end sequence enabled map of the genome of the American mink (Neovison vison)

Bernhard F. Benkel, Amanda Smith, Knud Christensen, Razvan Marian Anistoroaei, Ye Zhang, Christoph W. Sensen, Hossain Farid, Lyn Paterson, Ronald M. Teather

4 Citations (Scopus)

Abstract

In this report we present the results of the analysis of approximately 2.7 Mb of genomic information for the American mink (Neovison vison) derived through BAC end sequencing. Our study, which encompasses approximately 1/1000th of the mink genome, suggests that simple sequence repeats (SSRs) are less common in the mink than in the human genome, whereas the average GC content of the mink genome is slightly higher than that of its human counterpart. The 2.7 Mb mink genomic dataset also contained 2,416 repeat elements (retroids and DNA transposons) occupying almost 31% of the sequence space. Among repeat elements, LINEs were over-represented and endogenous viruses (aka LTRs) under-represented in comparison to the human genome. Finally, we present a virtual map of the mink genome constructed with reference to the human and canine genome assemblies using a comparative genomics approach and incorporating over 200 mink BESs with unique hits to the human genome.

Original language	English
Journal	Genes and Genomics
Volume	34
Issue number	1
Pages (from-to)	83-91
Number of pages	9
ISSN	1976-9571
DOIs	https://doi.org/10.1007/s13258-011-0160-8
Publication status	Published - Feb 2012

Keywords

Former LIFE faculty

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10.1007/s13258-011-0160-8

Cite this

@article{c9a175de6264492eb112aa79123c38f6,

title = "A comparative, BAC end sequence enabled map of the genome of the American mink (Neovison vison)",

abstract = "In this report we present the results of the analysis of approximately 2.7 Mb of genomic information for the American mink (Neovison vison) derived through BAC end sequencing. Our study, which encompasses approximately 1/1000th of the mink genome, suggests that simple sequence repeats (SSRs) are less common in the mink than in the human genome, whereas the average GC content of the mink genome is slightly higher than that of its human counterpart. The 2.7 Mb mink genomic dataset also contained 2,416 repeat elements (retroids and DNA transposons) occupying almost 31% of the sequence space. Among repeat elements, LINEs were over-represented and endogenous viruses (aka LTRs) under-represented in comparison to the human genome. Finally, we present a virtual map of the mink genome constructed with reference to the human and canine genome assemblies using a comparative genomics approach and incorporating over 200 mink BESs with unique hits to the human genome. ",

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T1 - A comparative, BAC end sequence enabled map of the genome of the American mink (Neovison vison)

AU - Benkel, Bernhard F.

AU - Smith, Amanda

AU - Christensen, Knud

AU - Anistoroaei, Razvan Marian

AU - Zhang, Ye

AU - Sensen, Christoph W.

AU - Farid, Hossain

AU - Paterson, Lyn

AU - Teather, Ronald M.

PY - 2012/2

Y1 - 2012/2

N2 - In this report we present the results of the analysis of approximately 2.7 Mb of genomic information for the American mink (Neovison vison) derived through BAC end sequencing. Our study, which encompasses approximately 1/1000th of the mink genome, suggests that simple sequence repeats (SSRs) are less common in the mink than in the human genome, whereas the average GC content of the mink genome is slightly higher than that of its human counterpart. The 2.7 Mb mink genomic dataset also contained 2,416 repeat elements (retroids and DNA transposons) occupying almost 31% of the sequence space. Among repeat elements, LINEs were over-represented and endogenous viruses (aka LTRs) under-represented in comparison to the human genome. Finally, we present a virtual map of the mink genome constructed with reference to the human and canine genome assemblies using a comparative genomics approach and incorporating over 200 mink BESs with unique hits to the human genome.

AB - In this report we present the results of the analysis of approximately 2.7 Mb of genomic information for the American mink (Neovison vison) derived through BAC end sequencing. Our study, which encompasses approximately 1/1000th of the mink genome, suggests that simple sequence repeats (SSRs) are less common in the mink than in the human genome, whereas the average GC content of the mink genome is slightly higher than that of its human counterpart. The 2.7 Mb mink genomic dataset also contained 2,416 repeat elements (retroids and DNA transposons) occupying almost 31% of the sequence space. Among repeat elements, LINEs were over-represented and endogenous viruses (aka LTRs) under-represented in comparison to the human genome. Finally, we present a virtual map of the mink genome constructed with reference to the human and canine genome assemblies using a comparative genomics approach and incorporating over 200 mink BESs with unique hits to the human genome.

KW - Former LIFE faculty

KW - American mink

KW - BAC end sequencing

KW - Comparatve mapping

KW - Structural genomics

U2 - 10.1007/s13258-011-0160-8

DO - 10.1007/s13258-011-0160-8

M3 - Journal article

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JO - Genes and Genomics

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