Abstract
Following several criteria, we collected, clustered, and functionally categorized 653 expressed sequence tags (ESTs) of 5′ ends from porcine back fat libraries from the >15,000 porcine ESTs collected to date. By searching the LocusLink and Mapviewer database, we knew the positions of these 653 ESTs on human chromosomes (HSAs). Sus scrofa radiation hybrid (SSRH) mapping revealed that 298 porcine EST clusters out of 653 were localized near microsatellite (MS) markers. Among these EST clusters, we could assign 182 to their porcine chromosomes (SSCs) on the SSRH map.
This is a preview of subscription content, log in via an institution to check access.
Similar content being viewed by others
References
J Burke D Davison W Hide (1999) ArticleTitled2_cluster: a validated method for clustering EST and full-length cDNA sequences. Genome Res 9 1135–1142
AR Caetano RK Johnson D Pomp (2003) ArticleTitleGeneration and sequence characterization of a normalized cDNA library from swine ovarian follicles. Mamm Genome 14 65–70
S Cirera CB Jørgensen M Sawera T Raudsepp BP Chowdhary et al. (2003) ArticleTitleComparative mapping in the pig: localization of 214 expressed sequence tags. Mamm Genome 14 405–426
R Davoli L Fontanesi P Zambonelli D Bigi J Gellin et al. (2002) ArticleTitleIsolation of porcine expressed sequence tags for the construction of a first genomic transcript map of the skeletal muscle in pig. Anim Genet 33 3–18
L Frönicke BP Chowdhary H Scherthan I Gustavsson (1996) ArticleTitleA comparative map of the porcine and human genomes demonstrates ZOO-FISH and gene mapping-based chromosomal homologies. Mamm Genome 7 285–290
A Goureau M Yerle A Schmitz J Riquet D Milan et al. (1996) ArticleTitleHuman and porcine correspondence of chromosome segments using bidirectional chromosome painting. Genomics 36 252–262
A Goureau M Vignoles P Pinton J Gellin M Yerle (2000) ArticleTitleImprovement of comparative map between porcine chromosomes 1 and 7 and human chromosomes 6, 14, and 15 by using human YACs. Mamm Genome 11 796–799
N Hamasima H Suzuki A Mikawa T Morozumi G Plastow et al. (2003) ArticleTitleConstruction of a new porcine whole-genome framework map using a radiation hybrid panel. Anim Genet 34 216–220
RJ Hawken J Murtaugh GH Flickinger M Yerle A Robic et al. (1999) ArticleTitleA first-generation porcine whole-genome radiation hybrid map. Mamm Genome 10 824–830
Z Jiang H He N Hamasima H Suzuki G Verrinder (2002) ArticleTitleComparative mapping of Homo sapiens chromosome 4 (HSA4) and Sus scrofa chromosome 8 (SSC8) using orthologous genes representing different cytogenetic bands as landmarks. Genome 45 147–156
J Jurka (2001) ArticleTitleRepbase update: a database and an electronic journal of repetitive elements. Trends Genet 16 418–420
Y Lahbib-Mansais G Tosser-Klopp S Leroux C Cabau E Karsenty et al. (2003) ArticleTitleContribution to high-resolution mapping in pigs with 101 type I markers and progress in comparative map between humans and pigs. Mamm Genome 14 275–288
P Pinton L Schibler E Cribiu J Gellin M Yerle (2000) ArticleTitleLocalization of 113 anchor loci in pigs: improvement of the comparative map for humans, pigs, and goats. Mamm Genome 11 306–315
S Ponsuksili K Wimmers K Schellander (2001) ArticleTitleApplication of differential display RT-PCR to identify porcine liver ESTs. Gene 280 75–85
G Rettenberger J Bruch R Fries AL Archibald H Hameister (1996) ArticleTitleAssignment of 19 porcine type I loci by somatic cell hybrid analysis detects new regions of conserved synteny between human and pig. Mamm Genome 7 275–279
A Rink EM Santschi CW Beattie (2002a) ArticleTitleNormalized cDNA libraries from a porcine model of orthopedic implant-associated infection. Mamm Genome 13 198–205
A Rink EM Santschi KM Eyer B Roelofs M Hess et al. (2002b) ArticleTitleA first-generation EST RH comparative map of the porcine and human genome. Mamm Genome 13 578–587
GA Rohrer LJ Alexander Z Hu TP Smith JW Keele et al. (1996) ArticleTitleA comprehensive map of the porcine genome. Genome Res 6 371–391
S Rozen H Skaletsky (2000) ArticleTitlePrimer3 on the WWW for general users and for biologist programmers. Methods Mol Biol 132 365–386
GD Schuler MS Boguski TJ Hudson L Hui J Ma et al. (1996) ArticleTitleGenome maps 7. The human transcript map. Science 274 547–562
D Slonim L Kruglyak L Stein E Lander (1997) ArticleTitleBuilding human genome maps with radiation hybrids. J Comput Biol 4 487–504
AFA Smit (1996) ArticleTitleOrigin of interspersed repeats in the human genome. Curr Opin Genet Dev 6 743–749
C Soderlund T Lau P Deloukas (1998) ArticleTitleZ extensions to the RHMAPPER package. Bioinformatics 14 538–539
JC Venter MD Adams EW Myers PW Li RJ Mural et al. (2001) ArticleTitleThe sequence of the human genome. Science 291 1304–1351
J Yao PM Coussens P Saama S Suchyta CW Ernst (2002) ArticleTitleGeneration of expressed sequence tags from a normalized porcine skeletal muscle cDNA library. Anim Biotechnol 13 211–222
M Yerle P Pinton A Robic A Alfonso Y Palvadeau et al. (1998) ArticleTitleConstruction of a whole-genome radiation hybrid panel for high-resolution gene mapping in pigs. Cytogenet Cell Genet 82 182–188
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Mikawa, A., Suzuki, H., Suzuki, K. et al. Characterization of 298 ESTs from porcine back fat tissue and their assignment to the SSRH radiation hybrid map . Mamm Genome 15, 315–322 (2004). https://doi.org/10.1007/s00335-003-2323-7
Received:
Accepted:
Issue Date:
DOI: https://doi.org/10.1007/s00335-003-2323-7