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Tomas Bergström

Tomas Bergström
My research is mainly focused on inherited retinal diseases such as progressive retinal atrophy (PRA) that leads to visual impairment and blindness in dogs.

Teaching

2021-present: Course leader for Animal genetics at the course Populations medicine (VM0118) for veterinary students.
2018-present: Course leader for the course “Clinical genomics in veterinary medicine (VM0130, VM0116) at SLU.
2016-present: Course leader for the masters course “Research Training and Project (HV0118, HV0176)” at SLU.
2002-2007: Course leader for the post-graduate course “Rudbeck seminars in tumor biology, genetics and molecular biology”.
2001-2004: Course leader for the course “Bioinformatics and Comparative Genomics”.
Giving lectures in the field of bioinformatics, comparative genomics and molecular evolution at several courses including the medical program (UU) and the veterinary program (SLU).

Background

Education / Appointments
2021 Chair of SLU nomination committee and vice chair VH nomination committee.
2019 Deputy head of department (Biträdande / Ställföreträdande prefekt) at the Department of Animal Breeding and Genetics, Faculty of Veterinary Medicine and Animal Science, Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden. 
2014 Associate Professor (Docent) at the Faculty of Veterinary Medicine and Animal Science, Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden. 
1998 PhD. Dept. of Medical Genetics. Uppsala University, Uppsala, Sweden. (Theses defense: Dec 5, 1997).
1991 B Sc. Biology. Uppsala University, Sweden.

Selected publications

Peer reviewed articles in international journals
 
1.     Ekesten B., Mäkeläinen M., Ellis S., Kjellström U., Bergström T.F. Abnormal Appearance of the Area Centralis in Labrador Retrievers With an ABCA4 Loss-of-function Mutation. Translational Vision Science & Technology. 2022 Feb 1;11(2):36.  doi: 10.1167/tvst.11.2.36.
 
2.     Wang C., Wallerman O., Arendt M.L., Sundström E., Karlsson Å., Nordin J., Mäkeläinen S., Pielberg G.R., Hanson J., Ohlsson Å., Saellström S., Rönnberg H., Ljungvall I., Häggström J., Bergström T.F., Hedhammar Å., Meadows J.R.S., Lindblad-Toh K. A novel canine reference genome resolves genomic architecture and uncovers transcript complexity. Commun Biol. 2021 Feb 10;4(1):185. doi: 10.1038/s42003-021-01698-x.
 
3.     Mäkeläinen S., Hellsand M., van der Heiden A.D., Andersson E., Thorsson E., S. Holst B., Häggström J., Ljungvall I., Mellersh C., Hallböök F., Andersson G., Ekesten B., Bergström T.F. Deletion in the Bardet-Biedl Syndrome Gene TTC8 Results in a Syndromic Retinal Degeneration in Dogs. Genes (Basel). 2020 Sep 18;11(9):1090. doi: 10.3390/genes11091090.


4.     Mäkeläinen .S., Gòdia M., Hellsand M., Viluma A., Hahn D., Makdoumi K., Zeiss C.J., Mellersh C., Ricketts S.L., Narfström K., Hallböök F., Ekesten B., Andersson G., Bergström T.F. An ABCA4 loss-of-function mutation causes a canine form of Stargardt disease. PLoS Genet. 2019 Mar 19;15(3):e1007873. doi: 10.1371/journal.pgen.1007873. eCollection 2019 Mar.


5.     Martin F., Höglund J., Bergström T.F., Karlsson Lindsjö O., Tydén E. Resistance to pyrantel embonate and efficacy of fenbendazole in Parascaris univalens on Swedish stud farms. Vet Parasitol. 2018 Dec 15;264:69-73. doi: 10.1016/j.vetpar.2018.11.003. Epub 2018 Nov 10.
 
6.     Genova F., M. Longeri, L. A. Lyons, A. Bagnato, the 99Lives Consortium and M. G. Strillacci. BMC Genomics 2018. 19:895First genome-wide CNV mapping in FELIS CATUS using next generation sequencing data. doi: 10.1186/s12864-018-5297-2.
 
7.     Viluma A., Mikko S., Hahn D., Skow L., Andersson G., Bergström T.F. (2017). Genomic structure of the horse major histocompatibility complex class II region resolved using PacBio long-read sequencing technology. Scientific Reports 7, Article number: 45518. doi: 10.1038/srep45518


8.     Sayyab S, Viluma A., Bergvall K., Brunberg E., Jagannathan V., Leeb T., Andersson G., Bergström T.F. (2016). Whole-Genome Sequencing of a Canine Family Trio Reveals a FAM83G Variant Associated with Hereditary Footpad Hyperkeratosis. G3 (Bethesda). 2016 Jan 8;6(3):521-7. doi: 10.1534/g3.115.02564
 
9.     Viluma A., Sayyab S., Mikko S., Andersson G., Bergström T.F. (2015). Evaluation of Whole-Genome Sequencing of Four Chinese Crested Dogs for Variant Detection Using the Ion Proton System. Canine Genetics and Epidemiology, 2015 Oct 8;2:16. doi: 10.1186/s40575-015-0029-2. eCollection 2015.


10.  Shrestha M., Eriksson S., Schurink A., Andersson L.S., Sundquist M., Frey R., Broström H., Bergström T., Ducro B., Lindgren G. (2015). Genome-Wide Association Study of Insect Bite Hypersensitivity in Swedish-Born Icelandic Horses. J Hered. 2015 Jul-Aug;106(4):366-74. doi: 10.1093/jhered/esv033. Epub 2015 May 29.
 
 
11.  Svensson M., Olsén L., Winkler P.A., Petersen-Jones S.M., Bergström T. Garncarz Y., Narfström K. (2015). Progressive Retinal Atrophy in the Polski Owczarek Nizinny Dog: A Clinical and Genetic Study. Vet Ophthalmol.2015 May 22. doi: 10.1111/vop.12284.


12.  Downs LM, Wallin-Hakansson B, Bergström T.F and Mellersh CS (2014). A novel mutation in TTC8 is associated with progressive retinal atrophy in the golden retriever. Canine Genetics and Epidemiology. 1:4 
 
13.  Narfström K, Jalomäki S, Mowat F, Samardzija M, Chaudieu G, Bergström TF, Bragadottir R and Grimm C. (2014). Assessment of a Novel Pigmentary Chorioretinopathy in the Chinese Crested Dog. JSM Ophthalmol. 2(2): 1018. 
 
14.  Narfström K, Jeong M, Hyman J, Madsen RW, Bergström T.F. Assessment of hereditary retinal degeneration in the English springer spaniel dog and disease relationship to an RPGRIP1 mutation. (2012)
Stem Cells Int. 2012;2012:685901. doi: 10.1155/2012/685901.


15.  Downs LM, Wallin-Hakansson B, Boursnell M, Marklund S, Hedhammar A, Truve K, Hubinette L, Lindblad-Toh K, Bergstrom T, Mellersh CS. (2011). A frameshift mutation in golden retriever dogs with progressive retinal atrophy endorses SLC4A3 as a candidate gene for human retinal degenerations. PLoS One 6: e21452


Hertil, E., Bergström, T., Kell, Ü., Karlstam, L., Ekman, S., and Ekesten, B. (2010). “Retinal degeneration in nine Swedish Jämthund dogs”. Veterinary Ophthalmology, 13 (2): 110-116.


17.  Wetterbom, A.L., Gyllensten, U., Cavelier, L., Bergström, T.F. (2009). Genome-wide analysis of chimpanzee genes with premature termination codons. BMC Genomics, 10:56.
 
18.  Wetterbom, A.L., Cavelier, L., Bergström, T.F. (2008). Indels in the Evolution of the Human and Chimpanzee Genomes. Encyclopedia of Life Sciences DOI:10.1002/9780470015902.a0020851
 
Von Salomé, J., Gyllensten, U., Bergström, T.F. (2007). Full Length Sequence Analysis of HLA-DRB1 locus suggests recent origin of alleles. Immunogenetics, 59(4): 261-271
 
20.  Wetterbom, A.L., Sevov, M., Cavelier, L., Bergström, T.F. (2006). Comparative genomic analysis of human and chimpanzee indicates a key role for indels in primate evolution.  J. Mol. Evol. 63(5), 682-690
 
Saetre, P., Strandberg, E., Sundgren, P.E., Petterson, U., Jazin, E. and Bergström, T.F. (2006). The Genetic Contribution of Canine Personality Traits. Genes, Brain and Behavior, 5(3), 240-248.
 
Näslund, K., Saetre, P., von Salome, J., Bergström, T.F., Jareborg, N. and Jazin, E. (2005). Genome-wide prediction of human VNTRs. Genomics, 85, 24-35.
 
Saetre, P., Lindberg, Leonard, J.A., Olsson, K., Pettersson, U., Ellegren, H., Bergström, T.F., Vilà, C., Jazin, E. (2004). From wild wolf to domestic dog: gene expression changes in the brain. Mol Brain Res. 126(2), 198-206.
 
 
Bergström, T.F. Mack, S.J., Gyllensten, U. and Erlich, H.A. (1999). Evolution of the HLA-DRB loci, DRB1 lineages, and alleles: analyses of intron-1 and -2 sequences. In Major Histocompatibility Complex: Evolution, Structure, and Function. M. Kasahara (ed.). (Tokyo Berlin Heidelberg New York: Springer-Verlag), pp. 329-346.
 
Bergström, T. F., Engkvist, H., Erlandsson, R., Josefsson, A., Mack, S. J., Erlich, H. A. and Gyllensten, U. (1999). Tracing the Origin of HLA-DRB1 Alleles by Microsatellite Polymorphism. Am J Hum Genet 64, 1709-1718.
 
Bergström, T. F., Erlandsson, R., Engkvist, H., Josefsson, A., Erlich, H. A. and Gyllensten, U. (1999). Phylogenetic history of hominoid DRB loci and estimation of substitution rate inferred from intron sequences. Immunol Rev Feb, 351-365.
 
Bergström, T. F., Josefsson, A., Erlich, H. A. and Gyllensten, U. (1998). Recent origin of HLA-DRB1 alleles and implications for human evolution. Nat Genet 18, 237-242.
 
Bergström, T. F., Josefsson, A., Erlich, H. A. and Gyllensten, U. B. (1997). Analysis of intron sequences at the class II HLA-DRB1 locus: implications for the age of allelic diversity. Hereditas 127, 1-5.
 
Erlich, H. A., Mack, S. J., Bergström, T. and Gyllensten, U. B. (1997). HLA class II alleles in Amerindian populations: implications for the evolution of HLA polymorphism and the colonization of the Americas. Hereditas 127, 19-24.
 
Gyllensten, U., Bergström, T. and Erlich, H. (1997). The DQ loci. In Molecular Biology and Evolution of Blood Group and MHC Antigens in Primates, A. Blancher, J. Klein and W. W. Socha, eds. (Berlin, Heidelberg: Springer-Verlag), pp. 386-401.
 
Erlich, H. A., Bergström, T. F., Stoneking, M. and Gyllensten, U. (1996). HLA Sequence Polymorphism and the Origin of Humans. Science 274, 1552-1554.
 
Gyllensten, U., Bergström, T., Josefsson, A., Sundvall, M. and Erlich, H. A. (1996). Rapid allelic diversification and intensified selection at antigen recognition sites of the MHC class II DPB1 locus during hominoid evolution. Tissue Antigens (New journal title: HLA) 47, 212-221.
 
Ylitalo N, Bergström T. and Gyllensten U. (1995). Detection of genital human papillomavirus by single-tube nested PCR and type-specific oligonucleotide hybridization. J Clin Microbiol. 33(7): 1822-1828.
 
Bergström, T. and Gyllensten, U. (1995). Evolution of Mhc class II polymorphism: the rise and fall of class II gene function in primates. Immunol Rev 143, 13-31.
 
 
Gyllensten, U., Bergström, T., Josefsson, A., Sundvall, M., Savage, A., Blumer, E. S., Giraldo, L. H., Soto, L. H. and Watkins, D. I. (1994). The cotton-top tamarin revisited: Mhc class I polymorphism of wild tamarins, and polymorphism and allelic diversity of the class II DQA1, DQB1, and DRB loci. Immunogenetics 40, 167-176.
 
 
 
Popular Science
 
Bergström, T.F. (2005). Raser och Gener, i Vetenskap eller villfarelse. Jesper Jerkert och Sven Ove Hansson (red.). Leopard förlag, Stockholm. pp 117-131.


Contact

Head of department, Researcher at the Department of Animal Breeding and Genetics; Molecular genetics, HgenLab
Telephone: +4618671997, +46725662082
Postal address:
HGEN, Husdjursgenetiska laboratoriet, Box 7023
75007 UPPSALA
Visiting address: Ulls väg 26, Uppsala