Phylogenetic analysis of the Pacific cutthroat trout (Oncorhynchus clarki ssp.: Salmonidae) based on partial mtDNA ND4 sequences: A closer look at the highly fragmented inland species

Wilson, Wade D.; Turner, Thomas F.

doi:10.1016/j.ympev.2009.03.018

Cited by 39 publications

(45 citation statements)

References 41 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The results of molecular dating of the Salmonidae cladogeny (Fig. 2) are to a large extent similar to the estimates obtained earlier using other approaches and based on other data [17,18].…”

supporting

confidence: 89%

Phylogeny of salmonids (Salmoniformes: Salmonidae) and its molecular dating: Analysis of nuclear RAG1 gene

2012

View full text Add to dashboard Cite

The phylogenetic relationships among 26 species of salmonid fishes (family Salmonidae) were studied using the RAG1 gene as phylogenetic marker. No unambiguous relationships between thymalllins, coregonins, and salmonins it was possible to establish. It seems likely, that divergence of these lineages took place during rather short time interval (about 3 to 4 million years). The thymallins are thought to be the first separated lineage. The genera of the subfamily Salmoninae form two distinct monophyletic groups, repre sented by (1) Brachymystax and Hucho and (2) Salmo, Parahucho, Salvelinus, Parasalmo and Oncorhynchus. Ancestral forms of these two evolutionary lineages could diverge at the Oligocene-Miocene boundary (about 24 million years ago). It is suggested that diversification of the main lineages within the second group was rather rapid, and took place in middle Miocene (about 19-16 million years ago). Moreover, the lineages of Salvelinus, Parasalmo and Oncorhynchus were the latest to diverge. It seems likely that divergence of the Pros opium and Coregonus ancestral lineages occurred during the same time interval.

show abstract

supporting

confidence: 89%

Phylogeny of salmonids (Salmoniformes: Salmonidae) and its molecular dating: Analysis of nuclear RAG1 gene

2012

View full text Add to dashboard Cite

show abstract

“…The genera Oncorhynchus and Salmo are thought to have last shared a common ancestor 15-35 million years ago in the Miocene and Oligocene (Figure 3; Devlin 1993;Waples et al 2008;Wilson and Turner 2009; but see Shedlock et al1992;Oakley and Phillips 1999). During the Miocene-PliocenePleistocene, geologic activity and climate variability in western North America likely promoted radiation of salmonid taxa (Montgomery 2000), and the fossil record shows that trout occurred as far south as Lake Chapala, Jalisco, Mexico, near 20° N, during interglacial periods (Cavender and Miller 1982).…”

Section: Evolutionary Diversitymentioning

confidence: 99%

“…During the Miocene-PliocenePleistocene, geologic activity and climate variability in western North America likely promoted radiation of salmonid taxa (Montgomery 2000), and the fossil record shows that trout occurred as far south as Lake Chapala, Jalisco, Mexico, near 20° N, during interglacial periods (Cavender and Miller 1982). According to the most widely accepted chronology, by the end of the Miocene, about 6-15 million years ago, the genus had diverged into a distinct lineage for Pacific trout and other lineages for Pacific salmon (Stearley and Smith 1993;Wilson and Turner 2009;Crête-Lafrenière et al 2012). By the Pliocene, about 4-6 million years ago, O. clarkii diverged from the other Pacific trout, including O. chrysogaster, then likely diverged from O. mykiss (Abadía-Cardoso et al 2015).…”

Section: Evolutionary Diversitymentioning

confidence: 99%

Conservation of Native Pacific Trout Diversity in Western North America

et al. 2016

View full text Add to dashboard Cite

Pacific trout Oncorhynchus spp. in western North America are strongly valued in ecological, socioeconomic, and cultural views, and have been the subject of substantial research and conservation efforts. Despite this, the understanding of their evolutionary histories, overall diversity, and challenges to their conservation is incomplete. We review the state of knowledge on these important issues, focusing on Pacific trout in the genus Oncorhynchus. Although most research on salmonid fishes emphasizes Pacific salmon, we focus on Pacific trout because they share a common evolutionary history, and many taxa in western North America have not been formally described, particularly in the southern extent of their ranges. Research in recent decades has led to the revision of many hypotheses concerning the origin and diversification of Pacific trout throughout their range. Although there has been significant success at addressing past threats to Pacific trout, contemporary and future threats represented by nonnative species, land and water use activities, and climate change pose challenges and uncertainties. Ultimately, conservation of Pacific trout depends on how well these issues are understood and addressed, and on solutions that allow these species to coexist with a growing scope of human influences. Conservación de la diversidad de truchas nativas del Pacífico en el oeste de NorteaméricaLa trucha del Pacífico Oncorhynchus spp. en el oeste de Norteamérica tiene un alto valor desde el punto de vista ecológi-co, socioeconómico y cultural, y ha sido objeto de importantes esfuerzos de conservación e investigación. A pesar de ello, el conocimiento que se tiene sobre su historia evolutiva, diversidad general y retos de conservación sigue siendo incompleto. Se hace una revisión del estado del conocimiento sobre estos puntos, con énfasis en la trucha del Pacífico dentro del género Oncorhynchus. Si bien la mayor parte de los estudios hechos sobre salmónidos se enfocan al salmón del Pací-fico, aquí nos enfocamos en la trucha del Pacífico ya que ambos groupos de especies comparten una historia evolutiva en común sobre todo en lo que se refiere al extremo sur de sus rangos de distribución. En investigaciones llevadas a cabo en décadas recientes, se han revisado varias hipótesis relativas al origen y diversificación de la trucha del Pacífico a lo largo de su rango de distribución. Aunque se han logrado identificar adecuadamente las amenazas pasadas que enfrentó la trucha del Pacífico, las amenazas actuales y futuras que representan especies no nativas, actividades de uso de tierra y agua y el cambio climático se consideran importantes retos e incertidumbres. Al final, la conservación de la trucha del Pacífico depende de qué tan bien se comprendan y abordan estos temas, y de las soluciones que les permitan a estas especies coexistir con una gama creciente de influencias humanas. Conservation de la diversité de la truite du Pacifique indigène dans l'ouest de l'Amérique du NordLes truites du Pacifique ou Oncorhynchus spp. dans l'ouest...

show abstract

“…In light of this, additional runs of IMa2 were undertaken with rate parameters derived from divergences between other groups of salmonid fish, including one based on a considerably more recent divergence event (Jacobsen et al, 2012). The additional rates explored comprised one based on divergence of the ND4 gene between Oncorhynchus species (9.7 Â 10 À9 ; Wilson and Turner, 2009) and the other a whole mtDNA genome-derived rate based on recent divergences between whitefish species (Coregonus spp. ; 1.537 Â 10 À8 ; Jacobsen et al, 2012).…”

Section: Nd1 Sequence Analysismentioning

confidence: 99%

“…The divergence time estimate for the Spanish and French group was much longer, at around 63 000 years ( Figure 5). Estimates using other salmonid-derived mtDNA mutation rates (ND4, 9.7 Â 10 À9 (Wilson and Turner, 2009), and whole mtDNA genome, 1.537 Â 10 À8 , (Jacobsen et al, 2012)) produced more recent divergence estimates; critically, however, all divergence times for the Spanish and French groups pre-date the last glacial maximum ( Supplementary Information and Supplementary Figure 4).…”

Section: Uksouthwestmentioning

confidence: 99%

Use of multiple markers demonstrates a cryptic western refugium and postglacial colonisation routes of Atlantic salmon (Salmo salar L.) in northwest Europe

et al. 2013

View full text Add to dashboard Cite

Glacial and postglacial processes are known to be important determinants of contemporary population structuring for many species. In Europe, refugia in the Italian, Balkan and Iberian peninsulas are believed to be the main sources of species colonising northern Europe after the glacial retreat; however, there is increasing evidence of small, cryptic refugia existing north of these for many cold-tolerant species. This study examined the glacial history of Atlantic salmon in western Europe using two independent classes of molecular markers, microsatellites (nuclear) and mitochondrial DNA variation. Alongside the well-documented refuge in the Iberian Peninsula, evidence for a cryptic refuge in northwest France is also presented. Critically, methods utilised to estimate divergence times between the refugia indicated that salmon in these two regions had diverged a long time before the last glacial maximum; coalescence analysis (as implemented in the program IMa2) estimated divergence times at around 60 000 years before present. Through the examination of haplotype frequencies, previously glaciated areas of northwest Europe, that is, Britain and Ireland, appear to have been colonised from salmon expanding out of both refugia, with the southwest of England being the primary contact zone and exhibiting the highest genetic diversity.

show abstract

Phylogenetic analysis of the Pacific cutthroat trout (Oncorhynchus clarki ssp.: Salmonidae) based on partial mtDNA ND4 sequences: A closer look at the highly fragmented inland species

Cited by 39 publications

References 41 publications

Phylogeny of salmonids (Salmoniformes: Salmonidae) and its molecular dating: Analysis of nuclear RAG1 gene

Phylogeny of salmonids (Salmoniformes: Salmonidae) and its molecular dating: Analysis of nuclear RAG1 gene

Conservation of Native Pacific Trout Diversity in Western North America

Use of multiple markers demonstrates a cryptic western refugium and postglacial colonisation routes of Atlantic salmon (Salmo salar L.) in northwest Europe

Contact Info

Product

Resources

About