Geology topics

John Y. Takekawa

Publications and source records attributed to John Y. Takekawa.

At least 145 records · Page 8Linked to original sources

USGS2011

Flying over an infected landscape: Distribution of highly pathogenic avian influenza H5N1 risk in South Asia and satellite tracking of wild waterfowl

Highly pathogenic avian influenza (HPAI) H5N1 virus persists in Asia, posing a threat to poultry, wild birds, and humans. Previous work in Southeast Asia demonstrated that HPAI H5N1 risk is related to domestic ducks and people. Other studies discussed the role of migratory birds in the long distance spread of HPAI H5N1. However, the interplay between local persistence and long-distance dispersal has never been studied. We expand previous geospatial risk analysis to include South and Southeast Asia, and integrate the analysis with migration data of satellite-tracked wild waterfowl along the Central Asia flyway. We find that the population of domestic duck is the main factor delineating areas at risk of HPAI H5N1 spread in domestic poultry in South Asia, and that other risk factors, such as human population and chicken density, are associated with HPAI H5N1 risk within those areas. We also find that satellite tracked birds (Ruddy Shelduck and two Bar-headed Geese) reveal a direct spatio-temporal link between the HPAI H5N1 hot-spots identified in India and Bangladesh through our risk model, and the wild bird outbreaks in May,June,July 2009 in China(Qinghai Lake), Mongolia, and Russia. This suggests that the continental-scale dynamics of HPAI H5N1 are structured as a number of persistence areas delineated by domestic ducks, connected by rare transmission through migratory waterfowl.

EcoHealth↗

USGS2011

Migratory movements of waterfowl in Central Asia and avian influenza emergence: Sporadic transmission of H5N1 from east to west

Waterfowl in the genera Anas and Tadorna are suspected as vectors in the long‐distance transmission of highly pathogenic avian influenza H5N1. The former Soviet Republics of Central Asia are situated at an important migratory crossroads for these and other species of birds that bridges regions where the disease is prevalent. However, waterfowl movements through Central Asia are poorly quantified. In this study, historical data derived from over 80 years of bird ringing are combined with recent satellite tracking data to delineate migration routes, movement chronology and habitat use patterns of waterfowl in relation to H5N1 outbreak locations. Results confirm migratory linkage between breeding and moulting areas in northern Kazakhstan and southern Siberia, with non‐breeding areas in the Caspian, Black and eastern Mediterranean Sea basins, as well as with South Asia. However, unlike the situation in neighbouring regions, most notably western China, H5N1 outbreaks have not been recurrent in Central Asia after they were first reported during summer 2005 and spring 2006. These findings have implications in relation to potential sampling biases, species‐specific variation in migratory behaviour and continuing regional H5N1 transmission risks.

Siberia↗

USGS2011

Tracking the autumn migration of the bar-headed goose ( Anser indicus ) with satellite telemetry and relationship to environmental conditions

The autumn migration routes of bar-headed geese captured before the 2008 breeding season at Qinghai Lake, China, were documented using satellite tracking data. To assess how the migration strategies of bar-headed geese are influenced by environmental conditions, the relationship between migratory routes, temperatures, and vegetation coverage at stopovers sites estimated with the Normalized Difference Vegetation Index (NDVI) were analyzed. Our results showed that there were four typical migration routes in autumn with variation in timing among individuals in start and end times and in total migration and stopover duration. The observed variation may be related to habitat type and other environmental conditions along the routes. On average, these birds traveled about 1300 to 1500 km, refueled at three to six stopover sites and migrated for 73 to 83 days. The majority of the habitat types at stopover sites were lake, marsh, and shoal wetlands, with use of some mountainous regions, and farmland areas.

International Journal of Zoology↗

USGS2011

Relationships between breeding status, social -congregation attendance, and foraging distance of Xantus's Murrelets

At night during the breeding season, Xantus's Murrelets ( Synthliboramphus hypoleucus ) congregate on the water adjacent to nesting colonies. We examined relationships of attendance at these nocturnal congregations, breeding status, and daytime foraging locations of radio-marked Xantus's Murrelets from Anacapa Island (33 in 2002, 44 in 2003) and Santa Barbara Island (35 in 2002) in the California Channel Islands. Murrelets that spent more nights attending congregations were located closer to the island during the day, so regular attendance at the congregations may have constrained daytime traveling distances to foraging locations. In mid-May 2003 home-range sizes increased while congregation attendance decreased, likely indicating the end of colony attendance and declining availability of prey near Anacapa Island. In both years, incubating murrelets foraged farther from the colony than did nonbreeding murrelets, suggesting that breeding and nonbreeding murrelets use different foraging strategies to meet their energetic requirements.

California↗

USGS2011

Identifying nest predators of American avocets (Recurvirostra americana) and black-necked stilts (Himantopus mexicanus) in San Francisco Bay, California

We evaluated predation on nests and methods to detect predators using a combination of infrared cameras and plasticine eggs at nests of American avocets ( Recurvirostra americana ) and black-necked stilts ( Himantopus mexicanus ) in Don Edwards San Francisco Bay National Wildlife Refuge, San Mateo and Santa Clara counties, California. Each technique indicated that predation was prevalent; 59% of monitored nests were depredated. Most identifiable predation ( n = 49) was caused by mammals (71%) and rates of predation were similar on avocets and stilts. Raccoons ( Procyon lotor ) and striped skunks ( Mephitis mephitis ) each accounted for 16% of predations, whereas gray foxes ( U rocyon cinereoargenteus ) and avian predators each accounted for 14%. Mammalian predation was mainly nocturnal (mean time, 0051 h ± 5 h 36 min), whereas most avian predation was in late afternoon (mean time, 1800 h ± 1 h 26 min). Nests with cameras and plasticine eggs were 1.6 times more likely to be predated than nests where only cameras were used in monitoring. Cameras were associated with lower abandonment of nests and provided definitive identification of predators.

California↗

USGS2011

2010 bathymetric survey and digital elevation model of Corte Madera Bay, California

A high-resolution bathymetric survey of Corte Madera Bay, California, was collected in early 2010 in support of a collaborative research project initiated by the San Francisco Bay Conservation and Development Commission and funded by the U.S. Environmental Protection Agency. The primary objective of the Innovative Wetland Adaptation in the Lower Corte Madera Creek Watershed Project is to develop shoreline adaptation strategies to future sea-level rise based upon sound science. Fundamental to this research was the development of an of an up-to-date, high-resolution digital elevation model (DEM) extending from the subtidal environment through the surrounding intertidal marsh. We provide bathymetric data collected by the U.S. Geological Survey and have merged the bathymetry with a 1-m resolution aerial lidar data set that was collected by the National Oceanic and Atmospheric Administration during the same time period to create a seamless, high-resolution DEM of Corte Madera Bay and the surrounding topography. The bathymetric and DEM surfaces are provided at both 1 m and 10 m resolutions formatted as both X, Y, Z text files and ESRI Arc ASCII files, which are accompanied by Federal Geographic Data Committee compliant metadata.

California↗

USGS2011

Migration strategies of Swan Geese Anser cygnoides from northeast Mongolia

In 2006–2008, 25 Swan Geese Anser cygnoides were marked with solar-powered GPS satellite transmitters in northeast Mongolia to examine the timing and pathways of their migration. Most geese began their autumn migration in August, flying southeast toward a staging area at the Yalu River Estuary on the China-North Korea border. After staging for several weeks, the Swan Geese continued to their wintering grounds at wetlands along the Yangtze River Basin of eastern China in December. Spring migration commenced in late February, and the birds following either a same-route or loop migration to arrive at the breeding grounds in mid April. Swan Geese used a larger number of staging areas for a longer duration when they were north of 42°N latitude; they seemed to avoid staging for extended periods in the highly urbanised areas of eastern China. Further research should examine threats and disturbances to the geese in relation to human population growth and increasing urbanisation.

Wildfowl↗

USGS2011

Ruddy Shelduck Tadorna ferruginea home range and habitat use during the non-breeding season in Assam, India

India is an important non-breeding ground for migratory waterfowl in the Central Asian Flyway. Millions of birds visit wetlands across the country, yet information on their distribution, abundance, and use of resources is rudimentary at best. Limited information suggests that populations of several species of migratory ducks are declining due to encroachment of wetland habitats largely by agriculture and industry. The development of conservation strategies is stymied by a lack of ecological information on these species. We conducted a preliminary assessment of the home range and habitat use of Ruddy Shelduck Tadorna ferruginea in the northeast Indian state of Assam. Seven Ruddy Shelducks were fitted with solar-powered Global Positioning System (GPS) satellite transmitters, and were tracked on a daily basis during the winter of 2009-2010. Locations from all seven were used to describe habitat use, while locations from four were used to quantify their home range, as the other three had too few locations (< 30) for home range estimation. A Brownian Bridge Movement Model (BBMM), used to estimate home ranges, found that the Ruddy Shelduck had an average core use area (i.e. the contour defining 50% of positions) of 40 km 2 (range = 22-87 km 2 ) and an average home range (95% contour) of 610 km 2 (range = 222-1,550 km 2 ). Resource Selection Functions (RSF), used to describe habitat use, showed that the birds frequented riverine wetlands more than expected, occurred on grasslands and shrublands in proportion to their availability, and avoided woods and cropland habitats. The core use areas for three individuals (75%) were on the Brahmaputra River, indicating their preference for riverine habitats. Management and protection of riverine habitats and nearby grasslands may benefit conservation efforts for the Ruddy Shelduck and waterfowl species that share these habitats during the non-breeding season.

Assam↗

USGS2010

Uncloaking a cryptic, threatened rail with molecular markers: origins, connectivity and demography of a recently-discovered population

The threatened California Black Rail lives under dense marsh vegetation, is rarely observed, flies weakly and has a highly disjunct distribution. The largest population of rails is found in 8–10 large wetlands in San Francisco Bay (SF Bay), but a population was recently discovered in the foothills of the Sierra Nevada Mountains (Foothills), within a wetland network comprised of over 200 small marshes. Using microsatellite and mitochondrial analyses, our objectives were to determine the origins, connectivity and demography of this recently-discovered population. Analyses of individuals from the Foothills ( n = 31), SF Bay ( n = 31), the Imperial Valley ( n = 6) and the East Coast ( n = 3), combined with rigorous power evaluations, provided valuable insights into past history and current dynamics of the species in Northern California that challenge conventional wisdom about the species. The Foothills and SF Bay populations have diverged strongly from the Imperial Valley population, even more strongly than from individuals of the East Coast subspecies. The data also suggest a historical presence of the species in the Foothills. The SF Bay and Foothills populations had similar estimated effective population size over the areas sampled and appeared linked by a strongly asymmetrical migration pattern, with a greater probability of movement from the Foothills to SF Bay than vice versa. Random mating was inferred in the Foothills, but local substructure among marshes and inbreeding were detected in SF Bay, suggesting different dispersal patterns within each location. The unexpected dimensions of Black Rail demography and population structure suggested by these analyses and their potential importance for management are discussed.

California↗

USGS2010

Movement patterns of Bar-headed Geese Anser indicus during breeding and post-breeding periods at Qinghai Lake, China

The highly pathogenic avian influenza (HPAI) H5N1 outbreak at Qinghai Lake, China, in 2005 caused the death of over 6,000 migratory birds, half of which were Bar-headed Geese Anser indicus . Understanding the movements of this species may inform monitoring of outbreak risks for HPAI viruses; thus, we investigated the movement patterns of 29 Bar-headed Geese at Qinghai Lake, China during 2007 and 2008 by using high resolution GPS satellite telemetry. We described the movements and distribution of marked Bar-headed Geese during the pre-nesting, nesting, and moulting periods. Of 21 Bar-headed Geese with complete transmission records, 3 moved to other areas during the nesting period: 2 to Jianghe wetland (50 km northwest of Qinghai Lake) and 1 to Cuolongka Lake (220 km northwest of Qinghai Lake) during the nesting period. We identified nesting attempts of 7 of the marked geese at Qinghai Lake. Four completed successful nesting attempts according to our rules of judgment for the breeding status, and 2 geese lost broods soon after hatching (hereafter referred to as unsuccessful breeders). Of 18 geese present at Qinghai Lake during the nesting period, 9 (6 non-breeders, 2 successful breeders and 1 unsuccessful breeder) remained at Qinghai Lake during the moulting period; and 9 (5 non-breeders, 4 unsuccessful breeders) left Qinghai Lake for moulting. Kuhai Lake, Donggeicuona Lake, Alake Lake, Zhaling-Eling Lake area and Huangheyuan wetland area were used as moulting sites. Geese that moulted at Qinghai Lake, Cuolongka Lake, Kuhai Lake, Donggeicuona Lake and Alake Lake also moved to Zhaling-Eling Lake area or Huangheyuan wetland area and stayed there for several days prior to autumn migration. Mean home range and core area estimates did not differ significantly by sex, year and between breeders and non-breeders.

Qinghai Lake↗

USGS2010

Victims and vectors: highly pathogenic avian influenza H5N1 and the ecology of wild birds

The emergence of highly pathogenic avian influenza (HPAI) viruses has raised concerns about the role of wild birds in the spread and persistence of the disease. In 2005, an outbreak of the highly pathogenic subtype H5N1 killed more than 6,000 wild waterbirds at Qinghai Lake, China. Outbreaks have continued to periodically occur in wild birds at Qinghai Lake and elsewhere in Central China and Mongolia. This region has few poultry but is a major migration and breeding area for waterbirds in the Central Asian Flyway, although relatively little is known about migratory movements of different species and connectivity of their wetland habitats. The scientific debate has focused on the role of waterbirds in the epidemiology, maintenance and spread of HPAI H5N1: to what extent are they victims affected by the disease, or vectors that have a role in disease transmission? In this review, we summarise the current knowledge of wild bird involvement in the ecology of HPAI H5N1. Specifically, we present details on: (1) origin of HPAI H5N1; (2) waterbirds as LPAI reservoirs and evolution into HPAI; (3) the role of waterbirds in virus spread and persistence; (4) key biogeographic regions of outbreak; and (5) applying an ecological research perspective to studying AIVs in wild waterbirds and their ecosystems.

Avian Biology Research↗

USGS2010

Circumpolar variation in morphological characteristics of Greater White-fronted Geese Anser albifrons

Capsule: Greater White-fronted Geese show significant variation in body size from sampling locations throughout their circumpolar breeding range. Aims: To determine the degree of geographical variation in body size of Greater White-fronted Geese and identify factors contributing to any apparent patterns in variation. Methods: Structural measures of >3000 geese from 16 breeding areas throughout the Holarctic breeding range of the species were compared statistically. Results: Palearctic forms varied clinally, and increased in size from the smallest forms on the Kanin and Taimyr peninsulas in western Eurasia to the largest forms breeding in the Anadyr Lowlands of eastern Chukotka. Clinal variation was less apparent in the Nearctic, as both the smallest form in the Nearctic and the largest form overall (the Tule Goose) were from different breeding areas in Alaska. The Tule Goose was 25% larger than the smallest form. Birds from Greenland (A. a. flavirostris) were the second largest, although only slightly larger than geese from several North American populations. Body size was not correlated with breeding latitude but was positively correlated with temperature on the breeding grounds, breeding habitat, and migration distance. Body mass of Greater White-fronted Geese from all populations remained relatively constant during the period of wing moult. Morphological distinctness of eastern and western Palearctic forms concurs with earlier findings of complete range disjunction. Conclusions: Patterns of morphological variation in Greater White-fronted Geese across the Holarctic can be generally attributed to adaptation to variable breeding environments, migration requirements, and phylo-geographical histories.

Bird Study↗

USGS2010

Measuring sediment accretion in early tidal marsh restoration

Sediment accretion is a critical indicator of initial progress in tidal marsh restoration. However, it is often difficult to measure early deposition rates, because the bottom surface is usually obscured under turbid, tidally-influenced waters. To accurately measure early sediment deposition in marshes, we developed an echosounder system consisting of a specialized acoustic profiler, differential global positioning system unit, and laptop computer mounted on a shallow-draft boat. We conducted a bathymetry at the Tubbs Setback tidal restoration site on San Pablo Bay, California, along north–south transects at 25-m intervals. Horizontal position was recorded within 1 m each second and water depth to 1 cm every 0.05 s. Bottom elevations were adjusted for tidal height with surveyed tide gages. We created detailed bathymetric maps (grid cell size: 12.5 m x 12.5 m) by interpolation with inverse distance weighting. During the third year after restoration, sediment accretion averaged 57.1 ± 1.1 cm and the estimated sediment gain was 132,900 m3. The mean difference between the elevations from the bathymetry system and the 9 sediment pins was 2.0 ± 1.0 cm. The mean difference of the intersection points of east–west and north–south survey transects was 2.1 ± 0.2 cm, which provided a measure of repeatability with changing water levels. Our echosounder system provided accurate and repeatable measurements of sediment accretion of a recently restored tidal wetland, and this system proved to be a viable tool for determining sediment deposition in marshes and assessing early restoration progress.

California↗

USGS2010

Field detection of avian influenza virus in wild birds: evaluation of a portable rRT-PCR system and freeze-dried reagents

Wild birds have been implicated in the spread of highly pathogenic avian influenza (HPAIV) of the H5N1 subtype, prompting surveillance along migratory flyways. Sampling of wild birds is often conducted in remote regions, but results are often delayed because of limited local analytical capabilities, difficulties with sample transportation and permitting, or problems keeping samples cold in the field. In response to these challenges, the performance of a portable real-time, reverse transcriptase-polymerase chain reaction (rRT-PCR) unit (RAPID(Registered), Idaho Technologies, Salt Lake City, UT) that employed lyophilized reagents (Influenza A Target 1 Taqman; ASAY-ASY-0109, Idaho Technologies) was compared to virus isolation combined with real-time RT-PCR conducted in a laboratory. This study included both field and experimental-based sampling. Field samples were collected from migratory shorebirds captured in northern California, while experimental samples were prepared by spiking fecal material with an H6N2 AIV isolate. Results indicated that the portable rRT-PCR unit had equivalent specificity to virus isolation with no false positives, but sensitivity was compromised at low viral titers. Use of portable rRT-PCR with lyophilized reagents may expedite surveillance results, paving the way to a better understanding of wild bird involvement in HPAIV H5N1 transmission.

Journal of Virological Methods↗

USGS2010

Factors influencing the at-sea distribution of Cassin's Auklets (Ptychoramphus aleuticus) that breed in the Channel Islands, California

We used radiotelemetry to evaluate at-sea habitat use by Cassin's Auklets ( Ptychoramphus aleuticus ) that bred at Prince Island, off southern California, from 1999 through 2001. We used logistic regression to compare paired radiotelemetry (presence) with random (pseudo-absence) location-associated habitat variables derived from (1) satellite remote-sensing of sea surface temperature and chlorophyll- a concentration and (2) bathymetry. Compared with random locations within their foraging area and after controlling for distance to colony, odds ratios indicated that Cassin's Auklets with dependent young occurred in relatively shallower, warmer, and chlorophyll-rich water associated with chlorophyll fronts near the insular shelf break. These oceanographic features characterize habitats that support key euphausiid prey (e.g., Thysanoessa spinifera ) and also other krill predators. Radiotelemetry combined with satellite remote-sensing of the ocean provides an alternative to vessel-based surveys for evaluating seabird foraging habitats. In the absence of information on the actual distribution, abundance, and, hence, availability of Zooplankton prey for seabirds, environmental factors can serve as proxies to help elucidate distributional patterns of seabirds at sea.

California↗

USGS2010

Space use and habitat selection of migrant and resident American Avocets in San Francisco Bay

San Francisco Bay is a wintering area for shorebirds, including American Avocets (Recurvirostra americana). Recently, a new resident population of avocets has emerged, presumably because of the development of tidal marshes into salt-evaporation ponds. In habitat restoration now underway, as many as 90% of salt ponds will be restored to tidal marsh. However, it is unknown if wintering and resident avocets coexist and if their requirements for space and habitat differ, necessitating different management for their populations to be maintained during restoration. We captured and radio-marked wintering avocets at a salt pond and a tidal flat to determine their population status (migrant or resident) and examine their space use and habitat selection. Of the radio-marked avocets, 79% were migrants and 21% were residents. At the salt pond, residents' fidelity to their location of capture was higher, and residents moved less than did migrants from the same site. Conversely, on the tidal flat, fidelity of residents to their site of capture was lower, and residents' home ranges were larger than those of migrants from the same site. Habitat selection of migrants and residents differed little; however, capture site influenced habitat selection far more than the birds' status as migrants or residents. Our study suggests that individual avocets have high site fidelity while wintering in San Francisco Bay, although the avocet as a species is plastic in its space use and habitat selection. This plasticity may allow wintering migrant and resident avocets to adapt to habitat change in San Francisco Bay. ?? The Cooper Ornithological Society 2010.

Condor↗

USGS2010

Waterfowl ecology and avian influenza in california: Do host traits inform us about viral occurrence?

We examined whether host traits influenced the occurrence of avian influenza virus (AIV) in Anatidae (ducks, geese, swans) at wintering sites in California's Central Valley. In total, 3487 individuals were sampled at Sacramento National Wildlife Refuge and Conaway Ranch Duck Club during the hunting season of 2007-08. Of the 19 Anatidae species sampled, prevalence was highest in the northern shoveler (5.09%), followed by the ring-necked duck (2.63%), American wigeon (2.57%), bufflehead (2.50%), greater white-fronted goose (2.44%), and cinnamon teal (1.72%). Among host traits, density of lamellae (filtering plates) of dabbling ducks was significantly associated with AIV prevalence and the number of subtypes shed by the host, suggesting that feeding methods may influence exposure to viral particles. ?? 2010 American Association of Avian Pathologists.

Avian Diseases↗

USGS2010

Migration of waterfowl in the east asian flyway and spatial relationship to HPAI H5N1 outbreaks

Poyang Lake is situated within the East Asian Flyway, a migratory corridor for waterfowl that also encompasses Guangdong Province, China, the epicenter of highly pathogenic avian influenza (HPAI) H5N1. The lake is the largest freshwater body in China and a significant congregation site for waterfowl; however, surrounding rice fields and poultry grazing have created an overlap with wild waterbirds, a situation conducive to avian influenza transmission. Reports of HPAI H5N1 in healthy wild ducks at Poyang Lake have raised concerns about the potential of resilient free-ranging birds to disseminate the virus. Yet the role wild ducks play in connecting regions of HPAI H5N1 outbreak in Asia is hindered by a lack of information about their migratory ecology. During 2007-08 we marked wild ducks at Poyang Lake with satellite transmitters to examine the location and timing of spring migration and identify any spatiotemporal relationship with HPAI H5N1 outbreaks. Species included the Eurasian wigeon ( Anas penelope ), northern pintail ( Anas acuta ), common teal ( Anas crecca ), falcated teal ( Anas falcata ), Baikal teal ( Anas formosa ), mallard ( Anas platyrhynchos ), garganey ( Anas querquedula ), and Chinese spotbill ( Anas poecilohyncha ). These wild ducks (excluding the resident mallard and Chinese spotbill ducks) followed the East Asian Flyway along the coast to breeding areas in northern China, eastern Mongolia, and eastern Russia. None migrated west toward Qinghai Lake (site of the largest wild bird epizootic), thus failing to demonstrate any migratory connection to the Central Asian Flyway. A newly developed Brownian bridge spatial analysis indicated that HPAI H5N1 outbreaks reported in the flyway were related to latitude and poultry density but not to the core migration corridor or to wetland habitats. Also, we found a temporal mismatch between timing of outbreaks and wild duck movements. These analyses depend on complete or representative reporting of outbreaks, but by documenting movements of wild waterfowl, we present ecological knowledge that better informs epidemiological investigations seeking to explain and predict the spread of avian influenza viruses. ?? 2010 American Association of Avian Pathologists.

Avian Diseases↗