A high-density integrated genetic linkage and radiation hybrid map of the laboratory rat

Robert G. Steen; Anne E. Kwitek-Black; Christopher Glenn; Jo Gullings-Handley; William Van Etten; O. Scott Atkinson; Diane Appel; Simon Twigger; Melanie Muir; Tim Mull; Mary Granados; Mushira Kissebah; Kerri Russo; Robbin Crane; Michael Popp; Marc Peden; Tara Matise; Donna M. Brown; Jian Lu; Stephen Kingsmore; Peter J. Tonellato; Steve Rozen; Donna Slonim; Peter Young; Margit Knoblauch; Abraham Provoost; Detlev Ganten; Steven D. Colman; Jonathan Rothberg; Eric S. Lander; Howard J. Jacob

A high-density integrated genetic linkage and radiation hybrid map of the laboratory rat

Robert G. Steen
, Anne E. Kwitek-Black
, Christopher Glenn
, Jo Gullings-Handley
, William Van Etten
, O. Scott Atkinson
, Diane Appel
, Simon Twigger
, Melanie Muir
, Tim Mull
, Mary Granados
, Mushira Kissebah
, Kerri Russo
, Robbin Crane
, Michael Popp
, Marc Peden
, Tara Matise
, Donna M. Brown
, Jian Lu
, Stephen Kingsmore

Peter J. Tonellato, Steve Rozen, Donna Slonim, Peter Young, Margit Knoblauch, Abraham Provoost, Detlev Ganten, Steven D. Colman, Jonathan Rothberg, Eric S. Lander, Howard J. Jacob^*

^*Corresponding author for this work

Research output: Contribution to journal › Journal Article › peer-review

187 Scopus citations

Abstract

The laboratory rat (Rattus norvegicus) is a key animal model for biomedical research. However, the genetic infrastructure required for connecting phenotype and genotype in the rat is currently incomplete. Here, we report the construction and integration of two genomic maps: a dense genetic linkage map of the rat and the first radiation hybrid (RH) map of the rat. The genetic map was constructed in two F₂ intercrosses (SHRSP x BN and FHH x ACI), containing a total of 4736 simple sequence length polymorphism (SSLP) markers. Allele sizes for 4328 of the genetic markers were characterized in 48 of the most commonly used inbred strains. The RH map is a lod ≥ 3 framework map, including 983 SSLPs, thereby allowing integration with markers on various genetic maps and with markers mapped on the RH panel. Together, the maps provide an integrated reference to > 3000 genes and ESTs and > 8500 genetic markers (5211 of our SSLPs and > 3500 SSLPs developed by other groups). RH maps (v. 2.0) have been posted on our web sites at http://goliath.ifrc.mcw.edu/LGR/index.html or http://curatools.curagen.com/ratmap. Both web sites provide an RH mapping server where investigators can localize their own RH vectors relative to this map. The raw data have been deposited in the RHdb database. Taken together, these maps provide the basic tools for rat genomics. The RH map provides the means to rapidly localize genetic markers, genes, and ESTs within the rat genome. These maps provide the basic tools for rat genomics. They will facilitate studies of multifactorial disease and functional genomics, allow construction of physical maps, and provide a scaffold for both directed and large-scale sequencing efforts and comparative genomics in this important experimental organism.

Original language	English
Pages (from-to)	AP1-AP8
Journal	Genome Research
Volume	9
Issue number	6
State	Published - 06 1999
Externally published	Yes

Cite this

Steen, R. G., Kwitek-Black, A. E., Glenn, C., Gullings-Handley, J., Van Etten, W., Atkinson, O. S., Appel, D., Twigger, S., Muir, M., Mull, T., Granados, M., Kissebah, M., Russo, K., Crane, R., Popp, M., Peden, M., Matise, T., Brown, D. M., Lu, J., ... Jacob, H. J. (1999). A high-density integrated genetic linkage and radiation hybrid map of the laboratory rat. Genome Research, 9(6), AP1-AP8.

@article{b0c96cfda8f943feacc9c40f56581343,

title = "A high-density integrated genetic linkage and radiation hybrid map of the laboratory rat",

abstract = "The laboratory rat (Rattus norvegicus) is a key animal model for biomedical research. However, the genetic infrastructure required for connecting phenotype and genotype in the rat is currently incomplete. Here, we report the construction and integration of two genomic maps: a dense genetic linkage map of the rat and the first radiation hybrid (RH) map of the rat. The genetic map was constructed in two F2 intercrosses (SHRSP x BN and FHH x ACI), containing a total of 4736 simple sequence length polymorphism (SSLP) markers. Allele sizes for 4328 of the genetic markers were characterized in 48 of the most commonly used inbred strains. The RH map is a lod ≥ 3 framework map, including 983 SSLPs, thereby allowing integration with markers on various genetic maps and with markers mapped on the RH panel. Together, the maps provide an integrated reference to > 3000 genes and ESTs and > 8500 genetic markers (5211 of our SSLPs and > 3500 SSLPs developed by other groups). RH maps (v. 2.0) have been posted on our web sites at http://goliath.ifrc.mcw.edu/LGR/index.html or http://curatools.curagen.com/ratmap. Both web sites provide an RH mapping server where investigators can localize their own RH vectors relative to this map. The raw data have been deposited in the RHdb database. Taken together, these maps provide the basic tools for rat genomics. The RH map provides the means to rapidly localize genetic markers, genes, and ESTs within the rat genome. These maps provide the basic tools for rat genomics. They will facilitate studies of multifactorial disease and functional genomics, allow construction of physical maps, and provide a scaffold for both directed and large-scale sequencing efforts and comparative genomics in this important experimental organism.",

author = "Steen, \{Robert G.\} and Kwitek-Black, \{Anne E.\} and Christopher Glenn and Jo Gullings-Handley and \{Van Etten\}, William and Atkinson, \{O. Scott\} and Diane Appel and Simon Twigger and Melanie Muir and Tim Mull and Mary Granados and Mushira Kissebah and Kerri Russo and Robbin Crane and Michael Popp and Marc Peden and Tara Matise and Brown, \{Donna M.\} and Jian Lu and Stephen Kingsmore and Tonellato, \{Peter J.\} and Steve Rozen and Donna Slonim and Peter Young and Margit Knoblauch and Abraham Provoost and Detlev Ganten and Colman, \{Steven D.\} and Jonathan Rothberg and Lander, \{Eric S.\} and Jacob, \{Howard J.\}",

year = "1999",

month = jun,

language = "英语",

volume = "9",

pages = "AP1--AP8",

journal = "Genome Research",

issn = "1088-9051",

publisher = "Cold Spring Harbor Laboratory Press",

number = "6",

}

Steen, RG, Kwitek-Black, AE, Glenn, C, Gullings-Handley, J, Van Etten, W, Atkinson, OS, Appel, D, Twigger, S, Muir, M, Mull, T, Granados, M, Kissebah, M, Russo, K, Crane, R, Popp, M, Peden, M, Matise, T, Brown, DM, Lu, J, Kingsmore, S, Tonellato, PJ, Rozen, S, Slonim, D, Young, P, Knoblauch, M, Provoost, A, Ganten, D, Colman, SD, Rothberg, J, Lander, ES & Jacob, HJ 1999, 'A high-density integrated genetic linkage and radiation hybrid map of the laboratory rat', Genome Research, vol. 9, no. 6, pp. AP1-AP8.

TY - JOUR

T1 - A high-density integrated genetic linkage and radiation hybrid map of the laboratory rat

AU - Steen, Robert G.

AU - Kwitek-Black, Anne E.

AU - Glenn, Christopher

AU - Gullings-Handley, Jo

AU - Van Etten, William

AU - Atkinson, O. Scott

AU - Appel, Diane

AU - Twigger, Simon

AU - Muir, Melanie

AU - Mull, Tim

AU - Granados, Mary

AU - Kissebah, Mushira

AU - Russo, Kerri

AU - Crane, Robbin

AU - Popp, Michael

AU - Peden, Marc

AU - Matise, Tara

AU - Brown, Donna M.

AU - Lu, Jian

AU - Kingsmore, Stephen

AU - Tonellato, Peter J.

AU - Rozen, Steve

AU - Slonim, Donna

AU - Young, Peter

AU - Knoblauch, Margit

AU - Provoost, Abraham

AU - Ganten, Detlev

AU - Colman, Steven D.

AU - Rothberg, Jonathan

AU - Lander, Eric S.

AU - Jacob, Howard J.

PY - 1999/6

Y1 - 1999/6

N2 - The laboratory rat (Rattus norvegicus) is a key animal model for biomedical research. However, the genetic infrastructure required for connecting phenotype and genotype in the rat is currently incomplete. Here, we report the construction and integration of two genomic maps: a dense genetic linkage map of the rat and the first radiation hybrid (RH) map of the rat. The genetic map was constructed in two F2 intercrosses (SHRSP x BN and FHH x ACI), containing a total of 4736 simple sequence length polymorphism (SSLP) markers. Allele sizes for 4328 of the genetic markers were characterized in 48 of the most commonly used inbred strains. The RH map is a lod ≥ 3 framework map, including 983 SSLPs, thereby allowing integration with markers on various genetic maps and with markers mapped on the RH panel. Together, the maps provide an integrated reference to > 3000 genes and ESTs and > 8500 genetic markers (5211 of our SSLPs and > 3500 SSLPs developed by other groups). RH maps (v. 2.0) have been posted on our web sites at http://goliath.ifrc.mcw.edu/LGR/index.html or http://curatools.curagen.com/ratmap. Both web sites provide an RH mapping server where investigators can localize their own RH vectors relative to this map. The raw data have been deposited in the RHdb database. Taken together, these maps provide the basic tools for rat genomics. The RH map provides the means to rapidly localize genetic markers, genes, and ESTs within the rat genome. These maps provide the basic tools for rat genomics. They will facilitate studies of multifactorial disease and functional genomics, allow construction of physical maps, and provide a scaffold for both directed and large-scale sequencing efforts and comparative genomics in this important experimental organism.

AB - The laboratory rat (Rattus norvegicus) is a key animal model for biomedical research. However, the genetic infrastructure required for connecting phenotype and genotype in the rat is currently incomplete. Here, we report the construction and integration of two genomic maps: a dense genetic linkage map of the rat and the first radiation hybrid (RH) map of the rat. The genetic map was constructed in two F2 intercrosses (SHRSP x BN and FHH x ACI), containing a total of 4736 simple sequence length polymorphism (SSLP) markers. Allele sizes for 4328 of the genetic markers were characterized in 48 of the most commonly used inbred strains. The RH map is a lod ≥ 3 framework map, including 983 SSLPs, thereby allowing integration with markers on various genetic maps and with markers mapped on the RH panel. Together, the maps provide an integrated reference to > 3000 genes and ESTs and > 8500 genetic markers (5211 of our SSLPs and > 3500 SSLPs developed by other groups). RH maps (v. 2.0) have been posted on our web sites at http://goliath.ifrc.mcw.edu/LGR/index.html or http://curatools.curagen.com/ratmap. Both web sites provide an RH mapping server where investigators can localize their own RH vectors relative to this map. The raw data have been deposited in the RHdb database. Taken together, these maps provide the basic tools for rat genomics. The RH map provides the means to rapidly localize genetic markers, genes, and ESTs within the rat genome. These maps provide the basic tools for rat genomics. They will facilitate studies of multifactorial disease and functional genomics, allow construction of physical maps, and provide a scaffold for both directed and large-scale sequencing efforts and comparative genomics in this important experimental organism.

UR - https://www.scopus.com/pages/publications/0344223322

M3 - 文章

C2 - 10400928

AN - SCOPUS:0344223322

SN - 1088-9051

VL - 9

SP - AP1-AP8

JO - Genome Research

JF - Genome Research

IS - 6

ER -

A high-density integrated genetic linkage and radiation hybrid map of the laboratory rat

Abstract

Other files and links

Fingerprint

Cite this