A complex phenotype in salmon controlled by a simple change in migratory timing

Science ◽  
2020 ◽  
Vol 370 (6516) ◽  
pp. 609-613 ◽  
Author(s):  
Neil F. Thompson ◽  
Eric C. Anderson ◽  
Anthony J. Clemento ◽  
Matthew A. Campbell ◽  
Devon E. Pearse ◽  
...  
Keyword(s):  
Chinook Salmon ◽  
Sexual Maturity ◽  
Single Gene ◽  
Genomic Region ◽  
Seasonal Patterns ◽  
Diverse Population ◽  
Complex Phenotype ◽  
Migration Timing ◽  
Simple Change ◽  
Migratory Phenotype

Differentiation between ecotypes is usually presumed to be complex and polygenic. Seasonal patterns of life history in salmon are used to categorize them into ecotypes, which are often considered “distinct” animals. Using whole-genome sequencing and tribal fishery sampling of Chinook salmon, we show that a single, small genomic region is nearly perfectly associated with spawning migration timing but not with adiposity or sexual maturity, traits long perceived as central to salmon ecotypes. Distinct migration timing does not prevent interbreeding between ecotypes, which are the result of a simple, ancient polymorphism segregating within a diverse population. Our finding that a complex migratory phenotype results from a single gene region will facilitate conservation and restoration of this iconic fish.

Demography and sexual size dimorphism in northern water snakes, Nerodia sipedon

1999 ◽  
Vol 77 (9) ◽  
pp. 1358-1366 ◽  
Author(s):  
Gregory P Brown ◽  
Patrick J Weatherhead
Keyword(s):  
Sexual Maturity ◽  
Sexual Size Dimorphism ◽  
Survival Rates ◽  
Seasonal Patterns ◽  
Nerodia Sipedon ◽  
Size Dimorphism ◽  
Mortality Cost ◽  
Northern Water Snakes ◽  
Water Snakes ◽  
Better Than

We used data from a 9-year mark-recapture study to determine whether demographic factors could explain female-biased sexual size dimorphism in northern water snakes (Nerodia sipedon). Most males reached sexual maturity at 3 years of age, while most females delayed maturity for an additional year. Female survivorship was not significantly lower than that of males, despite the fact that females grow as much as four times faster than males. Among females, survivorship increased until maturity and decreased thereafter, suggesting a survival cost to reproduction. Life-table calculations indicated that the increase in both survival rates and fecundity with body size made 3 years the optimal age for females to reach sexual maturity. However, if females were not large enough at 3 years of age, their best strategy was to mature the following year. Seasonal patterns of mortality suggest that mating imposes a high mortality cost on males. Intermediate-sized males survived slightly but not significantly better than small and large males. This slight survival advantage of intermediate-sized males was not sufficient to explain why males are so much smaller than females. Therefore other selective factors must be responsible for males retaining a small size. A reproductive advantage associated with small size seems the most likely possibility.

An Evaluation of Rearing Densities to Improve Growth and Survival of Hatchery Spring Chinook Salmon

2013 ◽  
Vol 4 (1) ◽  
pp. 114-123 ◽  
Author(s):  
Douglas E. Olson ◽  
Michael Paiya
Keyword(s):  
Mortality Rate ◽  
Chinook Salmon ◽  
Oncorhynchus Tshawytscha ◽  
Confounding Factor ◽  
Fork Length ◽  
High Density ◽  
Growth And Survival ◽  
Migration Timing ◽  
Rearing Density ◽  
Salmon Stock

Abstract We evaluated growth and survival of spring Chinook salmon Oncorhynchus tshawytscha reared at varying densities at Warm Springs National Fish Hatchery, Oregon. For three consecutive brood years, density treatments consisted of low, medium, and high groups in 57.8-m3 raceways with approximately 16,000, 24,000, and 32,000 fish/raceway, respectively. Fish were volitionally released in both the autumn and spring to mimic the downstream migration timing of the endemic wild spring Chinook salmon stock. Just prior to the autumn release, the rearing density estimate was 4.24 kg/m3 for the low-density group, 6.27 kg/m3 for the medium-density group, and 8.42 kg/m3 for the high-density group. While weight gain did not differ among density treatments (P  =  0.72), significant differences were found in median fork length (P < 0.001) for fish reared at different densities. Fish reared at high density exhibited the highest on-hatchery mortality rate during two brood years; however, differences in mortality rate among densities were not significant (P  =  0.20). In one brood year, adult recovery rates appeared to support the hypothesis that lower initial densities improved postrelease survival (P < 0.01). All rearing densities utilized in this evaluation were relatively low and may partially explain why more differences were not readily apparent among density groups. In addition, the volitional release was a confounding factor in our study because we were unable to quantify the number of fish released in the autumn.

scholarly journals Fine-Mapping of Sorghum Stay-Green QTL on Chromosome10 Revealed Genes Associated with Delayed Senescence

Genes ◽  
2020 ◽  
Vol 11 (9) ◽  
pp. 1026 ◽  
Author(s):  
K. N. S. Usha Kiranmayee ◽  
C. Tom Hash ◽  
S. Sivasubramani ◽  
P. Ramu ◽  
Bhanu Prakash Amindala ◽  
...  
Keyword(s):  
Drought Tolerance ◽  
Fine Mapping ◽  
Mapping Population ◽  
Single Gene ◽  
Genotyping By Sequencing ◽  
Introgression Line ◽  
Genomic Region ◽  
Stay Green ◽  
Delayed Senescence ◽  
Genomic Regions

This study was conducted to dissect the genetic basis and to explore the candidate genes underlying one of the important genomic regions on an SBI-10 long arm (L), governing the complex stay-green trait contributing to post-flowering drought-tolerance in sorghum. A fine-mapping population was developed from an introgression line cross—RSG04008-6 (stay-green) × J2614-11 (moderately senescent). The fine-mapping population with 1894 F2 was genotyped with eight SSRs and a set of 152 recombinants was identified, advanced to the F4 generation, field evaluated with three replications over 2 seasons, and genotyped with the GBS approach. A high-resolution linkage map was developed for SBI-10L using 260 genotyping by sequencing—Single Nucleotide Polymorphism (GBS–SNPs). Using the best linear unpredicted means (BLUPs) of the percent green leaf area (%GL) traits and the GBS-based SNPs, we identified seven quantitative trait loci (QTL) clusters and single gene, mostly involved in drought-tolerance, for each QTL cluster, viz., AP2/ERF transcription factor family (Sobic.010G202700), NBS-LRR protein (Sobic.010G205600), ankyrin-repeat protein (Sobic.010G205800), senescence-associated protein (Sobic.010G270300), WD40 (Sobic.010G205900), CPK1 adapter protein (Sobic.010G264400), LEA2 protein (Sobic.010G259200) and an expressed protein (Sobic.010G201100). The target genomic region was thus delimited from 15 Mb to 8 genes co-localized with QTL clusters, and validated using quantitative real-time (qRT)–PCR.

Roles of Olfaction and Vision in Choice of Spawning Site by Homing Adult Chinook Salmon (Oncorhynchus tshawytscha)

1968 ◽  
Vol 25 (5) ◽  
pp. 867-876 ◽  
Author(s):  
Alan B. Groves ◽  
Gerald B. Collins ◽  
Parker S. Trefethen
Keyword(s):  
Chinook Salmon ◽  
Untreated Control ◽  
Sexual Maturity ◽  
Oncorhynchus Tshawytscha ◽  
Columbia River ◽  
Control Fish ◽  
Male Fish ◽  
Fish Hatchery ◽  
Spawning Site

An experiment was conducted to examine the roles of olfaction and vision in directing the choice of spawning site by homing adult chinook salmon (Oncorhynchus tshawytscha) on the lower Columbia River. Male fish that voluntarily entered the Spring Creek National Fish Hatchery were treated to occlude their olfactory or visual senses or both. Treated and untreated (control) fish were released upstream and downstream in the river, more than 19 km from the hatchery. Effects were assessed by analyzing returns to the hatchery and to other points.Of 866 fish released, 348 or 40% were recovered; about half of them, or 176 returned to Spring Creek. Three per cent of the olfactory occluded, 23% of the visually occluded, and 46% of the control fish returned to Spring Creek. Of the fish recovered elsewhere, 77% were recovered at hatcheries and spawn-taking sites along the lower Columbia; 23% were recovered from sources unrelated to spawn taking.Olfaction appeared to be the key sense that directed the return of these fish to Spring Creek; vision was held to be less important. Olfactory occlusion also reduced the recoveries at other spawn-taking sites, where blinded fish were recovered in appreciable numbers. Recovery of the control fish, especially the smaller ones, at other spawn-taking sites was associated with advancing sexual maturity.

scholarly journals An Interstitial 20q11.21 Microdeletion Causing Mild Intellectual Disability and Facial Dysmorphisms

2013 ◽  
Vol 2013 ◽  
pp. 1-5 ◽  
Author(s):  
Ivan Y. Iourov ◽  
Svetlana G. Vorsanova ◽  
Oxana S. Kurinnaia ◽  
Yuri B. Yurov
Keyword(s):  
Intellectual Disability ◽  
Single Gene ◽  
Index Patient ◽  
Genomic Region ◽  
Comparative Genomic ◽  
Mild Intellectual Disability ◽  
Present Case Report ◽  
Facial Dysmorphisms ◽  
Genomic Variations ◽  
Opitz Syndrome

We report a case of an interstitial chromosome 20q11.21 microdeletion in a 7-year-old male child presenting with mild intellectual disability and facial dysmorphisms. Array comparative genomic hybridization (CGH) has shown that the deletion resulted in the loss of 68 genes, among which 5 genes (COX4I2,MYLK2,ASXL1,DNMT3B, andSNTA1) are disease causing. The size of the deletion was estimated to span 2.6 Mb. Only three cases of deletions encompassing this chromosomal region have been reported. The phenotype of the index patient was found to resemble the mildest cases of Bohring-Opitz syndrome that is caused byASXL1mutations. Anin silicoevaluation of the deleted genomic region has shown that benign genomic variations have never been observed to affect theASXL1gene, in contrast to the other disease-causing genes. As a result, it was suggested thatASXL1loss is likely to be the main cause of the phenotypic manifestations. The present case report indicates that a loss of the disease-causing gene can produce a milder phenotype of a single gene condition.

Functional gene diversity and migration timing in reintroduced Chinook salmon

2015 ◽  
Vol 16 (6) ◽  
pp. 1455-1464 ◽  
Author(s):  
Melissa L. Evans ◽  
Samuel J. Shry ◽  
Dave P. Jacobson ◽  
Nicholas M. Sard ◽  
Kathleen G. O’Malley
Keyword(s):  
Chinook Salmon ◽  
Gene Diversity ◽  
Functional Gene ◽  
Migration Timing ◽  
Functional Gene Diversity ◽  
And Migration

Migration Timing of Adult Chinook Salmon into the Togiak River, Alaska, Watershed: Is There Evidence for Stock Structure?

2015 ◽  
Vol 144 (4) ◽  
pp. 829-836 ◽  
Author(s):  
Sydney C. Clark ◽  
Theresa L. Tanner ◽  
Suresh A. Sethi ◽  
Kale T. Bentley ◽  
Daniel E. Schindler
Keyword(s):  
Chinook Salmon ◽  
Stock Structure ◽  
Migration Timing

scholarly journals Evolution and genetics of precocious burrowing behavior in Peromyscus mice

2017 ◽  
Author(s):  
Hillery C. Metz ◽  
Nicole L. Bedford ◽  
Linda Pan ◽  
Hopi E. Hoekstra
Keyword(s):  
Single Gene ◽  
Genomic Region ◽  
Life Stages ◽  
Tunnel Length ◽  
Closely Related Species ◽  
Peromyscus Polionotus ◽  
Early Life Environment ◽  
Burrowing Behavior ◽  
Juvenile Behavior ◽  
Innate Behaviors

A central challenge in biology is to understand how innate behaviors evolve between closely related species. One way to elucidate how differences arise is to compare the development of behavior in species with distinct adult traits. Here, we report that Peromyscus polionotus is strikingly precocious with regard to burrowing behavior, but not other behaviors, compared to its sister species P. maniculatus . In P. polionotus , burrows were excavated as early as 17 days of age, while P. maniculatus did not build burrows until 10 days later. Moreover, the well-known differences in burrow architecture between adults of these species -- P. polionotus adults excavate long burrows with an escape tunnel, while P. maniculatus dig short, single-tunnel burrows -- were intact in juvenile burrowers. To test whether this juvenile behavior is influenced by early-life environment, pups of both species were reciprocally cross-fostered. Fostering did not alter the characteristic burrowing behavior of either species, suggesting these differences are genetic. In backcross F2 hybrids, we show that precocious burrowing and adult tunnel length are genetically correlated, and that a single P. polionotus allele in a genomic region linked to adult tunnel length is predictive of precocious burrow construction. The co-inheritance of developmental and adult traits indicates the same genetic region -- either a single gene with pleiotropic effects, or closely linked genes -- acts on distinct aspects of the same behavior across life stages. Such genetic variants likely affect behavioral drive (i.e. motivation) to burrow, and thereby affect both the development and adult expression of burrowing behavior.

scholarly journals Molecular parallelisms between pigmentation in the avian iris and the integument of ectothermic vertebrates

PLoS Genetics ◽  
2021 ◽  
Vol 17 (2) ◽  
pp. e1009404
Author(s):  
Pedro Andrade ◽  
Małgorzata A. Gazda ◽  
Pedro M. Araújo ◽  
Sandra Afonso ◽  
Jacob. A. Rasmussen ◽  
...  
Keyword(s):  
Molecular Mechanisms ◽  
Stop Codon ◽  
Expression Profiles ◽  
Single Gene ◽  
Skin Pigmentation ◽  
Premature Stop Codon ◽  
Gene Expression Profiles ◽  
Genomic Region ◽  
Pigment Cells ◽  
Eye Color

Birds exhibit striking variation in eye color that arises from interactions between specialized pigment cells named chromatophores. The types of chromatophores present in the avian iris are lacking from the integument of birds or mammals, but are remarkably similar to those found in the skin of ectothermic vertebrates. To investigate molecular mechanisms associated with eye coloration in birds, we took advantage of a Mendelian mutation found in domestic pigeons that alters the deposition of yellow pterin pigments in the iris. Using a combination of genome-wide association analysis and linkage information in pedigrees, we mapped variation in eye coloration in pigeons to a small genomic region of ~8.5kb. This interval contained a single gene, SLC2A11B, which has been previously implicated in skin pigmentation and chromatophore differentiation in fish. Loss of yellow pigmentation is likely caused by a point mutation that introduces a premature STOP codon and leads to lower expression of SLC2A11B through nonsense-mediated mRNA decay. There were no substantial changes in overall gene expression profiles between both iris types as well as in genes directly associated with pterin metabolism and/or chromatophore differentiation. Our findings demonstrate that SLC2A11B is required for the expression of pterin-based pigmentation in the avian iris. They further highlight common molecular mechanisms underlying the production of coloration in the iris of birds and skin of ectothermic vertebrates.

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