publication . Preprint . 2016

Genomic testing of landlocked Kildin cod (Gadus morhua kildinensis) for its ancestral state: stationary or migratory ecotype?

Anastasia A Teterina; Lev A Zhivotovsky;
Open Access
  • Published: 03 Oct 2016
  • Publisher: PeerJ
Abstract
<jats:p>Kildin cod is a small landlocked population of Atlantic cod reproductively isolated from marine counterparts for around 1500-2000 years. The Kildin cod lives in a shallow meromictic lake in the five-meter intermediate layer of water with sharp gradients of oxygen and salinity. The cod had an effective population size of around one hundred individuals and evolved unique physiological, morphological and behavioral features. The marine Atlantic cod has two ecologically distinct forms: the stationary (coastal) and migratory (deep-water) ecotypes that differ in migratory behavior and habitat preferences (the depth, oxygen content, salinity and temperature). T...
46 references, page 1 of 4

1. Andreev V, Fokin M, Mugue N, Strelkov P (2015) Long-term persistence and evolutionary divergence of a marine fish population with a very small effective population size (Kildin cod Gadus morhua kildinensis). Marine Biology 162, 979-992. [OpenAIRE]

2. Berg E, Albert OT (2003) Cod in fjords and coastal waters of North Norway: distribution and variation in length and maturity at age. ICES Journal of Marine Science: Journal du Conseil 60, 787-797.

3. Berg PR, Jentoft S, Star B et al. (2015) Adaptation to low salinity promotes genomic divergence in Atlantic cod (Gadus morhua L.). Genome biology and evolution 7, 1644- 1663. [OpenAIRE]

4. Berg PR, Star B, Pampoulie C et al. (2016) Three chromosomal rearrangements promote genomic divergence between migratory and stationary ecotypes of Atlantic cod. Scientific reports 6, 23246.

5. Bradbury IR, Bowman S, Borza T (2014) Long distance linkage disequilibrium and limited hybridization suggest cryptic speciation in Atlantic cod. PloS one 9, 106380.

6. Bradbury IR, Hubert S, Higgins B et al. (2010) Parallel adaptive evolution of Atlantic cod on both sides of the Atlantic Ocean in response to temperature. Proceedings of the Royal Society of London B: Biological Sciences 277, 3725-3734.

7. Brander KM (1995) The effect of temperature on growth of Atlantic cod (Gadus morhua L.). ICES Journal of Marine Science: Journal du Conseil 52, 1-10. [OpenAIRE]

8. Cingolani P, Platts A, Wang LL et al. (2012) A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly 6, 80-92.

9. Derjugin KM (1920) Eine neue Kabeljau-oder Dorschform aus dem See Mogilnoje (Insel Kildin). Travaux de la Societe des Naturalistes de Petrograde LI, 1-3

10. Derjugin KM (1925) Relikt lake Mogilnoe (Island Kildin in the Barents Sea). Glavnauka, Leningrad (in Russian).

11. Durinck S, Spellman PT, Birney E, Huber W (2009) Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt. Nature protocols 4, 1184-1191.

12. Engelhard GH, Ellis JR, Payne MR et al. (2011) Ecotypes as a concept for exploring responses to climate change in fish assemblages. ICES Journal of Marine Science 68, 1189-1198. [OpenAIRE]

13. Garrison E, Marth G (2012) Haplotype-based variant detection from short-read sequencing. arXiv preprint arXiv:1207.3907.

14. Gurevich VI, Liiva AA (1975) Age of the lake Mogilnoe. Relict Lake Mogilnoe. Nauka, Leningrad,102-104.

15. Hardie DC, Gillett RM, Hutchings JA (2006) The effects of isolation and colonization history on the genetic structure of marine-relict populations of Atlantic cod (Gadus morhua) in the Canadian Arctic. Canadian Journal of Fisheries and Aquatic Sciences 63, 1830-1839.

46 references, page 1 of 4
Abstract
<jats:p>Kildin cod is a small landlocked population of Atlantic cod reproductively isolated from marine counterparts for around 1500-2000 years. The Kildin cod lives in a shallow meromictic lake in the five-meter intermediate layer of water with sharp gradients of oxygen and salinity. The cod had an effective population size of around one hundred individuals and evolved unique physiological, morphological and behavioral features. The marine Atlantic cod has two ecologically distinct forms: the stationary (coastal) and migratory (deep-water) ecotypes that differ in migratory behavior and habitat preferences (the depth, oxygen content, salinity and temperature). T...
46 references, page 1 of 4

1. Andreev V, Fokin M, Mugue N, Strelkov P (2015) Long-term persistence and evolutionary divergence of a marine fish population with a very small effective population size (Kildin cod Gadus morhua kildinensis). Marine Biology 162, 979-992. [OpenAIRE]

2. Berg E, Albert OT (2003) Cod in fjords and coastal waters of North Norway: distribution and variation in length and maturity at age. ICES Journal of Marine Science: Journal du Conseil 60, 787-797.

3. Berg PR, Jentoft S, Star B et al. (2015) Adaptation to low salinity promotes genomic divergence in Atlantic cod (Gadus morhua L.). Genome biology and evolution 7, 1644- 1663. [OpenAIRE]

4. Berg PR, Star B, Pampoulie C et al. (2016) Three chromosomal rearrangements promote genomic divergence between migratory and stationary ecotypes of Atlantic cod. Scientific reports 6, 23246.

5. Bradbury IR, Bowman S, Borza T (2014) Long distance linkage disequilibrium and limited hybridization suggest cryptic speciation in Atlantic cod. PloS one 9, 106380.

6. Bradbury IR, Hubert S, Higgins B et al. (2010) Parallel adaptive evolution of Atlantic cod on both sides of the Atlantic Ocean in response to temperature. Proceedings of the Royal Society of London B: Biological Sciences 277, 3725-3734.

7. Brander KM (1995) The effect of temperature on growth of Atlantic cod (Gadus morhua L.). ICES Journal of Marine Science: Journal du Conseil 52, 1-10. [OpenAIRE]

8. Cingolani P, Platts A, Wang LL et al. (2012) A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly 6, 80-92.

9. Derjugin KM (1920) Eine neue Kabeljau-oder Dorschform aus dem See Mogilnoje (Insel Kildin). Travaux de la Societe des Naturalistes de Petrograde LI, 1-3

10. Derjugin KM (1925) Relikt lake Mogilnoe (Island Kildin in the Barents Sea). Glavnauka, Leningrad (in Russian).

11. Durinck S, Spellman PT, Birney E, Huber W (2009) Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt. Nature protocols 4, 1184-1191.

12. Engelhard GH, Ellis JR, Payne MR et al. (2011) Ecotypes as a concept for exploring responses to climate change in fish assemblages. ICES Journal of Marine Science 68, 1189-1198. [OpenAIRE]

13. Garrison E, Marth G (2012) Haplotype-based variant detection from short-read sequencing. arXiv preprint arXiv:1207.3907.

14. Gurevich VI, Liiva AA (1975) Age of the lake Mogilnoe. Relict Lake Mogilnoe. Nauka, Leningrad,102-104.

15. Hardie DC, Gillett RM, Hutchings JA (2006) The effects of isolation and colonization history on the genetic structure of marine-relict populations of Atlantic cod (Gadus morhua) in the Canadian Arctic. Canadian Journal of Fisheries and Aquatic Sciences 63, 1830-1839.

46 references, page 1 of 4
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