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USGS2026

Genetic biocontrol strategy considerations for mosquito control in the Pacific Island Countries and Territories

Mosquito-borne diseases pose an existential threat to the health, economies, and unique ecosystems of Pacific Island Countries and Territories (PICTs). The remoteness of these islands, combined with the presence of highly competent mosquito vectors, complicates disease surveillance and vector control efforts. In response, the PICTs have become a focal point for the development and application of Genetic BioControl (GBC) technologies designed to break vector-borne disease transmission cycles. However, the application of GBC tools in this region warrants careful consideration of its unique history, including a legacy of colonialism, and challenges associated with logistic hurdles. Through meaningful community engagement and authentic collaborations, drawing from local knowledge, and building local capacity, the sustainable, efficient, and effective deployment of GBC tools may be achieved.

Current Opinion in Insect Science↗

USGS2004

Glacial-interglacial organic carbon record from the Makassar Strait, Indonesia: Implications for regional changes in continental vegetation

Recent studies convincingly show that climate in the Western Pacific Warm Pool and other equatorial/tropical regions was significantly colder (by ???3-4??C) during glacial periods, prompting a reexamination of the late Pleistocene paleoenvironments of these regions. This study examines changes in continental vegetation during the last two deglaciations (Terminations I and II) using a sediment core (MD9821-62) recovered from the Makassar Strait, Indonesia. Evidence based on the lignin phenol ratios suggests that vegetation on Borneo and other surrounding islands did not significantly change from tropical rainforest during the last two glacial periods relative to subsequent interglacial periods. This supports the hypothesis that the winter monsoon increased in strength during glacial periods, allowing Indonesia to maintain high rainfall despite the cooler conditions. ?? 2003 Elsevier Ltd. All rights reserved.

Quaternary Science Reviews↗

USGS2003

The role of climate and vegetation change in shaping past and future fire regimes in the northwestern US and the implications for ecosystem management

Fire is an important part of the disturbance regimes of northwestern US forests and its role in maintaining and altering forest vegetation is evident in the paleoecological record of the region. Long-term reconstructions of Holocene fire regimes, provided by the analysis of charcoal, pollen, and other fire proxies in a network of lake records, indicate that the Pacific Northwest and summer-dry regions of the northern Rocky Mountains experienced their highest fire activity in the early Holocene (11,000-7000 years ago) and during the Medieval Warm Period (ca. 1000 years ago) when drought conditions were more severe than today. In contrast, in summer-wet areas of the northern Rocky Mountains, the period of highest fire activity was registered in the last 7000 years when dry woodland vegetation developed. When synthesized across the entire northwestern US, the paleoecological record reveals that past and present fire regimes are strongly controlled by climate changes occurring on multiple time scales. The scarcity of fires in the 20th century in some northwestern US ecosystems may be the result of successful fire suppression policies, but in wetter forests this absence is consistent with long-term fire regime patterns. In addition, simulations of potential future climate and vegetation indicate that future fire conditions in some parts of the northwestern US could be more severe than they are today. The Holocene record of periods of intensified summer drought is used to assess the nature of future fire-climate-vegetation linkages in the region. ?? 2003 Elsevier Science B.V. All rights reserved.

Conference Paper↗

USGS2004

Migration and rearing histories of chinook salmon (Oncorhynchus tshawytscha) determined by ion microprobe Sr isotope and Sr/Ca transects of otoliths

Strontium isotope and Sr/Ca ratios measured in situ by ion microprobe along radial transects of otoliths of juvenile chinook salmon ( Oncorhynchus tshawytscha ) vary between watersheds with contrasting geology. Otoliths from ocean-type chinook from Skagit River estuary, Washington, had prehatch regions with 87 Sr/ 86 Sr ratios of ~0.709, suggesting a maternally inherited marine signature, extensive fresh water growth zones with 87 Sr/ 86 Sr ratios similar to those of the Skagit River at ~0.705, and marine-like 87 Sr/ 86 Sr ratios near their edges. Otoliths from stream-type chinook from central Idaho had prehatch 87 Sr/ 86 Sr ratios ≥0.711, indicating that a maternal marine Sr isotopic signature is not preserved after the ~1000- to 1400-km migration from the Pacific Ocean. 87 Sr/ 86 Sr ratios in the outer portions of otoliths from these Idaho juveniles were similar to those of their respective streams (~0.7080.722). For Skagit juveniles, fresh water growth was marked by small decreases in otolith Sr/Ca, with increases in Sr/Ca corresponding to increases in 87 Sr/ 86 Sr with migration into salt water. Otoliths of Idaho fish had Sr/Ca radial variation patterns that record seasonal fluctuation in ambient water Sr/Ca ratios. The ion microprobe's ability to measure both 87 Sr/ 86 Sr and Sr/Ca ratios of otoliths at high spatial resolution in situ provides a new tool for studies of fish rearing and migration.

Canadian Journal of Fisheries and Aquatic Sciences↗

USGS2008

Seawater osmium isotope evidence for a middle Miocene flood basalt event in ferromanganese crust records

Three ferromanganese crusts from the northeast, northwest and central Atlantic were re-dated using osmium (Os) isotope stratigraphy and yield ages from middle Miocene to the present. The three Os isotope records do not show evidence for growth hiatuses. The reconstructed Os isotope-based growth rates for the sections older than 10??Ma are higher than those determined previously by the combined beryllium isotope (10Be/9Be) and cobalt (Co) constant-flux methods, which results in a decrease in the maximum age of each crust. This re-dating does not lead to significant changes to the interpretation of previously determined radiogenic isotope neodymium, lead (Nd, Pb) time series because the variability of these isotopes was very small in the records of the three crusts prior to 10??Ma. The Os isotope record of the central Atlantic crust shows a pronounced minimum during the middle Miocene between 15 and 12??Ma, similar to a minimum previously observed in two ferromanganese crusts from the central Pacific. For the other two Atlantic crusts, the Os isotope records and their calibration to the global seawater curve for the middle Miocene are either more uncertain or too short and thus do not allow for a reliable identification of an isotopic minimum. Similar to pronounced minima reported previously for the Cretaceous/Tertiary and Eocene/Oligocene boundaries, possible interpretations for the newly identified middle Miocene Os isotope minimum include changes in weathering intensity and/or a meteorite impact coinciding with the formation of the No??rdlinger Ries Crater. It is suggested that the eruption and weathering of the Columbia River flood basalts provided a significant amount of the unradiogenic Os required to produce the middle Miocene minimum. ?? 2008 Elsevier B.V.

Earth and Planetary Science Letters↗

USGS2021

Pesticides in US Rivers: Regional differences in use, occurrence, and environmental toxicity, 2013 to 2017

Pesticides pose a threat to the environment, but because of the substantial number of compounds, a comprehensive assessment of pesticides and an evaluation of the risk that they pose to human and aquatic life is challenging. In this study, improved analytical methods were used to quantify 221 pesticide concentrations in surface waters over the time period from 2013 to 2017. Samples were collected from 74 river sites in the conterminous US (CONUS). Potential toxicity was assessed by comparing surface water pesticide concentrations to standard concentrations that are considered to have adverse effects on human health or aquatic organisms. The majority of pesticide use is related to agriculture, and agricultural production varies across the CONUS. Therefore, our results were summarized by region (Northeast, South, Midwest, West and Pacific), with the expectation that crop production differences would drive variability in pesticide use, detection frequency, and benchmark exceedance patterns. Although agricultural pesticide use was at least 2.5 times higher in the Midwest (49 kg km −2 ) than in any of the other four regions (Northeast, South, West, and Pacific, 3 to 21 kg km −2 ) and the average number of pesticides detected in the Midwest was at least 1.5 higher ( n = 25) than the other four regions ( n = 8 to n = 16), the potential toxicity results were more evenly distributed. At least 50% of the sites within each of the 5 regions had at least 1 chronic benchmark exceedance. Imidacloprid posed the greatest potential threat to aquatic life with a total of 245 benchmark exceedances at 60 of the 74 sites. These results show that pesticides persist in the environment beyond the site of application and expected period of use. Continued monitoring and research are needed to improve our understanding of pesticide effects on aquatic and human life.

Science of the Total Environment↗

USGS2023

Who spawns where? Temperature, elevation, and discharge differentially affect the distribution of breeding by six Pacific salmonids within a large river basin

Within the geographic range of salmonid fishes, many apparently suitable rivers and streams are used for reproduction by some species but not others. This is widely known but seldom addressed, as studies often examine factors determining the distribution of one or only a few species. We examined physical factors associated with the spawning distribution of six native Pacific salmonids (pink, chum, coho, and Chinook salmon, bull trout, and steelhead) in the Skagit River basin, Washington. Annual mean temperature and catchment elevation had the strongest association with spawning assemblage distribution, but stream length, annual discharge, seasonal hydrology, and land use were also influential. Some species (e.g., pink and Chinook salmon) were more closely associated with each other and with common variables than others, and bull trout were the most distinctive. For interpretation, we investigated the roles of adult body size, timing of spawning, and duration of juvenile rearing, but none of these factors explained groupings in the data. Interspecific differences in habitat association remained, suggesting fundamental constraints on species distributions with implications for conservation and restoration.

Washington↗

USGS2021

Novel insights into the genetic population connectivity of transient whale sharks (Rhincodon typus) in Pacific Panama provide crucial data for conservation efforts

The whale shark ( Rhincodon typus ) is an endangered and highly migratory species, of which solitary individuals or aggregations are observed in oceans worldwide and for which conservation efforts are hindered by a lack of comprehensive data on genetic population connectivity. Tissue samples were collected from wandering whale sharks in Pacific Panama to determine genetic diversity, phylogeographic origin, and possible global and local connectivity patterns using a 700–800 bp fragment of the mitochondrial control region gene. Genetic diversity among samples was high, with five new haplotypes and nine polymorphic sites identified among the 15 sequences. Haplotype diversity ( H d = 0.83) and nucleotide diversity (π = 0.00516) were similar to those reported in other studies. Our sequences, in particular haplotypes PTY1 and PTY2 , were similar to those previously reported in the Arabian Gulf and the Western Indian Ocean populations (a novel occurrence in the latter case). Haplotypes PTY3 , PTY4 , and PTY5 were similar to populations in Mexico and the Gulf of California. In contrast, the only populations to which our Panamanian sequences were genetically dissimilar were those from the Atlantic Ocean. The absence of reference sequences in GenBank from southern sites in the Eastern Tropical Pacific, such as Galapagos (Ecuador), Gorgona and Malpelo Islands (Colombia), and Coco Island (Costa Rica), reduced our capacity to genetically define regional patterns. Genetic differentiation and connectivity were also assessed using an analysis of molecular variance (AMOVA), which showed a similar population structure (five groups) to the neighbor-joining tree. Other population features based on neutrality tests, such as Tajima’s D and Fu’s Fs statistics, showed positive values for Panama of 0.79 and 1.61, respectively. Positive values of these statistics indicate a lack of evidence for population expansion among the sampled individuals. Our results agree with previous reports suggesting that whale sharks can travel over long distances and that transboundary conservation measures may be effective for species protection.

Gulf of Chiriqu↗

USGS2020

Mariana serpentinite mud volcanism exhumes subducted seamount materials: Implications for the origin of life

The subduction of seamounts and ridge features at convergent plate boundaries plays an important role in the deformation of the overriding plate and influences geochemical cycling and associated biological processes. Active serpentinization of forearc mantle and serpentinite mud volcanism on the Mariana forearc (between the trench and active volcanic arc) provides windows on subduction processes. Here, we present (1) the first observation of an extensive exposure of an undeformed Cretaceous seamount currently being subducted at the Mariana Trench inner slope; (2) vertical deformation of the forearc region related to subduction of Pacific Plate seamounts and thickened crust; (3) recovered Ocean Drilling Program and International Ocean Discovery Program cores of serpentinite mudflows that confirm exhumation of various Pacific Plate lithologies, including subducted reef limestone; (4) petrologic, geochemical and paleontological data from the cores that show that Pacific Plate seamount exhumation covers greater spatial and temporal extents; (5) the inference that microbial communities associated with serpentinite mud volcanism may also be exhumed from the subducted plate seafloor and/or seamounts; and (6) the implications for effects of these processes with regard to evolution of life.

Philosophical Transactions of the Royal Society A:↗

USGS2009

Geophysical investigation of seamounts near the Ogasawara fracture zone, western Pacific

This paper provides an analysis of multi-channel seismic data obtained during 2000-2001 on seamounts near the Ogasawara Fracture Zone (OFZ) northwest of the Marshall Islands in the western Pacific. The OFZ is unique in that it is a wide rift zone that includes many seamounts. Seven units are delineated on the basis of acoustic characteristics and depth: three units (I, II, and III) on the summit of seamounts and four units (IV, V, VI, and VII) in basins. Acoustic characteristics of layers on the summit of guyots and dredged samples indicate that the seamounts had been built above sea level by volcanism. This was followed by reef growth along the summit margin, which enabled deposition of shallow-water carbonates on the summit, and finally by subsidence of the edifices. The subsidence depth of the seamounts, estimated from the lower boundary of unit II, ranges between 1,550 and 2,040 m. The thick unit I of the southern seamounts is correlated with proximity to the equatorial high productivity zone, whereas local currents may have strongly affected the distribution of unit I on northern seamounts. A seismic profile in the basin around the Ita Mai Tai and OSM4 seamounts shows an unconformity between units IV and V, which is widespread from the East Mariana Basin to the Pigafetta Basin. Copyright ?? The Society of Geomagnetism and Earth, Planetary and Space Sciences (SGEPSS); The Seismological Society of Japan; The Volcanological Society of Japan; The Geodetic Society of Japan; The Japanese Society for Planetary Sciences; TERRAPUB.

Earth, Planets and Space↗

USGS2016

Accurate recapture identification for genetic mark–recapture studies with error-tolerant likelihood-based match calling and sample clustering

Error-tolerant likelihood-based match calling presents a promising technique to accurately identify recapture events in genetic mark–recapture studies by combining probabilities of latent genotypes and probabilities of observed genotypes, which may contain genotyping errors. Combined with clustering algorithms to group samples into sets of recaptures based upon pairwise match calls, these tools can be used to reconstruct accurate capture histories for mark–recapture modelling. Here, we assess the performance of a recently introduced error-tolerant likelihood-based match-calling model and sample clustering algorithm for genetic mark–recapture studies. We assessed both biallelic (i.e. single nucleotide polymorphisms; SNP) and multiallelic (i.e. microsatellite; MSAT) markers using a combination of simulation analyses and case study data on Pacific walrus ( Odobenus rosmarus divergens ) and fishers ( Pekania pennanti ). A novel two-stage clustering approach is demonstrated for genetic mark–recapture applications. First, repeat captures within a sampling occasion are identified. Subsequently, recaptures across sampling occasions are identified. The likelihood-based matching protocol performed well in simulation trials, demonstrating utility for use in a wide range of genetic mark–recapture studies. Moderately sized SNP (64+) and MSAT (10–15) panels produced accurate match calls for recaptures and accurate non-match calls for samples from closely related individuals in the face of low to moderate genotyping error. Furthermore, matching performance remained stable or increased as the number of genetic markers increased, genotyping error notwithstanding.

Royal Society Open Science↗

USGS2021

Multi-proxy record of Holocene paleoenvironmental conditions from Yellowstone Lake, Wyoming, USA

A composite 11.82 m-long (9876–-67 cal yr BP) sediment record from Yellowstone Lake, Wyoming was analyzed using a robust set of biological and geochemical proxies to investigate the paleoenvironmental evolution of the lake and its catchment in response to long-term climate forcing. Oxygen isotopes from diatom frustules were analyzed to reconstruct Holocene climate changes, and pollen, charcoal, diatom assemblages, and biogenic silica provided information on terrestrial and limnological responses. The long-term trends recorded in the terrestrial and limnic ecosystems over the last 9800 years reflect the influence of changes in the amplification of the seasonal cycle of insolation on regional climate. The early Holocene (9880–6700 cal yr BP) summer insolation maximum and strengthening of the northeastern Pacific subtropical high-pressure system created warm dry conditions and decreasing summer insolation in the middle (6700–3000 cal yr BP) and late (3000–-67 cal yr BP) Holocene resulted in progressively cooler, wetter conditions. Submillenial climate variation is also apparent, with a wetter/cooler interval between 7000 and 6800 cal yr BP and warmer and/or drier conditions from 4500 to 3000 cal yr BP and at ca. 1100 cal yr BP. These data show that the Yellowstone Lake basin had a climate history typical of a summer-dry region, which helps to better define the spatial variability of Holocene climate in the Greater Yellowstone Ecosystem.

Wyoming↗

USGS2024

Variability in coastal habitat available for Longfin Smelt Spirinchus thaleichthys in the northeastern Pacific Ocean

An understanding of oceanographic conditions and processes important to marine animal ecology is fundamental to the development of effective management and conservation actions. Longfin Smelt ( Spirinchus thaleichthys ) is a pelagic forage fish found in coastal and estuarine waters along the Pacific coast of North America from Alaska to central California. Substantial population declines in California’s San Francisco Estuary, where Longfin Smelt are protected under California’s Endangered Species Act, have prompted extensive study of estuarine factors associated with the decline. However, coastal factors that affect up to two-thirds of the Longfin Smelt life cycle are poorly understood and may be important drivers of population dynamics. We compiled coastal observations from numerous sources to estimate the range-wide coastal marine distribution of Longfin Smelt and assess habitat factors affecting distribution in the northeast Pacific Ocean. Based on maximum entropy species distribution models, Longfin Smelt distribution was correlated with depth, distance from the nearest estuary, sea surface temperature, and sea surface chlorophyll. Longfin Smelt were found in shallow, higher productivity coastal waters closer to estuaries, with depth and temperature the most consistent factors influencing distribution. Habitat suitability was highly variable at the southern extent of the range, particularly off the California coast, and was largely driven by habitat contractions associated with warm-water conditions. Study results provide insights into the habitat and range-wide distribution of an at-risk estuarine-reliant forage fish and are the first step toward identifying processes that affect the marine portion of the Longfin Smelt life cycle.

Frontiers in Marine Science↗

USGS2006

Assessing possible thermal rearing restrictions for juvenile coho salmon (Oncorhynchus kisutch) through thermal infrared imaging and in-stream monitoring, Redwood Creek, California

We quantified patterns in stream temperature in a northern coastal California river using thermal infrared (TIR) imaging and in-stream monitoring and related temperature patterns to the historical and present distributions of juvenile coho salmon (Oncorhynchus kisutch). In Redwood Creek, California, water temperature increased from the headwaters to about 60 km downstream, then gradually decreased over the next 40 km as the river approaches the Pacific Ocean. Despite the lack of fish migration barriers, juvenile coho are currently only observed in the downstream-most 20 km, whereas historically they were found in 90 km of river channel. Maximum daily temperatures and duration of elevated stream temperatures were not significantly different in the headwater and downstream reaches but were significantly higher in the 50 km long intervening reach, where maximum weekly maximum temperatures ranged from 23 to 27??C. An increase in stream temperatures in the middle basin during the last three decades as a result of channel aggradation, widening, and the removal of large riparian conifers may play an important role in restricting juvenile coho to one-fifth of their historical range. ?? 2006 NRC.

Canadian Journal of Fisheries and Aquatic Sciences↗

USGS1999

Earthquake probabilities in the San Francisco Bay region: 2000 to 2030 - A summary of findings

The San Francisco Bay region sits astride a dangerous “earthquake machine,” the tectonic boundary between the Pacific and North American Plates. The region has experienced major and destructive earthquakes in 1838, 1868, 1906, and 1989, and future large earthquakes are a certainty. The ability to prepare for large earthquakes is critical to saving lives and reducing damage to property and infrastructure. An increased understanding of the timing, size, location, and effects of these likely earthquakes is a necessary component in any effective program of preparedness. This study reports on the probabilities of occurrence of major earthquakes in the San Francisco Bay region (SFBR) for the three decades 2000 to 2030. The SFBR extends from Healdsberg on the northwest to Salinas on the southeast and encloses the entire metropolitan area, including its most rapidly expanding urban and suburban areas. In this study a “major” earthquake is defined as one with M≥6.7 (where M is moment magnitude). As experience from the Northridge, California (M6.7, 1994) and Kobe, Japan (M6.9, 1995) earthquakes has shown us, earthquakes of this size can have a disastrous impact on the social and economic fabric of densely urbanized areas. To reevaluate the probability of large earthquakes striking the SFBR, the U.S. Geological Survey solicited data, interpretations, and analyses from dozens of scientists representing a wide crosssection of the Earth-science community (Appendix A). The primary approach of this new Working Group (WG99) was to develop a comprehensive, regional model for the long-term occurrence of earthquakes, founded on geologic and geophysical observations and constrained by plate tectonics. The model considers a broad range of observations and their possible interpretations. Using this model, we estimate the rates of occurrence of earthquakes and 30-year earthquake probabilities. Our study considers a range of magnitudes for earthquakes on the major faults in the region—an innovation over previous studies of the SFBR that considered only a small number of potential earthquakes of fixed magnitude.

California↗

USGS2015

Downscaling global land-use/land-cover projections for use in region-level state-and-transition simulation modeling

Global land-use/land-cover (LULC) change projections and historical datasets are typically available at coarse grid resolutions and are often incompatible with modeling applications at local to regional scales. The difficulty of downscaling and reapportioning global gridded LULC change projections to regional boundaries is a barrier to the use of these datasets in a state-and-transition simulation model (STSM) framework. Here we compare three downscaling techniques to transform gridded LULC transitions into spatial scales and thematic LULC classes appropriate for use in a regional STSM. For each downscaling approach, Intergovernmental Panel on Climate Change (IPCC) Representative Concentration Pathway (RCP) LULC projections, at the 0.5 × 0.5 cell resolution, were downscaled to seven Level III ecoregions in the Pacific Northwest, United States. RCP transition values at each cell were downscaled based on the proportional distribution between ecoregions of (1) cell area, (2) land-cover composition derived from remotely-sensed imagery, and (3) historic LULC transition values from a LULC history database. Resulting downscaled LULC transition values were aggregated according to their bounding ecoregion and “cross-walked” to relevant LULC classes. Ecoregion-level LULC transition values were applied in a STSM projecting LULC change between 2005 and 2100. While each downscaling methods had advantages and disadvantages, downscaling using the historical land-use history dataset consistently apportioned RCP LULC transitions in agreement with historical observations. Regardless of the downscaling method, some LULC projections remain improbable and require further investigation.

AIMS Environmental Science↗

USGS2023

Effects of feeding and habitat on resting metabolic rates of the Pacific walrus

Arctic marine mammals live in a rapidly changing environment due to the amplified effects of global warming. Pacific walruses ( Odobenus rosmarus divergens ) have responded to declines in Arctic sea-ice extent by increasingly hauling out on land farther from their benthic foraging habitat. Energy models can be useful for better understanding the potential implications of changes in behavior on body condition and reproduction but require behavior-specific metabolic rates. Here we measured the resting metabolic rates (RMR) of three captive, adult female Pacific walruses through breath-by-breath respirometry when fed and fasted resting out of water (sitting and lying down) and while fed resting in water. RMR in and out of water were positively related with pretrial energy intake when not fasted and 25% higher than RMR when walruses were fasted and out of water. Overall, RMR was higher than previously estimated for this species. Fasting RMR out of water was only 25% lower than subsurface swimming metabolic rates suggestive of relatively efficient swimming in adult females. Our results identify the importance of considering feeding status and species-specific differences in affecting metabolic costs. Further research is needed to better understand potential energetic costs of thermoregulation at temperatures experienced by wild walruses.

Valencia↗

USGS2017

Using genetic pedigree reconstruction to estimate effective spawner abundance from redd surveys: an example involving Pacific lamprey (Entosphenus tridentatus)

Redd surveys are a commonly used technique for indexing the abundance of sexually mature fish in streams; however, substantial effort is often required to link redd counts to actual spawner abundance. In this study, we describe how genetic pedigree reconstruction can be used to estimate effective spawner abundance in a stream reach, using Pacific lamprey ( Entosphenus tridentatus ) as an example. Lamprey embryos were sampled from redds within a 2.5 km reach of the Luckiamute River, Oregon, USA. Embryos were found in only 20 of the 48 redds sampled (suggesting 58% false redds); however, multiple sets of parents were detected in 44% of the true redds. Estimates from pedigree reconstruction suggested that there were 0.48 (95% CI: 0.29–0.88) effective spawners per redd and revealed that individual lamprey contributed gametes to a minimum of between one and six redds, and in one case, spawned in patches that were separated by over 800 m. Our findings demonstrate the utility of pedigree reconstruction techniques for both inferring spawning-ground behaviors and providing useful information for refining lamprey redd survey methodologies.

Oregon↗