salmonidae

Summary

Summary: A family of anadromous fish comprising SALMON; TROUT; whitefish; and graylings. They are the most important food and game fishes. Their habitat is the northern Atlantic and Pacific, both marine and inland, and the Great Lakes. (Nelson: Fishes of the World, 1976, p97)

Top Publications

  1. Woods P, Muller R, Seehausen O. Intergenomic epistasis causes asynchronous hatch times in whitefish hybrids, but only when parental ecotypes differ. J Evol Biol. 2009;22:2305-19 pubmed publisher
    ..Implications for the measurement and quantification of early life-history traits affected by this additive relationship, such as hatch day and larval size, are also discussed. ..
  2. Barson N, Haugen T, Vøllestad L, Primmer C. Contemporary isolation-by-distance, but not isolation-by-time, among demes of European Grayling (Thymallus thymallus, Linnaeus) with recent common ancestors. Evolution. 2009;63:549-56 pubmed publisher
  3. Vonlanthen P, Bittner D, Hudson A, Young K, Muller R, Lundsgaard Hansen B, et al. Eutrophication causes speciation reversal in whitefish adaptive radiations. Nature. 2012;482:357-62 pubmed publisher
    ..Preventing such extinctions will require that conservation efforts not only target existing species but identify and protect the ecological and evolutionary processes that generate and maintain species. ..
  4. Ward D, Nislow K, Armstrong J, Einum S, Folt C. Is the shape of the density-growth relationship for stream salmonids evidence for exploitative rather than interference competition?. J Anim Ecol. 2007;76:135-8 pubmed
    ..Our results highlight the general problem with determining the mechanism driving an ecological process from patterns in observational data within the context of linking population demographics to habitat structure and animal behaviour. ..
  5. Bittner D, Bernet D, Wahli T, Segner H, Kung C, Largiader C. How normal is abnormal? Discrimination between deformations and natural variation in gonad morphology of European whitefish Coregonus lavaretus. J Fish Biol. 2009;74:1594-614 pubmed publisher
    ..This suggests that these deviation types are probably reliable indicators for gonad deformations and supports the interpretation that Lake Thun harbours a unique case of deformed gonads in C. lavaretus of yet unknown origin. ..
  6. Crête Lafrenière A, Weir L, Bernatchez L. Framing the Salmonidae family phylogenetic portrait: a more complete picture from increased taxon sampling. PLoS ONE. 2012;7:e46662 pubmed publisher
    ..However, uncertainties persist in current Salmonidae phylogenies due to biological and methodological factors, and a comprehensive phylogeny including most ..
  7. Wiens G, Dale O. Renibacterium salmoninarum p57 antigenic variation is restricted in geographic distribution and correlated with genomic markers. Dis Aquat Organ. 2009;83:123-31 pubmed publisher
    ..These results indicate that limited antigenic and genomic variation exists between strains and this variation appears geographically restricted in distribution...
  8. Østbye K, Amundsen P, Bernatchez L, Klemetsen A, Knudsen R, Kristoffersen R, et al. Parallel evolution of ecomorphological traits in the European whitefish Coregonus lavaretus (L.) species complex during postglacial times. Mol Ecol. 2006;15:3983-4001 pubmed
    ..We propose that sparsely and densely rakered whitefish sympatric pairs may be a likely case of ecological speciation, mediated in oligotrophic lakes with few trophic competitors...
  9. Rogers S, Bernatchez L. The genetic basis of intrinsic and extrinsic post-zygotic reproductive isolation jointly promoting speciation in the lake whitefish species complex (Coregonus clupeaformis). J Evol Biol. 2006;19:1979-94 pubmed

More Information

Publications67

  1. Hudson A, Vonlanthen P, Seehausen O. Rapid parallel adaptive radiations from a single hybridogenic ancestral population. Proc Biol Sci. 2011;278:58-66 pubmed publisher
    ..However, we also find the genetic signature of human-mediated gene flow and diversity loss within many lakes, highlighting the fragility of recent radiations...
  2. Liso S, Gjelland K, Reshetnikov Y, Amundsen P. A planktivorous specialist turns rapacious: piscivory in invading vendace Coregonus albula. J Fish Biol. 2011;78:332-7 pubmed publisher
    ..The zooplankton resource was severely depleted and only made a minor dietary contribution...
  3. Snow M. The contribution of molecular epidemiology to the understanding and control of viral diseases of salmonid aquaculture. Vet Res. 2011;42:56 pubmed publisher
  4. Østbye K, Bernatchez L, Naesje T, Himberg K, Hindar K. Evolutionary history of the European whitefish Coregonus lavaretus (L.) species complex as inferred from mtDNA phylogeography and gill-raker numbers. Mol Ecol. 2005;14:4371-87 pubmed
    ..Whitefish designations based on gill-raker numbers were not associated with ancient clades. Lack of congruence in morphology and evolutionary lineages implies that the taxonomy of this species complex should be reconsidered...
  5. Bittner D, Excoffier L, Largiader C. Patterns of morphological changes and hybridization between sympatric whitefish morphs (Coregonus spp.) in a Swiss lake: a role for eutrophication?. Mol Ecol. 2010;19:2152-67 pubmed publisher
  6. Renaut S, Bernatchez L. Transcriptome-wide signature of hybrid breakdown associated with intrinsic reproductive isolation in lake whitefish species pairs (Coregonus spp. Salmonidae). Heredity (Edinb). 2011;106:1003-11 pubmed publisher
    ..Our results thus clearly showed a transcriptome-wide signature of hybrid breakdown in young, incipient species and demonstrated a persuasive link between misexpression of essential developmental genes and post-zygotic isolation...
  7. Davidson W, Huang T, Fujiki K, von Schalburg K, Koop B. The sex determining loci and sex chromosomes in the family salmonidae. Sex Dev. 2009;3:78-87 pubmed publisher
    ..The availability of a reference salmonid genome sequence would provide an important resource for research in this area...
  8. Kipfer S, Segner H, Wenger M, Wahli T, Bernet D. Long-term estrogen exposure of whitefish Coregonus lavaretus induces intersex but not Lake Thun-typical gonad malformations. Dis Aquat Organ. 2009;84:43-56 pubmed publisher
    ..The results provide evidence that estrogen-active compounds unlikely play a role in the etiology of gonad malformations in Lake Thun whitefish...
  9. Wheeler R, Davies R, Dalsgaard I, Garcia J, Welch T, Wagley S, et al. Yersinia ruckeri biotype 2 isolates from mainland Europe and the UK likely represent different clonal groups. Dis Aquat Organ. 2009;84:25-33 pubmed publisher
    ..UK Atlantic salmon isolates were genetically and serologically diverse, with 12 distinct pulsotypes identified among 32 isolates...
  10. Vonlanthen P, Roy D, Hudson A, Largiader C, Bittner D, Seehausen O. Divergence along a steep ecological gradient in lake whitefish (Coregonus sp.). J Evol Biol. 2009;22:498-514 pubmed publisher
  11. von Schalburg K, Rise M, Cooper G, Brown G, Gibbs A, Nelson C, et al. Fish and chips: various methodologies demonstrate utility of a 16,006-gene salmonid microarray. BMC Genomics. 2005;6:126 pubmed
    ..In order to evaluate the utility of the microarray, a number of hybridization techniques and screening methods have been developed and tested...
  12. Mauel M, Ware C, Smith P. Culture of Piscirickettsia salmonis on enriched blood agar. J Vet Diagn Invest. 2008;20:213-4 pubmed
    ..This report describes the successful culture of P. salmonis on enriched blood agar...
  13. de Boer J, Yazawa R, Davidson W, Koop B. Bursts and horizontal evolution of DNA transposons in the speciation of pseudotetraploid salmonids. BMC Genomics. 2007;8:422 pubmed
    ..We analyzed the DNA sequence of several large loci in Salmo salar and other species for the presence of DNA transposon families...
  14. Matveev V, Nishihara H, Okada N. Novel SINE families from salmons validate Parahucho (Salmonidae) as a distinct genus and give evidence that SINEs can incorporate LINE-related 3'-tails of other SINEs. Mol Biol Evol. 2007;24:1656-66 pubmed
    ..Its distribution among salmonids validates Parahucho (Japanese huchen) as a distinct monotypic genus...
  15. St Cyr J, Derome N, Bernatchez L. The transcriptomics of life-history trade-offs in whitefish species pairs (Coregonus sp.). Mol Ecol. 2008;17:1850-70 pubmed publisher
  16. Timusk E, Ferguson M, Moghadam H, Norman J, Wilson C, Danzmann R. Genome evolution in the fish family salmonidae: generation of a brook charr genetic map and comparisons among charrs (Arctic charr and brook charr) with rainbow trout. BMC Genet. 2011;12:68 pubmed publisher
    ..The formation of quadrivalents during meiosis leads to pseudolinkage. This phenomenon is more prevalent within 5 of the 12 ancestral teleost linkage groups in salmonids...
  17. Johnson M, Banks M. Sequence conservation among orthologous vomeronasal type 1 receptor-like (ora) genes does not support the differential tuning hypothesis in Salmonidae. Gene. 2011;485:16-21 pubmed publisher
    ..Our findings do not support the differential tuning hypothesis in Salmonidae, which predicts higher sequence conservation for mORs than ora...
  18. Seeb J, Pascal C, Grau E, Seeb L, Templin W, Harkins T, et al. Transcriptome sequencing and high-resolution melt analysis advance single nucleotide polymorphism discovery in duplicated salmonids. Mol Ecol Resour. 2011;11:335-48 pubmed publisher
    ..We anticipate using this pipeline to significantly expand the number of SNPs available for the studies of population structure and mixture analyses as well as for the studies of adaptive genetic variation in nonmodel organisms...
  19. Derome N, Duchesne P, Bernatchez L. Parallelism in gene transcription among sympatric lake whitefish (Coregonus clupeaformis Mitchill) ecotypes. Mol Ecol. 2006;15:1239-49 pubmed
    ..the hypothesis that phenotypic parallelism between dwarf and normal whitefish ecotypes (Coregonus clupeaformis, Salmonidae) is accompanied by parallelism in gene transcription...
  20. Kavanagh K, Haugen T, Gregersen F, Jernvall J, Vøllestad L. Contemporary temperature-driven divergence in a Nordic freshwater fish under conditions commonly thought to hinder adaptation. BMC Evol Biol. 2010;10:350 pubmed publisher
    ..These demes have common ancestors from a colonization event 22 generations ago. Consequently, we explore if diversification may occur under severely constraining conditions...
  21. Yasuike M, Jantzen S, Cooper G, Leder E, Davidson W, Koop B. Grayling (Thymallinae) phylogeny within salmonids: complete mitochondrial DNA sequences of Thymallus arcticus and Thymallus thymallus. J Fish Biol. 2010;76:395-400 pubmed publisher
    The phylogenetic relationships among the three subfamilies (Salmoninae, Coregoninae and Thymallinae) in the Salmonidae have not been addressed extensively at the molecular level...
  22. Wu X. The loss of genetic diversity in Sichuan taimen as revealed by DNA fingerprinting. Biochem Genet. 2006;44:177-85 pubmed
    ..As a result, the existing populations have lower viability, and proper management has to be implemented to preserve genetic diversity...
  23. Renaut S, Nolte A, Bernatchez L. Mining transcriptome sequences towards identifying adaptive single nucleotide polymorphisms in lake whitefish species pairs (Coregonus spp. Salmonidae). Mol Ecol. 2010;19 Suppl 1:115-31 pubmed publisher
    ..This indicates an elevated activity of transposable elements, which could potentially contribute to the reduced fitness of hybrids previously documented...
  24. Rogers S, Bernatchez L. The genetic architecture of ecological speciation and the association with signatures of selection in natural lake whitefish (Coregonus sp. Salmonidae) species pairs. Mol Biol Evol. 2007;24:1423-38 pubmed
  25. Bogdal C, Naef M, Schmid P, Kohler M, Zennegg M, Bernet D, et al. Unexplained gonad alterations in whitefish (Coregonus spp.) from Lake Thun, Switzerland: levels of persistent organic pollutants in different morphs. Chemosphere. 2009;74:434-40 pubmed publisher
    ..A comparison to existing data shows that concentrations in Lake Thun whitefish are at the lower bound of contaminant levels in whitefish from Swiss lakes or from European waters...
  26. Fraser D, Hansen M, Ostergaard S, Tessier N, Legault M, Bernatchez L. Comparative estimation of effective population sizes and temporal gene flow in two contrasting population systems. Mol Ecol. 2007;16:3866-89 pubmed
  27. Koop B, von Schalburg K, Leong J, Walker N, Lieph R, Cooper G, et al. A salmonid EST genomic study: genes, duplications, phylogeny and microarrays. BMC Genomics. 2008;9:545 pubmed publisher
    ..A comprehensive gene list and a comparison of genes in some of the different species provide valuable genomic information for one of the most widely studied groups of fish...
  28. Junge C, Vøllestad L, Barson N, Haugen T, Otero J, Sætre G, et al. Strong gene flow and lack of stable population structure in the face of rapid adaptation to local temperature in a spring-spawning salmonid, the European grayling (Thymallus thymallus). Heredity (Edinb). 2011;106:460-71 pubmed publisher
    ..Combined, the results suggest that habitat-specific adaptation in this system has preceded the development of consistent population substructuring in the face of high levels of gene flow from divergent environments...
  29. Fraser D, Weir L, Bernatchez L, Hansen M, Taylor E. Extent and scale of local adaptation in salmonid fishes: review and meta-analysis. Heredity (Edinb). 2011;106:404-20 pubmed publisher
  30. Jeukens J, Renaut S, St Cyr J, Nolte A, Bernatchez L. The transcriptomics of sympatric dwarf and normal lake whitefish (Coregonus clupeaformis spp., Salmonidae) divergence as revealed by next-generation sequencing. Mol Ecol. 2010;19:5389-403 pubmed publisher
    ..It also demonstrates how next-generation sequencing can lead to a more comprehensive understanding of transcriptomic divergence in a young species pair...
  31. Rudolfsen G, Figenschou L, Folstad I, Tveiten H, Figenschou M. Rapid adjustments of sperm characteristics in relation to social status. Proc Biol Sci. 2006;273:325-32 pubmed
  32. Jeukens J, Boyle B, Kukavica Ibrulj I, St Cyr J, Levesque R, Bernatchez L. BAC library construction, screening and clone sequencing of lake whitefish (Coregonus clupeaformis, Salmonidae) towards the elucidation of adaptive species divergence. Mol Ecol Resour. 2011;11:541-9 pubmed publisher
  33. Lahnsteiner F, Kletzl M. The effect of water temperature on gamete maturation and gamete quality in the European grayling (Thymalus thymallus) based on experimental data and on data from wild populations. Fish Physiol Biochem. 2012;38:455-67 pubmed publisher
    ..The regression functions indicate that an increase in water temperature from 21 December to spawning of 1°C advances spawning by 5½ days, and an increase of 1°C in the last 10-15 days advances spawning by 3½ days...
  34. Graham D, Staples C, Wilson C, Jewhurst H, Cherry K, Gordon A, et al. Biophysical properties of salmonid alphaviruses: influence of temperature and pH on virus survival. J Fish Dis. 2007;30:533-43 pubmed
    ..The half life of SAV in serum was also found to be inversely related to temperature, emphasizing the need for rapid shipment of samples at 4 degrees C to laboratories for virus isolation studies...
  35. Mehner T, Pohlmann K, Elkin C, Monaghan M, Nitz B, Freyhof J. Genetic population structure of sympatric and allopatric populations of Baltic ciscoes (Coregonus albula complex, Teleostei, Coregonidae). BMC Evol Biol. 2010;10:85 pubmed publisher
    ..Six lakes had only one population of C. albula while the remaining two lakes had C. albula as well as a sympatric species (C. lucinensis or C. fontanae)...
  36. Liu B, Kuang Y, Tong G, Yin J. [Analysis of genetic diversity on 9 wild stocks of taimen (Hucho taimen) by microsatellite markers]. Dongwuxue Yanjiu. 2011;32:597-604 pubmed publisher
    ..In order to achieve full protection of taimen germplasm resources, we should put an end to the destructive fishing for taimen and promotegene exchange among their populations...
  37. Ruane N, McCarthy L, Swords D, Henshilwood K. Molecular differentiation of infectious pancreatic necrosis virus isolates from farmed and wild salmonids in Ireland. J Fish Dis. 2009;32:979-87 pubmed publisher
    ..These results highlight the importance of import risk analysis for diseases not listed under current legislation...
  38. Derome N, Bernatchez L. The transcriptomics of ecological convergence between 2 limnetic coregonine fishes (Salmonidae). Mol Biol Evol. 2006;23:2370-8 pubmed
    ..As such, this study provides strong support to the general hypothesis that directional selection acting on gene regulation may promote rapid phenotypic divergence and ultimately speciation...
  39. McLoughlin M, Graham D. Alphavirus infections in salmonids--a review. J Fish Dis. 2007;30:511-31 pubmed
  40. Plarre H, Devold M, Snow M, Nylund A. Prevalence of infectious salmon anaemia virus (ISAV) in wild salmonids in western Norway. Dis Aquat Organ. 2005;66:71-9 pubmed
    ..This information can only be gained by further screening of possible reservoirs, combined with the development of a molecular tool for typing virulence and the geographical origin of the virus isolates...
  41. Giger T, Excoffier L, Amstutz U, Day P, Champigneulle A, Hansen M, et al. Population transcriptomics of life-history variation in the genus Salmo. Mol Ecol. 2008;17:3095-108 pubmed publisher
    ..Our findings thus provide new molecular insights into salmonid life-history variation, opening new perspectives in the study of this complex trait...
  42. Wedekind C, Evanno G, Urbach D, Jacob A, Müller R. 'Good-genes' and 'compatible-genes' effects in an Alpine whitefish and the information content of breeding tubercles over the course of the spawning season. Genetica. 2008;132:199-208 pubmed
    ..Moreover, the fact that female whitefish have breeding tubercles of significant size while males seem to have few reasons to be choosy suggests that the tubercles might also serve some functions that are not linked to sexual signaling...
  43. Devold M, Karlsen M, Nylund A. Sequence analysis of the fusion protein gene from infectious salmon anemia virus isolates: evidence of recombination and reassortment. J Gen Virol. 2006;87:2031-40 pubmed
    ..This shows that recombination is one of the evolutionary mechanisms shaping the genome of ISAV. The possible importance of the INs with respect to virulence remains uncertain...
  44. Amundsen P, Kashulin N, Terentjev P, Gjelland K, Koroleva I, Dauvalter V, et al. Heavy metal contents in whitefish (Coregonus lavaretus) along a pollution gradient in a subarctic watercourse. Environ Monit Assess. 2011;182:301-16 pubmed publisher
    ..Potential population ecology impacts of high heavy metal contaminations where mainly observed in whitefish in Kuetsjarvi, which showed depletions in growth rate, condition factor and size and age at maturation...
  45. Renaut S, Nolte A, Bernatchez L. Gene expression divergence and hybrid misexpression between lake whitefish species pairs (Coregonus spp. Salmonidae). Mol Biol Evol. 2009;26:925-36 pubmed publisher
    ..Accordingly, gene misexpression in hybrids adds to other factors previously identified as contributing to the reproductive isolation of incipient species of lake whitefish...
  46. Alexandrou M, Swartz B, Matzke N, Oakley T. Genome duplication and multiple evolutionary origins of complex migratory behavior in Salmonidae. Mol Phylogenet Evol. 2013;69:514-23 pubmed publisher
    ..Our study represents the first attempt to estimate the absolute timing of a complex behavioral trait in relation to a genome duplication event...
  47. Derome N, Bougas B, Rogers S, Whiteley A, Labbe A, laRoche J, et al. Pervasive sex-linked effects on transcription regulation as revealed by expression quantitative trait loci mapping in lake whitefish species pairs (Coregonus sp., Salmonidae). Genetics. 2008;179:1903-17 pubmed publisher
  48. Pankhurst N, King H. Temperature and salmonid reproduction: implications for aquaculture. J Fish Biol. 2010;76:69-85 pubmed publisher
  49. Geist J, Kolahsa M, Gum B, Kuehn R. The importance of genetic cluster recognition for the conservation of migratory fish species: the example of the endangered European huchen Hucho hucho (L.). J Fish Biol. 2009;75:1063-78 pubmed publisher
    ..A combined approach of maintaining the evolutionary potential of wild populations and genetically variable hatchery stocks can maximize the conservation of the species' evolutionary potential...
  50. Miller K, Li S, Ming T, Kaukinen K, Schulze A. The salmonid MHC class I: more ancient loci uncovered. Immunogenetics. 2006;58:571-89 pubmed publisher
    ..We hypothesize that these additional loci are in varying states of degradation to class Ib genes...
  51. Dochtermann N, Peacock M. Differences in population size variability among populations and species of the family Salmonidae. J Anim Ecol. 2010;79:888-96 pubmed publisher
    ..differences in population size variability for a total of 131 populations distributed among nine species of the Salmonidae. We extended this comparison to the interspecific level by developing species level estimates of population size ..
  52. Farrell A. Environment, antecedents and climate change: lessons from the study of temperature physiology and river migration of salmonids. J Exp Biol. 2009;212:3771-80 pubmed publisher
    ..Thus, use of aerobic scope holds promise for scientists who wish to make predictions on how climate change may influence animal distributions...
  53. Helland I, Freyhof J, Kasprzak P, Mehner T. Temperature sensitivity of vertical distributions of zooplankton and planktivorous fish in a stratified lake. Oecologia. 2007;151:322-30 pubmed
  54. Jørgensen A, Sterud E. The marine pathogenic genotype of Spironucleus barkhanus from farmed salmonids redescribed as Spironucleus salmonicida n. sp. J Eukaryot Microbiol. 2006;53:531-41 pubmed
    ..Phylogenetic analyses that included the isolates of S. salmonicida n. sp. did not change the phylogenetic relationship within the genus Spironucleus...
  55. Hutchings J. Old wine in new bottles: reaction norms in salmonid fishes. Heredity (Edinb). 2011;106:421-37 pubmed publisher
  56. Matejusova I, McKay P, McBeath A, Collet B, Snow M. Development of a sensitive and controlled real-time RT-PCR assay for viral haemorrhagic septicaemia virus (VHSV) in marine salmonid aquaculture. Dis Aquat Organ. 2008;80:137-44 pubmed publisher
    ..Therefore, a continued surveillance of these species in marine environment is recommended...
  57. Krasnov A, Koskinen H, Afanasyev S, Mölsä H. Transcribed Tc1-like transposons in salmonid fish. BMC Genomics. 2005;6:107 pubmed
    ..High throughput sequencing of salmonid fish cDNA libraries has revealed a large number of transposons, which remain transcribed despite inactivation of translation. This article reports on the structure and potential role of these genes...
  58. Landry L, Vincent W, Bernatchez L. Parallel evolution of lake whitefish dwarf ecotypes in association with limnological features of their adaptive landscape. J Evol Biol. 2007;20:971-84 pubmed