The Pacific Lamprey Entosphenus tridentatus is an anadromous fish that has severely declined in the Snake River basin. In 2007, the Nez Perce Tribe initiated translocation of adults to this region from the main-stem Columbia River and has continued the translocations to this day. These actions are aimed at restoring larval abundance along with holistic habitat improvements. We performed parentage and sibship analyses with 260 single-nucleotide polymorphism loci to monitor productivity of translocated lamprey over a decade (2007)(2008)(2009)(2010)(2011)(2012)(2013)(2014)(2015)(2016)(2017)(2018). These results provide the first direct evidence that translocations boosted larval abundance, increased juvenile production in the interior Columbia River (~3% in 2017 and 2018), and demonstrated successful migration to the Pacific Ocean. Per capita juvenile production from Snake River adult lamprey translocations out-performed that of their volitionally migrating counterparts in the interior Columbia River, demonstrating that translocating adults to suitable habitats increased overall productivity. We projected that the translocations may eventually return enough adult offspring to the Columbia River to replace the annual take of adults for translocations, despite many adults likely returning to other basins. These translocations are also restoring Pacific Lamprey to historical areas where they had been nearly extirpated, which has impactful benefits both culturally and ecologically. Further, this study provided an unprecedented volume of data that has redefined key biological attributes, including timing of life stage transformation (average of 6.7-year-old juveniles), larval growth rates (~22 mm/year for the first 4 years), ocean duration (average of 5.1 years), dispersal (~3% of Snake River-origin adults that return to the Columbia River will divert to the Willamette River), and life span (median age of postspawn adults was 12.9 years). We even quantified a new biological phenomenon of delayed spawning, which occurs at low rates (~9%) in nature. These data provide an opportunity to monitor ongoing translocation efforts and inform adaptive management to aid species recovery.

CYP3A4-V, an A to G promoter variant associated with prostate cancer in African Americans, exhibits large differences in allele frequency between populations. Given that the African American population is genetically heterogeneous because of its African ancestry and subsequent admixture with European Americans, case-control studies with African Americans are highly susceptible to spurious associations. To test for association with prostate cancer, we genotyped CYP3A4-V in 1376 (2 N) chromosomes from prostate cancer patients and age- and ethnicity-matched controls representing African Americans, Nigerians, and European Americans. To detect population stratification among the African American samples, 10 unlinked genetic markers were genotyped. To correct for the stratification, the uncorrected association statistic was divided by the average of association statistics across the 10 unlinked markers. Sharp differences in CYP3A4-V frequencies were observed between Nigerian and European American controls (0.87 and 0.10, respectively; P<0.0001). African Americans were intermediate (0.66). An association uncorrected for stratification was observed between CYP3A4-V and prostate cancer in African Americans (P=0.007). A nominal association was also observed among European Americans (P=0.02) but not Nigerians. In addition, the unlinked genetic marker test provided strong evidence of population stratification among African Americans. Because of the high level of stratification, the corrected P-value was not significant (P=0.25). Follow-up studies on a larger dataset will be needed to confirm whether the association is indeed spurious; however, these results reveal the potential for confounding of association studies by using African Americans and the need for study designs that take into account substructure caused by differences in ancestral proportions between cases and controls.

Next-generation sequencing data can be mined for highly informative single nucleotide polymorphisms (SNPs) to develop high-throughput genomic assays for nonmodel organisms. However, choosing a set of SNPs to address a variety of objectives can be difficult because SNPs are often not equally informative. We developed an optimal combination of 96 high-throughput SNP assays from a total of 4439 SNPs identified in a previous study of Pacific lamprey (Entosphenus tridentatus) and used them to address four disparate objectives: parentage analysis, species identification and characterization of neutral and adaptive variation. Nine of these SNPs are FST outliers, and five of these outliers are localized within genes and significantly associated with geography, run-timing and dwarf life history. Two of the 96 SNPs were diagnostic for two other lamprey species that were morphologically indistinguishable at early larval stages and were sympatric in the Pacific Northwest. The majority (85) of SNPs in the panel were highly informative for parentage analysis, that is, putatively neutral with high minor allele frequency across the species' range. Results from three case studies are presented to demonstrate the broad utility of this panel of SNP markers in this species. As Pacific lamprey populations are undergoing rapid decline, these SNPs provide an important resource to address critical uncertainties associated with the conservation and recovery of this imperiled species.

Cyclooxygenase-2 (COX-2) is a key rate-limiting enzyme that converts arachidonic acid into pro-inflammatory prostaglandins. COX-2 expression is strongly correlated with increased tumor microvasculature density and plays an important role in inhibiting apoptosis, stimulating angiogenesis and promoting tumor cell metastasis and invasion. However, little is known about the role that sequence variation of the COX-2 gene contributes to prostate cancer. Thus, we searched for polymorphisms in the promoter region of the COX-2 gene using denaturing high-performance liquid chromatography. Four single nucleotide polymorphisms (SNPs), -1285A/G, -1265G/A, -899G/C and -297C/G, were detected and confirmed by direct sequencing. Three of the SNPs in the promoter region of COX-2 gene create at least three putative transcription factor binding sites and eliminate CCAAT/enhancer binding protein alpha (C/EBP alpha) and NF-kappa B binding sites. A case-control study of the four SNPs in African American (n = 288), Bini Nigerian (n = 264) and European American (n = 184) prostate cancer cases and age-matched controls revealed that SNP -297G was associated with a decreased risk for prostate cancer [odds ratio (OR) = 0.49; CI = 0.2-0.9; P = 0.01]. The effect on risk was observed in both African Americans (OR = 0.51; CI = 0.2-0.9; P = 0.01) and European Americans (OR = 0.33; CI = 0.1-0.9; P = 0.02). In addition, SNPs -1265A and -899C were associated with increased prostate cancer risk in African Americans (OR = 2.72; CI = 1.3-5.8; P = 0.007 and OR = 3.67; CI = 1.4-9.9; P = 0.007, respectively). Haplotype analyses revealed modest effects on susceptibility to prostate cancer across populations. Haplotype GGCC conferred increased risk in the African American and Nigerian populations. Conversely, haplotype AGGG exhibited a negative association with prostate cancer risk in African Americans (OR = 0.4; CI = 0.1-0.9; P = 0.02) and European Americans (OR = 0.2; CI = 0.1-0.9; P = 0.03). These data suggest that variation of the COX-2 promoter may influence the risk and development of prostate cancer.

RESUMEN: Las poblaciones de la lamprea del Pacífico (Entosphenus tridentatus) están declinando en la cuenca del Río Columbia, y desde el año 2000 se ha implementado la translocación de individuos adultos para restablecer los corredores migratorios de esta especie. Se describen y reportan los resultados de dos programas recientes de translocación, se contextualiza el uso de la translocación y se discuten sus beneficios potenciales, riesgos e incertidumbre. Ambos programas de translocación parecen haber incrementado el número de adultos desovantes y la presencia tanto de larvas como de juveniles; sin embargo, para que sea posible cualquier incremento ulterior en el stock natural de reproductores se requerirá de al menos una, aunque muy probablemente de más, generaciones. Se observó que el número de adultos que ingresó al Río Umatilla aumentó en los primeros cuatro años después de la primera translocación. Los beneficios potenciales de los programas de translocación son un aumento en la producción de feromonas por parte de larvas ammocoetes para atraer adultos, incremento en la distribución y abundancia de lampreas en áreas objetivas, incremento en la cantidad de nutrientes derivados del medio marino y la promoción de culturas tribales. Los riesgos potenciales incluyen modificación de la estructura poblacional y las adaptaciones genéticas asociadas, transmisión de enfermedades y agotamiento de los stocks donadores. ABSTRACT: The Pacific lamprey (Entosphenus tridentatus) is in decline in the Columbia River Basin, and translocating adult lamprey to bypass difficult migration corridors has beenimplemented since 2000. We describe and report results from two current translocation programs, provide context for use of translocation, and discuss potential benefits, risks, and uncertainties. Both translocation programs appear to have increased the number of spawning adults and the presence of larvae and juveniles; however, any subsequent increase in naturally spawning adults will require at least one, and likely more, generations to be realized. It was seen that the number of adults entering the Umatilla River increased beginning four years after the first translocations. Potential benefits of translocation programs are increased pheromone production by ammocoetes to attract adults, increased lamprey distribution and abundance in target areas, increased marine-derived nutrients, and promotion of tribal culture. Potential risks include disruption of population structure and associated genetic adaptations, disease transmission, and depletion of donor stocks.