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Jonathan Bart

Publications and source records attributed to Jonathan Bart.

At least 19 recordsLinked to original sources

Importance of the National Petroleum Reserve-Alaska for aquatic birds

We used data from aerial surveys (1992–2010) of >100,000 km 2 and ground surveys (1998–2004) of >150 km 2 to estimate the density and abundance of birds on the North Slope of Alaska (U.S.A.). In the ground surveys, we used double sampling to estimate detection ratios. We used the aerial survey data to compare densities of birds and Arctic fox (Vulpes lagopus), the major nest predator of birds, on the North Slope, in Prudhoe Bay, and in nearby areas. We partitioned the Prudhoe Bay oil field into 2 × 2 km plots and determined the relation between density of aquatic birds and density of roads, buildings, and other infrastructure in these plots. Abundance and density (birds per square kilometer) of 3 groups of aquatic birds—waterfowl, loons, and grebes; shorebirds; and gulls, terns, and jaegers—were highest in the National Petroleum Reserve–Alaska (NPRA) and lowest in the Arctic National Wildlife Refuge. Six other major wetlands occur in the Arctic regions of Canada and Russia, but the largest population of aquatic birds was in the NPRA. Aquatic birds were concentrated in the northern part of the NPRA. For example, an area that covered 18% of the NPRA included 53% of its aquatic birds. The aerial surveys showed that bird density was not lower and fox density was not higher in Prudhoe Bay than in surrounding areas. Density of infrastructure did not significantly affect bird density for any group of species. Our results establish that the NPRA is one of the most important areas for aquatic birds in the Arctic. Our results and those of others also indicate that oil production, as practiced in Prudhoe Bay, does not necessarily lead to substantial declines in bird density or productivity in or near the developed areas.

Alaska↗

Analysis options for estimating status and trends in long-term monitoring

This chapter describes methods for estimating long-term trends in ecological parameters. Other chapters in this volume discuss more advanced methods for analyzing monitoring data, but these methods may be relatively inaccessible to some readers. Therefore, this chapter provides an introduction to trend analysis for managers and biologists while also discussing general issues relevant to trend assessment in any long-term monitoring program. For simplicity, we focus on temporal trends in population size across years. We refer to the survey results for each year as the “annual means” (e.g. mean per transect, per plot, per time period). The methods apply with little or no modification, however, to formal estimates of population size, other temporal units (e.g. a month), to spatial or other dimensions such as elevation or a north–south gradient, and to other quantities such as chemical or geological parameters. The chapter primarily discusses methods for estimating population-wide parameters rather than studying variation in trend within the population, which can be examined using methods presented in other chapters (e.g. Chapters 7, 12, 20). We begin by reviewing key concepts related to trend analysis. We then describe how to evaluate potential bias in trend estimates. An overview of the statistical models used to quantify trends is then presented. We conclude by showing ways to estimate trends using simple methods that can be implemented with spreadsheets.

Book chapter↗

Coordinated bird monitoring: Technical recommendations for military lands

The Department of Defense (DoD) is subject to several rules and regulations establishing responsibilities for monitoring migratory birds. The Sikes Act requires all military installations with significant natural resources to prepare and implement Integrated Natural Resources Management Plans (INRMPs). These plans guide the conservation and long-term management of natural resources on military lands in a manner that is compatible with and sustains the military mission. An INRMP also supports compliance with all legal requirements and guides the military in fulfilling its obligation to be a good steward of public land.The management and conservation of migratory birds is addressed in installation INRMPs. The National Environmental Policy Act (NEPA) requires federal agencies to evaluate and disclose the potential environmental impacts of their proposed actions. More recently, DoD signed an MOU (http://www.dodpif.org/downloads/EO13186_MOU-DoD.pdf) for migratory birds, under Executive Order 13186, with the US Fish and Wildlife Service (USFWS) in July 2006 and a Migratory Bird Rule (http://www.dodpif.org/downloads/MigBirdFINALRule_FRFeb2007.pdf) was passed by Congress in February 2007. The Migratory Bird Rule addresses the potential impacts of military readiness activities on populations of migratory birds and establishes a process to implement conservation measures if and when a military readiness activity is expected to have a significant adverse impact on a population of migratory bird species (as determined through the NEPA process). The MOU states that for nonmilitary readiness activities, prior to initiating any activity likely to affect populations of migratory birds DoD shall (1) identify the migratory bird species likely to occur in the area of the proposed action and determine if any species of concern could be affected by the activity, and (2) assess and document, using NEPA when applicable, the effect of the proposed action on species of concern. By following these procedures, DoD will minimize the possibility for a proposed action to unintentionally take migratory birds at a level that would violate any of the migratory bird treaties and potentially impact mission activities. In addition, implementing conservation and monitoring programs for migratory birds supports the ecosystem integrity necessary to sustain DoD's natural resources for the military mission.Non-compliance with the procedural requirements of the MBTA could result in a private party lawsuit under the Administrative Procedures Act (APA). A lawsuit filed under APA involving a Navy bombing range is the basis for a court ruling that unintentional take of migratory birds applies to federal actions. Ensuring the necessary data is available to adequately assess impacts of a proposed action will help avoid lawsuits or help ensure such lawsuits have no grounds. The data gathered in a bird monitoring program will provide the best scientific data available to assess the expected impacts of a proposed action on migratory bird species through the NEPA process. This report presents recommendations developed by the U.S. Geological Survey (USGS) for the Department of Defense (DoD) on establishing a "Coordinated Bird Monitoring (CBM) Plan." The CBM Plan is intended to ensure that DoD meets its conservation and regulatory responsibilities for monitoring birds (Chapter 1). The report relies heavily on recommendations in the report, "Opportunities for improving avian monitoring" (http://www.nabci-us.org/aboutnabci/monitoringreportfinal0307.pdf), by the U.S. North American Bird Conservation Initiative (U.S. NABCI Monitoring Subcommittee, 2007) and on a review of 358 current DoD bird monitoring programs carried out as part of this project (Chapter 2). This report contains 12 recommendations which, if followed, would result in a comprehensive, efficient, and useful approach to bird monitoring. The recommendations are based on the entire report but are presented together at the end of Chapter 1. DoD has agreed to consider implementing these recommendations; however, final decisions will be based upon such factors as the availability of resources and military mission considerations. These recommendations from USGS can be summarized into 6 major themes: A major report on monitoring was released in 2007 by the U.S. North American Bird Conservation Initiative (http://www.nabci-us.org/main2.html). DoD can be consistent with this report by establishing policy that monitoring will be explicitly acknowledged as an integral element of bird management and conservation (Recommendation 1). The design of monitoring and assessment programs for birds should include the following steps: Preparation of a document describing the program's goals, objectives, and methods similar to a format we provide (Recommendation 2, Chapter 4). Selection of field methods using an "expert system" developed in this project (Recommendation 3, Chapter 5) or another well-documented system. Preparation and storage of metadata describing the monitoring program in the Natural Resources Monitoring Partnership (NRMP), and other appropriate databases Recommendation 4, Chapter 6). Entry of the survey data using eBird (http://ebird.org/content/dod) or the Coordinated Bird Monitoring Database (CBMD) and long-term storage of the data in the CBMD and the Avian Knowledge Network (AKN; Recommendation 5, Chapter 6; http://www.avianknowledge.net/). Submission of major results from the monitoring program for publication in a peer reviewed journal (Recommendation 6). The DoD Legacy Resource Management Program (Legacy; https://www.dodlegacy.org), Environmental Security Technology Certification Program (ESTCP; http://www.serdp.org/), and Strategic Environmental Research and Development Program (SERDP; http://www.serdp.org/) should be encouraged to continue their significant contributions to the foundations of bird monitoring (Recommendation 7, Chapters 1 and 3). Appropriate monitoring should be conducted to identify species of concern on installations. A year-round, one-time survey of birds on installations with habitat for migratory birds would provide the most information to assist compliance with the MOU, the Final Rule, and the NEPA analyses of proposed actions. However, less intensive survey efforts can still be conducted to yield useful information. We describe how various levels of survey effort might be organized and conducted. In addition, continuing surveys, as feasible, would further assist in documenting effects of military readiness and non-readiness activities on species of concern (SOC) (Recommendation 8, Chapter 7). Participation in well-designed, large-scale surveys [(e.g., North American Breeding Bird Survey (BBS; http://www.pwrc.usgs.gov/bbs/), Monitoring Avian Productivity and Survivorship (MAPS; http://www.birdpop.org/maps.htm)] on land that DoD manages or on lands where the results will be of high interest to DoD, will provide DoD and other NABCI members with information important to bird conservation (Recommendation 9, Chapter 8). Review and implementation of the CBM Plan should involve both higher level management and installation-level natural resources managers (Recommendation 11), be implemented through cooperative partnerships (Recommendation 12), and be followed on U.S territory lands and Army Corps of Engineers projects (Recommendation 10).Additional recommendations that pertain to implementing the DoD CBM Plan are discussed in Chapter 9.

Open-File Report↗

Methods

Detecting declines in population size is one of the highest priorities of the shorebird initiatives in Canada and the United States. The quantitative goal is 80% power to detect a 50% decline, occurring during no more than 20 years, with a significance level of 0.15, using a two-tailed test, and incorporating effects of potential bias into the estimator. The Arctic PRISM program was designed to achieve this goal for arctic-nesting shorebird populations. The survey methods are an application of double sampling. Rapid surveys were made on a large number of plots selected from throughout arctic Alaska and Canada using stratified random sampling. Intensive surveys were made on a subsample of the plots to obtain detection rates, which were used to calibrate results from rapidly surveyed plots. Surveys will be made of the entire arctic region, each lasting several years and producing an estimate of average population size during the survey period. Results from two or more survey periods will be used to estimate change, or trend, in population size.

Book chapter↗

Goals and objectives

We report results from shorebird surveys in the North American Arctic, defined here as Bird Conservation Regions 2 and 3 of the North American Bird Conservation Initiative (http://www.nabci.net/International/English/bcrmap.html). The surveys estimate population size and trend, and provide information on habitat relationships, at the regional and Arctic-wide scale (Table 1, Fig 1). Of the 53 species of shorebirds that breed in the United States and Canada, 26 (47%) breed in the arctic in sufficient numbers that arctic surveys are an important part of monitoring programs for them (Brown et al. 2001, Donaldson et al. 2000; Table 1). Arctic-breeding shorebirds are a diverse group that exhibits a wide range of migration, reproductive, and wintering strategies (Table 1.1). Some species migrate a short distance to the northern United States and southern Canada (e.g. Purple Sandpiper; for scientific names, see Appendix D), while others undertake epic migrations to West Africa (e.g. Red Phalarope) or southern South America (e.g. Hudsonian Godwit, Red Knot). Some migrate in huge flocks, while others trickle south singly or in small groups. There are monogamous, polygamous, and polyandrous breeders, and most habitats in the Arctic provide nesting opportunities for shorebird species. Despite their different life history characteristics, all Arctic shorebird species share two traits: 1) they are all are migrants (none inhabit the Arctic year-round) and 2) because of their migratory behavior, all are exposed to anthropogenic hazards at some point(s) in their life cycle.

Book chapter↗

Summary

This chapter summarizes results in previous chapters by providing estimated densities and population sizes, in the areas we have surveyed, for Alaska, Canada, and both regions combined. A total of 1,554 rapid plots, covering 232 km 2 , and 83 intensive plots were surveyed during the study. The monograph presents >600 density estimates and >200 estimated population sizes. Densities for all shorebirds combined were highest in the Yukon-Kuskokwim Delta and next highest on the Alaska Peninsula and the NPRA. They were lower in eastern Alaska and most of Canada but were high in the Foxe Basin including Southampton, Coats, Prince Charles, and Air Force Islands. Although densities were highest in wetlands, wetlands only contained about 45% of the shorebirds in our study area, and uplands, in which densities were generally very low, contained an estimated 27% of the total population. Uplands therefore should not be ignored in monitoring shorebird populations. We argue that the field and analytic methods are now well developed and can be relied on to produce rigorous estimates of density, habitat relationships, population size, and trend in population size. Comparison of our results with Morrison et al.’s (2006) estimates of population size indicate general agreement at the rank order level but where we could make detailed evaluations of their estimates, they appeared generally to be low. All of the data, programs, and other results are available, free of charge, at http://greatbasin.wr.usgs.gov/CBM/default.asp?PageID=1.

Book chapter↗

Small-scale and reconnaissance surveys

This brief chapter addresses two related issues: how effort should be allocated to different parts of the sampling plan and, given optimal allocation, how large a sample will be required to achieve the PRISM accuracy target. Simulations based on data collected to date showed that 2 plots per cluster on rapid surveys, 2 intensive camps per field crew-year, 2-4 intensive plots per intensive camp, and 2-3 rapid surveys per intensive plot is the most efficient allocation of resources. Using this design, we investigated how crew-years should be allocated to each region in order to meet the PRISM accuracy target most efficiently. The analysis indicated that 40-50 crew-years would achieve the accuracy target for 18-24 of the 26 species breeding widely in the Arctic. This analysis was based on assuming that two rounds of surveys were conducted and that a 50% decline occurred between them. We discuss the complexity of making these estimates and why they should be viewed as first approximations.

Book chapter↗

Shorebird surveys in western Alaska

Surveys for breeding shorebirds were conducted during 2001-2002 in four National Wildlife Refuges (NWRs) in western Alaska - Alaska Maritime, Alaska Peninsula, Yukon Delta and Selawik. The sizes of our study areas on and adjacent to these four refuges were 9,243 km 2 , 24,493 km 2 , 853 km 2 , and 15,170 km 2 , respectively. Eleven sites were selected non-randomly, 3 in the Alaska Maritime NWR, 6 in the Alaska Peninsula, and one each in the other two NWRs. Survey and analytic methods are described in Chapter 2. Rapid surveys were conducted on 224 plots; 2,163 indicated pairs of shorebirds were recorded of which 1,485 were judged to be nesting in the surveyed plots. Detection ratios were estimated using intensive plot data from northern Alaska as well as from two plots on the Yukon Delta NWR. The highest estimated densities (shorebirds/km 2 ) were on the Yukon Delta Study Area: 416 in wetlands and 300 in moist areas. The estimated densities on the Alaska Peninsula Study Area were 118 in wetlands and 62 in uplands. Other densities were markedly lower. Estimated numbers of shorebirds were 62,000 (CV = 0.58), 1,804,000 (CV = 0.32), 310,000 (CV = 0.11), and 390,000 (CV = 0.35), in the Alaska Maritime, Alaska Peninsula, Yukon Delta, and Selawik study areas, respectively. The former two estimates were affected by selection bias of unknown magnitude and so should be regarded with caution. A small estimate was generated for the Yukon Delta Study Area because it covered only about 1% of the Yukon Delta NWR. We identify several species-specific estimates from our study which appear inconsistent with previous continental estimates. This pilot study provides preliminary estimates of species composition and density in the surveyed areas. By incorporating several region-specific modifications to the sampling protocols for future surveys, we believe that the Arctic PRISM method is suitable for covering large areas in western Alaska.

Alaska↗

Design of future surveys

This brief chapter addresses two related issues: how effort should be allocated to different parts of the sampling plan and, given optimal allocation, how large a sample will be required to achieve the PRISM accuracy target. Simulations based on data collected to date showed that 2 plots per cluster on rapid surveys, 2 intensive camps per field crew-year, 2-4 intensive plots per intensive camp, and 2-3 rapid surveys per intensive plot is the most efficient allocation of resources. Using this design, we investigated how crew-years should be allocated to each region in order to meet the PRISM accuracy target most efficiently. The analysis indicated that 40-50 crew-years would achieve the accuracy target for 18-24 of the 26 species breeding widely in the Arctic. This analysis was based on assuming that two rounds of surveys were conducted and that a 50% decline occurred between them. We discuss the complexity of making these estimates and why they should be viewed as first approximations.

Book chapter↗

Appendix A: other methods for estimating trends of Arctic birds

The Arctic PRISM was designed to determine shorebird population size and trend. During an extensive peer review of PRISM, some reviewers suggested that measuring demographic rates or monitoring shorebirds on migration would be more appropriate than estimating population size on the breeding grounds. However, each method has its own limitations. For demographic monitoring, an unbiased estimate based on a large sample of first-year survivorship would be extremely difficult for shorebirds in the arctic because the needed sample size would be unobtainable (in Canada at least) and the level of effort that would need to be expended (both financial and human resource-wise) would far exceed that of the current Arctic PRISM methodology. For migration monitoring, issues such as changes in use of monitored to non-monitored sites, residency times, and detection rates introduce bias that has not yet been resolved. While we believe demographic and migration monitoring are very valuable and are already components of the PRISM approach (e.g., Tier 2 sites focus on the collection of demographic data), we do not believe that either is likely to achieve the PRISM accuracy target of an 80% power to detect a 50% decline.

Book chapter↗

Sampling large landscapes with small-scale stratification-User's Manual

This manual explains procedures for partitioning a large landscape into plots, assigning the plots to strata, and selecting plots in each stratum to be surveyed. These steps are referred to as the "sampling large landscapes (SLL) process." We assume that users of the manual have a moderate knowledge of ArcGIS and Microsoft ® Excel. The manual is written for a single user but in many cases, some steps will be carried out by a biologist designing the survey and some steps will be carried out by a quantitative assistant. Thus, the manual essentially may be passed back and forth between these users. The SLL process primarily has been used to survey birds, and we refer to birds as subjects of the counts. The process, however, could be used to count any objects. ®

Open-File Report↗

DS-Software for analyzing data collected using double sampling

DS analyzes count data to estimate density or relative density and population size when appropriate. The software is no longer available. The software was designed to analyze data collected using double sampling, but it also can be used to analyze index data. DS is not currently configured to apply distance methods or methods based on capture-recapture theory. Double sampling for the purpose of this report means surveying a sample of locations with a rapid method of unknown accuracy and surveying a subset of these locations using a more intensive method assumed to yield unbiased estimates. "Detection ratios" are calculated as the ratio of results from rapid surveys on intensive plots to the number actually present as determined from the intensive surveys. The detection ratios are used to adjust results from the rapid surveys. The formula for density is (results from rapid survey)/(estimated detection ratio from intensive surveys). Population sizes are estimated as (density)(area). Double sampling is well-established in the survey sampling literature—see Cochran (1977) for the basic theory, Smith (1995) for applications of double sampling in waterfowl surveys, Bart and Earnst (2002, 2005) for discussions of its use in wildlife studies, and Bart and others (in press) for a detailed account of how the method was used to survey shorebirds across the arctic region of North America. Indices are surveys that do not involve complete counts of well-defined plots or recording information to estimate detection rates (Thompson and others, 1998). In most cases, such data should not be used to estimate density or population size but, under some circumstances, may be used to compare two densities or estimate how density changes through time or across space (Williams and others, 2005). The Breeding Bird Survey (Sauer and others, 2008) provides a good example of an index survey. Surveyors record all birds detected but do not record any information, such as distance or whether each bird is recorded in subperiods, that could be used to estimate detection rates. Nonetheless, the data are widely used to estimate temporal trends and spatial patterns in abundance (Sauer and others, 2008). DS produces estimates of density (or relative density for indices) by species and stratum. Strata are usually defined using region and habitat but other variables may be used, and the entire study area may be classified as a single stratum. Population size in each stratum and for the entire study area also is estimated for each species. For indices, the estimated totals generally are only useful if (a) plots are surveyed so that densities can be calculated and extrapolated to the entire study area and (b) if the detection rates are close to 1.0. All estimates are accompanied by standard errors (SE) and coefficients of variation (CV, that is, SE/estimate).

Open-File Report↗

Use of large-scale, multi-species surveys to monitor gyrfalcon and ptarmigan populations

We evaluated the ability of three large-scale, multi-species surveys in the Arctic to provide information on abundance and habitat relationships of Gyrfalcons ( Falco rusticolus ) and ptarmigan. The Program for Regional and International Shorebird Monitoring (PRISM) has surveyed birds widely across the arctic regions of Canada and Alaska since 2001. The Arctic Coastal Plain survey has collected abundance information on the North Slope of Alaska using fixed-wing aircraft since 1992. The Northwest Territories-Nunavut Bird Checklist has collected presence-absence information from little-known locations in northern Canada since 1995. All three surveys provide extensive information on Willow Ptarmigan (Lagopus lagopus) and Rock Ptarmigan (L. muta). For example, they show that ptarmigan are most abundant in western Alaska, next most abundant in northern Alaska and northwest Canada, and least abundant in the Canadian Archipelago. PRISM surveys were less successful in detecting Gyrfalcons, and the Arctic Coastal Plain Survey is largely outside the Gyrfalcon's breeding range. The Checklist Survey, however, reflects the expansive Gyrfalcon range in Canada. We suggest that collaboration by Gyrfalcon and ptarmigan biologists with the organizers of large scale surveys like the ones we investigated provides an opportunity for obtaining useful information on these species and their environment across large areas.

Alaska, Northern Canada↗

A sampling plan for riparian birds of the Lower Colorado River-Final Report

A sampling plan was designed for the Bureau of Reclamation for selected riparian birds occurring along the Colorado River from Lake Mead to the southerly International Boundary with Mexico. The goals of the sampling plan were to estimate long-term trends in abundance and investigate habitat relationships especially in new habitat being created by the Bureau of Reclamation. The initial objective was to design a plan for the Gila Woodpecker (Melanerpes uropygialis), Arizona Bell's Vireo (Vireo bellii arizonae), Sonoran Yellow Warbler (Dendroica petechia sonorana), Summer Tanager (Piranga rubra), Gilded Flicker (Colaptes chrysoides), and Vermilion Flycatcher (Pyrocephalus rubinus); however, too little data were obtained for the last two species. Recommendations were therefore based on results for the first four species. The study area was partitioned into plots of 7 to 23 hectares. Plot borders were drawn to place the best habitat for the focal species in the smallest number of plots so that survey efforts could be concentrated on these habitats. Double sampling was used in the survey. In this design, a large sample of plots is surveyed a single time, yielding estimates of unknown accuracy, and a subsample is surveyed intensively to obtain accurate estimates. The subsample is used to estimate detection ratios, which are then applied to the results from the extensive survey to obtain unbiased estimates of density and population size. These estimates are then used to estimate long-term trends in abundance. Four sampling plans for selecting plots were evaluated based on a simulation using data from the Breeding Bird Survey. The design with the highest power involved selecting new plots every year. Power with 80 plots surveyed per year was more than 80 percent for three of the four species. Results from the surveys were used to provide recommendations to the Bureau of Reclamation for their surveys of new habitat being created in the study area.

Open-File Report↗

Distribution of breeding shorebirds on the Arctic Coastal Plain of Alaska

Available information on the distribution of breeding shorebirds across the Arctic Coastal Plain of Alaska is dated, fragmented, and limited in scope. Herein, we describe the distribution of 19 shorebird species from data gathered at 407 study plots between 1998 and 2004. This information was collected using a single-visit rapid area search technique during territory establishment and early incubation periods, a time when social displays and vocalizations make the birds highly detectable. We describe the presence or absence of each species, as well as overall numbers of species, providing a regional perspective on shorebird distribution. We compare and contrast our shorebird distribution maps to those of prior studies and describe prominent patterns of shorebird distribution. Our examination of how shorebird distribution and numbers of species varied both latitudinally and longitudinally across the Arctic Coastal Plain of Alaska indicated that most shorebird species occur more frequently in the Beaufort Coastal Plain ecoregion (i.e., closer to the coast) than in the Brooks Foothills ecoregion (i.e., farther inland). Furthermore, the occurrence of several species indicated substantial longitudinal directionality. Species richness at surveyed sites was highest in the western portion of the Beaufort Coastal Plain ecoregion. The broad-scale distribution information we present here is valuable for evaluating potential effects of human development and climate change on Arctic-breeding shorebird populations.

Alaska↗

Survey trends of North American shorebirds: Population declines or shifting distributions?

We analyzed data from two surveys of fall migrating shorebirds in central and eastern North America to estimate annual trends in means per survey and to determine whether trends indicate a change in population size or might have been caused by other factors. The analysis showed a broad decline in means per survey in Atlantic Canada and the northeastern United States (North Atlantic region). For example, 9 of 9 significant trends in this region were <1 (P=0.004), and the mean, annual rate of change among 30 species was 0.9783, a decline of −2.17% per year (P<0.001). Trends in the midwestern United States (Midwest region) showed no clear pattern. The mean among 29 species was 1.0090 (P=0.35). Only 4 of the trends were significant. Several hypotheses were evaluated to identify causes of the declining means per survey in the North Atlantic region. The most likely hypothesis appears to be a decline in the breeding populations that supply migrants to the North Atlantic region, but a change in movements, for example passing through the region more quickly in recent years, cannot be excluded as an explanation. Further surveys of arctic breeding areas coupled with analysis of long‐term survey data from western North America would be helpful in determining whether the declines found in this analysis are also occurring in other areas.

Journal of Avian Biology↗