Identification and evaluation of novel di- and tetranucleotide microsatellite markers from the brown bear (Ursus arctos)

被引：5

作者：

Kleven O. ^{[1
]}

Hallström B.M. ^{[2
]}

Hailer F. ^{[2
]}

Janke A. ^{[2
,3
]}

Hagen S.B. ^{[1
]}

Kopatz A. ^{[1
]}

Eiken H.G. ^{[1
]}

机构：

[1] Bioforsk Soil and Environment, Svanhovd, Norwegian Institute for Agricultural and Environmental Research

[2] LOEWE, Biodiversity and Climate Research Centre, BiK-F, Senckenberg GesellSchaft für Naturforschung, 60325 Frankfurt

[3] Goethe University Frankfurt, 60323 Frankfurt

来源：

Conservation Genetics Resources | 2012年 / 4卷 / 3期

关键词：

Di- and tetranucleotide microsatellites; Genetic variation; High-throughput sequencing; Multiplex PCR; Non-invasive samples; Ursus arctos;

D O I：

10.1007/s12686-012-9634-5

中图分类号：

学科分类号：

摘要：

We here describe 34 novel microsatellite loci from the brown bear (Ursus arctos) identified using a next-generation sequencing approach. While we found allelic variation in 30 of these, we selected 16 polymorphic microsatellites (11 di- and 5 tetranucleotide repeats) for four multiplex-PCR assays based on genetic variability, PCR performance and interpretability. Applying these assays for the 16 novel microsatellites, we screened 31 brown bears from a northern European population. The number of alleles encountered at single loci was between 4 and 10, and expected and observed heterozygosities ranged between 0.66-0.85 and 0.60-0.97, respectively. Seven of 120 pairwise locus combinations showed linkage disequilibrium and one locus deviated from Hardy-Weinberg equilibrium, while no null-alleles were detected. Our novel multiplex-PCR assays may be useful in forensics, parentage and population genetic studies. © 2012 Springer Science+Business Media B.V.

引用

页码：737 / 741

页数：4

共 14 条

[1] Andreassen R., Schregel J., Kopatz A., Tobiassen C., Knappskog P.M., Hagen S.B., Kleven O., Schneider M., Kojola I., Aspi J., Rykov A., Tirronen K.F., Danilov P.I., Eiken H.G., A forensic DNA profiling system for Northern European brown bears (Ursus arctos), Forensic Sci Int Genet, (2012)
[2] Delamoye M., Duverneuil K., Riva K., Leterreux S., Taieb P., False homozygosities at various loci revealed by discrepancies between commercial kits: implications for genetic databases, Forensic Sci Int, 143, pp. 47-52, (2004)
[3] Eiken H.G., Andreassen R., Kopatz A., Bjervamoen S.G., Wartiainen I., Tobiassen C., Knappskog P.M., Aspholm P.E., Smith M.E., Aspi J., Population data for 12 STR loci in Northern European brown bear (Ursus arctos) and application of DNA profiles for forensic casework, Forensic Sci Int Genet Suppl, 2, pp. 273-274, (2009)
[4] Excoffier L., Lischer H.E.L., Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows, Mol Ecol Res, 10, pp. 564-567, (2010)
[5] Kofler R., Schlotterer C., Lelley T., SciRoKo: a new tool for whole genome microsatellite search and investigation, Bioinformatics, 23, pp. 1683-1685, (2007)
[6] Kopatz A., Eiken H.G., Hagen S.B., Ruokonen M., Esparza-Salas R., Schregel J., Kojola I., Smith M., Wartiainen I., Aspholm P.E., Wikan S., Rykov A., Makarova O., Polikarpova N., Tirronen K., Danilov P., Aspi J., Connectivity and population subdivision at the fringe of a large brown bear (Ursus arctos) population in North Western Europe, Conserv Genet, pp. 1-12, (2012)
[7] Linacre A., Gusmao L., Hecht W., Hellmann A.P., Mayr W.R., Parson W., Prinz M., Schneider P.M., Morling N., ISFG: recommendations regarding the use of non-human (animal) DNA in forensic genetic investigations, Forensic Sci Int Genet, 5, pp. 501-505, (2011)
[8] Paetkau D., Strobeck C., Microsatellite analysis of genetic variation in black bear populations, Mol Ecol, 3, pp. 489-495, (1994)
[9] Rice W.R., Analyzing tables of statistical tests, Evolution, 43, pp. 223-225, (1989)
[10] Rousset F., GENEPOP'007: a complete re-implementation of the GENEPOP software for Windows and Linux, Mol Ecol Res, 8, pp. 103-106, (2008)

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