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22 results on '"Magnusdottir, Steinunn"'

1. A note on a mother-foetus pair and alleged father match in the Atlantic fin whale (Balaenoptera physalus) off Iceland

Author

Pampoulie, Christophe, primary, Olafsdottir, Gudbjorg, additional, Hauksdottir, Sigurbjorg, additional, Skirnisdottir, Sigurlaug, additional, Olafsson, Kristinn, additional, Magnusdottir, Steinunn, additional, Chosson, Valerie, additional, Halldorsson, Sverrir Daniel, additional, Olafsdottir, Droplaug, additional, Gunnlaugsson, Thorvaldur, additional, Danielsdottir, Anna K., additional, and Vikingsson, Gisli A., additional

Published
2023
Full Text
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6. Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafsdottir Gudbjorg, Magnusdottir Steinunn, de Leaniz Carlos, Knox David, Consuegra Sonia, Bjornsdottir Snaedis, Tompsett Scott, Olafsson Kristinn, Fridjonsson Olafur, Verspoor Eric, and Hjorleifsdottir Sigridur

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Approximately half of the mitochondrial genome inherent within 546 individual Atlantic salmon (Salmo salar) derived from across the species' North Atlantic range, was selectively amplified with a novel combination of standard PCR and pyro-sequencing in a single run using 454 Titanium FLX technology (Roche, 454 Life Sciences). A unique combination of barcoded primers and a partitioned sequencing plate was employed to designate each sequence read to its original sample. The sequence reads were aligned according to the S. salar mitochondrial reference sequence (NC_001960.1), with the objective of identifying single nucleotide polymorphisms (SNPs). They were validated if they met with the following three stringent criteria: (i) sequence reads were produced from both DNA strands; (ii) SNPs were confirmed in a minimum of 90% of replicate sequence reads; and (iii) SNPs occurred in more than one individual. Results Pyrosequencing generated a total of 179,826,884 bp of data, and 10,765 of the total 10,920 S. salar sequences (98.6%) were assigned back to their original samples. The approach taken resulted in a total of 216 SNPs and 2 indels, which were validated and mapped onto the S. salar mitochondrial genome, including 107 SNPs and one indel not previously reported. An average of 27.3 sequence reads with a standard deviation of 11.7 supported each SNP per individual. Conclusion The study generated a mitochondrial SNP panel from a large sample group across a broad geographical area, reducing the potential for ascertainment bias, which has hampered previous studies. The SNPs identified here validate those identified in previous studies, and also contribute additional potentially informative loci for the future study of phylogeography and evolution in the Atlantic salmon. The overall success experienced with this novel application of HT sequencing of targeted regions suggests that the same approach could be successfully applied for SNP mining in other species.

Published
2011
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7. Additional file 1 of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater
Abstract

Additional file 1:Table S1: Sampling locations. The file shows the sampling locations and the number of individuals per location as well as grouping of samples (DOCX 19 KB)

8. Additional file 3 of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater
Abstract

Additional file 3:Table S3: mtDNA SNPs validated in this study. The file shows the validated SNPs, their location according to S. salar mitochondrial DNA reference sequence (NC_001960.1); the number of individuals supporting the SNP; and the sequence coverage per individual. (DOCX 50 KB)

9. Additional file 4 of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater
Abstract

Additional file 4:Table S4: The primer set for the 20 amplicons used in this study. The file shows the designation and the sequence of the primers used, as well as the primer binding sites on the mitochondrial DNA according to the reference sequence (NC_001960.1). (DOCX 16 KB)

12. Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater, hormones, hormone substitutes, and hormone antagonists, 3. Good health
Abstract

Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

13. Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater, hormones, hormone substitutes, and hormone antagonists, 3. Good health
Abstract

Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

14. Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater, hormones, hormone substitutes, and hormone antagonists, 3. Good health
Abstract

Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

15. Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater, hormones, hormone substitutes, and hormone antagonists, 3. Good health
Abstract

Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

16. Additional file 1 of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater
Abstract

Additional file 1:Table S1: Sampling locations. The file shows the sampling locations and the number of individuals per location as well as grouping of samples (DOCX 19 KB)

17. Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater, hormones, hormone substitutes, and hormone antagonists, 3. Good health
Abstract

Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

18. Additional file 2 of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater, 3. Good health
Abstract

Additional file 2:Figure S1: Distribution of read length Table S2: Read length statistics of the FLX sequencing run. The file contains a graph showing the number of reads vs. read length and a table indicating the read length statistics of the FLX sequencing run. (DOCX 26 KB)

19. Additional file 3 of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater
Abstract

Additional file 3:Table S3: mtDNA SNPs validated in this study. The file shows the validated SNPs, their location according to S. salar mitochondrial DNA reference sequence (NC_001960.1); the number of individuals supporting the SNP; and the sequence coverage per individual. (DOCX 50 KB)

20. Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater, hormones, hormone substitutes, and hormone antagonists, 3. Good health
Abstract

Additional file of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

21. Additional file 2 of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater, 3. Good health
Abstract

Additional file 2:Figure S1: Distribution of read length Table S2: Read length statistics of the FLX sequencing run. The file contains a graph showing the number of reads vs. read length and a table indicating the read length statistics of the FLX sequencing run. (DOCX 26 KB)

22. Additional file 4 of Detection and mapping of mtDNA SNPs in Atlantic salmon using high throughput DNA sequencing

Author

Olafur Fridjonsson, Olafsson, Kristinn, Tompsett, Scott, Snaedis Bjornsdottir, Consuegra, Sonia, Knox, David, Leaniz, Carlos Garcia De, Magnusdottir, Steinunn, Gudbjorg Olafsdottir, Verspoor, Eric, and Sigridur Hjorleifsdottir

Subjects
14. Life underwater
Abstract

Additional file 4:Table S4: The primer set for the 20 amplicons used in this study. The file shows the designation and the sequence of the primers used, as well as the primer binding sites on the mitochondrial DNA according to the reference sequence (NC_001960.1). (DOCX 16 KB)

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