Opportunities and goals of the Neotropical Migratory Bird Conservation Program - Partners in Flight

Treesearch

Deborah M. Finch

1992-01-01

In the fall of 1990, a major program for the conservation of migratory landbirds that breed in North America and winter in Latin America and the Caribbean Basin was initiated. Numerous federal, state. and private organizations in the United States endorsed the initiative by signing an official agreement to cooperatively conserve populations of neotropical migratory...

50 CFR 15.21 - General application procedures.

Code of Federal Regulations, 2014 CFR

2014-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.21 General... designed to promote the conservation and maintenance of the species in the wild; or personally owned pets...

The Program for Regional and International Shorebird Monitoring (PRISM)

USGS Publications Warehouse

Bart, J.; Andres, B.; Brown, S.; Donaldson, G.; Harrington, B.; Johnston, V.; Jones, S.; Morrison, R.I.G.; Skagen, S.K.

2005-01-01

This report describes the "Program for Regional and International Shorebird Monitoring" (PRISM). PRISM is being implemented by a Canada-United States Shorebird Monitoring and Assessment Committee formed in 2001 by the Canadian Shorebird Working Group and the U.S. Shorebird Council. PRISM provides a single blueprint for implementing the shorebird conservation plans recently completed in Canada and the United States. The goals of PRISM are to (1) estimate the size of breeding population of 74 shorebird taxa in North America; (2) describe the distribution, abundance, and habitat relationships for each of these taxa; (3) monitor trends in shorebird population size; (4) monitor shorebird numbers at stopover locations, and; (5) assist local managers in meeting their shorebird conservation goals. PRISM has four main components: arctic and boreal breeding surveys, temperate breeding surveys, temperate non-breeding surveys, and neotropical surveys. Progress on, and action items for, each major component are described. The more important major tasks for immediate action are carrying out the northern surveys, conducting regional analyses to design the program of migration counts, and evaluating aerial photographic surveys for migration and winter counts.

Captive-breeding of captive and wild-reared Gunnison sage-grouse.

PubMed

Apa, Anthony D; Wiechman, Lief A

2016-01-01

Gunnison sage-grouse (Centrocercus minimus) distribution in North America has decreased over historical accounts and has received federal protection under the Endangered Species Act. We investigated captive-breeding of a captive-flock of Gunnison sage-grouse created from individuals reared in captivity from wild-collected eggs we artificially incubated. We also introduced wild-reared individuals into captivity. Our captive-flock successfully bred and produced fertile eggs. We controlled the timing and duration of male-female breeding interactions and facilitated a semi-natural mating regime. Males established a strutting ground in captivity that females attended for mate selection. In 2010, we allowed females to establish eight nests, incubate, and hatch eggs. Females in captivity were more successful incubating nests than raising broods. Although there are many technical, financial, and logistic issues associated with captive-breeding, we recommend that federal biologists and managers work collaboratively with state wildlife agencies and consider developing a captive-flock as part of a comprehensive conservation strategy for a conservation-reliant species like the Gunnison sage-grouse. The progeny produced from a captive-rearing program could assist in the recovery if innovative approaches to translocation are part of a comprehensive proactive conservation program. © 2015 Wiley Periodicals, Inc.

Incorporating Community Education in the Strategy for Harpy Eagle Conservation in Panama

ERIC Educational Resources Information Center

Curti, Marta; Valdez, Ursula

2009-01-01

Many species of top predators are threatened, in large part, because of human destruction. Although conservation programs that include captive breeding, release, and research are vital, environmental education is just as important for the long-term survival of many wildlife species. In Panama, The Peregrine Fund developed an education program to…

Farm-by-farm analysis of microsatellite, mtDNA and SNP genotype data reveals inbreeding and crossbreeding as threats to the survival of a native Spanish pig breed.

PubMed

Herrero-Medrano, J M; Megens, H J; Crooijmans, R P; Abellaneda, J M; Ramis, G

2013-06-01

The Chato Murciano (CM), a pig breed from the Murcia region in the southeastern region of Spain, is a good model for endangered livestock populations. The remaining populations are bred on approximately 15 small farms, and no herdbook exists. To assess the genetic threats to the integrity and survival of the CM breed, and to aid in designing a conservation program, three genetic marker systems - microsatellites, SNPs and mtDNA - were applied across the majority of the total breeding stock. In addition, mtDNA and SNPs were genotyped in breeds that likely contributed genetically to the current CM gene pool. The analyses revealed the levels of genetic diversity within the range of other European local breeds (H(e) = 0.53). However, when the eight farms that rear at least 10 CM pigs were independently analyzed, high levels of inbreeding were found in some. Despite the evidence for recent crossbreeding with commercial breeds on a few farms, the entire breeding stock remains readily identifiable as CM, facilitating the design of traceability assays. The genetic management of the breed is consistent with farm size, farm owner and presence of other pig breeds on the farm, demonstrating the highly ad hoc nature of current CM breeding. The results of genetic diversity and substructure of the entire breed, as well as admixture and crossbreeding obtained in the present study, provide a benchmark to develop future conservation strategies. Furthermore, this study demonstrates that identifying farm-based practices and farm-based breeding stocks can aid in the design of a sustainable breeding program for minority breeds. © 2012 The Authors, Animal Genetics © 2012 Stichting International Foundation for Animal Genetics.

Coordinating across scales: Building a regional marsh bird monitoring program from national and state Initiatives

USGS Publications Warehouse

Shriver, G.W.; Sauer, J.R.

2008-01-01

Salt marsh breeding bird populations (rails, bitterns, sparrows, etc.) in eastern North America are high conservation priorities in need of site specific and regional monitoring designed to detect population changes over time. The present status and trends of these species are unknown but anecdotal evidence of declines in many of the species has raised conservation concerns. Most of these species are listed as conservation priorities on comprehensive wildlife plans throughout the eastern U.S. National Wildlife Refuges, National Park Service units, and other wildlife conservation areas provide important salt marsh habitat. To meet management needs for these areas, and to assist regional conservation planning, survey designs are being developed to estimate abundance and population trends for these breeding bird species. The primary purpose of this project is to develop a hierarchical sampling frame for salt marsh birds in Bird Conservation Region (BCR) 30 that will provide the ability to estimate species population abundances on 1) specific sites (i.e. National Parks and National Wildlife Refuges), 2) within states or regions, and 3) within BCR 30. The entire breeding range of Saltmarsh Sharp-tailed and Coastal Plain Swamp sparrows are within BCR 30, providing an opportunity to detect population trends within the entire breeding ranges of two priority species.

Camcore: Thirty-five years of Mesoamerican pine gene conservation

Treesearch

J.L. Lopez; W.S. Dvorak; G.R. Hodge

2017-01-01

Camcore is an international tree breeding and conservation program with headquarters at North Carolina State University. Camcore was founded in 1980 as a cooperative, non-profit organization to identify and save the dwindling natural populations of pines in the highland regions of Guatemala in Central America. Funded by the private sector, the program has played an...

Genetic diversity, population structure and subdivision of local Balkan pig breeds in Austria, Croatia, Serbia and Bosnia-Herzegovina and its practical value in conservation programs.

PubMed

Druml, Thomas; Salajpal, Kresimir; Dikic, Maria; Urosevic, Miroslav; Grilz-Seger, Gertrud; Baumung, Roswitha

2012-03-01

At present the Croatian Turopolje pig population comprises about 157 breeding animals. In Austria, 324 Turopolje pigs originating from six Croatian founder animals are registered. Multiple bottlenecks have occurred in this population, one major one rather recently and several more older and moderate ones. In addition, it has been subdivided into three subpopulations, one in Austria and two in Croatia, with restricted gene flow. These specificities explain the delicate situation of this endangered Croatian lard-type pig breed. In order to identify candidate breeding animals or gene pools for future conservation breeding programs, we studied the genetic diversity and population structure of this breed using microsatellite data from 197 individuals belonging to five different breeds. The genetic diversity of the Turopolje pig is dramatically low with observed heterozygosities values ranging from 0.38 to 0.57. Split into three populations since 1994, two genetic clusters could be identified: one highly conserved Croatian gene pool in Turopoljski Lug and the"Posavina" gene pool mainly present in the Austrian population. The second Croatian subpopulation in Lonjsko Polje in the Posavina region shows a constant gene flow from the Turopoljski Lug animals. One practical conclusion is that it is necessary to develop a "Posavina" boar line to preserve the "Posavina" gene pool and constitute a corresponding population in Croatia. Animals of the highly inbred herd in Turopoljski Lug should not be crossed with animals of other populations since they represent a specific phenotype-genotype combination. However to increase the genetic diversity of this herd, a program to optimize its sex ratio should be carried out, as was done in the Austrian population where the level of heterozygosity has remained moderate despite its heavy bottleneck in 1994. © 2012 Druml et al; licensee BioMed Central Ltd.

50 CFR 15.23 - Permits for zoological breeding or display programs.

Code of Federal Regulations, 2012 CFR

2012-10-01

... education protocol that provides information on educational materials on the ecology and/or conservation... self-sustaining population of the exotic bird species in captivity; (iii) A statement on efforts to... the population from which the exotic bird was or would be removed; (4) Whether the breeding or display...

50 CFR 15.23 - Permits for zoological breeding or display programs.

Code of Federal Regulations, 2014 CFR

2014-10-01

... education protocol that provides information on educational materials on the ecology and/or conservation... self-sustaining population of the exotic bird species in captivity; (iii) A statement on efforts to... the population from which the exotic bird was or would be removed; (4) Whether the breeding or display...

50 CFR 15.23 - Permits for zoological breeding or display programs.

Code of Federal Regulations, 2013 CFR

2013-10-01

... education protocol that provides information on educational materials on the ecology and/or conservation... self-sustaining population of the exotic bird species in captivity; (iii) A statement on efforts to... the population from which the exotic bird was or would be removed; (4) Whether the breeding or display...

Conservation of indigenous cattle genetic resources in Southern Africa's smallholder areas: turning threats into opportunities - A review.

PubMed

Nyamushamba, G B; Mapiye, C; Tada, O; Halimani, T E; Muchenje, V

2017-05-01

The current review focuses on characterization and conservation efforts vital for the development of breeding programmes for indigenous beef cattle genetic resources in Southern Africa. Indigenous African cattle breeds were identified and characterized using information from refereed journals, conference papers and research reports. Results of this current review reviewed that smallholder beef cattle production in Southern Africa is extensive and dominated by indigenous beef cattle strains adaptable to the local environment. The breeds include Nguni, Mashona, Tuli, Malawi Zebu, Bovino de Tete, Angoni, Landim, Barotse, Twsana and Ankole. These breeds have important functions ranging from provision of food and income to socio-economic, cultural and ecological roles. They also have adaptive traits ranging from drought tolerant, resistance to ticks and tick borne diseases, heat tolerance and resistance to trypanosomosis. Stakeholders in the conservation of beef cattle were also identified and they included farmers, national government, research institutes and universities as well as breeding companies and societies in Southern Africa. Research efforts made to evaluate threats and opportunities of indigenous beef cattle production systems, assess the contribution of indigenous cattle to household food security and income, genetically and phenotypically characterize and conserve indigenous breeds, and develop breeding programs for smallholder beef production are highlighted. Although smallholder beef cattle production in the smallholder farming systems contributes substantially to household food security and income, their productivity is hindered by several constraints that include high prevalence of diseases and parasites, limited feed availability and poor marketing. The majority of the African cattle populations remain largely uncharacterized although most of the indigenous cattle breeds have been identified.

Batrachochytrium dendrobatidis in amphibians confiscated from illegal wildlife trade and used in an ex situ breeding program in Brazil.

PubMed

De Paula, C D; Pacífico-Assis, E C; Catão-Dias, J L

2012-03-20

This paper describes an outbreak of chytridiomycosis affecting a group of Dendrobates tinctorius, a Neotropical anuran species, confiscated from the illegal wildlife trade and housed in a private zoo in Brazil as part of an ex situ breeding program. We examined histological sections of the skin of 30 D. tinctorius and 20 Adelphobates galactonotus individuals. Twenty D. tinctorius (66.7%) and none of the A. galactonotus were positive for Batrachochytrium dendrobatidis (Bd). Multiple development stages of Bd infection were observed. The reasons for the inter-specific difference in the rate of infection could not be determined, and further studies are advised. Because the examined population consisted of confiscated frogs, detailed epidemiological aspects could not be investigated, and the source of the fungus remains uncertain. The existence of ex situ amphibian populations is important for protecting species at higher risk in the wild, and ex situ amphibian conservation and breeding programs in Brazil may be established using confiscated frogs as founders. However, this paper alerts these programs to the urgency of strict quarantine procedures to prevent the introduction of potential pathogens, particularly Bd, into ex situ conservation programs.

Anthropogenic and natural drivers of gene flow in a temperate wild fruit tree: a basis for conservation and breeding programs in apples

PubMed Central

Cornille, Amandine; Feurtey, Alice; Gélin, Uriel; Ropars, Jeanne; Misvanderbrugge, Kristine; Gladieux, Pierre; Giraud, Tatiana

2015-01-01

Gene flow is an essential component of population adaptation and species evolution. Understanding of the natural and anthropogenic factors affecting gene flow is also critical for the development of appropriate management, breeding, and conservation programs. Here, we explored the natural and anthropogenic factors impacting crop-to-wild and within wild gene flow in apples in Europe using an unprecedented dense sampling of 1889 wild apple (Malus sylvestris) from European forests and 339 apple cultivars (Malus domestica). We made use of genetic, environmental, and ecological data (microsatellite markers, apple production across landscapes and records of apple flower visitors, respectively). We provide the first evidence that both human activities, through apple production, and human disturbance, through modifications of apple flower visitor diversity, have had a significant impact on crop-to-wild interspecific introgression rates. Our analysis also revealed the impact of previous natural climate change on historical gene flow in the nonintrogressed wild apple M. sylvestris, by identifying five distinct genetic groups in Europe and a north–south gradient of genetic diversity. These findings identify human activities and climate as key drivers of gene flow in a wild temperate fruit tree and provide a practical basis for conservation, agroforestry, and breeding programs for apples in Europe. PMID:25926882

Saving seeds: Optimally planning our Ex Situ conservation collections to ensure species' evolutionary potential

Treesearch

Sean M. Hoban

2017-01-01

In the face of ongoing environmental change, conservation and natural resource agencies are initiating or expanding ex situ seed collections from natural plant populations. Seed collections have many uses, including in provenance trials, breeding programs, seed orchards, gene banks for long-term conservation (live plants or seeds), restoration, reforestation, and...

A computational approach to animal breeding.

PubMed

Berger-Wolf, Tanya Y; Moore, Cristopher; Saia, Jared

2007-02-07

We propose a computational model of mating strategies for controlled animal breeding programs. A mating strategy in a controlled breeding program is a heuristic with some optimization criteria as a goal. Thus, it is appropriate to use the computational tools available for analysis of optimization heuristics. In this paper, we propose the first discrete model of the controlled animal breeding problem and analyse heuristics for two possible objectives: (1) breeding for maximum diversity and (2) breeding a target individual. These two goals are representative of conservation biology and agricultural livestock management, respectively. We evaluate several mating strategies and provide upper and lower bounds for the expected number of matings. While the population parameters may vary and can change the actual number of matings for a particular strategy, the order of magnitude of the number of expected matings and the relative competitiveness of the mating heuristics remains the same. Thus, our simple discrete model of the animal breeding problem provides a novel viable and robust approach to designing and comparing breeding strategies in captive populations.

Microsatellite-based genetic diversity and population structure of domestic sheep in northern Eurasia.

PubMed

Tapio, Miika; Ozerov, Mikhail; Tapio, Ilma; Toro, Miguel A; Marzanov, Nurbiy; Cinkulov, Mirjana; Goncharenko, Galina; Kiselyova, Tatyana; Murawski, Maziek; Kantanen, Juha

2010-08-10

Identification of global livestock diversity hotspots and their importance in diversity maintenance is essential for making global conservation efforts. We screened 52 sheep breeds from the Eurasian subcontinent with 20 microsatellite markers. By estimating and weighting differently within- and between-breed genetic variation our aims were to identify genetic diversity hotspots and prioritize the importance of each breed for conservation, respectively. In addition we estimated how important within-species diversity hotspots are in livestock conservation. Bayesian clustering analysis revealed three genetic clusters, termed Nordic, Composite and Fat-tailed. Southern breeds from close to the region of sheep domestication were more variable, but less genetically differentiated compared with more northern populations. Decreasing weight for within-breed diversity component led to very high representation of genetic clusters or regions containing more diverged breeds, but did not increase phenotypic diversity among the high ranked breeds. Sampling populations throughout 14 regional groups was suggested for maximized total genetic diversity. During initial steps of establishing a livestock conservation program populations from the diversity hot-spot area are the most important ones, but for the full design our results suggested that approximately equal population presentation across environments should be considered. Even in this case, higher per population emphasis in areas of high diversity is appropriate. The analysis was based on neutral data, but we have no reason to think the general trend is limited to this type of data. However, a comprehensive valuation of populations should balance production systems, phenotypic traits and available genetic information, and include consideration of probability of success.

Microsatellite-based genetic diversity and population structure of domestic sheep in northern Eurasia

PubMed Central

2010-01-01

Background Identification of global livestock diversity hotspots and their importance in diversity maintenance is essential for making global conservation efforts. We screened 52 sheep breeds from the Eurasian subcontinent with 20 microsatellite markers. By estimating and weighting differently within- and between-breed genetic variation our aims were to identify genetic diversity hotspots and prioritize the importance of each breed for conservation, respectively. In addition we estimated how important within-species diversity hotspots are in livestock conservation. Results Bayesian clustering analysis revealed three genetic clusters, termed Nordic, Composite and Fat-tailed. Southern breeds from close to the region of sheep domestication were more variable, but less genetically differentiated compared with more northern populations. Decreasing weight for within-breed diversity component led to very high representation of genetic clusters or regions containing more diverged breeds, but did not increase phenotypic diversity among the high ranked breeds. Sampling populations throughout 14 regional groups was suggested for maximized total genetic diversity. Conclusions During initial steps of establishing a livestock conservation program populations from the diversity hot-spot area are the most important ones, but for the full design our results suggested that approximately equal population presentation across environments should be considered. Even in this case, higher per population emphasis in areas of high diversity is appropriate. The analysis was based on neutral data, but we have no reason to think the general trend is limited to this type of data. However, a comprehensive valuation of populations should balance production systems, phenotypic traits and available genetic information, and include consideration of probability of success. PMID:20698974

Conservation of indigenous cattle genetic resources in Southern Africa’s smallholder areas: turning threats into opportunities — A review

PubMed Central

Nyamushamba, G. B.; Mapiye, C.; Tada, O.; Halimani, T. E.; Muchenje, V.

2017-01-01

The current review focuses on characterization and conservation efforts vital for the development of breeding programmes for indigenous beef cattle genetic resources in Southern Africa. Indigenous African cattle breeds were identified and characterized using information from refereed journals, conference papers and research reports. Results of this current review reviewed that smallholder beef cattle production in Southern Africa is extensive and dominated by indigenous beef cattle strains adaptable to the local environment. The breeds include Nguni, Mashona, Tuli, Malawi Zebu, Bovino de Tete, Angoni, Landim, Barotse, Twsana and Ankole. These breeds have important functions ranging from provision of food and income to socio-economic, cultural and ecological roles. They also have adaptive traits ranging from drought tolerant, resistance to ticks and tick borne diseases, heat tolerance and resistance to trypanosomosis. Stakeholders in the conservation of beef cattle were also identified and they included farmers, national government, research institutes and universities as well as breeding companies and societies in Southern Africa. Research efforts made to evaluate threats and opportunities of indigenous beef cattle production systems, assess the contribution of indigenous cattle to household food security and income, genetically and phenotypically characterize and conserve indigenous breeds, and develop breeding programs for smallholder beef production are highlighted. Although smallholder beef cattle production in the smallholder farming systems contributes substantially to household food security and income, their productivity is hindered by several constraints that include high prevalence of diseases and parasites, limited feed availability and poor marketing. The majority of the African cattle populations remain largely uncharacterized although most of the indigenous cattle breeds have been identified. PMID:27004814

50 CFR 15.24 - Permits for cooperative breeding.

Code of Federal Regulations, 2014 CFR

2014-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.24 Permits..., at the time of the application, the exotic bird is still in the wild, has already been removed from the wild, or was bred in captivity; (2) If the exotic bird is still in the wild or was taken from the...

50 CFR 15.24 - Permits for cooperative breeding.

Code of Federal Regulations, 2013 CFR

2013-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.24 Permits..., at the time of the application, the exotic bird is still in the wild, has already been removed from the wild, or was bred in captivity; (2) If the exotic bird is still in the wild or was taken from the...

Non-invasive monitoring of reproductive and stress hormones in the endangered red panda (Ailurus fulgens fulgens).

PubMed

Beaulah Budithi, Neema Raja; Kumar, Vinod; Yalla, Suneel Kumar; Rai, Upashna; Umapathy, Govindhaswamy

2016-09-01

The red panda (Ailurus fulgens fulgens) is classified as endangered due to its declining population, habitat fragmentation and poaching. Efforts are being made to breed them in captivity as part of nationwide conservation breeding program. This study aimed to standardize Enzyme immunoassays (EIAs) to monitor reproductive (Progesterone metabolite, Testosterone) and stress hormone (Cortisol) in red panda. For this purpose, we collected 1471 faecal samples from four females and one male over a period of one year from Padmaja Naidu Himalayan Zoological Park, Darjeeling, India. HPLC confirmed the presence of immunoreactive 5α-pregnan-3α-ol-20-one, testosterone and cortisol metabolites in faecal samples. Using 5α-pregnan-3α-ol-20-one EIA, we were able to monitor reproduction and detect pregnancy in one of the females, which successfully conceived and delivered during the study period. We were also able to monitor testosterone and cortisol in faecal samples of the red panda. Faecal testosterone levels were found in higher concentration in breeding season than in non-breeding season. Faecal cortisol concentrations showed a negative relationship with ambient temperature and peaked during winter months in all animals. Standardization of EIAs and faecal hormone monitoring would facilitate red panda conservation breeding programs in India and elsewhere. Copyright © 2016 Elsevier B.V. All rights reserved.

Assessing Withering Syndrome Resistance in California Black Abalone: Implications for Conservation and Restoration

DTIC Science & Technology

2009-01-29

worldwide. California Sea Grant College Program UC San Diego Title: Assessing withering syndrome resistance in California black abalone : Implications...Hunter S.(2009). Assessing withering syndrome resistance in California black abalone : Implications for conservation and restoration. UC San Diego...California Sea Grant College Program. Retrieved from: http://escholarship.org/uc/item/7c39q78n Keywords: black abalone , Haliotis cracherodii, captive breeding

Low Impact of Avian Pox on Captive-Bred Houbara Bustard Breeding Performance.

PubMed

Le Loc'h, Guillaume; Souley, Mam-Noury Amadou; Bertagnoli, Stéphane; Paul, Mathilde C

2017-01-01

Avian pox, a disease caused by avipoxviruses, is a major cause of decline of some endangered bird species. While its impact has been assessed in several species in the wild, effects of the disease in conservation breeding have never been studied. Houbara bustard species ( Chlamydotis undulata and Chlamydotis macqueenii ), whose populations declined in the last decades, have been captive bred for conservation purposes for more than 20 years. While mortality and morbidity induced by avipoxviruses can be controlled by appropriate management, the disease might still affect bird breeding performance and jeopardize the production objectives of conservation programs. Impacts of the disease was studied during two outbreaks in captive-bred juvenile Houbara bustards in Morocco in 2009-2010 and 2010-2011, by modeling the effect of the disease on individual breeding performance (male display and female egg production) of 2,797 birds during their first breeding season. Results showed that the impact of avian pox on the ability of birds to reproduce and on the count of displays or eggs is low and mainly non-significant. The absence of strong impact compared to what could be observed in other species in the wild may be explained by the controlled conditions provided by captivity, especially the close veterinary monitoring of each bird. Those results emphasize the importance of individual management to prevent major disease emergence and their effects in captive breeding of endangered species.

Genetic diversity and differentiation of exotic and American commercial cattle breeds raised in Brazil.

PubMed

Brasil, B S A F; Coelho, E G A; Drummond, M G; Oliveira, D A A

2013-11-18

The Brazilian cattle population is mainly composed of breeds of zebuine origin and their American derivatives. Comprehensive knowledge about the genetic diversity of these populations is fundamental for animal breeding programs and the conservation of genetic resources. This study aimed to assess the phylogenetic relationships, levels of genetic diversity, and patterns of taurine/zebuine admixture among 9 commercial cattle breeds raised in Brazil. Analysis of DNA polymorphisms was performed on 2965 animals using the 11 microsatellite markers recommended by the International Society of Animal Genetics. High genetic diversity was detected in all breeds, even though significant inbreeding was observed within some. Differences among the breeds accounted for 14.72% of the total genetic variability, and genetic differentiation was higher among taurine than among zebuine cattle. Of note, Nelore cattle presented with high levels of admixture, which is consistent with the history of frequent gene flow during the establishment of this breed in Brazil. Furthermore, significant genetic variability was partitioned within the commercial cattle breeds formed in America, which, therefore, comprise important resources of genetic diversity in the tropics. The genetic characterization of these important Brazilian breeds may now facilitate the development of management and breeding programs for these populations.

Droplet vitrification technique for cryopreservation of different pineapple (Ananas comosus L. Merrill) accessions

USDA-ARS?s Scientific Manuscript database

Germplasm conservation of pineapple is crucial to secure the genetic variability of the genus for breeding programs and supporting new research. Long-term conservation is done through cryopreservation, by storing cells or tissues at ultra-low temperature in liquid nitrogen (LN; -196°C) or in the LN ...

Long-term on-farm participatory maize breeding by stratified mass selection retains molecular diversity while improving agronomic performance.

PubMed

Alves, Mara Lisa; Belo, Maria; Carbas, Bruna; Brites, Cláudia; Paulo, Manuel; Mendes-Moreira, Pedro; Brites, Carla; Bronze, Maria do Rosário; Šatović, Zlatko; Vaz Patto, Maria Carlota

2018-02-01

Modern maize breeding programs gave rise to genetically uniform varieties that can affect maize's capacity to cope with increasing climate unpredictability. Maize populations, genetically more heterogeneous, can evolve and better adapt to a broader range of edaphic-climatic conditions. These populations usually suffer from low yields; it is therefore desirable to improve their agronomic performance while maintaining their valuable diversity levels. With this objective, a long-term participatory breeding/on-farm conservation program was established in Portugal. In this program, maize populations were subject to stratified mass selection. This work aimed to estimate the effect of on-farm stratified mass selection on the agronomic performance, quality, and molecular diversity of two historical maize populations. Multilocation field trials, comparing the initial populations with the derived selection cycles, showed that this selection methodology led to agronomic improvement for one of the populations. The molecular diversity analysis, using microsatellites, revealed that overall genetic diversity in both populations was maintained throughout selection. The comparison of quality parameters between the initial populations and the derived selection cycles was made using kernel from a common-garden experiment. This analysis showed that the majority of the quality traits evaluated progressed erratically over time. In conclusion, this breeding approach, through simple and low-cost methodologies, proved to be an alternative strategy for genetic resources' on-farm conservation.

How well can captive breeding programs conserve biodiversity? A review of salmonids

PubMed Central

Fraser, Dylan J

2008-01-01

Captive breeding programs are increasingly being initiated to prevent the imminent extinction of endangered species and/or populations. But how well can they conserve genetic diversity and fitness, or re-establish self-sustaining populations in the wild? A review of these complex questions and related issues in salmonid fishes reveals several insights and uncertainties. Most programs can maintain genetic diversity within populations over several generations, but available research suggests the loss of fitness in captivity can be rapid, its magnitude probably increasing with the duration in captivity. Over the long-term, there is likely tremendous variation between (i) programs in their capacity to maintain genetic diversity and fitness, and (ii) species or even intraspecific life-history types in both the severity and manner of fitness-costs accrued. Encouragingly, many new theoretical and methodological approaches now exist for current and future programs to potentially reduce these effects. Nevertheless, an unavoidable trade-off exists between conserving genetic diversity and fitness in certain instances, such as when captive-bred individuals are temporarily released into the wild. Owing to several confounding factors, there is also currently little evidence that captive-bred lines of salmonids can or cannot be reintroduced as self-sustaining populations. Most notably, the root causes of salmonid declines have not been mitigated where captive breeding programs exist. Little research has also addressed under what conditions an increase in population abundance due to captive-rearing might offset fitness reductions induced in captivity. Finally, more empirical investigation is needed to evaluate the genetic/fitness benefits and risks associated with (i) maintaining captive broodstocks as either single or multiple populations within one or more facilities, (ii) utilizing cryopreservation or surrogate broodstock technologies, and (iii) adopting other alternatives to captive-rearing such as translocations to new habitats. Management recommendations surrounding these issues are proposed, with the aim of facilitating meta-analyses and more general principles or guidelines for captive-breeding. These include the need for the following: (i) captive monitoring to involve, a priori, greater application of hypothesis testing through the use of well-designed experiments and (ii) improved documentation of procedures adopted by specific programs for reducing the loss of genetic diversity and fitness. PMID:25567798

Determining when to change course in management actions.

PubMed

Ng, Chooi Fei; McCarthy, Michael A; Martin, Tara G; Possingham, Hugh P

2014-12-01

Time is of the essence in conservation biology. To secure the persistence of a species, we need to understand how to balance time spent among different management actions. A new and simple method to test the efficacy of a range of conservation actions is required. Thus, we devised a general theoretical framework to help determine whether to test a new action and when to cease a trial and revert to an existing action if the new action did not perform well. The framework involves constructing a general population model under the different management actions and specifying a management objective. By maximizing the management objective, we could generate an analytical solution that identifies the optimal timing of when to change management action. We applied the analytical solution to the case of the Christmas Island pipistrelle bat (Pipistrelle murrayi), a species for which captive breeding might have prevented its extinction. For this case, we used our model to determine whether to start a captive breeding program and when to stop a captive breeding program and revert to managing the species in the wild, given that the management goal is to maximize the chance of reaching a target wild population size. For the pipistrelle bat, captive breeding was to start immediately and it was desirable to place the species in captivity for the entire management period. The optimal time to revert to managing the species in the wild was driven by several key parameters, including the management goal, management time frame, and the growth rates of the population under different management actions. Knowing when to change management actions can help conservation managers' act in a timely fashion to avoid species extinction. © 2014 Society for Conservation Biology.

Conservation priorities for the different lines of Dutch Red and White Friesian cattle change when relationships with other breeds are taken into account.

PubMed

Hulsegge, B; Calus, M P L; Oldenbroek, J K; Windig, J J

2017-02-01

From a genetic point of view, the selection of breeds and animals within breeds for conservation in a national gene pool can be based on a maximum diversity strategy. This implies that priority is given to conservation of breeds and animals that diverge most and overlap of conserved diversity is minimized. This study investigated the genetic diversity in the Dutch Red and White Friesian (DFR) cattle breed and its contribution to the total genetic diversity in the pool of the Dutch dairy breeds. All Dutch cattle breeds are clearly distinct, except for Dutch Friesian breed (DF) and DFR and have their own specific genetic identity. DFR has a small but unique contribution to the total genetic diversity of Dutch cattle breeds and is closely related to the Dutch Friesian breed. Seven different lines are distinguished within the DFR breed and all contribute to the diversity of the DFR breed. Two lines show the largest contributions to the genetic diversity in DFR. One of these lines comprises unique diversity both within the breed and across all cattle breeds. The other line comprises unique diversity for the DFR but overlaps with the Holstein Friesian breed. There seems to be no necessity to conserve the other five lines separately, because their level of differentiation is very low. This study illustrates that, when taking conservation decisions for a breed, it is worthwhile to take into account the population structure of the breed itself and the relationships with other breeds. © 2016 Blackwell Verlag GmbH.

Comparative ecophysiology of a critically endangered (CR) ectotherm: Implications for conservation management.

PubMed

Currylow, Andrea F T; Mandimbihasina, Angelo; Gibbons, Paul; Bekarany, Ernest; Stanford, Craig B; Louis, Edward E; Crocker, Daniel E

2017-01-01

Captive breeding is a vital conservation tool for many endangered species programs. It is often a last resort when wild animal population numbers drop to below critical minimums for natural reproduction. However, critical ecophysiological information of wild counterparts may not be well documented or understood, leading to years of minimal breeding successes. We collected endocrine and associated ecological data on a critically endangered ectotherm concurrently in the wild and in captivity over several years. We tracked plasma concentrations of steroid stress and reproductive hormones, body condition, activity, and environmental parameters in three populations (one wild and two geographically distinct captive) of ploughshare tortoise (Astrochelys yniphora). Hormone profiles along with environmental and behavioral data are presented and compared. We show that animals have particular seasonal environmental requirements that can affect annual reproduction, captivity affects reproductive state, and sociality may be required at certain times of the year for breeding to be successful. Our data suggest that changes in climatic conditions experienced by individuals, either due to decades-long shifts or hemispheric differences when translocated from their native range, can stifle breeding success for several years while the animals physiologically acclimatize. We also found that captivity affects stress (plasma corticosterone) and body condition of adults and juveniles differently and seasonally. Our results indicate that phenotypic plasticity in reproduction and behavior is related to environmental cues in long-lived ectotherms, and detailed ecophysiological data should be used when establishing and improving captive husbandry conditions for conservation breeding programs. Further, considering the recent revelation of this tortoises' possible extirpation from the wild, these data are critically opportune and may be key to the survival of this species.

Comparative ecophysiology of a critically endangered (CR) ectotherm: Implications for conservation management

PubMed Central

Mandimbihasina, Angelo; Gibbons, Paul; Bekarany, Ernest; Stanford, Craig B.; Louis, Edward E.; Crocker, Daniel E.

2017-01-01

Captive breeding is a vital conservation tool for many endangered species programs. It is often a last resort when wild animal population numbers drop to below critical minimums for natural reproduction. However, critical ecophysiological information of wild counterparts may not be well documented or understood, leading to years of minimal breeding successes. We collected endocrine and associated ecological data on a critically endangered ectotherm concurrently in the wild and in captivity over several years. We tracked plasma concentrations of steroid stress and reproductive hormones, body condition, activity, and environmental parameters in three populations (one wild and two geographically distinct captive) of ploughshare tortoise (Astrochelys yniphora). Hormone profiles along with environmental and behavioral data are presented and compared. We show that animals have particular seasonal environmental requirements that can affect annual reproduction, captivity affects reproductive state, and sociality may be required at certain times of the year for breeding to be successful. Our data suggest that changes in climatic conditions experienced by individuals, either due to decades-long shifts or hemispheric differences when translocated from their native range, can stifle breeding success for several years while the animals physiologically acclimatize. We also found that captivity affects stress (plasma corticosterone) and body condition of adults and juveniles differently and seasonally. Our results indicate that phenotypic plasticity in reproduction and behavior is related to environmental cues in long-lived ectotherms, and detailed ecophysiological data should be used when establishing and improving captive husbandry conditions for conservation breeding programs. Further, considering the recent revelation of this tortoises’ possible extirpation from the wild, these data are critically opportune and may be key to the survival of this species. PMID:28813439

Genetic evaluation of the breeding population of a valuable reforestation conifer Platycladus orientalis (Cupressaceae)

NASA Astrophysics Data System (ADS)

Jin, Yuqing; Ma, Yongpeng; Wang, Shun; Hu, Xian-Ge; Huang, Li-Sha; Li, Yue; Wang, Xiao-Ru; Mao, Jian-Feng

2016-10-01

Platycladus orientalis, a widespread conifer with long lifespan and significant adaptability. It is much used in reforestation in north China and commonly planted in central Asia. With the increasing demand for plantation forest in central to north China, breeding programs are progressively established for this species. Efficient use of breeding resources requires good understanding of the genetic value of the founder breeding materials. This study investigated the distribution of genetic variation in 192 elite trees collected for the breeding program for the central range of the species. We developed first set of 27 polymorphic EST-derived SSR loci for the species from transcriptome/genome data. After examination of amplification quality, 10 loci were used to evaluate the genetic variation in the breeding population. We found moderate genetic diversity (average He = 0.348) and low population differentiation (Fst = 0.011). Extensive admixture and no significant geographic population structure characterized this set of collections. Our analyses of the diversity and population structure are important steps toward a long-term sustainable deployment of the species and provide valuable genetic information for conservation and breeding applications.

Foreword: Contributions of Arctic PRISM to monitoring western hemispheric shorebirds

USGS Publications Warehouse

Skagen, Susan K.; Smith, Paul A.; Andres, Brad A.; Donaldson, Garry; Brown, Stephen; Bart, Jonathan R.; Johnston, Victoria H.

2012-01-01

Long-term monitoring of populations is of paramount importance to understanding responses of organisms to global environmental change and to evaluating whether conservation practices are yielding intended results through time (Wiens 2009). The population status of many shorebird species, the focus of this volume, remain poorly known. Long-distance migrant shorebirds have proven particularly difficult to monitor, in part because of their highly inaccessible regions. As migrant shorebirds travel the length of the hemisphere, the congregate and disperse in ways that vary among species, locations, and years, presenting serious challenges to designing and implementing monitoring programs. Rigorous field and quantitative methods that estimate population size and monitor trends are vitally needed to direct and evaluate effective conservation measures. Many management efforts depend on unbiased population size estimates; for examples, the shorebird conservation plans for both Canada and the United States seek to restore populations to levels calculated for the 1970s based on the best information available from existing surveys. Further, federal wildlife agencies within the United States and Canada have mandates to understand the state of their nations' resources under various conventions for the protection of migratory birds. Accurate estimates of population size are vital statistics for a variety of conservation activities, such as prioritizing species for conservation action and setting management targets. Areas of essential habitat, such as those designated under the Western Hemisphere Shorebird Reserve Network, the Important Bird Areas program of BirdLife Internationals and the National Audubon Society, or Canada's National Wildlife Areas program, are all evaluated on the basis of proportions of species' populations which they contain. The size, and trends in size, of a species' population are considered key information for assessing its vulnerability and subsequent listing under the U.S. Endangered Species Act and the Canadian Species at Risk Act. To meet the need for information on population size and trends, shorebird biologists from Canada and the United States proposed a shared blueprint for shorebird monitoring across the Western Hemisphere in the late 1990s; this effort was undertaken in concert with the development of the Canadian and the U.S. Shorebird Conservation Plans. Soon thereafter, partners in the monitoring effort adopted the name "Program for Regional and International Shorebird Monitoring" (PRISM). Among the primary objectives of PRISM were to estimate the population sizes and trends of breeding North American shorebirds and describe their distributions. PRISM members evaluated ongoing and potential monitoring approached to address 74 taxa (including subspecies) and proposed a combination of arctic and boreal breeding surveys, temperate breeding and non-breeding surveys, and neotropical surveys.

Genome-wide Mapping Reveals Conservation of Promoter DNA Methylation Following Chicken Domestication

PubMed Central

Li, Qinghe; Wang, Yuanyuan; Hu, Xiaoxiang; Zhao, Yaofeng; Li, Ning

2015-01-01

It is well-known that environment influences DNA methylation, however, the extent of heritable DNA methylation variation following animal domestication remains largely unknown. Using meDIP-chip we mapped the promoter methylomes for 23,316 genes in muscle tissues of ancestral and domestic chickens. We systematically examined the variation of promoter DNA methylation in terms of different breeds, differentially expressed genes, SNPs and genes undergo genetic selection sweeps. While considerable changes in DNA sequence and gene expression programs were prevalent, we found that the inter-strain DNA methylation patterns were highly conserved in promoter region between the wild and domestic chicken breeds. Our data suggests a global preservation of DNA methylation between the wild and domestic chicken breeds in either a genome-wide or locus-specific scale in chick muscle tissues. PMID:25735894

Prioritization based on neutral genetic diversity may fail to conserve important characteristics in cattle breeds.

PubMed

Hall, S J G; Lenstra, J A; Deeming, D C

2012-06-01

Conservation of the intraspecific genetic diversity of livestock species requires protocols that assess between-breed genetic variability and also take into account differences among individuals within breeds. Here, we focus on variation between breeds. Conservation of neutral genetic variation has been seen as promoting, through linkage processes, the retention of useful and potentially useful variation. Using public information on beef cattle breeds, with a total of 165 data sets each relating to a breed comparison of a performance variable, we have tested this paradigm by calculating the correlations between pairwise breed differences in performance and pairwise genetic distances deduced from biochemical and immunological polymorphisms, microsatellites and single-nucleotide polymorphisms. As already observed in floral and faunal biodiversity, significant positive correlations (n=54) were found, but many correlations were non-significant (n=100) or significantly negative (n=11). This implies that maximizing conserved neutral genetic variation with current techniques may conserve breed-level genetic variation in some traits but not in others and supports the view that genetic distance measurements based on neutral genetic variation are not sufficient as a determinant of conservation priority among breeds. © 2011 Blackwell Verlag GmbH.

Role of banding in forest conservation strategy in eastern Guatemala

USGS Publications Warehouse

Robbins, C.S.; Dowell, B.A.; Arias, I.; Cerezo B., A.

1999-01-01

In response to a request from FUNDAECO, a Guatemalan non-government organization, we worked with them to develop a conservation strategy for the Cerro San Gil Protected Area and surrounding private lands. Volunteer banders from a dozen states and Canadian provinces assisted in long-term monitoring of populations of resident and migratory species through banding and point counts. Guatemalan students were trained to continue the research and initiate other conservation projects. Banding data helped demonstrate habitat and elevational affiliations, effects of habitat fragmentation, site fidelity, survival rates, local movements, and presence of rare species not otherwise detected. Banding was also an excellent teaching tool and provided videos for conservation programs on Guatemala national television. Roadside and off-road Breeding Bird Survey transects were used to map distribution of breeding species on habitat maps derived from satellite imagery, and point count surveys on private lands were used to identify prime habitats that warrant protection through conservation easements--a new concept for Central America.

50 CFR 15.25 - Permits for personal pets.

Code of Federal Regulations, 2010 CFR

2010-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.25 Permits... to whether the exotic bird was bred in captivity or taken from the wild; (2) A statement of the...

50 CFR 15.25 - Permits for personal pets.

Code of Federal Regulations, 2011 CFR

2011-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.25 Permits... to whether the exotic bird was bred in captivity or taken from the wild; (2) A statement of the...

Occurrence and density of breeding passerine birds in shrubland habitats in Utah

Treesearch

Jimmie R. Parrish; Dan A. Roberts; Frank P. Howe

2005-01-01

The Utah Avian Conservation Strategy (Parrish et al. 2002) published by the Utah Partners in Flight (UPIF) Program ranked a total of 24 habitat types and 231 bird species with respect to their need for conservation action. The 24 habitat categories were grouped within five major categories, Riparian, Shrublands, Grassland, Forest, and a collection of additional...

Enhancing bird banding information sharing across the western hemishpere

USGS Publications Warehouse

Rojo, A.; Berlanga, H.; Howes, L.; Tomosy, M.

2007-01-01

Bird banding and marking provide indispensable tools for ornithological research, management, and conservation of migratory birds and their habitats along migratory routes, breeding and non-breeding grounds. With the growing interest in international coordination of tracking bird movements, coordination amongst developing and existing programs is essential for effective data management. The North American Bird Banding Program (Canadian Bird Banding Office and U.S. Bird Banding Laboratory and the Mexican government) has been working to enhance collaboration with other Western Hemisphere countries to establish a voluntary bird banding communication network. This network addresses challenges, such as: demonstrating how sharing banding expertise and information management can support the stewardship of Western Hemisphere migratory birds, ensuring that valuable banding and encounter data are captured and shared. With increasing numbers of international scientific and conservation initiatives, bird banding and marking programs must provide essential international coordination functions as well as support local activities by facilitating access to bands, training, data management and encounter reporting.

Conservation priorities of Iberoamerican pig breeds and their ancestors based on microsatellite information.

PubMed

Cortés, O; Martinez, A M; Cañon, J; Sevane, N; Gama, L T; Ginja, C; Landi, V; Zaragoza, P; Carolino, N; Vicente, A; Sponenberg, P; Delgado, J V

2016-07-01

Criollo pig breeds are descendants from pigs brought to the American continent starting with Columbus second trip in 1493. Pigs currently play a key role in social economy and community cultural identity in Latin America. The aim of this study was to establish conservation priorities among a comprehensive group of Criollo pig breeds based on a set of 24 microsatellite markers and using different criteria. Spain and Portugal pig breeds, wild boar populations of different European geographic origins and commercial pig breeds were included in the analysis as potential genetic influences in the development of Criollo pig breeds. Different methods, differing in the weight given to within- and between-breed genetic variability, were used in order to estimate the contribution of each breed to global genetic diversity. As expected, the partial contribution to total heterozygosity gave high priority to Criollo pig breeds, whereas Weitzman procedures prioritized Iberian Peninsula breeds. With the combined within- and between-breed approaches, different conservation priorities were achieved. The Core Set methodologies highly prioritized Criollo pig breeds (Cr. Boliviano, Cr. Pacifico, Cr. Cubano and Cr. Guadalupe). However, weighing the between- and within-breed components with FST and 1-FST, respectively, resulted in higher contributions of Iberian breeds. In spite of the different conservation priorities according to the methodology used, other factors in addition to genetic information also need to be considered in conservation programmes, such as the economic, cultural or historical value of the breeds involved.

Conservation priorities of Iberoamerican pig breeds and their ancestors based on microsatellite information

PubMed Central

Cortés, O; Martinez, A M; Cañon, J; Sevane, N; Gama, L T; Ginja, C; Landi, V; Zaragoza, P; Carolino, N; Vicente, A; Sponenberg, P; Delgado, J V

2016-01-01

Criollo pig breeds are descendants from pigs brought to the American continent starting with Columbus second trip in 1493. Pigs currently play a key role in social economy and community cultural identity in Latin America. The aim of this study was to establish conservation priorities among a comprehensive group of Criollo pig breeds based on a set of 24 microsatellite markers and using different criteria. Spain and Portugal pig breeds, wild boar populations of different European geographic origins and commercial pig breeds were included in the analysis as potential genetic influences in the development of Criollo pig breeds. Different methods, differing in the weight given to within- and between-breed genetic variability, were used in order to estimate the contribution of each breed to global genetic diversity. As expected, the partial contribution to total heterozygosity gave high priority to Criollo pig breeds, whereas Weitzman procedures prioritized Iberian Peninsula breeds. With the combined within- and between-breed approaches, different conservation priorities were achieved. The Core Set methodologies highly prioritized Criollo pig breeds (Cr. Boliviano, Cr. Pacifico, Cr. Cubano and Cr. Guadalupe). However, weighing the between- and within-breed components with FST and 1-FST, respectively, resulted in higher contributions of Iberian breeds. In spite of the different conservation priorities according to the methodology used, other factors in addition to genetic information also need to be considered in conservation programmes, such as the economic, cultural or historical value of the breeds involved. PMID:27025169

Molecular genetic analysis of a cattle population to reconstitute the extinct Algarvia breed

PubMed Central

2010-01-01

Background Decisions to initiate conservation programmes need to account for extant variability, diversity loss and cultural and economic aspects. Molecular markers were used to investigate if putative Algarvia animals could be identified for use as progenitors in a breeding programme to recover this nearly extinct breed. Methods 46 individuals phenotypically representative of Algarvia cattle were genotyped for 27 microsatellite loci and compared with 11 Portuguese autochthonous and three imported breeds. Genetic distances and factorial correspondence analyses (FCA) were performed to investigate the relationship among Algarvia and related breeds. Assignment tests were done to identify representative individuals of the breed. Y chromosome and mtDNA analyses were used to further characterize Algarvia animals. Gene- and allelic-based conservation analyses were used to determine breed contributions to overall genetic diversity. Results Genetic distance and FCA results confirmed the close relationship between Algarvia and southern Portuguese breeds. Assignment tests without breed information classified 17 Algarvia animals in this cluster with a high probability (q > 0.95). With breed information, 30 cows and three bulls were identified (q > 0.95) that could be used to reconstitute the Algarvia breed. Molecular and morphological results were concordant. These animals showed intermediate levels of genetic diversity (MNA = 6.0 ± 1.6, Rt = 5.7 ± 1.4, Ho = 0.63 ± 0.19 and He = 0.69 ± 0.10) relative to other Portuguese breeds. Evidence of inbreeding was also detected (Fis = 0.083, P < 0.001). The four Algarvia bulls had Y-haplotypes H6Y2 and H11Y2, common in Portuguese cattle. The mtDNA composition showed prevalence of T3 matrilines and presence of the African-derived T1a haplogroup. This analysis confirmed the genetic proximity of Algarvia and Garvonesa breeds (Fst = 0.028, P > 0.05). Algarvia cattle provide an intermediate contribution (CB = 6.18, CW = -0.06 and D1 = 0.50) to the overall gene diversity of Portuguese cattle. Algarvia and seven other autochthonous breeds made no contribution to the overall allelic diversity. Conclusions Molecular analyses complemented previous morphological findings to identify 33 animals that can be considered remnants of the Algarvia breed. Results of genetic diversity and conservation analyses provide objective information to establish a management program to reconstitute the Algarvia breed. PMID:20540741

Genetic approaches refine ex situ lowland tapir (Tapirus terrestris) conservation.

PubMed

Gonçalves da Silva, Anders; Lalonde, Danielle R; Quse, Viviana; Shoemaker, Alan; Russello, Michael A

2010-01-01

Ex situ conservation management remains an important tool in the face of continued habitat loss and global environmental change. Here, we use microsatellite marker variation to evaluate conventional assumptions of pedigree-based ex situ population management and directly inform a captive lowland tapir breeding program within a range country. We found relatively high levels of genetic variation (N(total) = 41; mean H(E) = 0.67 across 10 variable loci) and little evidence for relatedness among founder individuals (N(founders) = 10; mean relatedness = -0.05). Seven of 29 putative parent-offspring relationships were excluded by parentage analysis based on allele sharing, and we identified 2 individuals of high genetic value to the population (mk

77 FR 70145 - Notice of Availability of a Draft Environmental Impact Statement/Program Timberland Environmental...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-11-23

... significantly impairing essential behavioral patterns, including breeding, feeding, and sheltering [50 CFR 17.3... may be included on a permit in recognition of the conservation benefits provided to them under a...

76 FR 6491 - San Diego County Water Authority Subregional Natural Community Conservation Program/Habitat...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-02-04

... impairing essential behavioral patterns, including breeding, feeding, and sheltering (50 CFR 17.3(c)). Under... incidental take permit, plant species are proposed to be included on the permit in recognition of the...

Contributions of Arctic PRISM to monitoring western hemispheric shorebirds

USGS Publications Warehouse

Skagen, Susan K.; Smith, Paul A.; Andres, Brad A.; Donaldson, Garry; Brown, Stephen

2012-01-01

Long-term monitoring of populations is of paramount importance to understanding responses oforganisms to global environmental change and to evaluating whether conservation practices are yielding intended results through time (Wiens 2009). The population status of many shorebird species, the focus of this volume, remain poorly known. Long-distance migrant shorebirds have proven particularly difficult to monitor, in part because of their highly migratory nature and ranges that extend into highly inaccessible regions. As migrant shorebirds travel the length of the hemisphere, they congregate and disperse in ways that vary among species, locations, and years, presenting serious challenges to designing and implementing monitoring programs. Rigorous field and quantitative methods that estimate population size and monitor trends are vitally needed to direct and evaluate effective conservation measures. Many management efforts depend on unbiased population size estimates; for example, the shorebird conservation plans for both Canada and the United States seek to restore populations to levels calculated for the 1970s based on the best information available from existing surveys. Further, federal wildlife agencies within the United States and Canada have mandates to understand the state of their nations' resources under various conventions for the protection of migratory birds. Accurate estimates of population size are vital statistics for a variety of conservation activities, such as prioritizing species for conservation action and setting management targets. Areas of essential habitat, such as those designated under the Western Hemisphere Shorebird Reserve Network, the Important Bird Areas program of BirdLife International and the National Audubon Society, or Canada's National Wildlife Areas program, are all evaluated on the basis ofproportions of species' populations which they contain. The size, and trends in size, ofa species' population are considered key information for assessing its vulnerability and subsequent listing under the U.S. Endangered Species Act and the Canadian Species at Risk Act. To meet the need for information on population size and trends, shorebird biologists from Canada and the United States proposed a shared blueprint for shorebird monitoring across the Western Hemisphere in the late 1990s; this effort was undertaken in concert with the development of the Canadian and U.S. Shorebird Conservation Plans (Donaldson et al. 2000, Brown et aL 2001). Soon thereafter, partners in the monitoring effort adopted the name "Program for Regional and International Shorebird Monitoring" (PRISM). Among the primary objectives of PRISM were to estimate the population sizes and trends of breeding North American shorebirds and describe their distributions (Bart et al. 2002). PRISM members evaluated ongoing and potential monitoring approaches to address 74 taxa (including subspecies) and proposed a combination of arctic andboreal breeding surveys, temperate breeding and non-breeding surveys, and neotropical surveys.

Estimation of genetic diversity in Gute sheep: pedigree and microsatellite analyses of an ancient Swedish breed.

PubMed

Rochus, Christina M; Johansson, Anna M

2017-01-01

Breeds with small population size are in danger of an increased inbreeding rate and loss of genetic diversity, which puts them at risk for extinction. In Sweden there are a number of local breeds, native breeds which have adapted to specific areas in Sweden, for which efforts are being made to keep them pure and healthy over time. One example of such a breed is the Swedish Gute sheep. The objective of this study was to estimate inbreeding and genetic diversity of Swedish Gute sheep. Three datasets were analysed: pedigree information of the whole population, pedigree information for 100 animals of the population, and microsatellite genotypes for 94 of the 100 animals. The average inbreeding coefficient for lambs born during a six year time period (2007-2012) did not increase during that time period. The inbreeding calculated from the entire pedigree (0.038) and for a sample of the population (0.018) was very low. Sheep were more heterozygous at the microsatellite markers than expected (average multilocus heterozygosity and Ritland inbreeding estimates 1.01845 and -0.03931) and five of seven microsatellite markers were not in Hardy Weinberg equilibrium due to heterozygosity excess. The total effective population size estimated from the pedigree information was 155.4 and the average harmonic mean effective population size estimated from microsatellites was 88.3. Pedigree and microsatellite genotype estimations of inbreeding were consistent with a breeding program with the purpose of reducing inbreeding. Our results showed that current breeding programs of the Swedish Gute sheep are consistent with efforts of keeping this breed viable and these breeding programs are an example for other small local breeds in conserving breeds for the future.

Distemper outbreak and its effect on African wild dog conservation.

PubMed

van de Bildt, Marco W G; Kuiken, Thijs; Visee, Aart M; Lema, Sangito; Fitzjohn, Tony R; Osterhaus, Albert D M E

2002-02-01

In December 2000, an infectious disease spread through a captive breeding group of African wild dogs (Lycaon pictus) in Tanzania, killing 49 of 52 animals within 2 months. The causative agent was identified as Canine distemper virus (CDV) by means of histologic examination, virus isolation, reverse transcriptase-polymerase chain reaction analysis, and nucleotide sequencing. This report emphasizes the importance of adequate protection against infectious diseases for the successful outcome of captive breeding programs of endangered species.

Application of DNA fingerprinting to the recovery program of the endangered Puerto Rican parrot

USGS Publications Warehouse

Brock, M.K.; White, B.N.

1992-01-01

The Puerto Rican parrot was reduced to 13 animals in 1975 and as a conservation measure, a captive population was established from a few founders taken from the wild between 1973 and 1983. The number of successful breeding pairs in captivity has been !ow, and the captive breeding program has not been as productive as that of the closely related Hispaniolan parrot. Therefore, a genetic study was initiated to examine the relative levels of relatedness of the captive founders using levels of bandsharing in DNA fingerprints. Unrelated captive founder Puerto Rican parrots had the same average level of bandsharing (0.41) as second-degree relatives of the Hispaniolan parrot (0.38, P > 0,05), with an inbreeding coefficient of 0.04. High levels of bandsharing (>40%) between pairs of males and females correlated with reproductive failure, suggesting that inbreeding depression is partly responsible for the !ow number of' breeding pairs. Consequently, DNA profiling can be used to guide the captive breeding program for the Puerto Rican parrot, and other endangered species, by identifying pairs of males and females with low levels of bandsharing.

50 CFR 13.11 - Application procedures.

Code of Federal Regulations, 2013 CFR

2013-10-01

... Rescue Center Program 50 CFR 23 (1) (1) CITES Registration of Commercial Breeding Operations for Appendix..., POSSESSION, TRANSPORTATION, SALE, PURCHASE, BARTER, EXPORTATION, AND IMPORTATION OF WILDLIFE AND PLANTS... Conservation Act permits (50 CFR 15); injurious wildlife permits (50 CFR 16); captive-bred wildlife...

50 CFR 13.11 - Application procedures.

Code of Federal Regulations, 2010 CFR

2010-10-01

... Rescue Center Program 50 CFR 23 (1) (1) CITES Registration of Commercial Breeding Operations for Appendix..., POSSESSION, TRANSPORTATION, SALE, PURCHASE, BARTER, EXPORTATION, AND IMPORTATION OF WILDLIFE AND PLANTS... Conservation Act permits (50 CFR 15); injurious wildlife permits (50 CFR 16); captive-bred wildlife...

50 CFR 13.11 - Application procedures.

Code of Federal Regulations, 2011 CFR

2011-10-01

... Rescue Center Program 50 CFR 23 (1) (1) CITES Registration of Commercial Breeding Operations for Appendix..., POSSESSION, TRANSPORTATION, SALE, PURCHASE, BARTER, EXPORTATION, AND IMPORTATION OF WILDLIFE AND PLANTS... Conservation Act permits (50 CFR 15); injurious wildlife permits (50 CFR 16); captive-bred wildlife...

50 CFR 13.11 - Application procedures.

Code of Federal Regulations, 2012 CFR

2012-10-01

... Rescue Center Program 50 CFR 23 (1) (1) CITES Registration of Commercial Breeding Operations for Appendix..., POSSESSION, TRANSPORTATION, SALE, PURCHASE, BARTER, EXPORTATION, AND IMPORTATION OF WILDLIFE AND PLANTS... Conservation Act permits (50 CFR 15); injurious wildlife permits (50 CFR 16); captive-bred wildlife...

Genetic diversity of European cattle breeds highlights the conservation value of traditional unselected breeds with high effective population size.

PubMed

Medugorac, Ivica; Medugorac, Ana; Russ, Ingolf; Veit-Kensch, Claudia E; Taberlet, Pierre; Luntz, Bernhard; Mix, Henry M; Förster, Martin

2009-08-01

In times of rapid global and unforeseeable environmental changes, there is an urgent need for a sustainable cattle breeding policy, based on a global view. Most of the indigenous breeds are specialized in a particular habitat or production system but are rapidly disappearing. Thus, they represent an important resource to meet present and future breeding objectives. Based on 105 microsatellites, we obtained thorough information on genetic diversity and population structure of 16 cattle breeds that cover a geographical area from the domestication centre near Anatolia, through the Balkan and alpine regions, to the North-West of Europe. Breeds under strict artificial selection and indigenous breeds under traditional breeding schemes were included. The overall results showed that the genetic diversity is widespread in Busa breeds in the Anatolian and Balkan areas, when compared with the alpine and north-western European breeds. Our results reflect long-term evolutionary and short-term breeding events very well. The regular pattern of allele frequency distribution in the entire cattle population studied clearly suggests conservation of rare alleles by conservation of preferably unselected traditional breeds with large effective population sizes. From a global and long-term conservation genetics point of view, the native and highly variable breeds closer to the domestication centre could serve as valuable sources of genes for future needs, not only for cattle but also for other farm animals.

Archive eggs: a research and management tool for avian conservation breeding

USGS Publications Warehouse

Smith, Des H.V.; Moehrenschlager, Axel; Christensen, Nancy; Knapik, Dwight; Gibson, Keith; Converse, Sarah J.

2012-01-01

Worldwide, approximately 168 bird species are captive-bred for reintroduction into the wild. Programs tend to be initiated for species with a high level of endangerment. Depressed hatching success can be a problem for such programs and has been linked to artificial incubation. The need for artificial incubation is driven by the practice of multiclutching to increase egg production or by uncertainty over the incubation abilities of captive birds. There has been little attempt to determine how artificial incubation differs from bird-contact incubation. We describe a novel archive (data-logger) egg and use it to compare temperature, humidity, and egg-turning in 5 whooping crane (Grus americana) nests, 4 sandhill crane (G. canadensis) nests, and 3 models of artificial incubator; each of which are used to incubate eggs in whooping crane captive-breeding programs. Mean incubation temperature was 31.7° C for whooping cranes and 32.83° C for sandhill cranes. This is well below that of the artificial incubators (which were set based on a protocol of 37.6° C). Humidity in crane nests varied considerably, but median humidity in all 3 artificial incubators was substantially different from that in the crane nests. Two artificial incubators failed to turn the eggs in a way that mimicked crane egg-turning. Archive eggs are an effective tool for guiding the management of avian conservation breeding programs, and can be custom-made for other species. They also have potential to be applied to research on wild populations.

Cerulean Warbler Technical Group: Coordinating international research and conservation

USGS Publications Warehouse

Dawson, D.K.; Wigley, T.B.; Keyser, P.D.

2012-01-01

Effective conservation for species of concern requires interchange and collaboration among conservationists and stakeholders. The Cerulean Warbler Technical Group (CWTG) is a consortium of biologists and managers from government agencies, non-governmental organizations, academia, and industry, who are dedicated to finding pro-active, science-based solutions for conservation of the Cerulean Warbler (Setophaga cerulea). Formed in the United States in 2001, CWTG’s scope soon broadened to address the species’ ecology and conservation on both the breeding and non-breeding ranges, in partnership with biologists from South and Central America. In 2004, CWTG launched the Cerulean Warbler Conservation Initiative, a set of activities aimed at addressing information and conservation needs for the species. These include (1) studies in the core breeding range to assess Cerulean Warbler response to forest management practices and to identify mined lands that could be reforested to benefit the species, (2) ecological and demographic studies on the winter range, and (3) surveys of Cerulean Warbler distribution on the breeding and winter ranges and during migration. A rangewide conservation action plan has been completed, along with a more detailed conservation plan for the non-breeding range. CWTG and partners now move forward with on-the-ground conservation, while still addressing unmet information needs.

Myrciaria dubia, an Amazonian fruit: population structure and its implications for germplasm conservation and genetic improvement.

PubMed

Nunes, C F; Setotaw, T A; Pasqual, M; Chagas, E A; Santos, E G; Santos, D N; Lima, C G B; Cançado, G M A

2017-03-22

Myrciaria dubia (camu-camu) is an Amazon tree that produces a tart fruit with high vitamin C content. It is probably the fruit with the highest vitamin C content among all Brazilian fruit crops and it can be used to supplement daily vitamin C dose. This property has attracted the attention of consumers and, consequently, encouraged fruit farmers to produce it. In order to identify and select potential accessions for commercial exploitation and breeding programs, M. dubia has received considerable research attention. The identification and characterization of genetic diversity, as well as identification of the population structure of accessions preserved in germplasm banks are fundamental for the success of any breeding program. The objective of this study was to evaluate the genetic variability of 10 M. dubia populations obtained from the shores of Reis Lake, located in the municipality of Caracaraí, Roraima, Brazil. Fourteen polymorphic inter simple sequence repeat (ISSR) markers were used to study the population genetic diversity, which resulted in 108 identified alleles. Among the 14 primers, GCV, UBC810, and UBC827 produced the highest number of alleles. The study illustrated the suitability and efficiency of ISSR markers to study the genetic diversity of M. dubia accessions. We also revealed the existence of high genetic variability among both accessions and populations that can be exploited in future breeding programs and conservation activities of this species.

Distemper Outbreak and Its Effect on African Wild Dog Conservation

PubMed Central

van de Bildt, Marco W.G.; Kuiken, Thijs; Visee, Aart M.; Lema, Sangito; Fitzjohn, Tony R.

2002-01-01

In December 2000, an infectious disease spread through a captive breeding group of African wild dogs (Lycaon pictus) in Tanzania, killing 49 of 52 animals within 2 months. The causative agent was identified as Canine distemper virus (CDV) by means of histologic examination, virus isolation, reverse transcriptase-polymerase chain reaction analysis, and nucleotide sequencing. This report emphasizes the importance of adequate protection against infectious diseases for the successful outcome of captive breeding programs of endangered species. PMID:11897078

Exposure of the endangered golden monkey (Rhinopithecus roxellana) to heavy metals: a comparison of wild and captive animals.

PubMed

Liu, Qiang; Chen, Yi-Ping; Maltby, Lorraine; Ma, Qing-Yi

2015-05-01

Golden monkeys are endemic to China and of high conservation concern. Conservation strategies include captive breeding, but the success of captive breeding programs may be being compromised by environmental pollution. Heavy metal exposure of wild and captive golden monkeys living in the Qinling Mountains was assessed by measuring fecal metal concentrations (As, Cd, Cr, Co, Cu, Mn, Hg, Ni, Pb, and Zn). Captive monkeys were exposed to higher concentrations of As, Hg, Pb, and Cr than monkeys living in the wild, while high background levels of Mn led to high exposure of wild monkeys. Seasonal variations in metal exposures were detected for both wild and captive monkeys; possible reasons being seasonal changes in either diet (wild monkeys) or metal content of food (captive monkeys). Coal combustion, waste incineration, and traffic-related activities were identified as possible sources of heavy metals exposure for captive animals. Efforts to conserve this endangered primate are potentially compromised by metal pollutants derived from increasing anthropogenic activities. Providing captive animals with uncontaminated food and relocating captive breeding centers away from sources of pollution will reduce pollutant exposure; but ultimately, there is a need to improve environmental quality by controlling pollutants at source.

Differences in innate and adaptive immune response traits of Pahari (Indian non-descript indigenous breed) and Jersey crossbred cattle.

PubMed

Verma, Subhash; Thakur, Aneesh; Katoch, Shailja; Shekhar, Chander; Wani, Aasim Habib; Kumar, Sandeep; Dohroo, Shweta; Singh, Geetanjali; Sharma, Mandeep

2017-10-01

Cattle are an integral part of the largely agrarian economy of India. Indigenous breeds of cattle comprise about 80% of total cattle population of the country and contribute significantly to the overall milk production. There are 40 recognized indigenous breeds of cattle and a number of uncharacterized non-descript cattle. Pahari cattle of Himachal Pradesh in Northern India are one such non-descript indigenous breed. Here we describe a comprehensive evaluation of haematobiochemical parameters and innate and adaptive immune response traits of Pahari cattle and a comparison with Jersey crossbred cattle. The study shows demonstrable differences in the two breeds with respect to some innate and adaptive immunological traits. This is a first attempt to characterize immune response traits of Pahari cattle and the results of the study provide an understanding of breed differences in immune status of cattle which could be useful for their breeding and conservations programs. Copyright © 2017 Elsevier B.V. All rights reserved.

Objectives, criteria and methods for using molecular genetic data in priority setting for conservation of animal genetic resources.

PubMed

Boettcher, P J; Tixier-Boichard, M; Toro, M A; Simianer, H; Eding, H; Gandini, G; Joost, S; Garcia, D; Colli, L; Ajmone-Marsan, P

2010-05-01

The genetic diversity of the world's livestock populations is decreasing, both within and across breeds. A wide variety of factors has contributed to the loss, replacement or genetic dilution of many local breeds. Genetic variability within the more common commercial breeds has been greatly decreased by selectively intense breeding programmes. Conservation of livestock genetic variability is thus important, especially when considering possible future changes in production environments. The world has more than 7500 livestock breeds and conservation of all of them is not feasible. Therefore, prioritization is needed. The objective of this article is to review the state of the art in approaches for prioritization of breeds for conservation, particularly those approaches that consider molecular genetic information, and to identify any shortcomings that may restrict their application. The Weitzman method was among the first and most well-known approaches for utilization of molecular genetic information in conservation prioritization. This approach balances diversity and extinction probability to yield an objective measure of conservation potential. However, this approach was designed for decision making across species and measures diversity as distinctiveness. For livestock, prioritization will most commonly be performed among breeds within species, so alternatives that measure diversity as co-ancestry (i.e. also within-breed variability) have been proposed. Although these methods are technically sound, their application has generally been limited to research studies; most existing conservation programmes have effectively primarily based decisions on extinction risk. The development of user-friendly software incorporating these approaches may increase their rate of utilization.

Monitoring the shorebirds of North America: Towards a unified approach

USGS Publications Warehouse

Skagen, S.K.; Bart, J.; Andres, B.; Brown, S.; Donaldson, G.; Harrington, B.; Johnston, V.; Jones, S.L.; Morrison, R.I.G.

2003-01-01

The Program for Regional and International Shorebird Monitoring (PRISM) has recently developed a single blueprint for monitoring shorebirds in Canada and the United States in response to needs identified by recent shorebird conservation plans. The goals of PRISM are to: (1) estimate the size of breeding populations of 74 shorebird taxa in North America; (2) describe the distribution, abundance, and habitat relationships for these taxa; (3) monitor trends in shorebird population size; (4) monitor shorebird numbers at stopover locations, and; (5) assist local managers in meeting their shorebird conservation goals. The initial focus has been on developing methods to estimate trends in population size. A three-part approach for estimating trends includes: (1) breeding surveys in arctic, boreal, and temperate regions, (2) migration surveys, and (3) wintering surveys.

Population and habitat viability assessment for the Wyoming toad (Bufo baxteri): Final workshop report

USGS Publications Warehouse

2001-01-01

The Wyoming toad was listed as an endangered species under the Endangered Species Act on January 17, 1984, with a recovery plan approved in 1991. Currently the total population of the Wyoming toad includes approximately 200 animals in the captive breeding program and as few as 62 toads surviving at reintroduction sites in the Laramie Basin based upon fall 2000 survey data (after releases of more than 10,000 toads and tadpoles since 1995). Necessary conservation measures include improving reproduction and survival in the captive breeding program, improving survival at reintroduction sites, developing techniques to control the effects of the amphibian chytrid fungus, and eliminating threats and further habitat degradation in the wild.

Citrus genebank collections: International collaboration opportunities between the U.S. and Russia

USDA-ARS?s Scientific Manuscript database

Citrus germplasm is conserved in genebanks at sites around the world to provide genetic resources for breeding and research programs. The value of genebank collections is particularly evident as diseases and climate change threaten citrus production areas. We provide historical, inventory, and maint...

Zoos through the Lens of the IUCN Red List: A Global Metapopulation Approach to Support Conservation Breeding Programs

PubMed Central

Conde, Dalia A.; Colchero, Fernando; Gusset, Markus; Pearce-Kelly, Paul; Byers, Onnie; Flesness, Nate; Browne, Robert K.; Jones, Owen R.

2013-01-01

Given current extinction trends, the number of species requiring conservation breeding programs (CBPs) is likely to increase dramatically. To inform CBP policies for threatened terrestrial vertebrates, we evaluated the number and representation of threatened vertebrate species on the IUCN Red List held in the ISIS zoo network and estimated the complexity of their management as metapopulations. Our results show that 695 of the 3,955 (23%) terrestrial vertebrate species in ISIS zoos are threatened. Only two of the 59 taxonomic orders show a higher proportion of threatened species in ISIS zoos than would be expected if species were selected at random. In addition, for most taxa, the management of a zoo metapopulation of more than 250 individuals will require the coordination of a cluster of 11 to 24 ISIS zoos within a radius of 2,000 km. Thus, in the zoo network, the representation of species that may require CBPs is currently low and the spatial distribution of these zoo populations makes management difficult. Although the zoo community may have the will and the logistical potential to contribute to conservation actions, including CBPs, to do so will require greater collaboration between zoos and other institutions, alongside the development of international agreements that facilitate cross-border movement of zoo animals. To maximize the effectiveness of integrated conservation actions that include CBPs, it is fundamental that the non-zoo conservation community acknowledges and integrates the expertise and facilities of zoos where it can be helpful. PMID:24348999

Zoos through the lens of the IUCN Red List: a global metapopulation approach to support conservation breeding programs.

PubMed

Conde, Dalia A; Colchero, Fernando; Gusset, Markus; Pearce-Kelly, Paul; Byers, Onnie; Flesness, Nate; Browne, Robert K; Jones, Owen R

2013-01-01

Given current extinction trends, the number of species requiring conservation breeding programs (CBPs) is likely to increase dramatically. To inform CBP policies for threatened terrestrial vertebrates, we evaluated the number and representation of threatened vertebrate species on the IUCN Red List held in the ISIS zoo network and estimated the complexity of their management as metapopulations. Our results show that 695 of the 3,955 (23%) terrestrial vertebrate species in ISIS zoos are threatened. Only two of the 59 taxonomic orders show a higher proportion of threatened species in ISIS zoos than would be expected if species were selected at random. In addition, for most taxa, the management of a zoo metapopulation of more than 250 individuals will require the coordination of a cluster of 11 to 24 ISIS zoos within a radius of 2,000 km. Thus, in the zoo network, the representation of species that may require CBPs is currently low and the spatial distribution of these zoo populations makes management difficult. Although the zoo community may have the will and the logistical potential to contribute to conservation actions, including CBPs, to do so will require greater collaboration between zoos and other institutions, alongside the development of international agreements that facilitate cross-border movement of zoo animals. To maximize the effectiveness of integrated conservation actions that include CBPs, it is fundamental that the non-zoo conservation community acknowledges and integrates the expertise and facilities of zoos where it can be helpful.

The first 50 years of the North American Breeding Bird Survey

USGS Publications Warehouse

Sauer, John; Ziolkowski, David; Pardieck, Keith L.; Smith, Adam C.; Hudson, Marie-Anne R.; Rodriguez, Vicente; Berlanga, Humberto; Niven, Daniel; Link, William

2017-01-01

The vision of Chandler (Chan) S. Robbins for a continental-scale omnibus survey of breeding birds led to the development of the North American Breeding Bird Survey (BBS). Chan was uniquely suited to develop the BBS. His position as a government scientist had given him experience with designing and implementing continental-scale surveys, his research background made him an effective advocate of the need for a survey to monitor pesticide effects on birds, and his prominence in the birding community gave him connections to infrastructure—a network of qualified volunteer birders who could conduct roadside surveys with standardized point counts. Having started in the eastern United States and the Atlantic provinces of Canada in 1966, the BBS now provides population change information for ∼546 species in the continental United States and Canada, and recently initiated routes in Mexico promise to greatly expand the areas and species covered by the survey. Although survey protocols have remained unchanged for 50 years, the BBS remains relevant in a changing world. Several papers that follow in this Special Section of The Condor: Ornithological Advances review how the BBS has been applied to conservation assessments, especially in combination with other large-scale survey data. A critical feature of the BBS program is an active research program into field and analytical methods to enhance the quality of the count data and to control for factors that influence detectability. Papers in the Special Section also present advances in BBS analyses that improve the utility of this expanding and sometimes controversial survey. In this Perspective, we introduce the Special Section by reviewing the history of the BBS, describing current analyses, and providing summary trend results for all species, highlighting 3 groups of conservation concern: grassland-breeding birds, aridland-breeding birds, and aerial insectivorous birds.

Stocking activities for the Arctic charr in Lake Geneva: Genetic effects in space and time.

PubMed

Savary, Romain; Dufresnes, Christophe; Champigneulle, Alexis; Caudron, Arnaud; Dubey, Sylvain; Perrin, Nicolas; Fumagalli, Luca

2017-07-01

Artificial stocking practices are widely used by resource managers worldwide, in order to sustain fish populations exploited by both recreational and commercial activities, but their benefits are controversial. Former practices involved exotic strains, although current programs rather consider artificial breeding of local fishes (supportive breeding). Understanding the complex genetic effects of these management strategies is an important challenge with economic and conservation implications, especially in the context of population declines. In this study, we focus on the declining Arctic charr ( Salvelinus alpinus ) population from Lake Geneva (Switzerland and France), which has initially been restocked with allochtonous fishes in the early eighties, followed by supportive breeding. In this context, we conducted a genetic survey to document the evolution of the genetic diversity and structure throughout the last 50 years, before and after the initiation of hatchery supplementation, using contemporary and historical samples. We show that the introduction of exotic fishes was associated with a genetic bottleneck in the 1980-1990s, a break of Hardy-Weinberg Equilibrium (HWE), a reduction in genetic diversity, an increase in genetic structure among spawning sites, and a change in their genetic composition. Together with better environmental conditions, three decades of subsequent supportive breeding using local fishes allowed to re-establish HWE and the initial levels of genetic variation. However, current spawning sites have not fully recovered their original genetic composition and were extensively homogenized across the lake. Our study demonstrates the drastic genetic consequences of different restocking tactics in a comprehensive spatiotemporal framework and suggests that genetic alteration by nonlocal stocking may be partly reversible through supportive breeding. We recommend that conservation-based programs consider local diversity and implement adequate protocols to limit the genetic homogenization of this Arctic charr population.

Determination of Genetic Structure and Signatures of Selection in Three Strains of Tanzania Shorthorn Zebu, Boran and Friesian Cattle by Genome-Wide SNP Analyses

PubMed Central

Msalya, George; Kim, Eui-Soo; Laisser, Emmanuel L. K.; Kipanyula, Maulilio J.; Karimuribo, Esron D.; Kusiluka, Lughano J. M.; Chenyambuga, Sebastian W.; Rothschild, Max F.

2017-01-01

Background More than 90 percent of cattle in Tanzania belong to the indigenous Tanzania Short Horn Zebu (TSZ) population which has been classified into 12 strains based on historical evidence, morphological characteristics, and geographic distribution. However, specific genetic information of each TSZ population has been lacking and has caused difficulties in designing programs such as selection, crossbreeding, breed improvement or conservation. This study was designed to evaluate the genetic structure, assess genetic relationships, and to identify signatures of selection among cattle of Tanzania with the main goal of understanding genetic relationship, variation and uniqueness among them. Methodology/Principal findings The Illumina Bos indicus SNP 80K BeadChip was used to genotype genome wide SNPs in 168 DNA samples obtained from three strains of TSZ cattle namely Maasai, Tarime and Sukuma as well as two comparative breeds; Boran and Friesian. Population structure and signatures of selection were examined using principal component analysis (PCA), admixture analysis, pairwise distances (FST), integrated haplotype score (iHS), identical by state (IBS) and runs of homozygosity (ROH). There was a low level of inbreeding (F~0.01) in the TSZ population compared to the Boran and Friesian breeds. The analyses of FST, IBS and admixture identified no considerable differentiation between TSZ trains. Importantly, common ancestry in Boran and TSZ were revealed based on admixture and IBD, implying gene flow between two populations. In addition, Friesian ancestry was found in Boran. A few common significant iHS were detected, which may reflect influence of recent selection in each breed or strain. Conclusions Population admixture and selection signatures could be applied to develop conservation plan of TSZ cattle as well as future breeding programs in East African cattle. PMID:28129396

Determination of non-market values to inform conservation strategies for the threatened Alistana-Sanabresa cattle breed.

PubMed

Martin-Collado, D; Diaz, C; Drucker, A G; Carabaño, M J; Zander, K K

2014-08-01

Livestock breed-related public good functions are often used to justify support for endangered breed conservation despite the fact that little is known about such non-market values. We show how stated preference techniques can be used to assess the non-market values that people place on livestock breeds. Through the application of a case study choice experiment survey in Zamora province, Spain, the total economic value (TEV) of the threatened Alistana-Sanabresa (AS) cattle breed was investigated. An analysis of the relative importance of the non-market components of its TEV and an assessment of the socio-economic variables that influence people's valuation of such components is used to inform conservation strategy design. Overall, the findings reveal that the AS breed had significant non-market values associated with it and that the value that respondents placed on each specific public good function also varied significantly. Functions related with indirect use cultural and existence values were much more highly valued than landscape maintenance values. These high cultural and existence values (totalling over 80% of TEV) suggest that an AS in situ conservation strategy will be required to secure such values. As part of such a strategy, incentive mechanisms will be needed to permit farmers to capture some of these public good values and thus be able to afford to maintain breed population numbers at socially desirable levels. One such mechanism could be related to the development of breed-related agritourism initiatives, with a view to enhancing private good values and providing an important addition to continued direct support. Where linked with cultural dimensions, niche product market development, including through improving AS breed-related product quality and brand recognition may also have a role to play as part of such an overall conservation and use strategy. We conclude that livestock breed conservation strategies with the highest potential to maximise societal welfare would be those that secure the breed-related functions that people value most, with appropriate in situ conservation interventions and strategies being identified accordingly.

78 FR 75939 - Bay Delta Habitat Conservation Plan and Natural Community Conservation Plan, Sacramento, CA...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-12-13

... patterns, including breeding, feeding, and sheltering (50 CFR 17.3(c)). NMFS defines ``harm'' to include... impairing essential behavioral patterns, including breeding, spawning, rearing, migrating, feeding, or... permit in recognition of the conservation benefits provided to them under a habitat conservation plan...

Community-based interventions for the use and conservation of animal genetic resources: the case of indigenous scavenger chicken production in Benin.

PubMed

Rodríguez, Luis C; Herrero, Mario; Baltenweck, Isabel

2011-06-01

Scavenging chicken production in Africa is important for the livelihood of the poor. In most countries, these low inputs, low output systems employ local breeds making use of the feeding resources available in the household. However, their replacement with introduced exotic breeds with higher productivities represents a risk for their conservation. Here, we present a simulation model to evaluate the impact of community-based interventions aiming to improve the profitability of local chicken breeds and promote their use and conservation. The results indicate that under the current conditions, farmers producing exotic chicken are able to sell more animals in a one year period; however the market price of local chicken makes their production more profitable. Vaccination campaigns significantly reduce the mortality rate of both breeds, having a positive effect on producers' income but its impact on animal off-take is larger for exotic breeds, and the availability of feeding resources is the limiting factor as the flock size increases. The results of the intervention are positive in terms of increasing farmers' income but do not clearly contribute to the conservation of indigenous breeds since after the vaccination campaign, the gap between the profitability of indigenous and exotic breeds is reduced. The simulation model indicates that under the current conditions, the conservation of indigenous chicken breeds in Benin is maintained by the existence of distinct niche markets with consumers able to pay higher prices for indigenous chicken. Policies for the conservation of chicken genetic resources in Benin are discussed.

Large forest patches promote breeding success of a terrestrial mammal in urban landscapes.

PubMed

Soga, Masashi; Koike, Shinsuke

2013-01-01

Despite a marked increase in the focus toward biodiversity conservation in fragmented landscapes, studies that confirm species breeding success are scarce and limited. In this paper, we asked whether local (area of forest patches) and landscape (amount of suitable habitat surrounding of focal patches) factors affect the breeding success of raccoon dogs (Nyctereutes procyonoides) in Tokyo, Central Japan. The breeding success of raccoon dogs is easy to judge as adults travel with pups during the breeding season. We selected 21 forest patches (3.3-797.8 ha) as study sites. In each forest patch, we used infra-red-triggered cameras for a total of 60 camera days per site. We inspected each photo to determine whether it was of an adult or a pup. Although we found adult raccoon dogs in all 21 forest patches, pups were found only in 13 patches. To estimate probability of occurrence and detection for raccoon in 21 forest fragments, we used single season site occupancy models in PRESENCE program. Model selection based on AIC and model averaging showed that the occupancy probability of pups was positively affected by patch area. This result suggests that large forests improve breeding success of raccoon dogs. A major reason for the low habitat value of small, isolated patches may be the low availability of food sources and the high risk of being killed on the roads in such areas. Understanding the effects of local and landscape parameters on species breeding success may help us to devise and implement effective long-term conservation and management plans.

Limitations of captive breeding in endangered species recovery

USGS Publications Warehouse

Snyder, N.F.R.; Derrickson, S.R.; Beissenger, S.R.; Wiley, J.W.; Smith, T.B.; Toone, W.D.; Miller, B.

1996-01-01

The use of captive breeding in species recovery has grown enormously in recent years, but without a concurrent growth in appreciation of its limitations. Problems with (1) establishing self-sufficient captive populations, (2) poor success in reintroductions, (3.) high costs, (4) domestication, (5) preemption of other recovery techniques, (6) disease outbreaks, and (7) maintaining administrative continuity have all been significant. The technique has often been invoked prematurely and should not normally be employed before a careful field evaluation of costs and benefits of all conservation alternatives has been accomplished and a determination made that captive breeding is essential for species survival. Merely demonstrating that a species population is declining or bas fallen below what may be a minimum viable size does not constitute enough analysis to justify captive breeding as a recovery measure. Captive breeding should be reviewed as a last resort in species recovery and not a prophylactic or long-term solution because of the inexorable genetic and phenotypic changes that occur in captive environments. Captive breeding can play a crucial role in recovery of some species for witch effective alternatives are unavailable in the short term. However, it should not displace habitat and ecosystem protection nor should it be invoked in the absence of comprehensive efforts to maintain or restore populations in wild habitats. Zoological institutions with captive breeding programs should operate under carefully defined conditions of disease prevention and genetic/behavioral management. More important, these institutions should help preserve biodiversity through their capacities for public education, professional training, research, and support of in situ conservation efforts.

Genetic analysis of the Hungarian draft horse population using partial mitochondrial DNA D-loop sequencing.

PubMed

Csizmár, Nikolett; Mihók, Sándor; Jávor, András; Kusza, Szilvia

2018-01-01

The Hungarian draft is a horse breed with a recent mixed ancestry created in the 1920s by crossing local mares with draught horses imported from France and Belgium. The interest in its conservation and characterization has increased over the last few years. The aim of this work is to contribute to the characterization of the endangered Hungarian heavy draft horse populations in order to obtain useful information to implement conservation strategies for these genetic stocks. To genetically characterize the breed and to set up the basis for a conservation program, in the present study a hypervariable region of the mitochrondial DNA (D-loop) was used to assess genetic diversity in Hungarian draft horses. Two hundred and eighty five sequences obtained in our laboratory and 419 downloaded sequences available from Genbank were analyzed. One hundred and sixty-four haplotypes and thirty-six polymorphic sites were observed. High haplotype and nucleotide diversity values ( H d  = 0.954 ± 0.004; π  = 0.028 ± 0.0004) were identified in Hungarian population, although they were higher within than among the different populations ( H d  = 0.972 ± 0.002; π  = 0.03097 ± 0.002). Fourteen of the previously observed seventeen haplogroups were detected. Our samples showed a large intra- and interbreed variation. There was no clear clustering on the median joining network figure. The overall information collected in this work led us to consider that the genetic scenario observed for Hungarian draft breed is more likely the result of contributions from 'ancestrally' different genetic backgrounds. This study could contribute to the development of a breeding plan for Hungarian draft horses and help to formulate a genetic conservation plan, avoiding inbreeding while.

Chilled frogs are hot: hibernation and reproduction of the Endangered mountain yellow-legged frog Rana muscosa

USGS Publications Warehouse

Santana, Frank E.; Swaisgood, Ronald R.; Lemm, Jeffrey M.; Fisher, Robert N.; Clark, Rulon W.

2015-01-01

In the face of the sixth great extinction crisis, it is imperative to establish effective breeding protocols for amphibian conservation breeding programs. Captive efforts should not proceed by trial and error, nor should they jump prematurely to assisted reproduction techniques, which can be invasive, difficult, costly, and, at times, counterproductive. Instead, conservation practitioners should first look to nature for guidance, and replicate key conditions found in nature in the captive environment, according to the ecological and behavioral requirements of the species. We tested the effect of a natural hibernation regime on reproductive behaviors and body condition in the Endangered mountain yellow-legged frog Rana muscosa. Hibernation had a clear positive effect on reproductive behavior, manifesting in vocal advertisement signaling, female receptivity, amplexus, and oviposition. These behaviors are critical components of courtship that lead to successful reproduction. Our main finding was that captive R. muscosa require a hibernation period for successful reproduction, as only hibernated females produced eggs and only hibernated males successfully fertilized eggs. Although hibernation also resulted in a reduced body condition, the reduction appeared to be minimal with no associated mortality. The importance of hibernation for reproduction is not surprising, since it is a major component of the conditions that R. muscosa experiences in the wild. Other amphibian conservation breeding programs can also benefit from a scientific approach that tests the effect of natural ecological conditions on reproduction. This will ensure that captive colonies maximize their role in providing genetic reservoirs for assurance and reintroduction efforts.

The Creatures beneath Our Feet: Amphibian Monitors Take to the Road.

ERIC Educational Resources Information Center

Daigle, Cheryl Perusse

1999-01-01

The Nature Conservancy's Berkshire Program involves community volunteers in monitoring migration routes of amphibians that rely on vernal pools for breeding success. Vernal-pool workshops provide basic knowledge of amphibian lifecycles and detailed monitoring instructions. Nighttime field trips for adults and children and monitoring experiences…

Multispecies benefits of wetland conservation for marsh birds, frogs, and species at risk.

PubMed

Tozer, Douglas C; Steele, Owen; Gloutney, Mark

2018-04-15

Wetlands conserved using water level manipulation, cattle exclusion, naturalization of uplands, and other techniques under the North American Waterfowl Management Plan ("conservation project wetlands") are important for ducks, geese, and swans ("waterfowl"). However, the assumption that conservation actions for waterfowl also benefit other wildlife is rarely quantified. We modeled detection and occupancy of species at sites within 42 conservation project wetlands compared to sites within 52 similar nearby unmanaged wetlands throughout southern Ontario, Canada, and small portions of the adjacent U.S., using citizen science data collected by Bird Studies Canada's Great Lakes Marsh Monitoring Program, including 2 waterfowl and 13 non-waterfowl marsh-breeding bird species (n = 413 sites) and 7 marsh-breeding frog species (n = 191 sites). Occupancy was significantly greater at conservation project sites compared to unmanaged sites in 7 of 15 (47%) bird species and 3 of 7 (43%) frog species, with occupancy being higher by a difference of 0.12-0.38 across species. Notably, occupancy of priority conservation concern or at-risk Black Tern (Chlidonias niger), Common Gallinule (Gallinula galeata), Least Bittern (Ixobrychus exilis), Sora (Porzana carolina), and Western Chorus Frog (Pseudacris triseriata) was significantly higher at conservation project sites compared to unmanaged sites. The results demonstrate the utility of citizen science to inform wetland conservation, and suggest that actions under the North American Waterfowl Management Plan are effective for conserving non-waterfowl species. Copyright © 2018 Elsevier Ltd. All rights reserved.

Spatial patterns of breeding success of grizzly bears derived from hierarchical multistate models.

PubMed

Fisher, Jason T; Wheatley, Matthew; Mackenzie, Darryl

2014-10-01

Conservation programs often manage populations indirectly through the landscapes in which they live. Empirically, linking reproductive success with landscape structure and anthropogenic change is a first step in understanding and managing the spatial mechanisms that affect reproduction, but this link is not sufficiently informed by data. Hierarchical multistate occupancy models can forge these links by estimating spatial patterns of reproductive success across landscapes. To illustrate, we surveyed the occurrence of grizzly bears (Ursus arctos) in the Canadian Rocky Mountains Alberta, Canada. We deployed camera traps for 6 weeks at 54 surveys sites in different types of land cover. We used hierarchical multistate occupancy models to estimate probability of detection, grizzly bear occupancy, and probability of reproductive success at each site. Grizzly bear occupancy varied among cover types and was greater in herbaceous alpine ecotones than in low-elevation wetlands or mid-elevation conifer forests. The conditional probability of reproductive success given grizzly bear occupancy was 30% (SE = 0.14). Grizzly bears with cubs had a higher probability of detection than grizzly bears without cubs, but sites were correctly classified as being occupied by breeding females 49% of the time based on raw data and thus would have been underestimated by half. Repeated surveys and multistate modeling reduced the probability of misclassifying sites occupied by breeders as unoccupied to <2%. The probability of breeding grizzly bear occupancy varied across the landscape. Those patches with highest probabilities of breeding occupancy-herbaceous alpine ecotones-were small and highly dispersed and are projected to shrink as treelines advance due to climate warming. Understanding spatial correlates in breeding distribution is a key requirement for species conservation in the face of climate change and can help identify priorities for landscape management and protection. © 2014 Society for Conservation Biology.

Combining US and Brazilian microsatellite data for a meta-analysis of sheep (Ovis aries) breed diversity: facilitating the FAO Global Plan of Action for Conserving Animal Genetic Resources.

PubMed

Paiva, Samuel Rezende; Mariante, Arthur da Silva; Blackburn, Harvey D

2011-01-01

Microsatellites are commonly used to understand genetic diversity among livestock populations. Nevertheless, most studies have involved the processing of samples in one laboratory or with common standards across laboratories. Our objective was to identify an approach to facilitate the merger of microsatellite data for cross-country comparison of genetic resources when samples were not evaluated in a single laboratory. Eleven microsatellites were included in the analysis of 13 US and 9 Brazilian sheep breeds (N = 706). A Bayesian approach was selected and evaluated with and without a shared set of samples analyzed by each country. All markers had a posterior probability of greater than 0.5, which was higher than predicted as reasonable by the software used. Sensitivity analysis indicated no difference between results with or without shared samples. Cluster analysis showed breeds to be partitioned by functional groups of hair, meat, or wool types (K = 7 and 12 of STRUCTURE). Cross-country comparison of hair breeds indicated substantial genetic distances and within breed variability. The selected approach can facilitate the merger and analysis of microsatellite data for cross-country comparison and extend the utility of previously collected molecular markers. In addition, the result of this type of analysis can be used in new and existing conservation programs.

Developing a general conceptual framework for avian conservation science

USGS Publications Warehouse

Sauer, J.R.

2003-01-01

Avian conservation science in North America has produced a variety of monitoring programs designed to provide information on population status of birds. Waterfowl surveys provide population estimates for breeding ducks over most of the continent, the North American Breeding Bird Survey (BBS) provides indexes to population change for >400 breeding bird species, and many other surveys exist that index bird populations at a variety of scales and seasons. However, many fundamental questions about bird population change remain unanswered. I suggest that analyses of monitoring data provide limited understanding of causes of population change, and that the declining species paradigm (Caughley 1994) is sometimes an inefficient approach to increasing our understanding of causes of population change. In North America, the North American Bird Conservation Initiative (NABCI) provides an opportunity to implement alternative approaches that use management, modeling of population responses to management, and monitoring in combination to increase our understanding of bird populations. In adaptive resources management, modeling provides predictions about consequences of management, and monitoring data allow us to assess the population consequences of management. In this framework, alternative hypotheses about response of populations to management can be evaluated by formulating a series of models with differing structure, and management and monitoring provide information about which model best predicts population response.

Limits to captive breeding of mammals in zoos.

PubMed

Alroy, John

2015-06-01

Captive breeding of mammals in zoos is the last hope for many of the best-known endangered species and has succeeded in saving some from certain extinction. However, the number of managed species selected is relatively small and focused on large-bodied, charismatic mammals that are not necessarily under strong threat and not always good candidates for reintroduction into the wild. Two interrelated and more fundamental questions go unanswered: have the major breeding programs succeeded at the basic level of maintaining and expanding populations, and is there room to expand them? I used published counts of births and deaths from 1970 to 2011 to quantify rates of growth of 118 captive-bred mammalian populations. These rates did not vary with body mass, contrary to strong predictions made in the ecological literature. Most of the larger managed mammalian populations expanded consistently and very few programs failed. However, growth rates have declined dramatically. The decline was predicted by changes in the ratio of the number of individuals within programs to the number of mammal populations held in major zoos. Rates decreased as the ratio of individuals in programs to populations increased. In other words, most of the programs that could exist already do exist. It therefore appears that debates over the general need for captive-breeding programs and the best selection of species are moot. Only a concerted effort could create room to manage a substantially larger number of endangered mammals. © 2015, Society for Conservation Biology.

Molecular identification of livestock breeds: a tool for modern conservation biology.

PubMed

Yaro, Mohammed; Munyard, Kylie A; Stear, Michael J; Groth, David M

2017-05-01

Global livestock genetic diversity includes all of the species, breeds and strains of domestic animals, and their variations. Although a recent census indicated that there were 40 species and over 8000 breeds of domestic animals; for the purpose of conservation biology the diversity between and within breeds rather than species is regarded to be of crucial importance. This domestic animal genetic diversity has developed through three main evolutionary events, from speciation (about 3 million years ago) through domestication (about 12000 years ago) to specialised breeding (starting about 200 years ago). These events and their impacts on global animal genetic resources have been well documented in the literature. The key importance of global domestic animal resources in terms of economic, scientific and cultural heritage has also been addressed. In spite of their importance, there is a growing number of reports on the alarming erosion of domestic animal genetic resources. This erosion of is happening in spite of several global conservation initiatives designed to mitigate it. Herein we discuss these conservation interventions and highlight their strengths and weaknesses. However, pivotal to the success of these conservation initiatives is the reliability of the genetic assignment of individual members to a target breed. Finally, we discuss the prospect of using improved breed identification methodologies to develop a reliable breed-specific molecular identification tool that is easily applicable to populations of livestock breeds in various ecosystems. These identification tools, when developed, will not only facilitate the regular monitoring of threatened or endangered breed populations, but also enhance the development of more efficient and sustainable livestock production systems. © 2016 Cambridge Philosophical Society.

There is room for selection in a small local pig breed when using optimum contribution selection: a simulation study.

PubMed

Gourdine, J L; Sørensen, A C; Rydhmer, L

2012-01-01

Selection progress must be carefully balanced against the conservation of genetic variation in small populations of local breeds. Well-defined breeding programs with specified selection traits are rare in local pig breeds. Given the small population size, the focus is often on the management of genetic diversity. However, in local breeds, optimum contribution selection can be applied to control the rate of inbreeding and to avoid reduced performance in traits with high market value. The aim of this study was to assess the extent to which a breeding program aiming for improved product quality in a small local breed would be feasible. We used stochastic simulations to compare 25 scenarios. The scenarios differed in size of population, selection intensity of boars, type of selection (random selection, truncation selection based on BLUP breeding values, or optimum contribution selection based on BLUP breeding values), and heritability of the selection trait. It was assumed that the local breed is used in an extensive system for a high-meat-quality market. The simulations showed that in the smallest population (300 female reproducers), inbreeding increased by 0.8% when selection was performed at random. With optimum contribution selection, genetic progress can be achieved that is almost as great as that with truncation selection based on BLUP breeding values (0.2 to 0.5 vs. 0.3 to 0.5 genetic SD, P < 0.05), but at a considerably decreased rate of inbreeding (0.7 to 1.2 vs. 2.3 to 5.7%, P < 0.01). This confirmation of the potential utilization of OCS even in small populations is important in the context of sustainable management and the use of animal genetic resources.

The role of landowners in jaguar conservation in Sonora, Mexico.

PubMed

Rosas-Rosas, Octavio C; Valdez, Raul

2010-04-01

The northernmost known breeding population of jaguars occurs in the municipality of Nácori Chico, Sonora, Mexico about 270 km from the United States-Mexico border and may be the source from which jaguars sighted in the United States dispersed. Since 1999 at least 11 jaguars (Panthera onca) had been illegally killed in the area due to predator control programs. We initiated a jaguar landowner-based conservation plan in 2004. The eight participating landowners agreed to suspend predator control programs targeting jaguars and pumas (Puma concolor) only if cattle losses were compensated. A private outfitter, with the consent of landowners, initiated white-tailed deer (Odocoileus virginianus) hunts in 2004 and agreed to pay the group of participating landowners US$1500 for every deer hunt permit sold. The funds paid to the landowners from deer hunts were sufficient to convince landowners to suspend all predator-control efforts of jaguars and pumas. The involvement of landowners in the jaguar conservation program in northeastern Sonora is a successful, private, wildlife-conservation initiative that provides an example for jaguar conservation efforts in northern Mexico.

50 CFR 15.22 - Permits for scientific research.

Code of Federal Regulations, 2010 CFR

2010-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.22 Permits... the wild, or was bred in captivity; (2) If the exotic bird is in the wild or was taken from the wild... authorizing letter, if applicable; (3) If the exotic bird was bred in captivity, include: (i) Documents or...

50 CFR 15.22 - Permits for scientific research.

Code of Federal Regulations, 2011 CFR

2011-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.22 Permits... the wild, or was bred in captivity; (2) If the exotic bird is in the wild or was taken from the wild... authorizing letter, if applicable; (3) If the exotic bird was bred in captivity, include: (i) Documents or...

50 CFR 15.22 - Permits for scientific research.

Code of Federal Regulations, 2012 CFR

2012-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.22 Permits... the wild, or was bred in captivity; (2) If the exotic bird is in the wild or was taken from the wild... authorizing letter, if applicable; (3) If the exotic bird was bred in captivity, include: (i) Documents or...

DNA fingerprinting sets for four southern pines

Treesearch

Craig Echt; Sedley Josserand

2018-01-01

DNA markers can provide valuable genetic information for forest tree research, breeding, conservation, and restoration programs. When properly evaluated, selected sets of DNA markers can be used to efficiently get information about genetic diversity in regions, forests, or stands, or in seed lots and orchards. Selected markers also can be used to determine parentage or...

A microsatellite linkage map of striped bass (Morone saxatilis) reveals conserved synteny with the hree-spined stickleback (Gasterosteus aculeatus)

USDA-ARS?s Scientific Manuscript database

Background: The striped bass (Morone saxatilis) and its relatives (genus Morone) are of great importance to fisheries and aquaculture in North America. As part of a collaborative effort to employ molecular genetic technologies in striped bass breeding programs, nearly 500 microsatellite markers were...

Founded: Genetic Reconstruction of Lineage Diversity and Kinship Informs Ex situ Conservation of Cuban Amazon Parrots (Amazona leucocephala).

PubMed

Milián-García, Yoamel; Jensen, Evelyn L; Madsen, Jeanette; Álvarez Alonso, Suleiky; Serrano Rodríguez, Aryamne; Espinosa López, Georgina; Russello, Michael A

2015-01-01

Captive breeding is a widespread conservation strategy, yet such programs rarely include empirical genetic data for assessing management assumptions and meeting conservation goals. Cuban Amazon parrots (Amazona leucocephala) are considered vulnerable, and multiple on-island captive populations have been established from wild-caught and confiscated individuals of unknown ancestry. Here, we used mitochondrial haplotypic and nuclear genotypic data at 9 microsatellite loci to quantify the extent and distribution of genetic variation within and among captive populations in Zapata Swamp and Managua, Cuba, and to estimate kinship among breeders (n = 88). Using Bayesian clustering analysis, we detected 2 distinct clusters within the Zapata population, one of which was shared with Managua. Individuals from the cluster unique to Zapata possessed mitochondrial haplotypes with affinities to Cuban subspecies (A. l. leucocephala, A. l. palmarum); the shared cluster was similar, but also included haplotypes closely related to the subspecies restricted to Cayman Brac (A. l. hesterna). Overall mean kinship was low within each captive population (-0.026 to -0.012), with 19 and 11 recommended breeding pairs in Zapata and Managua, respectively, ranked according to mean kinship and informed by molecular sexing. Our results highlight the importance of understanding population history within ex situ management programs, while providing genetic information to directly inform Cuban parrot conservation. © The American Genetic Association 2015. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Strategic Plan for the North American Breeding Bird Survey: 2006-2010

USGS Publications Warehouse

,

2007-01-01

Executive Summary The mission of the North American Breeding Bird Survey (BBS) is to provide scientifically credible measures of the status and trends of North American bird populations at continental and regional scales to inform biologically sound conservation and management actions. Determining population trends, relative abundance, and distributions of North American avifauna is critical for identifying conservation priorities, determining appropriate conservation actions, and evaluating those actions. The BBS program, jointly coordinated by the U.S. Geological Survey and Environment Canada?s Canadian Wildlife Service, provides the U.S. and Canadian Federal governments, state and provincial agencies, other conservation practitioners, and the general public with science-based avian population trend estimates and other information for regional and national species' population assessments. Despite the demonstrated value of the BBS for furthering avian conservation across North America, its importance is often underappreciated, and it is underfunded compared with many other government-supported programs that report on status of the environment. Today, BBS resources, adjusted for inflation, are below the amount allocated in the 1970s and are still only sufficient to support two biologists. Yet the number of routes, participants, data, and data requests has quadrupled. Data and information management and delivery requirements and security concerns, non-existent in 1966, impose further demands on BBS resources. In addition, the Mexican expansion of the BBS offers new hope for a truly continental approach to avian conservation, but also brings additional challenges. Meeting the goals of this plan will take cooperation among myriad stakeholders; yet, even with collaboration, most objectives of this plan will be unattainable if BBS program support is not increased. The BBS developed this strategic plan to help set priorities and identify resources required for the program to continue to meet the evolving needs of the conservation community for information on bird population change. By setting clear goals, strategies, and measures of success, this plan provides a cohesive framework and vision for maintenance and development of the BBS. The plan identifies two major goals for the BBS, with a number of strategies and objectives to achieve these goals. Over the next 5 years, progress made in addressing each long-term goal and its associated 5-year strategies and objectives will gage the plan's success. Specific actions, projected outcomes, and measures of success related to accomplishing these are outlined in Table 1, with a timeline in Table 2. The two main goals for the program, with a summary of the strategies to achieve them, are: Goal 1: Collect scientifically credible measures of the status and trends of North American bird populations at continental and regional scales. The North American Breeding Bird Survey will continue to support North American natural resource conservation through the collection of scientifically credible measures of the status and trends of continental bird populations. While doing this, the BBS will work to improve the science behind the program to better meet its mission and the changing needs of the avian conservation community. In partnership with collaborators, the BBS will address detection probability bias and habitat bias, improve analytical methods, and more fully assess and account for observer quality. Moreover, the BBS will improve the quality and breadth of avian population data through strategic increases in route density and the establishment of a Mexican BBS program. Goal 2: Ensure BBS data and analytical results are widely available and easily accessible for use by the avian conservation and management communities. At the heart of the BBS lies a four-million-record database containing more than 40 years of data on more than 600 bird species. These data are of no valu

50 CFR 15.22 - Permits for scientific research.

Code of Federal Regulations, 2013 CFR

2013-10-01

... PLANTS WILD BIRD CONSERVATION ACT Permits and Approval of Cooperative Breeding Programs § 15.22 Permits..., at the time of the application, the exotic bird is still in the wild, has already been removed from the wild, or was bred in captivity; (2) If the exotic bird is in the wild or was taken from the wild...

A community resource for exploring and utilizing genetic diversity in the USDA Pea Single Plant Plus Collection

USDA-ARS?s Scientific Manuscript database

Globally, pea (Pisum sativum L.) is an important temperate legume crop for food, feed, and fodder, and many breeding programs exist to develop cultivars adapted to these end uses. In order to conserve genetic diversity useful to researchers, large pea collections have been constructed by numerous na...

Estimates of effective population size and inbreeding in South African indigenous chicken populations: implications for the conservation of unique genetic resources.

PubMed

Mtileni, Bohani; Dzama, Kennedy; Nephawe, Khathutshelo; Rhode, Clint

2016-06-01

Conservation of locally adapted indigenous livestock breeds has become an important objective in sustainable animal breeding, as these breeds represent a unique genetic resource. Therefore, the Agricultural Research Council of South Africa initiated a conservation programme for four South African indigenous chicken breeds. The evaluation and monitoring of the genetic constitution of these conservation flocks is important for proper management of the conservation programme. Using molecular genetic analyses, the effective population sizes and relatedness of these conservation flocks were compared to village (field) chicken populations from which they were derived. Genetic diversity within and between these populations are further discussed within the context of population size. The conservation flocks for the respective breeds had relatively small effective population sizes (point estimate range 38.6-78.6) in comparison to the field populations (point estimate range 118.9-580.0). Furthermore, evidence supports a transient heterozygous excess, generally associated with the occurrence of a recent population bottleneck. Genetic diversity, as measured by the number of alleles, heterozygosity and information index, was also significantly reduced in the conservation flocks. The average relatedness amongst the conservation flocks was high, whilst it remained low for the field populations. There was also significant evidence for population differentiation between field and conservation populations. F st estimates for conservation flocks were moderate to high with a maximum reached between VD_C and VD_F (0.285). However, F st estimates for field population were excessively low between the NN_C and EC_F (0.007) and between EC_F and OV_F (0.009). The significant population differentiation of the conservation flocks from their geographically correlated field populations of origin is further supported by the analysis of molecular variance (AMOVA), with 10.51 % of genetic diversity ascribed to population differences within groups (F SC = 0.106). The results suggest that significant genetic erosion has occurred within the conservation flocks due to inbreeding, pronounced effects of random drift and selection. It might be necessary to introduce new breeding individuals from the respective field populations in order to increase the effective population sizes of the conservation flocks and counter the effects of genetic erosion.

Genetic characterization of four native Italian shepherd dog breeds and analysis of their relationship to cosmopolitan dog breeds using microsatellite markers.

PubMed

Bigi, D; Marelli, S P; Randi, E; Polli, M

2015-12-01

Very little research into genetic diversity of Italian native dog breeds has been carried out so far. In this study we aimed to estimate and compare the genetic diversity of four native Italian shepherd dog breeds: the Maremma, Bergamasco, Lupino del Gigante and Oropa shepherds. Therefore, some cosmopolitan dog breeds, which have been widely raised in Italy for a long time past, have also been considered to check possible influence of these dog populations on the Italian autochthonous breeds considered here. A total of 212 individuals, belonging to 10 different dog breeds, were sampled and genotyped using 18 autosomal microsatellite loci. We analyzed the genetic diversity of these breeds, within breed diversity, breed relationship and population structure. The 10 breeds considered in this study were clearly genetically differentiated from each other, regardless of current population sizes and the onset of separate breeding history. The level of genetic diversity explained 20% of the total genetic variation. The level of H E found here is in agreement with that found by other studies. The native Italian breeds showed generally higher genetic diversity compared with the long established, well-defined cosmopolitan dog breeds. As the Border Collie seems closer to the Italian breeds than the other cosmopolitan shepherd dogs considered here, a possible utilization of this breed to improve working performance in Italian traditional working shepherd dogs cannot be ignored. The data and information found here can be utilized in the organization of conservation programs planned to reduce inbreeding and to minimize loss of genetic variability.

Free mate choice enhances conservation breeding in the endangered giant panda

PubMed Central

Martin-Wintle, Meghan S.; Shepherdson, David; Zhang, Guiquan; Zhang, Hemin; Li, Desheng; Zhou, Xiaoping; Li, Rengui; Swaisgood, Ronald R.

2015-01-01

Conservation breeding programmes have become an increasingly important tool to save endangered species, yet despite the allocation of significant resources, efforts to create self-sustaining populations have met with limited success. The iconic giant panda (Ailuropoda melanoleuca) embodies the struggles associated with ex situ species conservation. Here we show that behavioural mate preferences in giant pandas predict reproductive outcomes. Giant pandas paired with preferred partners have significantly higher copulation and birth rates. Reproductive rates increase further when both partners show mutual preference for one another. If managers were to incorporate mate preferences more fully into breeding management, the production of giant panda offspring for China's reintroduction programme might be greatly expedited. When extended to the increasing numbers of species dependent on ex situ conservation breeding to avoid extinction, our findings highlight that mate preference and other aspects of informed behavioural management could make the difference between success and failure of these programmes. PMID:26670381

Free mate choice enhances conservation breeding in the endangered giant panda.

PubMed

Martin-Wintle, Meghan S; Shepherdson, David; Zhang, Guiquan; Zhang, Hemin; Li, Desheng; Zhou, Xiaoping; Li, Rengui; Swaisgood, Ronald R

2015-12-15

Conservation breeding programmes have become an increasingly important tool to save endangered species, yet despite the allocation of significant resources, efforts to create self-sustaining populations have met with limited success. The iconic giant panda (Ailuropoda melanoleuca) embodies the struggles associated with ex situ species conservation. Here we show that behavioural mate preferences in giant pandas predict reproductive outcomes. Giant pandas paired with preferred partners have significantly higher copulation and birth rates. Reproductive rates increase further when both partners show mutual preference for one another. If managers were to incorporate mate preferences more fully into breeding management, the production of giant panda offspring for China's reintroduction programme might be greatly expedited. When extended to the increasing numbers of species dependent on ex situ conservation breeding to avoid extinction, our findings highlight that mate preference and other aspects of informed behavioural management could make the difference between success and failure of these programmes.

Applied reproductive technologies and genetic resource banking for amphibian conservation.

PubMed

Kouba, Andrew J; Vance, Carrie K

2009-01-01

As amphibian populations continue to decline, both government and non-government organisations are establishing captive assurance colonies to secure populations deemed at risk of extinction if left in the wild. For the most part, little is known about the nutritional ecology, reproductive biology or husbandry needs of the animals placed into captive breeding programs. Because of this lack of knowledge, conservation biologists are currently facing the difficult task of maintaining and reproducing these species. Academic and zoo scientists are beginning to examine different technologies for maintaining the genetic diversity of founder populations brought out of the wild before the animals become extinct from rapidly spreading epizootic diseases. One such technology is genetic resource banking and applied reproductive technologies for species that are difficult to reproduce reliably in captivity. Significant advances have been made in the last decade for amphibian assisted reproduction including the use of exogenous hormones for induction of spermiation and ovulation, in vitro fertilisation, short-term cold storage of gametes and long-term cryopreservation of spermatozoa. These scientific breakthroughs for a select few species will no doubt serve as models for future assisted breeding protocols and the increasing number of amphibians requiring conservation intervention. However, the development of specialised assisted breeding protocols that can be applied to many different families of amphibians will likely require species-specific modifications considering their wide range of reproductive modes. The purpose of this review is to summarise the current state of knowledge in the area of assisted reproduction technologies and gene banking for the conservation of amphibians.

Microsatellite based genetic diversity and population structure of the endangered Spanish Guadarrama goat breed

PubMed Central

Serrano, Magdalena; Calvo, Jorge H; Martínez, Marta; Marcos-Carcavilla, Ane; Cuevas, Javier; González, Carmen; Jurado, Juan J; de Tejada, Paloma Díez

2009-01-01

Background Assessing genetic biodiversity and population structure of minor breeds through the information provided by neutral molecular markers, allows determination of their extinction risk and to design strategies for their management and conservation. Analysis of microsatellite loci is known to be highly informative in the reconstruction of the historical processes underlying the evolution and differentiation of animal populations. Guadarrama goat is a threatened Spanish breed which actual census (2008) consists of 3057 females and 203 males distributed in 22 populations more or less isolated. The aim of this work is to study the genetic status of this breed through the analysis of molecular data from 10 microsatellites typed in historic and actual live animals. Results The mean expected heterozygosity across loci within populations ranged from 0.62 to 0.77. Genetic differentiation measures were moderate, with a mean FST of 0.074, GST of 0.081 and RST of 0.085. Percentages of variation among and within populations were 7.5 and 92.5, respectively. Bayesian clustering analyses pointed out a population subdivision in 16 clusters, however, no correlation between geographical distances and genetic differences was found. Management factors such as the limited exchange of animals between farmers (estimated gene flow Nm = 3.08) mostly due to sanitary and social constraints could be the major causes affecting Guadarrama goat population subdivision. Conclusion Genetic diversity measures revealed a good status of biodiversity in the Guadarrama goat breed. Since diseases are the first cause affecting the census in this breed, population subdivision would be an advantage for its conservation. However, to maintain private alleles present at low frequencies in such small populations minimizing the inbreeding rate, it would necessitate some mating designs of animals carrying such alleles among populations. The systematic use of molecular markers will facilitate the comprehensive management of these populations, which in combination with the actual breeding program to increase milk yield, will constitute a good strategy to preserve the breed. PMID:19785776

High genetic diversity of Jatropha curcas assessed by ISSR.

PubMed

Díaz, B G; Argollo, D M; Franco, M C; Nucci, S M; Siqueira, W J; de Laat, D M; Colombo, C A

2017-05-31

Jatropha curcas L. is a highly promising oilseed for sustainable production of biofuels and bio-kerosene due to its high oil content and excellent quality. However, it is a perennial and incipiently domesticated species with none stable cultivar created until now despite genetic breeding programs in progress in several countries. Knowledge of the genetic structure and diversity of the species is a necessary step for breeding programs. The molecular marker can be used as a tool for speed up the process. This study was carried out to assess genetic diversity of a germplasm bank represented by J. curcas accessions from different provenance beside interspecific hybrid and backcrosses generated by IAC breeding programs using inter-simple sequence repeat markers. The molecular study revealed 271 bands of which 98.9% were polymorphic with an average of 22.7 polymorphic bands per primer. Genetic diversity of the germplasm evaluated was slightly higher than other germplasm around the world and ranged from 0.55 to 0.86 with an average of 0.59 (Jaccard index). Cluster analysis (UPGMA) revealed no clear grouping as to the geographical origin of accessions, consistent with genetic structure analysis using the Structure software. For diversity analysis between groups, accessions were divided into eight groups by origin. Nei's genetic distance between groups was 0.14. The results showed the importance of Mexican accessions, congeneric wild species, and interspecific hybrids for conservation and development of new genotypes in breeding programs.

Genetic characterization of Bombyx mori (Lepidoptera: Bombycidae) breeding and hybrid lines with different geographic origins.

PubMed

Furdui, Emilia M; Mărghitaş, Liviu A; Dezmirean, Daniel S; Paşca, Ioan; Pop, Iulia F; Erler, Silvio; Schlüns, Ellen A

2014-01-01

The domesticated silkworm Bombyx mori L. comprises a large number of geographical breeds and hybrid lines. Knowing the genetic structure of those may provide information to improve the conservation of commercial lines by estimating inbreeding over generations and the consequences of excessive use of those lineages. Here, we analyzed the genetic diversity of seven breeds and eight hybrid lines from Eastern Europe and Asia using highly polymorphic microsatellites markers to determine its genetical impact on their use in global breeding programs. No consistent pattern of deviation from Hardy-Weinberg equilibrium was found for most breed and hybrids; and the absence of a linkage disequilibrium also suggests that the strains are in equilibrium. A principal coordinate analysis revealed a clear separation of two silkworm breeds from the rest: one (IBV) originated from India and the other one (RG90) from Romania/Japan. The tendency of the other breeds from different geographic origins to cluster together in a general mix might be due to similar selection pressures (climate and anthropogenic factors) in different geographic locations. Phylogenetic analyses grouped the different silkworm breeds but not the hybrids according to their geographic origin and confirmed the pattern found in the principal coordinate analysis. © The Author 2014. Published by Oxford University Press on behalf of the Entomological Society of America.

Genetic Characterization of Bombyx mori (Lepidoptera: Bombycidae) Breeding and Hybrid Lines With Different Geographic Origins

PubMed Central

Furdui, Emilia M.; Mărghitaş, Liviu A.; Dezmirean, Daniel S.; Paşca, Ioan; Pop, Iulia F.; Erler, Silvio; Schlüns, Ellen A.

2014-01-01

Abstract The domesticated silkworm Bombyx mori L. comprises a large number of geographical breeds and hybrid lines. Knowing the genetic structure of those may provide information to improve the conservation of commercial lines by estimating inbreeding over generations and the consequences of excessive use of those lineages. Here, we analyzed the genetic diversity of seven breeds and eight hybrid lines from Eastern Europe and Asia using highly polymorphic microsatellites markers to determine its genetical impact on their use in global breeding programs. No consistent pattern of deviation from Hardy–Weinberg equilibrium was found for most breed and hybrids; and the absence of a linkage disequilibrium also suggests that the strains are in equilibrium. A principal coordinate analysis revealed a clear separation of two silkworm breeds from the rest: one (IBV) originated from India and the other one (RG 90 ) from Romania/Japan. The tendency of the other breeds from different geographic origins to cluster together in a general mix might be due to similar selection pressures (climate and anthropogenic factors) in different geographic locations. Phylogenetic analyses grouped the different silkworm breeds but not the hybrids according to their geographic origin and confirmed the pattern found in the principal coordinate analysis. PMID:25502023

Genetic analysis of the Hungarian draft horse population using partial mitochondrial DNA D-loop sequencing

PubMed Central

2018-01-01

Background The Hungarian draft is a horse breed with a recent mixed ancestry created in the 1920s by crossing local mares with draught horses imported from France and Belgium. The interest in its conservation and characterization has increased over the last few years. The aim of this work is to contribute to the characterization of the endangered Hungarian heavy draft horse populations in order to obtain useful information to implement conservation strategies for these genetic stocks. Methods To genetically characterize the breed and to set up the basis for a conservation program, in the present study a hypervariable region of the mitochrondial DNA (D-loop) was used to assess genetic diversity in Hungarian draft horses. Two hundred and eighty five sequences obtained in our laboratory and 419 downloaded sequences available from Genbank were analyzed. Results One hundred and sixty-four haplotypes and thirty-six polymorphic sites were observed. High haplotype and nucleotide diversity values (Hd = 0.954 ± 0.004; π = 0.028 ± 0.0004) were identified in Hungarian population, although they were higher within than among the different populations (Hd = 0.972 ± 0.002; π = 0.03097 ± 0.002). Fourteen of the previously observed seventeen haplogroups were detected. Discussion Our samples showed a large intra- and interbreed variation. There was no clear clustering on the median joining network figure. The overall information collected in this work led us to consider that the genetic scenario observed for Hungarian draft breed is more likely the result of contributions from ‘ancestrally’ different genetic backgrounds. This study could contribute to the development of a breeding plan for Hungarian draft horses and help to formulate a genetic conservation plan, avoiding inbreeding while. PMID:29404201

Machine Learning Model Analysis of Breeding Habitats for the Black-necked Crane in Central Asian Uplands under Anthropogenic Pressures.

PubMed

Han, Xuesong; Guo, Yumin; Mi, Chunrong; Huettmann, Falk; Wen, Lijia

2017-07-21

The black-necked crane (Grus nigricollis) is the only alpine crane species and is endemic to the Tibetan Plateau. The breeding habitats of this species are poorly understood, which greatly hampers practical research and conservation work. Using machine learning methods and the best-available data from our 7,000-kilometer mega-transect survey and open access data, we built the first species distribution model (SDM) to analyze the black-necked crane's breeding habitats. Our model showed that current conservation gaps account for 26.7% of its predicted breeding habitats. Specifically, the northern parts of the Hengduan Mountains and the southeastern Tibet Valley, the northern side of the middle Kunlun Mountains, parts of the Pamir Plateau, the northern Pakistan Highlands and the western Hindu Kush should be considered as its main potential breeding areas. Additionally, our model suggested that the crane prefers to breed in alpine meadows at an elevation over 2,800 m, a maximum temperature of the warmest month below 20.5 °C, and a temperature seasonality above 7,800 units. The identified conservation gaps and potential breeding areas can aid in clearly prioritizing future conservation and research, but more attention and study should be directed to the unassessed Western Development of China to secure this endangered crane lineage and other wildlife on the Tibetan Plateau.

Impact of Supplementary Feeding on Reproductive Success of White Storks

PubMed Central

Hilgartner, Roland; Stahl, Daniel; Zinner, Dietmar

2014-01-01

European white stork (Ciconia ciconia) populations have been object to several conservation measures such as reintroduction programs, habitat improvement or supplementary feeding in the last decades. Although recent white stork censuses revealed an upward trend of most of the western populations, evaluations of the relative importance of certain conservation measures are still scarce or even lacking. In our study we analyzed the effect of supplementary feeding on the reproductive success of white storks in conjunction with other factors such as weather or nest site characteristics. We present data of 569 breeding events at 80 different nest sites located in variable distances to an artificial feeding site at Affenberg Salem (south-western Germany) collected from 1990–2012. A multilevel Poisson regression revealed that in our study population (1) reproductive success was negatively affected by monthly precipitation in April, May and June, (2) pairs breeding on power poles had a lower reproductive success than pairs breeding on platforms or trees and (3) reproductive success was significantly higher in pairs breeding in close distance to the feeding site. The number of fledglings per nest decreased by 8% per kilometer distance to the feeding site. Our data suggest that supplementary feeding increases fledgling populations which may be a tool to attenuate population losses caused by factors such as habitat deterioration or unfavorable conditions in wintering habitats. PMID:25119566

Effects of wildlife forestry on abundance of breeding birds in bottomland hardwood forests of Louisiana

USGS Publications Warehouse

Norris, Jennifer L.; Chamberlain, Michael J.; Twedt, Daniel J.

2009-01-01

Effects of silvicultural activities on birds are of increasing interest because of documented national declines in breeding bird populations for some species and the potential that these declines are in part due to changes in forest habitat. Silviculturally induced disturbances have been advocated as a means to achieve suitable forest conditions for priority wildlife species in bottomland hardwood forests. We evaluated how silvicultural activities on conservation lands in bottomland hardwood forests of Louisiana, USA, influenced species-specific densities of breeding birds. Our data were from independent studies, which used standardized point-count surveys for breeding birds in 124 bottomland hardwood forest stands on 12 management areas. We used Program DISTANCE 5.0, Release 2.0 (Thomas et al. 2006) to estimate density for 43 species with > 50 detections. For 36 of those species we compared density estimates among harvest regimes (individual selection, group selection, extensive harvest, and no harvest). We observed 10 species with similar densities in those harvest regimes compared with densities in stands not harvested. However, we observed 10 species that were negatively impacted by harvest with greater densities in stands not harvested, 9 species with greater densities in individual selection stands, 4 species with greater densities in group selection stands, and 4 species with greater densities in stands receiving an extensive harvest (e.g., > 40% canopy removal). Differences in intensity of harvest influenced densities of breeding birds. Moreover, community-wide avian conservation values of stands subjected to individual and group selection, and stands not harvested, were similar to each other and greater than that of stands subjected to extensive harvest that removed > 40% canopy cover. These results have implications for managers estimating breeding bird populations, in addition to predicting changes in bird communities as a result of prescribed and future forest management practices.

Long-term spatial heterogeneity in mallard distribution in the Prairie pothole region

USGS Publications Warehouse

Janke, Adam K.; Anteau, Michael J.; Stafford, Joshua D.

2017-01-01

The Prairie Pothole Region (PPR) of north-central United States and south-central Canada supports greater than half of all breeding mallards (Anas platyrhynchos) annually counted in North America and is the focus of widespread conservation and research efforts. Allocation of conservation resources for this socioeconomically important population would benefit from an understanding of the nature of spatiotemporal variation in distribution of breeding mallards throughout the 850,000 km2 landscape. We used mallard counts from the Waterfowl Breeding Population and Habitat Survey to test for spatial heterogeneity and identify high- and low-abundance regions of breeding mallards over a 50-year time series. We found strong annual spatial heterogeneity in all years: 90% of mallards counted annually were on an average of only 15% of surveyed segments. Using a local indicator of spatial autocorrelation, we found a relatively static distribution of low-count clusters in northern Montana, USA, and southern Alberta, Canada, and a dynamic distribution of high-count clusters throughout the study period. Distribution of high-count clusters shifted southeast from northwestern portions of the PPR in Alberta and western Saskatchewan, Canada, to North and South Dakota, USA, during the latter half of the study period. This spatial redistribution of core mallard breeding populations was likely driven by interactions between environmental variation that created favorable hydrological conditions for wetlands in the eastern PPR and dynamic land-use patterns related to upland cropping practices and government land-retirement programs. Our results highlight an opportunity for prioritizing relatively small regions within the PPR for allocation of wetland and grassland conservation for mallard populations. However, the extensive spatial heterogeneity in core distributions over our study period suggests such spatial prioritization will have to overcome challenges presented by dynamic land-use and climate patterns in the region, and thus merits additional monitoring and empirical research to anticipate future population distribution. Published 2017. This article is a U.S. Government work and is in the public domain in the USA.

Conserving and managing the trees of the future: genetic resources for Pacific Northwest forests.

Treesearch

Sally Duncan

2003-01-01

Genetic resource management has historically called for altering the genetic structure of plant populations through selection for traits of interest such as rapid growth. Although this is still a principal component of tree breeding programs in the Pacific Northwest, managing genetic resources now also brings a clear focus on retaining a broad diversity within and...

Professionalization and the Null Curriculum: The Case of the Popular Eugenics Movement and American Educational Studies.

ERIC Educational Resources Information Center

Selden, Steven

1987-01-01

Presents an essay review of three recent books on eugenics, a once popular quasiscientific and politically conservative social movement devoted to the improvement of humankind through programs of selective breeding and marriage restriction. States that educators must study and come to grips with the meaning of this movement in order to appreciate…

Genetic improvement of shortleaf pine on the Mark Twain, Ouachita, and Ozark National Forests

Treesearch

Charly Studyvin; David Gwaze

2007-01-01

A genetic conservation and breeding program for shortleaf pine (Pinus echinata Mill.) was initiated in the 1960s by the Mark Twain National Forest in Missouri. Superior trees were selected from natural stands throughout the Forest. Fifty of the top-ranked superior trees were grafted into a first generation seed orchard at the Ouachita National Forest...

Reptile Perinatology.

PubMed

Keller, Krista A

2017-05-01

Reptile perinatology refers to the time period surrounding hatching for oviparous species, and immediately after birth for viviparous species. Veterinarians working in myriad conservation and breeding programs require knowledge in this area. This article reviews anatomy and physiology of the amniotic egg, the basics of artificial incubation, when manual pipping is indicated, and basic medicine of the reptile hatchling or neonate. Copyright © 2016 Elsevier Inc. All rights reserved.

The use of SWOT analysis to explore and prioritize conservation and development strategies for local cattle breeds.

PubMed

Martín-Collado, D; Díaz, C; Mäki-Tanila, A; Colinet, F; Duclos, D; Hiemstra, S J; Gandini, G

2013-06-01

SWOT (Strengths, Weaknesses, Opportunities and Threats) analysis is a tool widely used to help in decision making in complex systems. It suits to exploring the issues and measures related to the conservation and development of local breeds, as it allows the integration of many driving factors influencing breed dynamics. We developed a quantified SWOT method as a decision-making tool for identification and ranking of conservation and development strategies of local breeds, and applied it to a set of 13 cattle breeds of six European countries. The method has four steps: definition of the system, identification and grouping of the driving factors, quantification of the importance of driving factors and identification and prioritization of the strategies. The factors were determined following a multi-stakeholder approach and grouped with a three-level structure. Animal genetic resources expert groups ranked the factors, and a quantification process was implemented to identify and prioritize strategies. The proposed SWOT methodology allows analyzing the dynamics of local cattle breeds in a structured and systematic way. It is a flexible tool developed to assist different stakeholders in defining the strategies and actions. The quantification process allows the comparison of the driving factors and the prioritization of the strategies for the conservation and development of local cattle breeds. We identified 99 factors across the breeds. Although the situation is very heterogeneous, the future of these breeds may be promising. The most important strengths and weaknesses were related to production systems and farmers. The most important opportunities were found in marketing new products, whereas the most relevant threats were found in selling the current products. The across-breed strategies utility decreased as they gained specificity. Therefore, the strategies at European level should focus on general aspects and be flexible enough to be adapted to the country and breed specificities.

Influence of Old World bluestem (Bothrichloa ischaemum) monocultures on breeding density of three grassland songbirds in Oklahoma

USGS Publications Warehouse

George, Andrew D.; O'Connell, Timothy J.; Hickman, Karen R.; Leslie, David M.

2009-01-01

Despite persistent and widespread declines of grassland birds in North America, few studies have assessed differences between native grasslands and seeded monocultures as songbird habitat. In the Great Plains, many fields enrolled in the Conservation Reserve Program have been seeded to Old World bluestems (OWB), but there is evidence to suggest that OWB may not provide suitable conditions for several grassland bird species. Our objectives were to investigate the influence of OWB monocultures on vegetation structure, composition, and breeding densities of three common grassland bird species. In 2007, we used distance sampling to survey breeding songbirds in 6 native mixed grass prairie and 6 OWB fields in Garfield, Grant, and Alfalfa counties, Oklahoma. Native mixed grass prairie supported taller and denser vegetation, as well as greater forb cover than OWB fields. Breeding density of Grasshopper Sparrow (Ammodramus savannarum) was higher in OWB monocultures, while density of Dickcissel (Spiza americana) and Eastern Meadowlark (Sturnella magna) was similar among field types.

77 FR 41198 - Endangered Species; Marine Mammals; Receipt of Applications for Permit

Federal Register 2010, 2011, 2012, 2013, 2014

2012-07-12

... male and a female mountain tapir (Tapirus pinchaque), which were captive bred at the applicant's... of the species through captive breeding and conservation education. Applicant: Denver Zoological... the survival of the species through captive breeding and conservation education. Applicant: Denver...

The genome-wide structure of two economically important indigenous Sicilian cattle breeds.

PubMed

Mastrangelo, S; Saura, M; Tolone, M; Salces-Ortiz, J; Di Gerlando, R; Bertolini, F; Fontanesi, L; Sardina, M T; Serrano, M; Portolano, B

2014-11-01

Genomic technologies, such as high-throughput genotyping based on SNP arrays, provided background information concerning genome structure in domestic animals. The aim of this work was to investigate the genetic structure, the genome-wide estimates of inbreeding, coancestry, effective population size (Ne), and the patterns of linkage disequilibrium (LD) in 2 economically important Sicilian local cattle breeds, Cinisara (CIN) and Modicana (MOD), using the Illumina Bovine SNP50K v2 BeadChip. To understand the genetic relationship and to place both Sicilian breeds in a global context, genotypes from 134 other domesticated bovid breeds were used. Principal component analysis showed that the Sicilian cattle breeds were closer to individuals of Bos taurus taurus from Eurasia and formed nonoverlapping clusters with other breeds. Between the Sicilian cattle breeds, MOD was the most differentiated, whereas the animals belonging to the CIN breed showed a lower value of assignment, the presence of substructure, and genetic links with the MOD breed. The average molecular inbreeding and coancestry coefficients were moderately high, and the current estimates of Ne were low in both breeds. These values indicated a low genetic variability. Considering levels of LD between adjacent markers, the average r(2) in the MOD breed was comparable to those reported for others cattle breeds, whereas CIN showed a lower value. Therefore, these results support the need of more dense SNP arrays for a high-power association mapping and genomic selection efficiency, particularly for the CIN cattle breed. Controlling molecular inbreeding and coancestry would restrict inbreeding depression, the probability of losing beneficial rare alleles, and therefore the risk of extinction. The results generated from this study have important implications for the development of conservation and/or selection breeding programs in these 2 local cattle breeds.

Recovery of Native Genetic Background in Admixed Populations Using Haplotypes, Phenotypes, and Pedigree Information – Using Cika Cattle as a Case Breed

PubMed Central

Simčič, Mojca; Smetko, Anamarija; Sölkner, Johann; Seichter, Doris; Gorjanc, Gregor; Kompan, Dragomir; Medugorac, Ivica

2015-01-01

The aim of this study was to obtain unbiased estimates of the diversity parameters, the population history, and the degree of admixture in Cika cattle which represents the local admixed breeds at risk of extinction undergoing challenging conservation programs. Genetic analyses were performed on the genome-wide Single Nucleotide Polymorphism (SNP) Illumina Bovine SNP50 array data of 76 Cika animals and 531 animals from 14 reference populations. To obtain unbiased estimates we used short haplotypes spanning four markers instead of single SNPs to avoid an ascertainment bias of the BovineSNP50 array. Genome-wide haplotypes combined with partial pedigree and type trait classification show the potential to improve identification of purebred animals with a low degree of admixture. Phylogenetic analyses demonstrated unique genetic identity of Cika animals. Genetic distance matrix presented by rooted Neighbour-Net suggested long and broad phylogenetic connection between Cika and Pinzgauer. Unsupervised clustering performed by the admixture analysis and two-dimensional presentation of the genetic distances between individuals also suggest Cika is a distinct breed despite being similar in appearance to Pinzgauer. Animals identified as the most purebred could be used as a nucleus for a recovery of the native genetic background in the current admixed population. The results show that local well-adapted strains, which have never been intensively managed and differentiated into specific breeds, exhibit large haplotype diversity. They suggest a conservation and recovery approach that does not rely exclusively on the search for the original native genetic background but rather on the identification and removal of common introgressed haplotypes would be more powerful. Successful implementation of such an approach should be based on combining phenotype, pedigree, and genome-wide haplotype data of the breed of interest and a spectrum of reference breeds which potentially have had direct or indirect historical contribution to the genetic makeup of the breed of interest. PMID:25923207

Genetic diversity and relationships among six local cattle populations in semi-arid areas assessed by a bovine medium-density single nucleotide polymorphism data.

PubMed

Boushaba, N; Boujenane, I; Moazami-Goudarzi, K; Flori, L; Saïdi-Mehtar, N; Tabet-Aoul, N; Laloë, D

2018-06-18

The local cattle populations belonging to the 'Brune de l'Atlas' cattle in Algeria and Morocco are potential resources in terms of genetic diversity and socioeconomic prevalence and their characterization is an essential step in any program designed to conserve genetic diversity. Our objectives were to assess the genetic diversity, the population structure and relationships among four Algerian cattle breeds, the Biskra, Cheurfa, Chelifienne and Guelmoise and of two Moroccan, the Oulmès-Zaër and Tidili by genotyping 50 309 single nucleotide polymorphism in 203 unrelated animals. A low population structure was observed across breeds with pairwise F ST values ranging from 0.008 to 0.043, suggesting a high level of gene flow. These data were combined with the available data on cattle populations representative of Europe (EUT), West African taurine (WAT) and zebu (ZEB). Principle Components Analysis was carried out which revealed that the Maghrebin populations are closer to the EUT/ZEB population than to the WAT. Structure analysis confirmed this mixed origin of the Maghrebin cattle populations. We also detected the influence of zebu breeds in Cheurfa and Guelmoise populations. This study provides the first information about genetic diversity within and between Algerian and Moroccan cattle populations and gives a detailed description of their genetic structure and relationships according to their historical origins. This study revealed that several combined effects contributed to shape the genetic diversity of the six Maghrebin populations studied: (i) gene flow among local breeds, (ii) the recent introgression of European breeds in local Algerian breeds and (iii) the traditional management systems. The results of this study will primarily assist policy makers and livestock keepers to make useful decisions for improvement of genetic resources while ensuring the preservation and conservation of local breeds in Algeria and Morocco.

A global threats overview for Numeniini populations: synthesising expert knowledge for a group of declining migratory birds.

USGS Publications Warehouse

Pearce-Higgins, James W.; Brown, Daniel J.; Douglas, David J.T.; Alves, José A.; Bellio, Mariagrazia; Bocher, Pierrick; Buchannan, Graeme M.; Clay, Robert P.; Conklin, Jesse R.; Crockford, Nicola; Dann, Peter; Elts, Jaanus; Friis, Christian; Fuller, Richard A.; Gill, Jennifer A.; Gosbell, Ken; Johnson, James A.; Marquez-Ferrando, Rocio; Masero, José A.; Melville, David S.; Millington, Spike; Minton, Clive; Mundkur, Taej; Nol, Erika; Pehlak, Hannes; Piersma, Theunis; Rogers, Danny I.; Ruthrauff, Daniel R.; Senner, Nathan R.; Nazeer Shah, Junid; Sheldon, Rob D.; Soloviev, Sergej A.; Tomkovich, Pavel S.; Verkuil, Yvonne I.

2017-01-01

The Numeniini is a tribe of 13 wader species (Scolopacidae, Charadriiformes) of which seven are Near Threatened or globally threatened, including two Critically Endangered. To help inform conservation management and policy responses, we present the results of an expert assessment of the threats that members of this taxonomic group face across migratory flyways. Most threats are increasing in intensity, particularly in non-breeding areas, where habitat loss resulting from residential and commercial development, aquaculture, mining, transport, disturbance, problematic invasive species, pollution and climate change were regarded as having the greatest detrimental impact. Fewer threats (mining, disturbance, problematic native species and climate change) were identified as widely affecting breeding areas. Numeniini populations face the greatest number of non-breeding threats in the East Asian-Australasian Flyway, especially those associated with coastal reclamation; related threats were also identified across the Central and Atlantic Americas, and East Atlantic flyways. Threats on the breeding grounds were greatest in Central and Atlantic Americas, East Atlantic and West Asian flyways. Three priority actions were associated with monitoring and research: to monitor breeding population trends (which for species breeding in remote areas may best be achieved through surveys at key non-breeding sites), to deploy tracking technologies to identify migratory connectivity, and to monitor land-cover change across breeding and non-breeding areas. Two priority actions were focused on conservation and policy responses: to identify and effectively protect key non-breeding sites across all flyways (particularly in the East Asian- Australasian Flyway), and to implement successful conservation interventions at a sufficient scale across human-dominated landscapes for species' recovery to be achieved. If implemented urgently, these measures in combination have the potential to alter the current population declines of many Numeniini species and provide a template for the conservation of other groups of threatened species.

Genetic structure, relationships and admixture with wild relatives in native pig breeds from Iberia and its islands.

PubMed

Gama, Luis T; Martínez, Amparo M; Carolino, Inês; Landi, Vincenzo; Delgado, Juan V; Vicente, Antonio A; Vega-Pla, José L; Cortés, Oscar; Sousa, Conceição O

2013-06-14

Native pig breeds in the Iberian Peninsula are broadly classified as belonging to either the Celtic or the Mediterranean breed groups, but there are other local populations that do not fit into any of these groups. Most of the native pig breeds in Iberia are in danger of extinction, and the assessment of their genetic diversity and population structure, relationships and possible admixture between breeds, and the appraisal of conservation alternatives are crucial to adopt appropriate management strategies. A panel of 24 microsatellite markers was used to genotype 844 animals representing the 17 most important native swine breeds and wild populations existing in Portugal and Spain and various statistical tools were applied to analyze the results. Genetic diversity was high in the breeds studied, with an overall mean of 13.6 alleles per locus and an average expected heterozygosity of 0.80. Signs of genetic bottlenecks were observed in breeds with a small census size, and population substructure was present in some of the breeds with larger census sizes. Variability among breeds accounted for about 20% of the total genetic diversity, and was explained mostly by differences among the Celtic, Mediterranean and Basque breed groups, rather than by differences between domestic and wild pigs. Breeds clustered closely according to group, and proximity was detected between wild pigs and the Mediterranean cluster of breeds. Most breeds had their own structure and identity, with very little evidence of admixture, except for the Retinto and Entrepelado varieties of the Mediterranean group, which are very similar. Genetic influence of the identified breed clusters extends beyond the specific geographical areas across borders throughout the Iberian Peninsula, with a very sharp transition from one breed group to another. Analysis of conservation priorities confirms that the ranking of a breed for conservation depends on the emphasis placed on its contribution to the between- and within-breed components of genetic diversity. Native pig breeds in Iberia reveal high levels of genetic diversity, a solid breed structure and a clear organization in well-defined clusters.

Novel optimum contribution selection methods accounting for conflicting objectives in breeding programs for livestock breeds with historical migration.

PubMed

Wang, Yu; Bennewitz, Jörn; Wellmann, Robin

2017-05-12

Optimum contribution selection (OCS) is effective for increasing genetic gain, controlling the rate of inbreeding and enables maintenance of genetic diversity. However, this diversity may be caused by high migrant contributions (MC) in the population due to introgression of genetic material from other breeds, which can threaten the conservation of small local populations. Therefore, breeding objectives should not only focus on increasing genetic gains but also on maintaining genetic originality and diversity of native alleles. This study aimed at investigating whether OCS was improved by including MC and modified kinships that account for breed origin of alleles. Three objective functions were considered for minimizing kinship, minimizing MC and maximizing genetic gain in the offspring generation, and we investigated their effects on German Angler and Vorderwald cattle. In most scenarios, the results were similar for Angler and Vorderwald cattle. A significant positive correlation between MC and estimated breeding values of the selection candidates was observed for both breeds, thus traditional OCS would increase MC. Optimization was performed under the condition that the rate of inbreeding did not exceed 1% and at least 30% of the maximum progress was achieved for all other criteria. Although traditional OCS provided the highest breeding values under restriction of classical kinship, the magnitude of MC in the progeny generation was not controlled. When MC were constrained or minimized, the kinship at native alleles increased compared to the reference scenario. Thus, in addition to constraining MC, constraining kinship at native alleles is required to ensure that native genetic diversity is maintained. When kinship at native alleles was constrained, the classical kinship was automatically lowered in most cases and more sires were selected. However, the average breeding value in the next generation was also lower than that obtained with traditional OCS. For local breeds with historical introgressions, current breeding programs should focus on increasing genetic gain and controlling inbreeding, as well as maintaining the genetic originality of the breeds and the diversity of native alleles via the inclusion of MC and kinship at native alleles in the OCS process.

Workshop: Western hemisphere network of bird banding programs

USGS Publications Warehouse

Celis-Murillo, A.

2007-01-01

Purpose: To promote collaboration among banding programs in the Americas. Introduction: Bird banding and marking provide indispensable tools for ornithological research, management, and conservation of migratory birds on migratory routes, breeding and non-breeding grounds. Many countries and organizations in Latin America and the Caribbean are in the process of developing or have expressed interest in developing national banding schemes and databases to support their research and management programs. Coordination of developing and existing banding programs is essential for effective data management, reporting, archiving and security, and most importantly, for gaining a fuller understanding of migratory bird conservation issues and how the banding data can help. Currently, there is a well established bird-banding program in the U.S.A. and Canada, and programs in other countries are being developed as well. Ornithologists in many Latin American countries and the Caribbean are interested in using banding and marking in their research programs. Many in the ornithological community are interested in establishing banding schemes and some countries have recently initiated independent banding programs. With the number of long term collaborative and international initiatives increasing, the time is ripe to discuss and explore opportunities for international collaboration, coordination, and administration of bird banding programs in the Western Hemisphere. We propose the second ?Western Hemisphere Network of Bird Banding Programs? workshop, in association with the SCSCB, to be an essential step in the progress to strengthen international partnerships and support migratory bird conservation in the Americas and beyond. This will be the second multi-national meeting to promote collaboration among banding programs in the Americas (the first meeting was held in October 8-9, 2006 in La Mancha, Veracruz, Mexico). The Second ?Western Hemisphere Network of Bird Banding Programs? workshop will continue addressing issues surrounding the coordination of an Americas? approach to bird banding and will review in detail the advances made on the first workshop such as, coordination of bands and markers, coordination in recovery reporting, permit issues, data management and data sharing and archiving, data security, training, etc. Workshop Goals: Build on accomplishments of the network?s first workshop (Oct 8-9, 2006). Identify and explore new opportunities for data sharing, data archiving, data access, training, etc. Initiate strategies to support international collaboration and coordination amongst bird banding programs in the Western Hemisphere. Workshop structure: One day workshop of guided discussions. Participants: Representatives of government agencies, program managers and NGOs.

Conservation Genetics of Threatened Hippocampus guttulatus in Vulnerable Habitats in NW Spain: Temporal and Spatial Stability of Wild Populations with Flexible Polygamous Mating System in Captivity

PubMed Central

López, Almudena; Vera, Manuel; Planas, Miquel; Bouza, Carmen

2015-01-01

This study was focused on conservation genetics of threatened Hippocampus guttulatus on the Atlantic coast of NW Iberian Peninsula. Information about spatial structure and temporal stability of wild populations was obtained based on microsatellite markers, and used for monitoring a captive breeding program firstly initiated in this zone at the facilities of the Institute of Marine Research (Vigo, Spain). No significant major genetic structure was observed regarding the biogeographical barrier of Cape Finisterre. However, two management units under continuous gene flow are proposed based on the allelic differentiation between South-Atlantic and Cantabrian subpopulations, with small to moderate contemporary effective size based on single-sample methods. Temporal stability was observed in South-Atlantic population samples of H. guttulatus for the six-year period studied, suggesting large enough effective population size to buffer the effects of genetic drift within the time frame of three generations. Genetic analysis of wild breeders and offspring in captivity since 2009 allowed us to monitor the breeding program founded in 2006 in NW Spain for this species. Similar genetic diversity in the renewed and founder broodstock, regarding the wild population of origin, supports suitable renewal and rearing processes to maintain genetic variation in captivity. Genetic parentage proved single-brood monogamy in the wild and in captivity, but flexible short- and long-term mating system under captive conditions, from strict monogamy to polygamy within and/or among breeding seasons. Family analysis showed high reproductive success in captivity under genetic management assisted by molecular relatedness estimates to avoid inbreeding. This study provides genetic information about H. guttulatus in the wild and captivity within an uncovered geographical range for this data deficient species, to be taken into account for management and conservation purposes. PMID:25646777

50 CFR 15.42 - List of foreign qualifying breeding facilities. [Reserved

Code of Federal Regulations, 2010 CFR

2010-10-01

... IMPORTATION OF WILDLIFE AND PLANTS WILD BIRD CONSERVATION ACT Qualifying Facilities Breeding Exotic Birds in Captivity § 15.42 List of foreign qualifying breeding facilities. [Reserved] ... 50 Wildlife and Fisheries 1 2010-10-01 2010-10-01 false List of foreign qualifying breeding...

50 CFR 15.42 - List of foreign qualifying breeding facilities. [Reserved

Code of Federal Regulations, 2011 CFR

2011-10-01

... IMPORTATION OF WILDLIFE AND PLANTS WILD BIRD CONSERVATION ACT Qualifying Facilities Breeding Exotic Birds in Captivity § 15.42 List of foreign qualifying breeding facilities. [Reserved] ... 50 Wildlife and Fisheries 1 2011-10-01 2011-10-01 false List of foreign qualifying breeding...

50 CFR 15.42 - List of foreign qualifying breeding facilities. [Reserved

Code of Federal Regulations, 2012 CFR

2012-10-01

... IMPORTATION OF WILDLIFE AND PLANTS WILD BIRD CONSERVATION ACT Qualifying Facilities Breeding Exotic Birds in Captivity § 15.42 List of foreign qualifying breeding facilities. [Reserved] ... 50 Wildlife and Fisheries 1 2012-10-01 2012-10-01 false List of foreign qualifying breeding...

50 CFR 15.42 - List of foreign qualifying breeding facilities. [Reserved

Code of Federal Regulations, 2013 CFR

2013-10-01

... IMPORTATION OF WILDLIFE AND PLANTS WILD BIRD CONSERVATION ACT Qualifying Facilities Breeding Exotic Birds in Captivity § 15.42 List of foreign qualifying breeding facilities. [Reserved] ... 50 Wildlife and Fisheries 1 2013-10-01 2013-10-01 false List of foreign qualifying breeding...

50 CFR 15.42 - List of foreign qualifying breeding facilities. [Reserved

Code of Federal Regulations, 2014 CFR

2014-10-01

... IMPORTATION OF WILDLIFE AND PLANTS WILD BIRD CONSERVATION ACT Qualifying Facilities Breeding Exotic Birds in Captivity § 15.42 List of foreign qualifying breeding facilities. [Reserved] ... 50 Wildlife and Fisheries 1 2014-10-01 2014-10-01 false List of foreign qualifying breeding...

Ecogeography and utility to plant breeding of the crop wild relatives of sunflower (Helianthus annuus L.)

PubMed Central

Kantar, Michael B.; Sosa, Chrystian C.; Khoury, Colin K.; Castañeda-Álvarez, Nora P.; Achicanoy, Harold A.; Bernau, Vivian; Kane, Nolan C.; Marek, Laura; Seiler, Gerald; Rieseberg, Loren H.

2015-01-01

Crop wild relatives (CWR) are a rich source of genetic diversity for crop improvement. Combining ecogeographic and phylogenetic techniques can inform both conservation and breeding. Geographic occurrence, bioclimatic, and biophysical data were used to predict species distributions, range overlap and niche occupancy in 36 taxa closely related to sunflower (Helianthus annuus L.). Taxa lacking comprehensive ex situ conservation were identified. The predicted distributions for 36 Helianthus taxa identified substantial range overlap, range asymmetry and niche conservatism. Specific taxa (e.g., Helianthus deblis Nutt., Helianthus anomalus Blake, and Helianthus divaricatus L.) were identified as targets for traits of interest, particularly for abiotic stress tolerance, and adaptation to extreme soil properties. The combination of techniques demonstrates the potential for publicly available ecogeographic and phylogenetic data to facilitate the identification of possible sources of abiotic stress traits for plant breeding programs. Much of the primary genepool (wild H. annuus) occurs in extreme environments indicating that introgression of targeted traits may be relatively straightforward. Sister taxa in Helianthus have greater range overlap than more distantly related taxa within the genus. This adds to a growing body of literature suggesting that in plants (unlike some animal groups), geographic isolation may not be necessary for speciation. PMID:26500675

Ecogeography and utility to plant breeding of the crop wild relatives of sunflower (Helianthus annuus L.).

PubMed

Kantar, Michael B; Sosa, Chrystian C; Khoury, Colin K; Castañeda-Álvarez, Nora P; Achicanoy, Harold A; Bernau, Vivian; Kane, Nolan C; Marek, Laura; Seiler, Gerald; Rieseberg, Loren H

2015-01-01

Crop wild relatives (CWR) are a rich source of genetic diversity for crop improvement. Combining ecogeographic and phylogenetic techniques can inform both conservation and breeding. Geographic occurrence, bioclimatic, and biophysical data were used to predict species distributions, range overlap and niche occupancy in 36 taxa closely related to sunflower (Helianthus annuus L.). Taxa lacking comprehensive ex situ conservation were identified. The predicted distributions for 36 Helianthus taxa identified substantial range overlap, range asymmetry and niche conservatism. Specific taxa (e.g., Helianthus deblis Nutt., Helianthus anomalus Blake, and Helianthus divaricatus L.) were identified as targets for traits of interest, particularly for abiotic stress tolerance, and adaptation to extreme soil properties. The combination of techniques demonstrates the potential for publicly available ecogeographic and phylogenetic data to facilitate the identification of possible sources of abiotic stress traits for plant breeding programs. Much of the primary genepool (wild H. annuus) occurs in extreme environments indicating that introgression of targeted traits may be relatively straightforward. Sister taxa in Helianthus have greater range overlap than more distantly related taxa within the genus. This adds to a growing body of literature suggesting that in plants (unlike some animal groups), geographic isolation may not be necessary for speciation.

Breeding of White-tailed Tropicbirds (Phaethon lepturus) in the western South Atlantic.

PubMed

Leal, G R; Serafini, P P; Simão-Neto, I; Ladle, R J; Efe, M A

2016-04-19

Basic information on natural history is crucial for assessing the viability of populations, but is often lacking for many species of conservation concern. One such species is the White-tailed Tropicbird, Phaethon lepturus (Mathews, 1915). Here, we address this shortfall by providing detailed information on reproductive biology, distribution and threats on the Fernando de Noronha archipelago, Brazil - the largest colony of P. lepturus in the South Atlantic. We assessed reproduction from August 2011 to January 2012 by monitoring tropicbird nests and their contents. A population estimate was obtained through a combination of active searches for nests and by census at sea between 2010 and 2012. Breeding success was calculated by traditional methods. The growth curve of chicks and life table were also calculated. Additional information on nest and mate fidelity and on age of breeding birds was obtained from the banded birds. Our results indicate that the unusual nest form (limestone pinnacles) and predation by crabs may be responsible for the observed patterns of hatching and fledging success. Although the Fernando de Noronha population appears to be stable (at between 100-300 birds), a long term monitoring program would be desirable to assess fluctuations in this globally important population. Conservation strategies should focus on controlling predation by land crabs and tegu lizards.

A Novel Non-Invasive Selection Criterion for the Preservation of Primitive Dutch Konik Horses

PubMed Central

May-Davis, Sharon; Shorter, Kathleen; Vermeulen, Zefanja; Butler, Raquel; Koekkoek, Marianne

2018-01-01

The Dutch Konik is valued from a genetic conservation perspective and also for its role in preservation of natural landscapes. The primary management objective for the captive breeding of this primitive horse is to maintain its genetic purity, whilst also maintaining the nature reserves on which they graze. Breeding selection has traditionally been based on phenotypic characteristics consistent with the breed description, and the selection of animals for removal from the breeding program is problematic at times due to high uniformity within the breed, particularly in height at the wither, colour (mouse to grey dun) and presence of primitive markings. With the objective of identifying an additional non-invasive selection criterion with potential uniqueness to the Dutch Konik, this study investigates the anatomic parameters of the distal equine limb, with a specific focus on the relative lengths of the individual splint bones. Post-mortem dissections performed on distal limbs of Dutch Konik (n = 47) and modern domesticated horses (n = 120) revealed significant differences in relation to the length and symmetry of the 2nd and 4th Metacarpals and Metatarsals. Distal limb characteristics with apparent uniqueness to the Dutch Konik are described which could be an important tool in the selection and preservation of the breed. PMID:29389896

A Novel Non-Invasive Selection Criterion for the Preservation of Primitive Dutch Konik Horses.

PubMed

May-Davis, Sharon; Brown, Wendy Y; Shorter, Kathleen; Vermeulen, Zefanja; Butler, Raquel; Koekkoek, Marianne

2018-02-01

The Dutch Konik is valued from a genetic conservation perspective and also for its role in preservation of natural landscapes. The primary management objective for the captive breeding of this primitive horse is to maintain its genetic purity, whilst also maintaining the nature reserves on which they graze. Breeding selection has traditionally been based on phenotypic characteristics consistent with the breed description, and the selection of animals for removal from the breeding program is problematic at times due to high uniformity within the breed, particularly in height at the wither, colour (mouse to grey dun) and presence of primitive markings. With the objective of identifying an additional non-invasive selection criterion with potential uniqueness to the Dutch Konik, this study investigates the anatomic parameters of the distal equine limb, with a specific focus on the relative lengths of the individual splint bones. Post-mortem dissections performed on distal limbs of Dutch Konik ( n = 47) and modern domesticated horses ( n = 120) revealed significant differences in relation to the length and symmetry of the 2nd and 4th Metacarpals and Metatarsals. Distal limb characteristics with apparent uniqueness to the Dutch Konik are described which could be an important tool in the selection and preservation of the breed.

Vocal activity as a low cost and scalable index of seabird colony size

USGS Publications Warehouse

Borker, Abraham L.; McKown, Matthew W.; Ackerman, Joshua T.; Eagles-Smith, Collin A.; Tershy, Bernie R.; Croll, Donald A.

2014-01-01

Although wildlife conservation actions have increased globally in number and complexity, the lack of scalable, cost-effective monitoring methods limits adaptive management and the evaluation of conservation efficacy. Automated sensors and computer-aided analyses provide a scalable and increasingly cost-effective tool for conservation monitoring. A key assumption of automated acoustic monitoring of birds is that measures of acoustic activity at colony sites are correlated with the relative abundance of nesting birds. We tested this assumption for nesting Forster's terns (Sterna forsteri) in San Francisco Bay for 2 breeding seasons. Sensors recorded ambient sound at 7 colonies that had 15–111 nests in 2009 and 2010. Colonies were spaced at least 250 m apart and ranged from 36 to 2,571 m2. We used spectrogram cross-correlation to automate the detection of tern calls from recordings. We calculated mean seasonal call rate and compared it with mean active nest count at each colony. Acoustic activity explained 71% of the variation in nest abundance between breeding sites and 88% of the change in colony size between years. These results validate a primary assumption of acoustic indices; that is, for terns, acoustic activity is correlated to relative abundance, a fundamental step toward designing rigorous and scalable acoustic monitoring programs to measure the effectiveness of conservation actions for colonial birds and other acoustically active wildlife.

Genomic diversity and population structure of three autochthonous Greek sheep breeds assessed with genome-wide DNA arrays.

PubMed

Michailidou, S; Tsangaris, G; Fthenakis, G C; Tzora, A; Skoufos, I; Karkabounas, S C; Banos, G; Argiriou, A; Arsenos, G

2018-06-01

In the present study, genome-wide genotyping was applied to characterize the genetic diversity and population structure of three autochthonous Greek breeds: Boutsko, Karagouniko and Chios. Dairy sheep are among the most significant livestock species in Greece numbering approximately 9 million animals which are characterized by large phenotypic variation and reared under various farming systems. A total of 96 animals were genotyped with the Illumina's OvineSNP50K microarray beadchip, to study the population structure of the breeds and develop a specialized panel of single-nucleotide polymorphisms (SNPs), which could distinguish one breed from the others. Quality control on the dataset resulted in 46,125 SNPs, which were used to evaluate the genetic structure of the breeds. Population structure was assessed through principal component analysis (PCA) and admixture analysis, whereas inbreeding was estimated based on runs of homozygosity (ROHs) coefficients, genomic relationship matrix inbreeding coefficients (F GRM ) and patterns of linkage disequilibrium (LD). Associations between SNPs and breeds were analyzed with different inheritance models, to identify SNPs that distinguish among the breeds. Results showed high levels of genetic heterogeneity in the three breeds. Genetic distances among breeds were modest, despite their different ancestries. Chios and Karagouniko breeds were more genetically related to each other compared to Boutsko. Analysis revealed 3802 candidate SNPs that can be used to identify two-breed crosses and purebred animals. The present study provides, for the first time, data on the genetic background of three Greek indigenous dairy sheep breeds as well as a specialized marker panel that can be applied for traceability purposes as well as targeted genetic improvement schemes and conservation programs.

Multivariate analysis in a genetic divergence study of Psidium guajava.

PubMed

Nogueira, A M; Ferreira, M F S; Guilhen, J H S; Ferreira, A

2014-12-18

The family Myrtaceae is widespread in the Atlantic Forest and is well-represented in the Espírito Santo State in Brazil. In the genus Psidium of this family, guava (Psidium guajava L.) is the most economically important species. Guava is widely cultivated in tropical and subtropical countries; however, the widespread cultivation of only a small number of guava tree cultivars may cause the genetic vulnerability of this crop, making the search for promising genotypes in natural populations important for breeding programs and conservation. In this study, the genetic diversity of 66 guava trees sampled in the southern region of Espírito Santo and in Caparaó, MG, Brazil were evaluated. A total of 28 morphological descriptors (11 quantitative and 17 multicategorical) and 18 microsatellite markers were used. Principal component, discriminant and cluster analyses, descriptive analyses, and genetic diversity analyses using simple sequence repeats were performed. Discrimination of accessions using molecular markers resulted in clustering of genotypes of the same origin, which was not observed using morphological data. Genetic diversity was detected between and within the localities evaluated, regardless of the methodology used. Genetic differentiation among the populations using morphological and molecular data indicated the importance of the study area for species conservation, genetic erosion estimation, and exploitation in breeding programs.

Pedigree and herd characterization of a donkey breed vulnerable to extinction.

PubMed

Quaresma, M; Martins, A M F; Rodrigues, J B; Colaço, J; Payan-Carreira, R

2014-03-01

Most donkey and local horse breeds are vulnerable to extinction as mechanization of agriculture progress throughout the world. The present study analyzed the pedigree and herd records of the donkey Asinina de Miranda breed (RAM), identifying genealogical and human factors that may affect the breed genetic diversity in the future and suggesting suitable strategies to breed preservation, early on the conservation program. The breeding rate was very low, with a ratio of foaling/live animals of 0.23 (178/760). The estimated number of founders and ancestors contributing to the reference population was 128 and 121. The number of founder herds in the reference population was 64, with an effective number of founder herds for the reference population of 7.6. The mean age of herd owners was 65.50 ± 0.884 years, with a negative association among the herd size and owner's age (P<0.001). In contrast, the size of the herd and the ownership of a male were both positively associated (P<0.001) with the herd number of in-born foals. Both the owners' age and the herd location (RAM home region v. dispersal region) were negatively associated with the foaling number (P<0.001). The main identified risk factors were: low breeding rates; low number of males and their unequal contribution to the genetic pool; unequal contribution of the herds to genetic pool; and advanced age of herd owners.

Breed and trait preferences of Sheko cattle keepers in southwestern Ethiopia.

PubMed

Desta, Takele Taye; Ayalew, Workneh; Hegde, B P

2011-04-01

Like their smallholder subsistence counterparts in developing countries, breed and trait preferences of Sheko cattle keepers have broad perspectives. Our study has documented breed and trait preferences of Sheko cattle keepers in southwestern Ethiopia--the natural breeding tract of Sheko cattle. Our results showed that due to their multifunctionality, cattle are the most preferred livestock species. Overall, farmers showed slightly more preference to local Zebus over Sheko breed. This is due to voracious feeding behavior of Sheko cattle, which make them less preferable in the face of worsening feed shortage, and due to aggressive temperament of Sheko cattle. This is despite Sheko's outperforming potential over local Zebus in their milk production, draft power, and hardiness. At trait level, overall milk production was consistently reported as the most preferred trait followed by fertility and traction. This trait preference rank has matched with the reported frequency count ranks for Sheko cattle use. However, breed preference rank has not matched with reported trait preference ranks because Sheko excels local Zebus in all the three most preferred traits, but it was ranked second. Therefore, to minimize these conflicting interests, breed management plans for Sheko cattle should target on strategies that help to solve feed shortage problem and to improve feeding practices, and on selection of less aggressive Sheko cattle. Therefore, these strategies should be considered in line with Sheko cattle conservation and genetic improvement programs.

Bird community response to filter strips in Maryland

USGS Publications Warehouse

Blank, P.J.; Dively, G.P.; Gill, D.E.; Rewa, C.A.

2011-01-01

Filter strips are strips of herbaceous vegetation planted along agricultural field margins adjacent to streams or wetlands and are designed to intercept sediment, nutrients, and agrichemicals. Roughly 16,000 ha of filter strips have been established in Maryland through the United States Department of Agriculture's Conservation Reserve Enhancement Program. Filter strips often represent the only uncultivated herbaceous areas on farmland in Maryland and therefore may be important habitat for early-successional bird species. Most filter strips in Maryland are planted to either native warm-season grasses or cool-season grasses and range in width from 10.7 m to 91.4 m. From 2004 to 2007 we studied the breeding and wintering bird communities in filter strips adjacent to wooded edges and non-buffered field edges and the effect that grass type and width of filter strips had on bird community composition. We used 5 bird community metrics (total bird density, species richness, scrub-shrub bird density, grassland bird density, and total avian conservation value), species-specific densities, nest densities, and nest survival estimates to assess the habitat value of filter strips for birds. Breeding and wintering bird community metrics were greater in filter strips than in non-buffered field edges but did not differ between cool-season and warm-season grass filter strips. Most breeding bird community metrics were negatively related to the percent cover of orchardgrass (Dactylis glomerata) in ???1 yr. Breeding bird density was greater in narrow (60 m) filter strips. Our results suggest that narrow filter strips adjacent to wooded edges can provide habitat for many bird species but that wide filter strips provide better habitat for grassland birds, particularly obligate grassland species. If bird conservation is an objective, avoid planting orchardgrass in filter strips and reduce or eliminate orchardgrass from filter strips through management practices. Copyright ?? 2011 The Wildlife Society.

Conservation of North Pacific shorebirds

USGS Publications Warehouse

Gill, Robert E.; Butler, Robert W.; Tomkovich, Pavel S.; Mundkur, Taej; Handel, Colleen M.

1994-01-01

In his introduction to the 1979 Symposium proceedings entitled “Shorebirds in Marine Environments," Frank Pitelka stressed the need for studies and conservation programs that spanned the western hemisphere (Pitelka 1979). In the 15 years since Pitelka's call to arms, the locations of many important migratory and wintering sites for shorebirds have been identified in the Americas (Senner and Howe 1984, Morrison and Ross 1989, Morrison and Butler 1994) and in the East Asian-Australasian flyway (Lane and Parish 1991, Mundkur 1993, Watkins 1993). However, assessments for Central America, the Russian Far East and most of Oceania remain incomplete or lacking.The recognition that shorebird conservation required the protection of habitats throughout the birds' range (e.g., Morrison 1984, Davidson and Evans 1989 in Ens et al. 1990) prompted the establishment of the Western Hemisphere Shorebird Reserve Network (WHSRN) in the Americas in 1985 (Joyce 1986). This program complemented the 1971 Convention on Wetlands of International Importance Especially for Waterbirds (Ramsar Convention, Smart 1987), recognized by more that 50 countries world-wide.Our purpose for writing this paper is to: (1) describe the distribution of North Pacific shorebirds throughout their annual cycle; (2) review the locations of and threats to important sites used by North Pacific shorebirds during the breeding, migration, and wintering periods, and (3) outline a program for international conservation of Pacific shorebirds.

Monitoring programs need to take into account imperfect species detectability

USGS Publications Warehouse

Kery, M.; Schmid, Hans

2004-01-01

Biodiversiry monitoring is important to identify biological units in need of conservation and to check the effectiveness of conservation actions. Programs generally monitor species richness and its changes (trend). Usually, no correction is made for imperfect species detectability. Instead, it is assumed that each species present has the same probability of being recorded and that there is no difference in this detectability across space and time, e.g. among observers and habitats. Consequently, species richness is determined by enumeration as the sum of species recorded. In Switzerland, the federal government has recently launched a comprehensive program that aims at detecting changes in biodiversity at all levels of biological integration. Birds are an important part of that program. Since 1999, 23 visits per breeding season are made to each of >250 1 km2 squares to map the territories of all detected breeding bird species. Here, we analyse data from three squares to illustrate the use of capture-recapture models in monitoring to obtain detectability-corrected estimates of species richness and trend. Species detectability averaged only 85%. Hence an estimated 15% of species present remained overlooked even after three visits. Within a square, changes in detectability for different years were of the same magnitude when surveys were conducted by the same observer as when they were by different observers. Estimates of trend were usually biased and community turnover was overestimated when based on enumeration. Here we use bird data as an illustration of methods. However, species detectability for any taxon is unlikely ever to be perfect or even constant across categories to be compared. Therefore, monitoring programs should correct for species detectability.

Genetic Diversity of Arabica Coffee (Coffea arabica L.) in Nicaragua as Estimated by Simple Sequence Repeat Markers

PubMed Central

Geleta, Mulatu; Herrera, Isabel; Monzón, Arnulfo; Bryngelsson, Tomas

2012-01-01

Coffea arabica L. (arabica coffee), the only tetraploid species in the genus Coffea, represents the majority of the world's coffee production and has a significant contribution to Nicaragua's economy. The present paper was conducted to determine the genetic diversity of arabica coffee in Nicaragua for its conservation and breeding values. Twenty-six populations that represent eight varieties in Nicaragua were investigated using simple sequence repeat (SSR) markers. A total of 24 alleles were obtained from the 12 loci investigated across 260 individual plants. The total Nei's gene diversity (H T) and the within-population gene diversity (H S) were 0.35 and 0.29, respectively, which is comparable with that previously reported from other countries and regions. Among the varieties, the highest diversity was recorded in the variety Catimor. Analysis of variance (AMOVA) revealed that about 87% of the total genetic variation was found within populations and the remaining 13% differentiate the populations (F ST = 0.13; P < 0.001). The variation among the varieties was also significant. The genetic variation in Nicaraguan coffee is significant enough to be used in the breeding programs, and most of this variation can be conserved through ex situ conservation of a low number of populations from each variety. PMID:22701376

El Grupo Cerúleo: Cooperation for Non-breeding Season Conservation of the Cerulean Warbler

Treesearch

David Mehlman; Paul Hamel

2010-01-01

Without collaboration, conservation is impossible for long-distance migrants such as the Cerulean Warbler, a declining forest breeding bird in North America that overwinters in the Andes Mountains of South America. The Cerulean Warbler, one of the fastest declining woodland birds of eastern North America, is considered Vulnerable by BirdLife international, in the...

Genetic architecture of sex determination in fish: applications to sex ratio control in aquaculture

PubMed Central

Martínez, Paulino; Viñas, Ana M.; Sánchez, Laura; Díaz, Noelia; Ribas, Laia; Piferrer, Francesc

2014-01-01

Controlling the sex ratio is essential in finfish farming. A balanced sex ratio is usually good for broodstock management, since it enables to develop appropriate breeding schemes. However, in some species the production of monosex populations is desirable because the existence of sexual dimorphism, primarily in growth or first time of sexual maturation, but also in color or shape, can render one sex more valuable. The knowledge of the genetic architecture of sex determination (SD) is convenient for controlling sex ratio and for the implementation of breeding programs. Unlike mammals and birds, which show highly conserved master genes that control a conserved genetic network responsible for gonad differentiation (GD), a huge diversity of SD mechanisms has been reported in fish. Despite theory predictions, more than one gene is in many cases involved in fish SD and genetic differences have been observed in the GD network. Environmental factors also play a relevant role and epigenetic mechanisms are becoming increasingly recognized for the establishment and maintenance of the GD pathways. Although major genetic factors are frequently involved in fish SD, these observations strongly suggest that SD in this group resembles a complex trait. Accordingly, the application of quantitative genetics combined with genomic tools is desirable to address its study and in fact, when applied, it has frequently demonstrated a multigene trait interacting with environmental factors in model and cultured fish species. This scenario has notable implications for aquaculture and, depending upon the species, from chromosome manipulation or environmental control techniques up to classical selection or marker assisted selection programs, are being applied. In this review, we selected four relevant species or fish groups to illustrate this diversity and hence the technologies that can be used by the industry for the control of sex ratio: turbot and European sea bass, two reference species of the European aquaculture, and salmonids and tilapia, representing the fish for which there are well established breeding programs. PMID:25324858

AFLP-Based Analysis of Genetic Diversity, Population Structure, and Relationships with Agronomic Traits in Rice Germplasm from North Region of Iran and World Core Germplasm Set.

PubMed

Sorkheh, Karim; Masaeli, Mohammad; Chaleshtori, Maryam Hosseini; Adugna, Asfaw; Ercisli, Sezai

2016-04-01

Analysis of the genetic diversity and population structure of crops is very important for use in breeding programs and for genetic resources conservation. We analyzed the genetic diversity and population structure of 47 rice genotypes from diverse origins using amplified fragment length polymorphism (AFLP) markers and morphological characters. The 47 genotypes, which were composed of four populations: Iranian native varieties, Iranian improved varieties, International Rice Research Institute (IRRI) rice varieties, and world rice collections, were analyzed using ten primer combinations. A total of 221 scorable bands were produced with an average of 22.1 alleles per pair of primers, of which 120 (54.30%) were polymorphic. The polymorphism information content (PIC) values varied from 0.32 to 0.41 with an average of 0.35. The high percentage of polymorphic bands (%PB) was found to be 64.71 and the resolving power (R p) collections were 63.36. UPGMA clustering based on numerical data from AFLP patterns clustered all 47 genotypes into three large groups. The genetic similarity between individuals ranged from 0.54 to 0.94 with an average of 0.74. Population genetic tree showed that Iranian native cultivars formed far distant cluster from the other populations, which may indicate that these varieties had minimal genetic change over time. Analysis of molecular variance (AMOVA) revealed that the largest proportion of the variation (84%) to be within populations showing the inbreeding nature of rice. Therefore, Iranian native varieties (landraces) may have unique genes, which can be used for future breeding programs and there is a need to conserve this unique diversity. Furthermore, crossing of Iranian genotypes with the genetically distant genotypes in the other three populations may result in useful combinations, which can be used as varieties and/or lines for future rice breeding programs.

Tracking multi-generational colonization of the breeding grounds by monarch butterflies in eastern North America

PubMed Central

Flockhart, D. T. Tyler; Wassenaar, Leonard I.; Martin, Tara G.; Hobson, Keith A.; Wunder, Michael B.; Norris, D. Ryan

2013-01-01

Insect migration may involve movements over multiple breeding generations at continental scales, resulting in formidable challenges to their conservation and management. Using distribution models generated from citizen scientist occurrence data and stable-carbon and -hydrogen isotope measurements, we tracked multi-generational colonization of the breeding grounds of monarch butterflies (Danaus plexippus) in eastern North America. We found that monarch breeding occurrence was best modelled with geographical and climatic variables resulting in an annual breeding distribution of greater than 12 million km2 that encompassed 99% occurrence probability. Combining occurrence models with stable isotope measurements to estimate natal origin, we show that butterflies which overwintered in Mexico came from a wide breeding distribution, including southern portions of the range. There was a clear northward progression of monarchs over successive generations from May until August when reproductive butterflies began to change direction and moved south. Fifth-generation individuals breeding in Texas in the late summer/autumn tended to originate from northern breeding areas rather than regions further south. Although the Midwest was the most productive area during the breeding season, monarchs that re-colonized the Midwest were produced largely in Texas, suggesting that conserving breeding habitat in the Midwest alone is insufficient to ensure long-term persistence of the monarch butterfly population in eastern North America. PMID:23926146

Migratory routes and at-sea threats to Pink-footed Shearwaters

USGS Publications Warehouse

Adams, Josh; Felis, Jonathan J.; Hodum, Peter; Colodro, Valentina; Carle, Ryan; López, Verónica

2016-01-01

The Pink-footed Shearwater (Ardenna creatopus) is a seabird with a breeding range restricted to three islands in Chile and an estimated world population of approximately 56,000 breeding individuals (Muñoz 2011, Oikonos unpublished data). Due to multiple threats on breeding colonies and at-sea, Pink-footed Shearwaters are listed as Endangered by the government of Chile (Reglamento de Clasificación de Especies, 2011), Threatened by the government of Canada (Environment Canada 2008), and are listed under Appendix 1 of the Agreement on the Conservation of Albatrosses and Petrels (ACAP 2013). A principal conservation concern for the species is mortality from fisheries bycatch during the breeding and non-breeding seasons; thus, identification of areas of overlap between at-sea use by Pink-footed Shearwaters and fisheries is a high priority conservation objective (Hinojosa Sáez and Hodum 1997, Mangel et al. 2013, ACAP 2013). During the non-breeding period, Pink-footed Shearwaters range as far north as Canada, although little was known until recently about migration routes and important wintering areas where fisheries bycatch could be a risk. Additionally, Pink-footed Shearwaters face at-sea threats during the non-breeding season off the west coast of North America. Recently, areas used by wintering Pink-footed Shearwaters have been identified as areas of interest for developing alternative energy offshore in North America (e.g., floating wind generators; Trident Winds 2016). The goal of our study was to track Pink-footed Shearwater post-breeding movements with satellite tags to identify timing and routes of migration, locate important non-breeding foraging habitats, and determine population distribution among different wintering regions.

Structured decision making as a conservation tool for recovery planning of two endangered salamanders

USGS Publications Warehouse

O'Donnell, Katherine; Messerman, Arianne F; Barichivich, William J.; Semlitsch, Raymond D.; Gorman, Thomas A.; Mitchell, Harold G; Allan, Nathan; Fenolio, Dante B.; Green, Adam; Johnson, Fred A.; Keever, Allison; Mandica, Mark; Martin, Julien; Mott, Jana; Peacock, Terry; Reinman, Joseph; Romañach, Stephanie; Titus, Greg; McGowan, Conor P.; Walls, Susan

2017-01-01

At least one-third of all amphibian species face the threat of extinction, and current amphibian extinction rates are four orders of magnitude greater than background rates. Preventing extirpation often requires both ex situ (i.e., conservation breeding programs) and in situ strategies (i.e., protecting natural habitats). Flatwoods salamanders (Ambystoma bishopi and A. cingulatum) are protected under the U.S. Endangered Species Act. The two species have decreased from 476 historical locations to 63 recently extant locations (86.8% loss). We suggest that recovery efforts are needed to increase populations and prevent extinction, but uncertainty regarding optimal actions in both ex situ and in situ realms hinders recovery planning. We used structured decision making (SDM) to address key uncertainties regarding both captive breeding and habitat restoration, and we developed short-, medium-, and long-term goals to achieve recovery objectives. By promoting a transparent, logical approach, SDM has proven vital to recovery plan development for flatwoods salamanders. The SDM approach has clear advantages over other previous approaches to recovery efforts, and we suggest that it should be considered for other complex decisions regarding endangered species.

Status assessment and conservation plan for the yellow-billed loon (Gavia adamsii)

USGS Publications Warehouse

Earnst, Susan L.

2004-01-01

Because of its restricted range, small population size, specific habitat requirements, and perceived threats to its breeding habitat, the Yellow-billed Loon (Gavia adamsii) is a species of conservation concern to the U.S. Fish and Wildlife Service and the subject of a petition for listing under the Endangered Species Act. This Status Assessment synthesizes current information on population size, trends, and potential threats to Yellow-billed Loons, and the Conservation Plan identifies research and monitoring activities that would contribute to the conservation of this species. The preparation of this report was requested and funded by the U.S. Fish and Wildlife Service, Nongame Bird Office, Region 7.The Status Assessment and Conservation Plan for the Yellow-billed Loon can be summarized as follows:? Northern Alaska breeding grounds support an average of 3,369 individuals, including <1,000 nesting pairs in most years. The Yellow-billed Loon ranks as one of the 10 rarest birds that breeds regularly within the main land U.S. and one of only 20 with a North American population <16,000 individuals (Section 6-E).? There is no evidence of a long-term trend in the Yellow-billed Loon population index since 1986 (-0.9% annual change), but interpretation of surveys is complicated by changes in observers and high annual variation, and the 95% confidence interval is large (-3.6% to +1.8% annual change). The low reproductive potential of Yellow-billed Loons suggests that recovery from a substantial decline would not occur rapidly. There are no systematic surveys of Canadian and Russian breeding populations (Section 6-F).? The expansion of the oil industry into prime Yellow-billed Loon breeding habitat is a recent occurrence and we lack the necessary information to accurately predict its effect on the population. Most of northern Alaska?s Yellow-billed Loons (91%) occur on the National Petroleum Reserve?Alaska, virtually all of which is open or proposed to be opened to development and where there is no permanent or legal protection of Yellow-billed Loon habitat (Section 7-A).? Other potential factors affecting the population are also addressed, such as contaminants, subsistence hunting, by catch in subsistence and commercial fisheries on the breeding and wintering grounds, and health of the marine ecosystem off the coast of East Asia where Alaska?s Yellow-billed Loons winter, but data are lacking to reach strong conclusions on most issues.? The conservation goal adopted by the Alaska Loon and Grebe Working Group for the Yellow-billed Loon is to maintain a stable breeding population, of current size and distribution, across the extent of the loon?s breeding range in Alaska. The Conservation Plan, designed to provide information necessary to meet this goal, puts forth seven objectives: 1) Conduct annual population surveys having negligible bias and 80% statistical power to detect a 3.4% annual decline, a decline that would result in a 50% loss of the population within 20 years; 2) Obtain an unbiased and reliable estimate of the size of Alaska?s breeding population; 3) Identify geographic regions and habitats of importance during breeding, staging, and wintering periods; 4) Use demographic models to evaluate risks to the population; 5) Identify potential effects of oil development on the breeding grounds and measures necessary to minimize the effects; 6) Evaluate the magnitude of subsistence harvest and by catch and their potential effects on the population; 7) Develop a continent-wide and range-wide context for Alaska?s population and habitat objectives.

Le Conte's sparrows breeding in Conservation Reserve Program fields: precipitation and patterns of population change

USGS Publications Warehouse

Igl, Lawrence D.; Johnson, Douglas H.

1999-01-01

The climate of the North American Great Plains is highly dynamic, with great year-to-year variability in precipitation and periodic, often extreme, wet and dry cycles (Bragg 1995). Drought is a major force of ecological disturbance on the Great Plains and has played a key role in directing the evolution of the grassland biota of this region (Knopf and Samson 1997). Although grassland birds may differ in their responses to enviromenental variations (Rotenberry and Wiens 1991), climatic variability and concomitant unpredictability of resources strongly influence populations of grassland birds across space and time (Wiens 1974, 1986; Cody 1985). Not surprisingly, breeding bird populations on the Great Plains are highly dynamic, exhibiting considerable annual variation in composition, abundance, and distribution (Johnson and Grier 1988, George et al. 1992, Zimmerman 1992, Igl and Johnson 1997). Recently, interest in grassland birds has increased with the recognition that many species are declining both continentally (Droege and Sauer 1994) and globally (Goriup 1988). Identification of the specific factors associated with grassland bird declines in North America, however, remains largely enigmatic (Herkert 1997), and it is complicated by the considerable annual fluctuations in grassland bird distribution and abundance (Igl and Johnson 1997). Although there is evidence that land-use changes on the breeding grounds may have contributed to grassland bird declines (e.g., Igl and Johnson 1997), there also is an indication that long-term drought conditions may have influenced recent population changes of some breeding birds on the Great Plains (Droege and Sauer 1989, Peterjohn and Sauer 1993, Bethke and Nudds 1995, Igl and Johnson 1997). Le Conte's Sparrow (Ammodramus leconteii) is a secretive grassland bird that breeds in central and southern Canada and the northcentral United States (Murray 1969). It winters primarily in the southern United States (Peterson 1980, 1990). Like populations of many grassland breeding birds in North America (Fretwell 1986, Igl and Johnson 1997), Le Conte's Sparrow populations exhibit numerical highs and lows depending on local moisture conditions (Peabody 1901, Stewart 1975, Knapton 1979, Zimmer 1979, Madden 1996). This observation, however, is based largely on anecdotal evidence or short-term observations. Long-term studies of Le Conte's Sparrow populations are limited. Le Conte's Sparrow is poorly represented on the North American Breeding Bird Survey (BBS) because of small sample sizes, poor coverage in the northern portion of its breeding range, and the species' furtive behavior (Sauer et al. 1995). Moreover, dramatic fluctuations in Le Conte's Sparrow abundance tend to obscure the species' long-term population trends on the BBS (Sauer et al. 1995). In this paper we examine long-term population changes of Le Conte's Sparrows breeding in perennial grassland fields enrolled in the Conservation Reserve Program (CRP) on the northern Great Plains. We discuss patterns of population change of Le Conte's Sparrows associated with changes in precipitation and moisture conditions.

Sustainable long-term conservation of rare cattle breeds using rotational AI sires

PubMed Central

Colleau, Jean-Jacques; Avon, Laurent

2008-01-01

The development of inbreeding in rotation breeding schemes, sequentially using artificial insemination (AI) sires over generations, was investigated for a full AI scheme. Asymptotic prediction formulae of inbreeding coefficients were established when the first rotation list of AI sires (possibly related) was in use. Simulated annealing provided the optimal rotation order of sires within this list, when the sires were related. These methods were also used for subsequent rotation lists, needed by the exhaustion of semen stores for the first bulls. Simulation was carried out starting with groups of independent sires, with different sizes. To generate a yearly inbreeding rate substantially lower than 0.05% (considered to be within reach by conventional conservation schemes using frequent replacements), the results obtained showed that the number of sires should be at least 10–15 and that the same sires should be used during at least 50 years. The ultimate objective was to examine the relevance of implementing rotation in breeding schemes on the actual rare French cattle breeds under conservation. The best candidate for such a test was the Villard-de-Lans breed (27 bulls and 73 000 doses for only 340 females) and it turned out to be the best performer with an inbreeding coefficient of only 7.4% after 500 years and five different sire lists. Due to the strong requirements on semen stores and on the stability of population size, actual implementation of this kind of conservation scheme was recommended only in special ('niche') cattle populations. PMID:18558074

Utilization of farm animal genetic resources in a changing agro-ecological environment in the Nordic countries.

PubMed

Kantanen, Juha; Løvendahl, Peter; Strandberg, Erling; Eythorsdottir, Emma; Li, Meng-Hua; Kettunen-Præbel, Anne; Berg, Peer; Meuwissen, Theo

2015-01-01

Livestock production is the most important component of northern European agriculture and contributes to and will be affected by climate change. Nevertheless, the role of farm animal genetic resources in the adaptation to new agro-ecological conditions and mitigation of animal production's effects on climate change has been inadequately discussed despite there being several important associations between animal genetic resources and climate change issues. The sustainability of animal production systems and future food security require access to a wide diversity of animal genetic resources. There are several genetic questions that should be considered in strategies promoting adaptation to climate change and mitigation of environmental effects of livestock production. For example, it may become important to choose among breeds and even among farm animal species according to their suitability to a future with altered production systems. Some animals with useful phenotypes and genotypes may be more useful than others in the changing environment. Robust animal breeds with the potential to adapt to new agro-ecological conditions and tolerate new diseases will be needed. The key issue in mitigation of harmful greenhouse gas effects induced by livestock production is the reduction of methane (CH4) emissions from ruminants. There are differences in CH4 emissions among breeds and among individual animals within breeds that suggest a potential for improvement in the trait through genetic selection. Characterization of breeds and individuals with modern genomic tools should be applied to identify breeds that have genetically adapted to marginal conditions and to get critical information for breeding and conservation programs for farm animal genetic resources. We conclude that phenotyping and genomic technologies and adoption of new breeding approaches, such as genomic selection introgression, will promote breeding for useful characters in livestock species.

Utilization of farm animal genetic resources in a changing agro-ecological environment in the Nordic countries

PubMed Central

Kantanen, Juha; Løvendahl, Peter; Strandberg, Erling; Eythorsdottir, Emma; Li, Meng-Hua; Kettunen-Præbel, Anne; Berg, Peer; Meuwissen, Theo

2015-01-01

Livestock production is the most important component of northern European agriculture and contributes to and will be affected by climate change. Nevertheless, the role of farm animal genetic resources in the adaptation to new agro-ecological conditions and mitigation of animal production’s effects on climate change has been inadequately discussed despite there being several important associations between animal genetic resources and climate change issues. The sustainability of animal production systems and future food security require access to a wide diversity of animal genetic resources. There are several genetic questions that should be considered in strategies promoting adaptation to climate change and mitigation of environmental effects of livestock production. For example, it may become important to choose among breeds and even among farm animal species according to their suitability to a future with altered production systems. Some animals with useful phenotypes and genotypes may be more useful than others in the changing environment. Robust animal breeds with the potential to adapt to new agro-ecological conditions and tolerate new diseases will be needed. The key issue in mitigation of harmful greenhouse gas effects induced by livestock production is the reduction of methane (CH4) emissions from ruminants. There are differences in CH4 emissions among breeds and among individual animals within breeds that suggest a potential for improvement in the trait through genetic selection. Characterization of breeds and individuals with modern genomic tools should be applied to identify breeds that have genetically adapted to marginal conditions and to get critical information for breeding and conservation programs for farm animal genetic resources. We conclude that phenotyping and genomic technologies and adoption of new breeding approaches, such as genomic selection introgression, will promote breeding for useful characters in livestock species. PMID:25767477

Association of wintering raptors with Conservation Reserve Enhancement Program grasslands in Pennsylvania

USGS Publications Warehouse

Wilson, A.; Brittingham, M.; Grove, G.

2010-01-01

Conservation grasslands can provide valuable habitat resource for breeding songbirds, but their value for wintering raptors has received little attention. We hypothesized that increased availability of grassland habitat through the Conservation Reserve Enhancement Program (CREP) has resulted in an increase or redistribution in numbers of four species of raptors in Pennsylvania since 2001. We tested this by analyzing winter raptor counts from volunteer surveys, conducted from 2001 to 2008, for Red-tailed Hawks (Buteo jamaicensis), Rough-legged Hawks (Buteo lagopus), Northern Harriers (Circus cyaneus), and American Kestrels (Falco sparverius). During that period, numbers of wintering Northern Harriers increased by more than 20% per year. Log-linear Poisson regression models show that all four species increased in the region of Pennsylvania that had the most and longest-established conservation grasslands. At the county scale (N= 67), Bayesian spatial models showed that spatial and temporal population trends of all four species were positively correlated with the amount of conservation grassland. This relationship was particularly strong for Northern Harriers, with numbers predicted to increase by 35.7% per year for each additional 1% of farmland enrolled in CREP. Our results suggest that conservation grasslands are likely the primary cause of the increase in numbers of wintering Northern Harriers in Pennsylvania since 2001. ?? 2010 The Authors. Journal of Field Ornithology ?? 2010 Association of Field Ornithologists.

Biological parameters used in setting captive-breeding quotas for Indonesia's breeding facilities.

PubMed

Janssen, Jordi; Chng, Serene C L

2018-02-01

The commercial captive breeding of wildlife is often seen as a potential conservation tool to relieve pressure on wild populations, but laundering of wild-sourced specimens as captive bred can seriously undermine conservation efforts and provide a false sense of sustainability. Indonesia is at the center of such controversy; therefore, we examined Indonesia's captive-breeding production plan (CBPP) for 2016. We compared the biological parameters used in the CBPP with parameters in the literature and with parameters suggested by experts on each species and identified shortcomings of the CBPP. Production quotas for 99 out of 129 species were based on inaccurate or unrealistic biological parameters and production quotas deviated more than 10% from what parameters in the literature allow for. For 38 species, the quota exceeded the number of animals that can be bred based on the biological parameters (range 100-540%) calculated with equations in the CBPP. We calculated a lower reproductive output for 88 species based on published biological parameters compared with the parameters used in the CBPP. The equations used in the production plan did not appear to account for other factors (e.g., different survival rate for juveniles compared to adult animals) involved in breeding the proposed large numbers of specimens. We recommend the CBPP be adjusted so that realistic published biological parameters are applied and captive-breeding quotas are not allocated to species if their captive breeding is unlikely to be successful or no breeding stock is available. The shortcomings in the current CBPP create loopholes that mean mammals, reptiles, and amphibians from Indonesia declared captive bred may have been sourced from the wild. © 2017 Society for Conservation Biology.

75 FR 79013 - Santa Clara Valley Habitat Conservation Plan and Natural Community Conservation Plan, CA...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-12-17

... injures listed wildlife by significantly impairing essential behavioral patterns, including breeding... permits in recognition of the conservation benefits provided to them under the HCP/NCCP. Regulations...

Movement patterns and the conservation of amphibians breeding in small, temporary wetlands

USGS Publications Warehouse

Dodd, C.K.; Cade, B.S.

1998-01-01

Many amphibians breed in water but live most of their lives in terrestrial habitats. Little is known, however, about the spatial distribution of these habitats or of the distances and directions amphibians move to reach breeding sites. The amphibian community at a small, temporary pond in northcentral Florida was monitored for 5 years. Based on captures and recaptures of more than 2500 striped newts (Notophthalmus perstriatus) and 5700 eastern narrow-mouthed toads (Gastrophryne carolinensis), we tabulated the angles of orientation that these amphibians entered and exited the pond basin. Our results showed that movements of these species between the pond and terrestrial habitats were nonrandom in orientation, but that narrow corridors did not appear to be used. Differences between the species likely reflect differences in habitat preferences, whereas intraspecific differences among years and between the sexes likely reflect variation among individuals. For terrestrial buffer zones to be effective at conserving pond-breeding amphibian communities, they need both a distance and a directional component. The determination of a directional component may be obscured if studies are carried out over a short time span. Conservation efforts for wetland-breeding amphibians that concentrate solely on the wetland likely will fail without consideration of the adjacent terrestrial habitat.

Characterization of MHC class IIB for four endangered Australian freshwater fishes obtained from ecologically divergent populations.

PubMed

Bracamonte, Seraina E; Smith, Steve; Hammer, Michael; Pavey, Scott A; Sunnucks, Paul; Beheregaray, Luciano B

2015-10-01

Genetic diversity is an essential aspect of species viability, and assessments of neutral genetic diversity are regularly implemented in captive breeding and conservation programs. Despite their importance, information from adaptive markers is rarely included in such programs. A promising marker of significance in fitness and adaptive potential is the major histocompatibility complex (MHC), a key component of the adaptive immune system. Populations of Australian freshwater fishes are generally declining in numbers due to human impacts and the introduction of exotic species, a scenario of particular concern for members of the family Percichthyidae, several of which are listed as nationally vulnerable or endangered, and hence subject to management plans, captive breeding, and restoration plans. We used a next-generation sequencing approach to characterize the MHC IIB locus and provide a conservative description of its levels of diversity in four endangered percichthyids: Gadopsis marmoratus, Macquaria australasica, Nannoperca australis, and Nannoperca obscura. Evidence is presented for a duplicated MHC IIB locus, positively selected sites and recombination of MHC alleles. Relatively moderate levels of diversity were detected in the four species, as well as in different ecotypes within each species. Phylogenetic analyses revealed genus specific clustering of alleles and no allele sharing among species. There were also no shared alleles observed between two ecotypes within G. marmoratus and within M. australasica, which might be indicative of ecologically-driven divergence and/or long divergence times. This represents the first characterization and assessment of MHC diversity for Percichthyidae, and also for Australian freshwater fishes in general, providing key genetic resources for a vertebrate group of increasing conservation concern. Copyright © 2015 Elsevier Ltd. All rights reserved.

Habitat availability is a more plausible explanation than insecticide acute toxicity for U.S. grassland bird species declines.

PubMed

Hill, Jason M; Egan, J Franklin; Stauffer, Glenn E; Diefenbach, Duane R

2014-01-01

Grassland bird species have experienced substantial declines in North America. These declines have been largely attributed to habitat loss and degradation, especially from agricultural practices and intensification (the habitat-availability hypothesis). A recent analysis of North American Breeding Bird Survey (BBS) "grassland breeding" bird trends reported the surprising conclusion that insecticide acute toxicity was a better correlate of grassland bird declines in North America from 1980-2003 (the insecticide-acute-toxicity hypothesis) than was habitat loss through agricultural intensification. In this paper we reached the opposite conclusion. We used an alternative statistical approach with additional habitat covariates to analyze the same grassland bird trends over the same time frame. Grassland bird trends were positively associated with increases in area of Conservation Reserve Program (CRP) lands and cropland used as pasture, whereas the effect of insecticide acute toxicity on bird trends was uncertain. Our models suggested that acute insecticide risk potentially has a detrimental effect on grassland bird trends, but models representing the habitat-availability hypothesis were 1.3-21.0 times better supported than models representing the insecticide-acute-toxicity hypothesis. Based on point estimates of effect sizes, CRP area and agricultural intensification had approximately 3.6 and 1.6 times more effect on grassland bird trends than lethal insecticide risk, respectively. Our findings suggest that preserving remaining grasslands is crucial to conserving grassland bird populations. The amount of grassland that has been lost in North America since 1980 is well documented, continuing, and staggering whereas insecticide use greatly declined prior to the 1990s. Grassland birds will likely benefit from the de-intensification of agricultural practices and the interspersion of pastures, Conservation Reserve Program lands, rangelands and other grassland habitats into existing agricultural landscapes.

Status of the California condor (Gymnogyps californianus) and efforts to achieve its recovery

USGS Publications Warehouse

Walters, Jeffrey R.; Derrickson, Scott R.; Fry, D. Michael; Haig, Susan M.; Marzluff, John M.; Wunderle, Joseph M.

2010-01-01

The California Condor (Gymnogyps californianus; hereafter "condor"; Fig. 1) has long been symbolic of avian conservation in the United States. Its large size, inquisitiveness, and association with remote places make it highly charismatic, and its decline to the brink of extinction aroused a continuing public interest in its plight. By 1982, only 22 individuals remained of this species whose range once encompassed much of North America. The last wild bird was trapped and brought into captivity in 1987, which rendered the species extinct in the wild (Snyder and Snyder 1989). In the 1980s, some questioned whether viable populations could ever again exist in the natural environment, and whether limited conservation funds should be expended on what they viewed as a hopeless cause (Pitelka 1981). Nevertheless, since that low point, a captive-breeding and release program has increased the total population by an order of magnitude, and condors fly free again in California, Arizona, Utah, and Baja California, Mexico (Fig. 2). At this writing (summer 2009), more than 350 condors exist, 180 of which are in the wild (J. Grantham pers. comm.). The free-living birds face severe challenges, however, and receive constant human assistance. The intensive management applied to the free-living populations, as well as the ongoing monitoring and captive-breeding programs, are tremendously expensive and become more so as the population grows. Thus, the program has reached a crossroads, caught between the financial and logistical pressures required to maintain an increasing number of condors in the wild and the environmental problems that preclude establishment of naturally sustainable, free-ranging populations.

Breeding potential of elite Pee Dee germplasm in Upland cotton breeding programs

USDA-ARS?s Scientific Manuscript database

Successful plant breeding programs begin with parental line selection. Effective parental line selection is facilitated when the breeding potential of candidate parental lines is known. Using topcross families involving germplasm representing eight US public cotton breeding programs, we evaluated th...

AlphaMate: a program for optimising selection, maintenance of diversity, and mate allocation in breeding programs.

PubMed

Gorjanc, Gregor; Hickey, John M

2018-05-02

AlphaMate is a flexible program that optimises selection, maintenance of genetic diversity, and mate allocation in breeding programs. It can be used in animal and cross- and self-pollinating plant populations. These populations can be subject to selective breeding or conservation management. The problem is formulated as a multi-objective optimisation of a valid mating plan that is solved with an evolutionary algorithm. A valid mating plan is defined by a combination of mating constraints (the number of matings, the maximal number of parents, the minimal/equal/maximal number of contributions per parent, or allowance for selfing) that are gender specific or generic. The optimisation can maximize genetic gain, minimize group coancestry, minimize inbreeding of individual matings, or maximize genetic gain for a given increase in group coancestry or inbreeding. Users provide a list of candidate individuals with associated gender and selection criteria information (if applicable) and coancestry matrix. Selection criteria and coancestry matrix can be based on pedigree or genome-wide markers. Additional individual or mating specific information can be included to enrich optimisation objectives. An example of rapid recurrent genomic selection in wheat demonstrates how AlphaMate can double the efficiency of converting genetic diversity into genetic gain compared to truncation selection. Another example demonstrates the use of genome editing to expand the gain-diversity frontier. Executable versions of AlphaMate for Windows, Mac, and Linux platforms are available at http://www.AlphaGenes.roslin.ed.ac.uk/AlphaMate. gregor.gorjanc@roslin.ed.ack.uk.

A Genetic Analysis of Taoyuan Pig and Its Phylogenetic Relationship to Eurasian Pig Breeds

PubMed Central

Li, Kuan-Yi; Li, Kuang-Ti; Cheng, Chun-Chun; Chen, Chia-Hsuan; Hung, Chien-Yi; Ju, Yu-Ten

2015-01-01

Taoyuan pig is a native Taiwan breed. According to the historical record, the breed was first introduced to Taiwan from Guangdong province, Southern China, around 1877. The breed played an important role in Taiwan’s early swine industry. It was classified as an indigenous breed in 1986. After 1987, a conserved population of Taoyuan pig was collected and reared in isolation. In this study, mitochondrial DNA sequences and 18 microsatellite markers were used to investigate maternal lineage and genetic diversity within the Taoyuan pig population. Population differentiation among Taoyuan, Asian type, and European type pig breeds was also evaluated using differentiation indices. Only one D-loop haplotype of the Taoyuan pig was found. It clustered with Lower Changjiang River Basin and Central China Type pig breeds. Based on the polymorphism of microsatellite markers, a positive fixation index value (FIS) indicates that the conserved Taoyuan population suffers from inbreeding. In addition, high FST values (>0.2105) were obtained, revealing high differentiation among these breeds. Non-metric multi-dimensional scaling showed a clear geometric structure among 7 breeds. Together these results indicate that maternally Taoyuan pig originated in the Lower Changjiang River Basin and Central China; however, since being introduced to Taiwan differentiation has occurred. In addition, Taoyuan pig has lost genetic diversity in both its mitochondrial and nuclear genomes. PMID:25656199

DOE Office of Scientific and Technical Information (OSTI.GOV)

Greenberg, Cathyrn, H.; Tanner, George, W.

Effective amphibian conservation must consider population and landscape processes, but information at multiple scales is rare. We explore spatial and temporal patterns of breeding and recruitment by Eastern Spadefoot Toads (Scaphiopus holbrookii), using 9 years of data from continuous monitoring with drift fences and pitfall traps at 8 ephemeral ponds in longleaf pine-wiregrass sandhills. Breeding events (>25 adults at a pond within a month) occurred 23 times on nine occasions at seven of the eight study ponds, but substantial recruitment(>100 metamorphs) followed only five events. Recruitment ranged from 0-4,648 among ponds. Only four ponds functioned as population ''sources'', but onlymore » during some years. The other ponds, and even ''source'' ponds during some years, functioned either as ''sinks'', where breeding occurred with no resulting recruitment, or were not used at all for breeding. Most recruitment occurred during four years. Recruitment was correlated with adult breeding effort, but only during some years. Recaptures were rare, and inter-pond exchange of adults was minimal and short-distance (< 130 m; 1 was 416 m). Most (83.5%) individuals captured were metamorphs, and 15.9% were > 51 mm (est. > 4 years). We conservatively estimated a 7-year lifespan. Adult ''population'' trends clearly reflected breeding effort rather than numbers per se; capture rates fluctuated dramatically among years, but showed no overall trends during the 9-year study. Our paper provides empiracle information that can be used to generate realistic metapopulation models for S. holbrookii as a tool in conservation planning.« less

The avian community of the Karen Mogensen Reserve, a wealth of biodiversity within the poorly investigated and threatened environments of northwestern Costa Rica

PubMed Central

Zotto, Matteo Dal; Romeo, Giuseppe; Aguilar, Luis A. Mena; Sonetti, Dario; Pederzoli, Aurora

2017-01-01

Abstract Despite being characterized by some of the most threatened forest ecosystems of Mesoamerica, the Nicoya Peninsula is among the least known regions of neotropical Costa Rica in terms of its birdlife. Within this region, in the framework of an ongoing international cooperation program between Italy and Costa Rica, we had the opportunity to investigate the Karen Mogensen Reserve, a protected area distinguished by the presence of a variety of habitats, including tropical dry forest and moist forest. Species richness in the Reserve was relatively high compared with similar areas in northwestern Costa Rica. A series of surveys carried out over a 20-year period documented an avian community consisting of 207 species, of which 115 were breeding in the zone and another 14 were potentially breeding. We recorded five IUCN globally Vulnerable or Near-Threatened species, along with six species reported for the first time from the Nicoya Peninsula, each representing range extension of more than 100 km. Twenty-six species, mostly breeding in the area, are at their southernmost range borders, and are likely susceptible to global environmental alterations, such as the effects of climate change. Furthermore, our study revealed the presence of two species endemic to a restricted area of Central America and four subspecies endemic to Costa Rica, along with breeding populations of two species that are geographically isolated from the main ones. The present analysis led to the ecological characterization of the resident avian community, showing that 65% of the species are strictly associated with forested environments, and especially with the understory or middle tree level, hence more vulnerable to environmental change (climatic, anthropogenic, etc.) and susceptible to local extinction. These results underscore the importance of the Karen Mogensen Reserve for bird conservation within a vulnerable environmental context, and warrant the continuation of periodic bird surveys, taxonomic study of isolated populations or endemic taxa, and improvement of local conservation measures. The data collected will be an important tool for future studies aimed at evaluating the consequences of habitat fragmentation and to monitor the effects of climate change on the resident avifauna. We exhort the creation of programs that integrate bird monitoring, ecological research, conservation initiatives, and the involvement of the local communities, by promoting environmental education, capacity-building, and income generation. To this purpose, the Karen Mogensen Reserve may represent a convincing model and valuable example to apply in similar neotropical contexts. PMID:29308032

The avian community of the Karen Mogensen Reserve, a wealth of biodiversity within the poorly investigated and threatened environments of northwestern Costa Rica.

PubMed

Zotto, Matteo Dal; Romeo, Giuseppe; Aguilar, Luis A Mena; Sonetti, Dario; Pederzoli, Aurora

2017-01-01

Despite being characterized by some of the most threatened forest ecosystems of Mesoamerica, the Nicoya Peninsula is among the least known regions of neotropical Costa Rica in terms of its birdlife. Within this region, in the framework of an ongoing international cooperation program between Italy and Costa Rica, we had the opportunity to investigate the Karen Mogensen Reserve, a protected area distinguished by the presence of a variety of habitats, including tropical dry forest and moist forest. Species richness in the Reserve was relatively high compared with similar areas in northwestern Costa Rica. A series of surveys carried out over a 20-year period documented an avian community consisting of 207 species, of which 115 were breeding in the zone and another 14 were potentially breeding. We recorded five IUCN globally Vulnerable or Near-Threatened species, along with six species reported for the first time from the Nicoya Peninsula, each representing range extension of more than 100 km. Twenty-six species, mostly breeding in the area, are at their southernmost range borders, and are likely susceptible to global environmental alterations, such as the effects of climate change. Furthermore, our study revealed the presence of two species endemic to a restricted area of Central America and four subspecies endemic to Costa Rica, along with breeding populations of two species that are geographically isolated from the main ones. The present analysis led to the ecological characterization of the resident avian community, showing that 65% of the species are strictly associated with forested environments, and especially with the understory or middle tree level, hence more vulnerable to environmental change (climatic, anthropogenic, etc.) and susceptible to local extinction. These results underscore the importance of the Karen Mogensen Reserve for bird conservation within a vulnerable environmental context, and warrant the continuation of periodic bird surveys, taxonomic study of isolated populations or endemic taxa, and improvement of local conservation measures. The data collected will be an important tool for future studies aimed at evaluating the consequences of habitat fragmentation and to monitor the effects of climate change on the resident avifauna. We exhort the creation of programs that integrate bird monitoring, ecological research, conservation initiatives, and the involvement of the local communities, by promoting environmental education, capacity-building, and income generation. To this purpose, the Karen Mogensen Reserve may represent a convincing model and valuable example to apply in similar neotropical contexts.

Comparative genetic diversity in a sample of pony breeds from the U.K. and North America: a case study in the conservation of global genetic resources.

PubMed

Winton, Clare L; Plante, Yves; Hind, Pamela; McMahon, Robert; Hegarty, Matthew J; McEwan, Neil R; Davies-Morel, Mina C G; Morgan, Charly M; Powell, Wayne; Nash, Deborah M

2015-08-01

Most species exist as subdivided ex situ daughter population(s) derived from a single original group of individuals. Such subdivision occurs for many reasons both natural and manmade. Traditional British and Irish pony breeds were introduced to North America (U.S.A. and Canada) within the last 150 years, and subsequently equivalent breed societies were established. We have analyzed selected U.K. and North American equivalent pony populations as a case study for understanding the relationship between putative source and derived subpopulations. Diversity was measured using mitochondrial DNA and a panel of microsatellite markers. Genetic signatures differed between the North American subpopulations according to historical management processes. Founder effect and stochastic drift was apparent, particularly pronounced in some breeds, with evidence of admixture of imported mares of different North American breeds. This demonstrates the importance of analysis of subpopulations to facilitate understanding the genetic effects of past management practices and to lead to informed future conservation strategies.

Developing a typology for local cattle breed farmers in Europe.

PubMed

Soini, K; Diaz, C; Gandini, G; de Haas, Y; Lilja, T; Martin-Collado, D; Pizzi, F; Hiemstra, S J

2012-12-01

Recognizing cultural diversity among local breed farmers is crucial for the successful development and implementation of farm animal genetic resources FAnGr conservation policies and programmes. In this study based on survey data collected in the EUropean REgional CAttle breeds project from six European countries, a typology of local breed farmers was designed and profiles for each of the farmer types were developed to assist these policy needs. Three main farmer types were constructed: production-oriented, product and service-oriented and hobby-oriented farmers. In addition, seven subtypes were characterized under the main types: sustainable producers, opportunists, multi-users, brand makers, traditionalists, pragmatists and newcomers. These types have many similarities to the 'productivist', 'multifunctional' and 'post-productivist' farmer types. The typology not only reveals the high level of diversity among local cattle breed farmers in Europe, which presents an opportunity for the in situ conservation of animal genetic resources, but also a challenge for policy to meet the differing requirements of the farmer types. © 2012 Blackwell Verlag GmbH.

Conservation of forest genetic resources in the United States.

Treesearch

B. St. Clair; S. Lipow; K. Vance-Borland; R. Johnson

2007-01-01

Conservation of genetic diversity is recognized as an important requirement of sustainable forest management. Gene conservation activities include in situ conservation of native stands in reserves and ex situ conservation in seed banks, genetic tests, seed and breeding orchards, and other plantations of known identity. We present an example from Oregon and Washington...

Genetic diversity of a large set of horse breeds raised in France assessed by microsatellite polymorphism

PubMed Central

2009-01-01

The genetic diversity and structure of horses raised in France were investigated using 11 microsatellite markers and 1679 animals belonging to 34 breeds. Between-breed differences explained about ten per cent of the total genetic diversity (Fst = 0.099). Values of expected heterozygosity ranged from 0.43 to 0.79 depending on the breed. According to genetic relationships, multivariate and structure analyses, breeds could be classified into four genetic differentiated groups: warm-blooded, draught, Nordic and pony breeds. Using complementary maximisation of diversity and aggregate diversity approaches, we conclude that particular efforts should be made to conserve five local breeds, namely the Boulonnais, Landais, Merens, Poitevin and Pottok breeds. PMID:19284689

Variation in the prion protein sequence in Dutch goat breeds.

PubMed

Windig, J J; Hoving, R A H; Priem, J; Bossers, A; van Keulen, L J M; Langeveld, J P M

2016-10-01

Scrapie is a neurodegenerative disease occurring in goats and sheep. Several haplotypes of the prion protein increase resistance to scrapie infection and may be used in selective breeding to help eradicate scrapie. In this study, frequencies of the allelic variants of the PrP gene are determined for six goat breeds in the Netherlands. Overall frequencies in Dutch goats were determined from 768 brain tissue samples in 2005, 766 in 2008 and 300 in 2012, derived from random sampling for the national scrapie surveillance without knowledge of the breed. Breed specific frequencies were determined in the winter 2013/2014 by sampling 300 breeding animals from the main breeders of the different breeds. Detailed analysis of the scrapie-resistant K222 haplotype was carried out in 2014 for 220 Dutch Toggenburger goats and in 2015 for 942 goats from the Saanen derived White Goat breed. Nine haplotypes were identified in the Dutch breeds. Frequencies for non-wild type haplotypes were generally low. Exception was the K222 haplotype in the Dutch Toggenburger (29%) and the S146 haplotype in the Nubian and Boer breeds (respectively 7 and 31%). The frequency of the K222 haplotype in the Toggenburger was higher than for any other breed reported in literature, while for the White Goat breed it was with 3.1% similar to frequencies of other Saanen or Saanen derived breeds. Further evidence was found for the existence of two M142 haplotypes, M142 /S240 and M142 /P240 . Breeds vary in haplotype frequencies but frequencies of resistant genotypes are generally low and consequently selective breeding for scrapie resistance can only be slow but will benefit from animals identified in this study. The unexpectedly high frequency of the K222 haplotype in the Dutch Toggenburger underlines the need for conservation of rare breeds in order to conserve genetic diversity rare or absent in other breeds. © 2016 Blackwell Verlag GmbH.

Competition and habitat quality influence age and sex distribution in wintering Rusty Blackbirds

Treesearch

Claudia Mettke-Hofmann; Paul B. Hamel; Gerhard Hofmann; Theodore J. Zenzal Jr.; Anne Pellegrini; Jennifer Malpass; Megan Garfinkel; Nathan Schiff; Russell Greenberg

2015-01-01

Bird habitat quality is often inferred from species abundance measures during the breeding and non-breeding season and used for conservation management decisions. However, during the non-breeding season age and sex classes often occupy different habitats which suggest a need for more habitat-specific data. Rusty Blackbird (Euphagus carolinus) is a...

Conserving Prairie Pothole Region wetlands and surrounding grasslands: evaluating effects on amphibians

USGS Publications Warehouse

Mushet, David M.; Neau, Jordan L.

2014-01-01

The maintenance of viable and genetically diverse populations of amphibians in the Prairie Pothole Region of the United States depends on upland as well as wetland over-wintering and landscape level habitat features.Prairie pothole wetlands provide important amphibian breeding habitat while grasslands surrounding these wetlands provide foraging habitat for adults, overwintering habitat for some species, and important connectivity among breeding wetlands.Grasslands surrounding wetlands were found to be especially important for wood frogs and northern leopard frogs, while croplands dominated habitat utilized by Great Plains toads and Woodhouse’s toads.Habitat suitability mapping highlighted (1) the influence of deep-water overwintering wetlands on suitable habitat for four of five anuran species encountered; (2) the lack of overlap between areas of core habitat for both the northern leopard frog and wood frog compared to the core habitat for both toad species; and (3) the importance of conservation programs in providing grassland components of northern leopard frog and wood frog habitat.Currently, there are approximately 7.2 million acres (2.9 million hectares, ha) of habitat in the PPR identified as suitable for amphibians. WRP and CRP wetland and grassland habitats accounted for approximately 1.9 million acres (0.75 million ha) or 26 percent of this total area.Continued loss of amphibian habitat resulting from an ongoing trend of returning PPR conservation lands to crop production, will likely have significant negative effects on the region’s ability to maintain amphibian biodiversity. Conversely, increases in conservation wetlands and surrounding grasslands on the PPR landscape have great potential to positively influence the region’s amphibian populations.

Predictors of breeding site occupancy by amphibians in montane landscapes

USGS Publications Warehouse

Groff, Luke A.; Loftin, Cynthia S.; Calhoun, Aram J.K.

2017-01-01

Ecological relationships and processes vary across species’ geographic distributions, life stages and spatial, and temporal scales. Montane landscapes are characterized by low wetland densities, rugged topographies, and cold climates. Consequently, aquatic-dependent and low-vagility ectothermic species (e.g., pool-breeding amphibians) may exhibit unique ecological associations in montane landscapes. We evaluated the relative importance of breeding- and landscape-scale features associated with spotted salamander (Ambystoma maculatum) and wood frog (Lithobates sylvaticus) wetland occupancy in Maine's Upper Montane-Alpine Zone ecoregion, and we determined whether models performed better when the inclusive landscape-scale covariates were estimated with topography-weighted or circular buffers. We surveyed 135 potential breeding sites during May 2013–June 2014 and evaluated environmental relationships with multi-season implicit dynamics occupancy models. Breeding site occupancy by both species was influenced solely by breeding-scale habitat features. Spotted salamander occupancy probabilities increased with previous or current beaver (Castor canadensis) presence, and models generally were better supported when the inclusive landscape-scale covariates were estimated with topography-weighted rather than circular buffers. Wood frog occupancy probabilities increased with site area and percent shallows, but neither buffer type was better supported than the other. Model rank order and support varied between buffer types, but model inferences did not. Our results suggest pool-breeding amphibian conservation in montane Maine include measures to maintain beaver populations and large wetlands with proportionally large areas of shallows ≤1-m deep. Inconsistencies between our study and previous studies substantiate the value of region-specific research for augmenting species’ conservation management plans and suggest the application of out-of-region inferences may promote ineffective conservation. 

Micropropagation of Phalaenopsis orchids via protocorms and protocorm-like bodies.

PubMed

Paek, Kee Yoeup; Hahn, Eun Joo; Park, So Young

2011-01-01

Phalaenopsis orchids have high economic value in the floriculture industry. Hybridization or cross-pollination in the breeding program have proven to be very reliable techniques for the production of a wide range of successful cultivars with attractive combinations of spray length, bud number, flower color and type, fragrance, seasonality, and compactness. In vitro propagation makes it possible to clonally mass propagate hybrids of commercial value and conserved species. However, in vitro culture technologies are still a challenge because of the slow growth of plantlets, low multiplication rate, poor rooting, and somaclonal variation. Although seed-raised plants can be used for conservation and breeding for the selection of superior features, genetic characteristics including seasonality, inflorescence, flower color, and type are not uniform. In this regard, micropropagation through protocorm-like bodies obtained from germinating embryos and somatic tissues is an important strategy in obtaining genetically stable plants and the improvement of quality. However, not all genotypes of Phalaenopsis respond to the same protocol under the same culture conditions and often result in the development of undesirable characteristics. In this chapter, plantlet production in Phalaenopsis orchids via the culture of protocorms from seeds and protocorm-like bodies from leaf sections and root tips are detailed.

Pollen morphology and viability in Bromeliaceae.

PubMed

Souza, Everton H; Souza, Fernanda V D; Rossi, Mônica L; Packer, Renan M; Cruz-Barros, Maria Amelia V; Martinelli, Adriana P

2017-01-01

Pollen morphology characterization is important in taxonomy, conservation and plant breeding, and pollen viability studies can support breeding programs. This study investigated pollen morphology and male fertility in 18 species of Bromeliaceae with ornamental potential. For morphological characterization, pollen grains were acetolyzed and characterization of exine was done using scanning and transmission electron microscopy. Pollen viability was investigated by in vitro germination and histochemical tests. Species belonging to Aechmea and Ananas genera presented medium size pollen, except for Ae. fasciata, with large pollen. Al. nahoumii, P. sagenarius and the Vriesea species analyzed showed large pollen, except for V. carinata, with very large pollen. Pollen of Aechmea, Ananas and P. sagenarius presented bilateral symmetry, diporate, exine varying from tectate to semitectate. Al. nahoumii and Vriesea species presented pollen with bilateral symmetry, monocolpate; exine was semitectate, reticulate and heterobrochate. Germination percentage and tube growth were greater in SM and BKM media. Histochemical tests showed pollen viability above 70% for all species, except for Ananas sp. (40%). Pollen morphology is important for the identification of species, especially in this family, which contains a large number of species. High rates of viability favor fertilization and seed production, essential for efficient hybrid production and conservation.

Connectivity of wood thrush breeding, wintering, and migration sites based on range-wide tracking.

PubMed

Stanley, Calandra Q; McKinnon, Emily A; Fraser, Kevin C; Macpherson, Maggie P; Casbourn, Garth; Friesen, Lyle; Marra, Peter P; Studds, Colin; Ryder, T Brandt; Diggs, Nora E; Stutchbury, Bridget J M

2015-02-01

Many migratory animals are experiencing rapid population declines, but migration data with the geographic scope and resolution to quantify the complex network of movements between breeding and nonbreeding regions are often lacking. Determining the most frequently used migration routes and nonbreeding regions for a species is critical for understanding population dynamics and making effective conservation decisions. We tracked the migration of individual Wood Thrushes (Hylocichla mustelina) (n = 102) from across their range with light-level geolocators and, for the first time, quantified migration routes and wintering regions for distinct breeding populations. We identified regional and species-level migratory connectivity networks for this declining songbird by combining our tracking results with range-wide breeding abundance estimates and forest cover data. More than 50% of the species occupied the eastern wintering range (Honduras to Costa Rica), a region that includes only one-third of all wintering habitat and that is undergoing intensive deforestation. We estimated that half of all Wood Thrushes in North America migrate south through Florida in fall, whereas in spring approximately 73% funnel northward through a narrow span along the central U.S. Gulf Coast (88-93°W). Identifying migratory networks is a critical step for conservation of songbirds and we demonstrated with Wood Thrushes how it can highlight conservation hotspots for regional populations and species as a whole. © 2014 Society for Conservation Biology.

Genome wide linkage disequilibrium and genetic structure in Sicilian dairy sheep breeds.

PubMed

Mastrangelo, Salvatore; Di Gerlando, Rosalia; Tolone, Marco; Tortorici, Lina; Sardina, Maria Teresa; Portolano, Baldassare

2014-10-10

The recent availability of sheep genome-wide SNP panels allows providing background information concerning genome structure in domestic animals. The aim of this work was to investigate the patterns of linkage disequilibrium (LD), the genetic diversity and population structure in Valle del Belice, Comisana, and Pinzirita dairy sheep breeds using the Illumina Ovine SNP50K Genotyping array. Average r (2) between adjacent SNPs across all chromosomes was 0.155 ± 0.204 for Valle del Belice, 0.156 ± 0.208 for Comisana, and 0.128 ± 0.188 for Pinzirita breeds, and some variations in LD value across chromosomes were observed, in particular for Valle del Belice and Comisana breeds. Average values of r (2) estimated for all pairwise combinations of SNPs pooled over all autosomes were 0.058 ± 0.023 for Valle del Belice, 0.056 ± 0.021 for Comisana, and 0.037 ± 0.017 for Pinzirita breeds. The LD declined as a function of distance and average r (2) was lower than the values observed in other sheep breeds. Consistency of results among the several used approaches (Principal component analysis, Bayesian clustering, F ST, Neighbor networks) showed that while Valle del Belice and Pinzirita breeds formed a unique cluster, Comisana breed showed the presence of substructure. In Valle del Belice breed, the high level of genetic differentiation within breed, the heterogeneous cluster in Admixture analysis, but at the same time the highest inbreeding coefficient, suggested that the breed had a wide genetic base with inbred individuals belonging to the same flock. The Sicilian breeds were characterized by low genetic differentiation and high level of admixture. Pinzirita breed displayed the highest genetic diversity (He, Ne) whereas the lowest value was found in Valle del Belice breed. This study has reported for the first time estimates of LD and genetic diversity from a genome-wide perspective in Sicilian dairy sheep breeds. Our results indicate that breeds formed non-overlapping clusters and are clearly separated populations and that Comisana sheep breed does not constitute a homogenous population. The information generated from this study has important implications for the design and applications of association studies as well as for development of conservation and/or selection breeding programs.

Boreal partners in flight: Working together to build a regional research and monitoring program

USGS Publications Warehouse

Handel, Colleen M.; Bonney, Rick; Pashley, David N.; Cooper, Robert J.; Niles, Larry

1999-01-01

Boreal regions of western North America regularly support breeding populations of 130 species of landbirds, including 68 Nearctic-Neotropical migrants. Primary conservation concerns within the region include increased timber harvesting, insect outbreaks, fire suppression, mining, impacts of military training activities, urbanization, and recreational activities. Under auspices of Partners in Flight, biologists, land and resource managers, and conservationists from Alaska and western Canada have combined efforts to develop a regional research and monitoring program for landbirds. An experimental monitoring program has been under way during the past four years to test the relative statistical power and cost-effectiveness of various monitoring methods in Alaska. Joint efforts currently include the Alaska Checklist Project on National Wildlife Refuges, 75 Breeding Bird Surveys along the road system, 122 Off-road Point Count routes, 27 Monitoring Avian Productivity and Survivorship banding sites, and 8 migration banding stations. The ultimate goal is to design a comprehensive monitoring program that is sensitive to changes in population size, survival rates, and productivity, but robust enough to accommodate logistical constraints that arise when working in vast, roadless areas with limited funds and staff. Primary challenges that must be faced to assure the long-term future of such a program are obtaining long-term commitment from resource agencies in the region, integrating this program with other national and regional programs that address those species and habitats that are inadequately monitored by established techniques, and developing cooperative research, monitoring, and management programs at the landscape level.

Species distribution modeling in regions of high need and limited data: waterfowl of China

USGS Publications Warehouse

Prosser, Diann J.; Ding, Changqing; Erwin, R. Michael; Mundkur, Taej; Sullivan, Jeffery D.; Ellis, Erle C.

2018-01-01

BackgroundA number of conservation and societal issues require understanding how species are distributed on the landscape, yet ecologists are often faced with a lack of data to develop models at the resolution and extent desired, resulting in inefficient use of conservation resources. Such a situation presented itself in our attempt to develop waterfowl distribution models as part of a multi-disciplinary team targeting the control of the highly pathogenic H5N1 avian influenza virus in China.MethodsFaced with limited data, we built species distribution models using a habitat suitability approach for China’s breeding and non-breeding (hereafter, wintering) waterfowl. An extensive review of the literature was used to determine model parameters for habitat modeling. Habitat relationships were implemented in GIS using land cover covariates. Wintering models were validated using waterfowl census data, while breeding models, though developed for many species, were only validated for the one species with sufficient telemetry data available.ResultsWe developed suitability models for 42 waterfowl species (30 breeding and 39 wintering) at 1 km resolution for the extent of China, along with cumulative and genus level species richness maps. Breeding season models showed highest waterfowl suitability in wetlands of the high-elevation west-central plateau and northeastern China. Wintering waterfowl suitability was highest in the lowland regions of southeastern China. Validation measures indicated strong performance in predicting species presence. Comparing our model outputs to China’s protected areas indicated that breeding habitat was generally better covered than wintering habitat, and identified locations for which additional research and protection should be prioritized.ConclusionsThese suitability models are the first available for many of China’s waterfowl species, and have direct utility to conservation and habitat planning and prioritizing management of critically important areas, providing an example of how this approach may aid others faced with the challenge of addressing conservation issues with little data to inform decision making.

Factors affecting the outcome of artificial insemination using cryopreserved spermatozoa in the giant panda (Ailuropoda melanoleuca).

PubMed

Huang, Yan; Li, Desheng; Zhou, Yingmin; Zhou, Qiang; Li, Rengui; Wang, Chengdong; Huang, Zhi; Hull, Vanessa; Zhang, Hemin

2012-01-01

Artificial insemination (AI) is an important component of captive breeding programs for endangered species, such as the giant panda. The panda has been the subject of increasingly successful captive breeding programs involving a compilation of assisted breeding techniques, including AI using cryopreserved spermatozoa. AI implementation is currently hampered by a lack of understanding of the factors that may cause failure. We investigated factors influencing the probability of success of AI for 14 giant panda females housed at the China Center for Research and Conservation of the Giant Panda (CCRCGP) inseminated in a total of 20 instances using cryopreserved spermatozoa from 11 males currently residing in 6 different captive breeding institutions. One of the pandas was the oldest giant panda female to ever successfully conceive from AI (20.5 years old). The success of AI was significantly affected by the timing of AI in relationship to both timing of peak urinary estrogen of the female and percent decline in urinary estrogen between the peak level and the first AI attempt. Our results suggest that the window for successful AI in giant pandas may be narrower than previously suspected, although individual differences in rates of decline in urinary estrogen may reflect some degree of variation in this crucial window across females. Our results are consistent with recent research on pandas and other species that demonstrates the efficacy of cryopreserved spermatozoa for AI and highlights the need for more in-depth analysis of factors related to female physiology that may influence its success. © 2011 Wiley Periodicals, Inc.

Genomic Regions in Local Endangered Sheep Encode Potentially Favorable Genes.

PubMed

Moioli, Bianca; Steri, Roberto; Catillo, Gennaro

2018-01-02

The economic evaluation of farm animal genetic resources plays a key role in developing conservation programs. However, to date, the link between diversity as assessed by neutral genetic markers and the functional diversity is not yet understood. Two genome-wide comparisons, using over 44,000 Single Nucleotide Polymorphisms, identified the markers with the highest difference in allele frequency between the Alpago endangered breed and two clusters, composed of four specialized dairy sheep, and four meat breeds respectively. The genes in proximity of these markers were mapped to known pathways of the Gene Ontology to determine which ones were most represented. Our results indicated that the differences of the Alpago breed from the more productive sheep rely upon genes involved in cellular defense and repair mechanisms. A higher number of different markers and genes were detected in the comparison with the specialized dairy sheep. These genes play a role in complex biological processes: metabolic, homeostatic, neurological system, and macromolecular organization; such processes may possibly explain the evolution of gene function as a result of selection to improve milk yield.

Assessing priorities for conservation in Tuscan cattle breeds using microsatellites.

PubMed

Bozzi, R; Alvarez, I; Crovetti, A; Fernández, I; De Petris, D; Goyache, F

2012-02-01

Preservation of rare genetic stocks requires assessment of within-population genetic diversity and between-population differentiation to make inferences on their degree of uniqueness. A total of 194 Tuscan cattle (44 Calvana, 35 Chianina, 25 Garfagnina, 31 Maremmana, 31 Mucca Pisana and 28 Pontremolese) individuals were genotyped for 34 microsatellite markers. Moreover, 56 samples belonging to Argentinean Creole and Asturiana de la Montaña cattle breeds were used as an outgroup. Genetic diversity was quantified in terms of molecular coancestry and allelic richness. STRUCTURE analyses showed that the Tuscan breeds have well-differentiated genetic backgrounds, except for the Calvana and Chianina breeds, which share the same genetic ancestry. The between-breed Nei's minimum distance (Dm) matrices showed that the pair Calvana-Chianina was less differentiated (0.049 ± 0.006). The endangered Tuscan breeds (Calvana, Garfagnina, Mucca Pisana and Pontremolese) made null or negative contributions to diversity, except for the Mucca Pisana contribution to allelic richness (CT = 1.8%). The Calvana breed made null or negative within-breed contributions (W = 0.0%; CW = -0.4%). The Garfagnina and Pontremolese breeds made positive contributions to between-breed diversity but negative and high within-breed contributions, thus suggesting population bottleneck with allelic losses and increase of homozygosity in the population. Exclusion of the four endangered Tuscan cattle breeds did not result in losses in genetic diversity (T = -0.7%; CT = -1.2%), whereas exclusion of the non-endangered breeds (Chianina and Maremmana) did (T = 2.1%; CT = 3.9%); the simple exclusion of the Calvana breed from the former group led to losses in genetic diversity (T = 0.47%; CT = 2.34%), indicating a diverse significance for this breed. We showed how quantifying both within-population diversity and between-population differentiation in terms of allelic frequencies and allelic richness provides different and complementary information on the genetic backgrounds assessed and may help to implement priorities and strategies for conservation in livestock.

An evolutionarily conserved gene, FUWA, plays a role in determining panicle architecture, grain shape and grain weight in rice.

PubMed

Chen, Jun; Gao, He; Zheng, Xiao-Ming; Jin, Mingna; Weng, Jian-Feng; Ma, Jin; Ren, Yulong; Zhou, Kunneng; Wang, Qi; Wang, Jie; Wang, Jiu-Lin; Zhang, Xin; Cheng, Zhijun; Wu, Chuanyin; Wang, Haiyang; Wan, Jian-Min

2015-08-01

Plant breeding relies on creation of novel allelic combinations for desired traits. Identification and utilization of beneficial alleles, rare alleles and evolutionarily conserved genes in the germplasm (referred to as 'hidden' genes) provide an effective approach to achieve this goal. Here we show that a chemically induced null mutation in an evolutionarily conserved gene, FUWA, alters multiple important agronomic traits in rice, including panicle architecture, grain shape and grain weight. FUWA encodes an NHL domain-containing protein, with preferential expression in the root meristem, shoot apical meristem and inflorescences, where it restricts excessive cell division. Sequence analysis revealed that FUWA has undergone a bottleneck effect, and become fixed in landraces and modern cultivars during domestication and breeding. We further confirm a highly conserved role of FUWA homologs in determining panicle architecture and grain development in rice, maize and sorghum through genetic transformation. Strikingly, knockdown of the FUWA transcription level by RNA interference results in an erect panicle and increased grain size in both indica and japonica genetic backgrounds. This study illustrates an approach to create new germplasm with improved agronomic traits for crop breeding by tapping into evolutionary conserved genes. © 2015 The Authors The Plant Journal © 2015 John Wiley & Sons Ltd.

The role of the North American Breeding Bird Survey in conservation

USGS Publications Warehouse

Hudson, Marie-Anne R.; Francis, Charles M.; Campbell, Kate J.; Downes, Constance M.; Smith, Adam C.; Pardieck, Keith L.

2017-01-01

The North American Breeding Bird Survey (BBS) was established in 1966 in response to a lack of quantitative data on changes in the populations of many bird species at a continental scale, especially songbirds. The BBS now provides the most reliable regional and continental trends and annual indices of abundance available for >500 bird species. This paper reviews some of the ways in which BBS data have contributed to bird conservation in North America over the past 50 yr, and highlights future program enhancement opportunities. BBS data have contributed to the listing of species under the Canadian Species at Risk Act and, in a few cases, have informed species assessments under the U.S. Endangered Species Act. By raising awareness of population changes, the BBS has helped to motivate bird conservation efforts through the creation of Partners in Flight. BBS data have been used to determine priority species and locations for conservation action at regional and national scales through Bird Conservation Region strategies and Joint Ventures. Data from the BBS have provided the quantitative foundation for North American State of the Birds reports, and have informed the public with regard to environmental health through multiple indicators, such as the Canadian Environmental Sustainability Indicators and the U.S. Environmental Protection Agency's Report on the Environment. BBS data have been analyzed with other data (e.g., environmental, land cover, and demographic) to evaluate potential drivers of population change, which have then informed conservation actions. In a few cases, BBS data have contributed to the evaluation of management actions, including informing the management of Mourning Doves (Zenaida macroura), Wood Ducks (Aix sponsa), and Golden Eagles (Aquila chrysaetos). Improving geographic coverage in northern Canada and in Mexico, improving the analytical approaches required to integrate data from other sources and to address variation in detectability, and completing the database, by adding historical bird data at each point count location and pinpointing the current point count locations would further enhance the survey's value.

The biogeography of globally threatened seabirds and island conservation opportunities.

PubMed

Spatz, Dena R; Newton, Kelly M; Heinz, Reina; Tershy, Bernie; Holmes, Nick D; Butchart, Stuart H M; Croll, Donald A

2014-10-01

Seabirds are the most threatened group of marine animals; 29% of species are at some risk of extinction. Significant threats to seabirds occur on islands where they breed, but in many cases, effective island conservation can mitigate these threats. To guide island-based seabird conservation actions, we identified all islands with extant or extirpated populations of the 98 globally threatened seabird species, as recognized on the International Union for Conservation of Nature Red List, and quantified the presence of threatening invasive species, protected areas, and human populations. We matched these results with island attributes to highlight feasible island conservation opportunities. We identified 1362 threatened breeding seabird populations on 968 islands. On 803 (83%) of these islands, we identified threatening invasive species (20%), incomplete protected area coverage (23%), or both (40%). Most islands with threatened seabirds are amenable to island-wide conservation action because they are small (57% were <1 km(2) ), uninhabited (74%), and occur in high- or middle-income countries (96%). Collectively these attributes make islands with threatened seabirds a rare opportunity for effective conservation at scale. © 2014 Society for Conservation Biology.

Grassland bird associations with introduced and native grass Conservation Reserve Program fields in the Southern High Plains

USGS Publications Warehouse

Thompson, Thomas R.; Boal, Clint W.; Lucia, Duane

2009-01-01

We examined relative abundances of grassland birds among Conservation Reserve Program (CRP) fields seeded with 2 monocultures of introduced grass species and 2 mixes of native grasses in the Southern High Plains of Texas. We assessed bird compositions among these 4 cover types and between the cover types pooled into categories of introduced and native fields. Breeding season bird diversity and total abundance did not differ among cover types or between introduced and native fields. Grasshopper Sparrows (Ammodramus savannarum), Cassin's Sparrows (Aimophila cassinii), and Western Meadowlarks (Sturnella neglecta) accounted for more than 90% of breeding season detections. Grasshopper Sparrows were the most abundant and found in all cover types. Cassin's Sparrows were 38% to 170% more abundant among the native seed mix without buffalograss (Buchloë dactyloides) compared to 3 other cover types. Although this association was statistically lost when cover types were pooled into introduced or native fields (U = 93.5, P = 0.91), the species was still 50% more abundant among native CRP than introduced CRP fields. Meadowlarks occurred ubiquitously but at very low numbers during the breeding season. During winter, avian abundance was 44% greater among native CRP than introduced CRP fields. Meadowlarks, Homed Larks (Eremophila alpestris), and Savannah Sparrows (Passerculus sandwichensis) accounted for 94% of all winter detections. Meadowlarks occurred ubiquitously, but Horned Larks and Savannah Sparrows were 157% and 96% more abundant, respectively, among native CRP than introduced CRP fields. Our data suggest that monocultures of introduced grasses may benefit some bird species but also that native seed mixes may have a more positive influence through increased diversity and abundance of grassland birds. However, pooling cover types into the broader categories of introduced or native grasses may dampen or occlude biologically meaningful results. It may be prudent to avoid broad categorization of CRP fields based solely on native or introduced grass cover when assessing habitat associations of grassland birds.

Contrasting results from molecular and pedigree-based population diversity measures in captive zebra highlight challenges facing genetic management of zoo populations.

PubMed

Ito, Hideyuki; Ogden, Rob; Langenhorst, Tanya; Inoue-Murayama, Miho

2017-01-01

Zoo conservation breeding programs manage the retention of population genetic diversity through analysis of pedigree records. The range of demographic and genetic indices determined through pedigree analysis programs allows the conservation of diversity to be monitored relative to the particular founder population for a species. Such approaches are based on a number of well-documented founder assumptions, however without knowledge of actual molecular genetic diversity there is a risk that pedigree-based measures will be misinterpreted and population genetic diversity misunderstood. We examined the genetic diversity of the captive populations of Grevy's zebra, Hartmann's mountain zebra and plains zebra in Japan and the United Kingdom through analysis of mitochondrial DNA sequences. Very low nucleotide variability was observed in Grevy's zebra. The results were evaluated with respect to current and historic diversity in the wild, and indicate that low genetic diversity in the captive population is likely a result of low founder diversity, which in turn suggests relatively low wild genetic diversity prior to recent population declines. Comparison of molecular genetic diversity measures with analogous diversity indices generated from the studbook data for Grevy's zebra and Hartmann's mountain zebra show contrasting patterns, with Grevy's zebra displaying markedly less molecular diversity than mountain zebra, despite studbook analysis indicating that the Grevy's zebra population has substantially more founders, greater effective population size, lower mean kinship, and has suffered less loss of gene diversity. These findings emphasize the need to validate theoretical estimates of genetic diversity in captive breeding programs with empirical molecular genetic data. Zoo Biol. 36:87-94, 2017. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Toward responsible stock enhancement: broadcast spawning dynamics and adaptive genetic management in white seabass aquaculture.

PubMed

Gruenthal, Kristen M; Drawbridge, Mark A

2012-06-01

The evolutionary effects captive-bred individuals that can have on wild conspecifics are necessary considerations for stock enhancement programs, but breeding protocols are often developed without the knowledge of realized reproductive behavior. To help fill that gap, parentage was assigned to offspring produced by a freely mating group of 50 white seabass (Atractoscion nobilis), a representative broadcast spawning marine finfish cultured for conservation. Similar to the well-known and closely related red drum (Sciaenops ocellatus), A. nobilis exhibited large variation in reproductive success. More males contributed and contributed more equally than females within and among spawns in a mating system best described as lottery polygyny. Two females produced 27% of the seasonal offspring pool and female breeding effective size averaged 1.85 per spawn and 12.38 seasonally, whereas male breeding effective size was higher (6.42 and 20.87, respectively), with every male contributing 1-7% of offspring. Further, females batch spawned every 1-5 weeks, while males displayed continuous reproductive readiness. Sex-specific mating strategies resulted in multiple successful mate pairings and a breeding effective to census size ratio of ≥0.62. Understanding a depleted species' mating system allowed management to more effectively utilize parental genetic variability for culture, but the fitness consequences of long-term stocking can be difficult to address.

Desert amphibian selection of arid land breeding habitat undermines reproductive effort.

PubMed

Kiesow, Anja B; Griffis-Kyle, Kerry L

2017-12-01

Understanding how animals select habitat is important for understanding how to better conserve those species. As droughts become more frequent and water availability declines in many systems, understanding selection of water sources becomes even more important for conservation. Tinajas and anthropogenic catchments are critical ephemeral breeding sites for Sonoran Desert anurans. Tadpoles have been documented in both water types even though anthropogenic catchments can contain very high concentrations of ammonia. We currently do not know how amphibians are selecting breeding habitat. We tested three hypotheses of habitat selection based on resource quality, resource quality and territoriality, and proximity of water site to other water sites. Male Anaxyrus punctatus called from all sites regardless of habitat quality or male quality; however, they were found more often at sites within 2 km of other sites. This suggests that male desert anurans are selecting close breeding habitat regardless of quality for breeding, indicating ammoniated sites are likely either population sinks or ecological traps. Consequently, adding anthropogenic water sites, without managing to reduce ammonia, will provide low quality habitat that could cause long-term declines in desert anuran populations.

Comparative multivariate analysis of biometric traits of West African Dwarf and Red Sokoto goats.

PubMed

Yakubu, Abdulmojeed; Salako, Adebowale E; Imumorin, Ikhide G

2011-03-01

The population structure of 302 randomly selected West African Dwarf (WAD) and Red Sokoto (RS) goats was examined using multivariate morphometric analyses. This was to make the case for conservation, rational management and genetic improvement of these two most important Nigerian goat breeds. Fifteen morphometric measurements were made on each individual animal. RS goats were superior (P<0.05) to the WAD for the body size and skeletal proportions investigated. The phenotypic variability between the two breeds was revealed by their mutual responses in the principal components. While four principal components were extracted for WAD goats, three components were obtained for their RS counterparts with variation in the loading traits of each component for each breed. The Mahalanobis distance of 72.28 indicated a high degree of spatial racial separation in morphology between the genotypes. The Ward's option of the cluster analysis consolidated the morphometric distinctness of the two breeds. Application of selective breeding to genetic improvement would benefit from the detected phenotypic differentiation. Other implications for management and conservation of the goats are highlighted.

Individual Quality Explains Variation in Reproductive Success Better than Territory Quality in a Long-Lived Territorial Raptor

PubMed Central

Zabala, Jabi; Zuberogoitia, Iñigo

2014-01-01

Evolution by natural selection depends on the relationship between individual traits and fitness. Variation in individual fitness can result from habitat (territory) quality and individual variation. Individual quality and specialization can have a deep impact on fitness, yet in most studies on territorial species the quality of territory and individuals are confused. We aimed to determine if variation in breeding success is better explained by territories, individual quality or a combination of both. We analysed the number of fledglings and the breeding quality index (the difference between the number of fledglings of an individual/breeding pair and the average number of fledglings of the monitored territories in the same year) as part of a long term (16 years) peregrine falcon (Falco peregrinus) monitoring program with identification of individuals. Using individual and territory identities as correlates of quality, we built Generalised Linear Models with Mixed effects, in which random factors depicted different hypotheses for sources of variation (territory/individual quality) in the reproductive success of unique breeding pairs, males and females, and assessed their performance. Most evidence supported the hypothesis that variation in breeding success is explained by individual identity, particularly male identity, rather than territory. There is also some evidence for inter year variations in the breeding success of females and a territory effect in the case of males. We argue that, in territorial species, individual quality is a major source of variation in breeding success, often masked by territory. Future ecological and conservation studies on habitat use should consider and include the effect of individuals, in order to avoid misleading results. PMID:24599280

Bottlenecks and selective sweeps during domestication have increased deleterious genetic variation in dogs.

PubMed

Marsden, Clare D; Ortega-Del Vecchyo, Diego; O'Brien, Dennis P; Taylor, Jeremy F; Ramirez, Oscar; Vilà, Carles; Marques-Bonet, Tomas; Schnabel, Robert D; Wayne, Robert K; Lohmueller, Kirk E

2016-01-05

Population bottlenecks, inbreeding, and artificial selection can all, in principle, influence levels of deleterious genetic variation. However, the relative importance of each of these effects on genome-wide patterns of deleterious variation remains controversial. Domestic and wild canids offer a powerful system to address the role of these factors in influencing deleterious variation because their history is dominated by known bottlenecks and intense artificial selection. Here, we assess genome-wide patterns of deleterious variation in 90 whole-genome sequences from breed dogs, village dogs, and gray wolves. We find that the ratio of amino acid changing heterozygosity to silent heterozygosity is higher in dogs than in wolves and, on average, dogs have 2-3% higher genetic load than gray wolves. Multiple lines of evidence indicate this pattern is driven by less efficient natural selection due to bottlenecks associated with domestication and breed formation, rather than recent inbreeding. Further, we find regions of the genome implicated in selective sweeps are enriched for amino acid changing variants and Mendelian disease genes. To our knowledge, these results provide the first quantitative estimates of the increased burden of deleterious variants directly associated with domestication and have important implications for selective breeding programs and the conservation of rare and endangered species. Specifically, they highlight the costs associated with selective breeding and question the practice favoring the breeding of individuals that best fit breed standards. Our results also suggest that maintaining a large population size, rather than just avoiding inbreeding, is a critical factor for preventing the accumulation of deleterious variants.

Bottlenecks and selective sweeps during domestication have increased deleterious genetic variation in dogs

PubMed Central

Marsden, Clare D.; Ortega-Del Vecchyo, Diego; O’Brien, Dennis P.; Taylor, Jeremy F.; Ramirez, Oscar; Vilà, Carles; Marques-Bonet, Tomas; Schnabel, Robert D.; Wayne, Robert K.; Lohmueller, Kirk E.

2016-01-01

Population bottlenecks, inbreeding, and artificial selection can all, in principle, influence levels of deleterious genetic variation. However, the relative importance of each of these effects on genome-wide patterns of deleterious variation remains controversial. Domestic and wild canids offer a powerful system to address the role of these factors in influencing deleterious variation because their history is dominated by known bottlenecks and intense artificial selection. Here, we assess genome-wide patterns of deleterious variation in 90 whole-genome sequences from breed dogs, village dogs, and gray wolves. We find that the ratio of amino acid changing heterozygosity to silent heterozygosity is higher in dogs than in wolves and, on average, dogs have 2–3% higher genetic load than gray wolves. Multiple lines of evidence indicate this pattern is driven by less efficient natural selection due to bottlenecks associated with domestication and breed formation, rather than recent inbreeding. Further, we find regions of the genome implicated in selective sweeps are enriched for amino acid changing variants and Mendelian disease genes. To our knowledge, these results provide the first quantitative estimates of the increased burden of deleterious variants directly associated with domestication and have important implications for selective breeding programs and the conservation of rare and endangered species. Specifically, they highlight the costs associated with selective breeding and question the practice favoring the breeding of individuals that best fit breed standards. Our results also suggest that maintaining a large population size, rather than just avoiding inbreeding, is a critical factor for preventing the accumulation of deleterious variants. PMID:26699508

Avian assemblages on altered grasslands

USGS Publications Warehouse

Knopf, Fritz L.

1994-01-01

Grasslands comprise 17% of the North American landscape but provide primary habitat for only 5% of native bird species. On the Great Plains, grasslands include an eastern component of tall grasses and a western component of short grasses, both of which have been regionally altered by removing native grazers, plowing sod, draining wetlands, and encouraging woody vegetation. As a group, populations of endemic bird species of the grasslands have declined more than others (including neotropical migrants) in the last quarter century. Individually, populations of the Upland Sandpiper and McCown’s Longspur have increased; the wetlands-associated Marbled Godwit and Wilson’s Phalarope appear stable; breeding ranges are shifting for the Ferruginous Hawk, Mississippi Kite, Short-eared Owl, Upland Sandpiper, Horned Lark, Vesper, Savannah, and Henslow’s sparrows, and Western Meadowlark; breeding habitats are disappearing locally for Franklin’s Gull, Dickcissel, Henslow’s and Grasshopper sparrows. Lark Bunting, and Eastern Meadowlark; and populations are declining throughout the breeding ranges for Mountain Plover, and Cassin’s and Clay-colored sparrows. Declines of these latter three species, and also the Franklin’s Gull, presumably are due to ecological phenomena on their respective wintering areas. Unlike forest species that winter in the neotropics, most birds that breed in the North American grasslands also winter on the continent and problems driving declines in grassland species are associated almost entirely with North American processes. Contemporary programs and initiatives hold promise for the conservation of breeding habitats for these birds. Ecological ignorance of wintering habits and habitats clouds the future of the endemic birds of grasslands, especially those currently experiencing widespread declines across breeding locales.

The Significance of Mating System and Nonbreeding Behavior to Population and Forest Patch Use by Migrant Birds

Treesearch

Eugene S. Morton; Bridget J. M. Stutchbury

2005-01-01

Migratory birds are birds of two worlds, breeding in the temperate zone then living as tropical birds for most of the year. We show two aspects of this unique biology that are important considerations for their conservation. First, habitat selection for breeding must include their need for extra-pair mating opportunities. Second, non-breeding distributions in tropical...

Conceptual ecological model for management of breeding grassland birds in the Mid-Atlantic Region

USGS Publications Warehouse

Peterjohn, Bruce G.

2006-01-01

The status of grassland birds has become an increasingly important conservation issue. These species exhibit the most consistent population declines of any group of North American birds during the past 40 years. Anecdotal evidence suggests these declines have been occurring for nearly a century (Peterjohn and Sauer 1999). While the widespread conversion of grasslands into other habitats contributed to these declining populations, other factors such as habitat fragmentation and mowing regimes are also implicated (Vickery et al. 1999a). This plight of grassland birds has heightened awareness of the need for concerted conservation actions to reverse these seriously declining population trends. The National Park Service (NPS) is positioned to potentially contribute to grassland bird conservation in the Mid-Atlantic Region. The NPS maintains a number of historic sites and former battlefields that are managed for their cultural significance but also support wildlife populations. Many of these “cultural parks” maintain open landscapes to recreate land use patterns that existed at the times of the historical events. These open landscapes are primarily managed grasslands which could be maintained to benefit grassland birds. In 2005, the NPS initiated a project exploring the potential of “cultural parks” to support significant breeding grassland bird communities. This project involved parks within three NPS Inventory and Monitoring Program (I&M) networks, Mid-Atlantic, National Capital, and Eastern Rivers and Mountains. Five parks were selected for the initial focus of this study, all of which maintain open landscapes for interpretation of historic events. Most parks were selected because they represent the most extensive grassland habitats within their networks, with the rationale that if these parks cannot support significant breeding grassland bird communities, then parks with smaller acreages cannot support these communities either. The five parks included in this study are: Antietam National Battlefield, Fort Necessity National Battlefield, Gettysburg National Battlefield, Manassas National Battlefield, and Monocacy National Battlefield. This conceptual ecological model is one product of this project. The information presented below allows NPS Network Coordinators to understand the factors to consider when making decisions concerning grassland management within their networks. This model provides park Resource Managers with information on grassland ecology in the Mid-Atlantic Region, the ecological requirements of grassland birds likely to occur in their parks, and management issues that influence whether significant breeding populations can be expected to occupy grasslands created and maintained in the parks. The Resource Managers can then make informed decisions concerning their ability to create and maintain grassland habitats. The emphasis of this conceptual model is restricted to management of breeding grassland birds. Additional species may occur in this region during migration and winter, while habitat requirements of all grassland birds during nonbreeding seasons will differ from those described for the breeding season.

Role of Brazilian zoos in ex situ bird conservation: from 1981 to 2005.

PubMed

Azevedo, Cristiano S; Young, Robert J; Rodrigues, Marcos

2011-01-01

Zoos may play an important role in conservation when they maintain and breed large numbers of animals that are threatened with extinction. Bird conservation is in a privileged situation owing to the extensive biological information available about this class. Annual inventories produced by the "Sociedade de Zoológicos do Brasil" in the years 1981, 1990, 2000, and 2005 were analyzed. Variables, such as the number of zoos per geographic region; number of birds held; number of bird species in each IUCN threat category; number of exotic and native bird species; number of potentially breeding bird species; number of bird species in each order; and number of threatened bird species breeding, were analyzed. Brazilian zoos kept more than 350 bird species. The number of bird species and specimens held by the Brazilian Zoos increased from 1981 to 2000, but decreased in 2005. The same pattern was observed for the number of species in each IUCN threat category. Results showed that the potential of the Brazilian zoos in bird conservation needs to be enhanced because they maintain threatened species but do not implement systematic genetic, reproductive, or behavioral management protocols for most species. © 2010 Wiley Periodicals, Inc.

Simulating range-wide population and breeding habitat dynamics for an endangered woodland warbler in the face of uncertainty

USGS Publications Warehouse

Adam Duarte,; Hatfield, Jeffrey; Todd M. Swannack,; Michael R. J. Forstner,; M. Clay Green,; Floyd W. Weckerly,

2015-01-01

Population viability analyses provide a quantitative approach that seeks to predict the possible future status of a species of interest under different scenarios and, therefore, can be important components of large-scale species’ conservation programs. We created a model and simulated range-wide population and breeding habitat dynamics for an endangered woodland warbler, the golden-cheeked warbler (Setophaga chrysoparia). Habitat-transition probabilities were estimated across the warbler's breeding range by combining National Land Cover Database imagery with multistate modeling. Using these estimates, along with recently published demographic estimates, we examined if the species can remain viable into the future given the current conditions. Lastly, we evaluated if protecting a greater amount of habitat would increase the number of warblers that can be supported in the future by systematically increasing the amount of protected habitat and comparing the estimated terminal carrying capacity at the end of 50 years of simulated habitat change. The estimated habitat-transition probabilities supported the hypothesis that habitat transitions are unidirectional, whereby habitat is more likely to diminish than regenerate. The model results indicated population viability could be achieved under current conditions, depending on dispersal. However, there is considerable uncertainty associated with the population projections due to parametric uncertainty. Model results suggested that increasing the amount of protected lands would have a substantial impact on terminal carrying capacities at the end of a 50-year simulation. Notably, this study identifies the need for collecting the data required to estimate demographic parameters in relation to changes in habitat metrics and population density in multiple regions, and highlights the importance of establishing a common definition of what constitutes protected habitat, what management goals are suitable within those protected areas, and a standard operating procedure to identify areas of priority for habitat conservation efforts. Therefore, we suggest future efforts focus on these aspects of golden-cheeked warbler conservation and ecology.

Assessing avian richness in remnant wetlands: Towards an improved methodology

USGS Publications Warehouse

Krzys, Greg; Waite, Thomas A.; Stapanian, Martin; Vucetich, John A.

2002-01-01

Because the North American Breeding Bird Survey provides inadequate coverage of wetland habitat, the Wetland Breeding Bird Survey was recently established in Ohio, USA. This program relies on volunteers to conduct 3 counts at each monitored wetland. Currently, all counts are conducted during the morning. Under the premise that volunteer participation could be increased by allowing evening counts, we evaluated the potential for modifying the methodology. We evaluated the sampling efficiency of all 3-count combinations of morning and evening counts using data collected at 14 wetlands. Estimates of overall species richness decreased with increasing numbers of evening counts. However, this pattern did not hold when analyses were restricted to wetland-dependent species or those of conservation concern. Our findings suggest that it would be reasonable to permit evening counts, particularly if the data are to be used to monitor wetland dependent species and those of concern.

Livestock Drugs and Disease: The Fatal Combination behind Breeding Failure in Endangered Bearded Vultures

PubMed Central

Blanco, Guillermo; Lemus, Jesús A.

2010-01-01

There is increasing concern about the impact of veterinary drugs and livestock pathogens as factors damaging wildlife health, especially of threatened avian scavengers feeding upon medicated livestock carcasses. We conducted a comprehensive study of failed eggs and dead nestlings in bearded vultures (Gypaetus barbatus) to attempt to elucidate the proximate causes of breeding failure behind the recent decline in productivity in the Spanish Pyrenees. We found high concentrations of multiple veterinary drugs, primarily fluoroquinolones, in most failed eggs and nestlings, associated with multiple internal organ damage and livestock pathogens causing disease, especially septicaemia by swine pathogens and infectious bursal disease. The combined impact of drugs and disease as stochastic factors may result in potentially devastating effects exacerbating an already high risk of extinction and should be considered in current conservation programs for bearded vultures and other scavenger species, especially in regards to dangerous veterinary drugs and highly pathogenic poultry viruses. PMID:21152405

Complex Admixture Preceded and Followed the Extinction of Wisent in the Wild

PubMed Central

Hartmann, Stefanie; Paijmans, Johanna L. A.; Taron, Ulrike; Xenikoudakis, Georgios; Cahill, James A.; Heintzman, Peter D.; Shapiro, Beth; Baryshnikov, Gennady; Bunevich, Aleksei N.; Crees, Jennifer J.; Dobosz, Roland; Manaserian, Ninna; Okarma, Henryk; Tokarska, Małgorzata; Turvey, Samuel T.; Wójcik, Jan M.; Żyła, Waldemar; Szymura, Jacek M.; Hofreiter, Michael

2017-01-01

Retracing complex population processes that precede extreme bottlenecks may be impossible using data from living individuals. The wisent (Bison bonasus), Europe’s largest terrestrial mammal, exemplifies such a population history, having gone extinct in the wild but subsequently restored by captive breeding efforts. Using low coverage genomic data from modern and historical individuals, we investigate population processes occurring before and after this extinction. Analysis of aligned genomes supports the division of wisent into two previously recognized subspecies, but almost half of the genomic alignment contradicts this population history as a result of incomplete lineage sorting and admixture. Admixture between subspecies populations occurred prior to extinction and subsequently during the captive breeding program. Admixture with the Bos cattle lineage is also widespread but results from ancient events rather than recent hybridization with domestics. Our study demonstrates the huge potential of historical genomes for both studying evolutionary histories and for guiding conservation strategies. PMID:28007976

Relationships between Podolic cattle breeds assessed by single nucleotide polymorphisms (SNPs) genotyping.

PubMed

Pariset, L; Mariotti, M; Nardone, A; Soysal, M I; Ozkan, E; Williams, J L; Dunner, S; Leveziel, H; Maróti-Agóts, A; Bodò, I; Valentini, A

2010-12-01

Italian Maremmana, Turkish Grey and Hungarian Grey breeds belong to the same Podolic group of cattle, have a similar conformation and recently experienced a similar demographic reduction. The aim of this study was to assess the relationship among the analysed Podolic breeds and to verify whether their genetic state reflects their history. To do so, approximately 100 single nucleotide polymorphisms (SNPs) were genotyped on individuals belonging to these breeds and compared to genotypes of individuals of two Italian beef breeds, Marchigiana and Piemontese, which underwent different selection and migration histories. Population genetic parameters such as allelic frequencies and heterozygosity values were assessed, genetic distances calculated and assignment test performed to evaluate the possibility of recent admixture between the populations. The data show that the physical similarity among the Podolic breeds examined, and particularly between Hungarian Grey and Maremmana cattle that experienced admixture in the recent past, is mainly morphological. The assignment of individuals from genotype data was achieved using Bayesian inference, confirming that the set of chosen SNPs is able to distinguish among the breeds and that the breeds are genetically distinct. Individuals of Turkish Grey breed were clearly assigned to their breed of origin for all clustering alternatives, showing that this breed can be differentiated from the others on the basis of the allelic frequencies. Remarkably, in the Turkish Grey there were differences observed between the population of Enez district, where in situ conservation studies are practised, and that of Bandirma district of Balikesir, where ex situ conservation studies are practised out of the original raising area. In conclusion, this study demonstrates that molecular data could be used to reveal an unbiased view of past events and provide the basis for a rational exploitation of livestock, suggesting appropriate cross-breeding plans based on genetic distance or breeding strategies that include the population structure. © 2010 Blackwell Verlag GmbH.

Conservation genetics of evolutionary lineages of the endangered mountain yellow-legged frog, Rana muscosa (Amphibia: Ranidae), in southern California

USGS Publications Warehouse

Schoville, Sean D.; Tustall, Tate S.; Vredenburg, Vance T.; Backlin, Adam R.; Gallegos, Elizabeth; Wood, Dustin A.; Fisher, Robert N.

2011-01-01

Severe population declines led to the listing of southern California Rana muscosa (Ranidae) as endangered in 2002. Nine small populations inhabit watersheds in three isolated mountain ranges, the San Gabriel, San Bernardino and San Jacinto. One population from the Dark Canyon tributary in the San Jacinto Mountains has been used to establish a captive breeding population at the San Diego Zoo Institute for Conservation Research. Because these populations may still be declining, it is critical to gather information on how genetic variation is structured in these populations and what historical inter-population connectivity existed between populations. Additionally, it is not clear whether these populations are rapidly losing genetic diversity due to population bottlenecks. Using mitochondrial and microsatellite data, we examine patterns of genetic variation in southern California and one of the last remaining populations of R. muscosa in the southern Sierra Nevada. We find low levels of genetic variation within each population and evidence of genetic bottlenecks. Additionally, substantial population structure is evident, suggesting a high degree of historical isolation within and between mountain ranges. Based on estimates from a multi-population isolation with migration analysis, these populations diversified during glacial episodes of the Pleistocene, with little gene flow during population divergence. Our data demonstrate that unique evolutionary lineages of R. muscosa occupy each mountain range in southern California and should be managed separately. The captive breeding program at Dark Canyon is promising, although mitigating the loss of neutral genetic diversity relative to the natural population might require additional breeding frogs.

Post-breeding migration of Dutch-breeding black-tailed godwits: timing, routes, use of stopovers, and nonbreeding destinations

USGS Publications Warehouse

Hooijmeijer, Jos C. E. W.; Senner, Nathan R.; Tibbitts, T. Lee; Gill, Robert E.; Douglas, David C.; Bruinzeel, Leo W.; Wymenga, Eddy; Piersma, Theunis

2014-01-01

Conservation of long-distance migratory shorebirds is complex because these species use habitats spread across continents and hemispheres, making identification of critical habitats and potential bottlenecks in the annual cycle especially difficult. The population of Black-tailed Godwits that breeds in Western Europe, Limosa limosa limosa, has declined precipitously over the past few decades. Despite significant efforts to identify the root causes of this decline, much remains unclear. To better understand the migratory timing, use of stopover and nonbreeding sites, and the potential impact of breeding success on these parameters, we attached 15 Argos satellite transmitters and 10 geolocation tracking devices to adult godwits nearing completion of incubation at breeding sites in southwest Friesland, The Netherlands during the spring of 2009. We successfully tracked 16 adult godwits for their entire southward migration and two others for part of it. Three migration patterns and four regions of use were apparent. Most godwits left their breeding sites and proceeded south directly to stopover sites in the Mediterranean — e.g. Spain, Portugal, and Morocco — before flying on to non-breeding sites in West Africa. Other individuals spent the entire nonbreeding season in the Mediterranean. A third pattern included a few individuals that flew nonstop from their Dutch breeding sites to nonbreeding sites in West Africa. Tracking data from this study will be immediately useful for conservation efforts focused on preserving the dispersed network of sites used by godwits during their southward migration.

An evaluation and comparison of conservation guidelines for an at-risk migratory songbird

USGS Publications Warehouse

McNeil, Darin J.; Aldinger, Kyle R.; Bakermans, Marja H.; Lehman, Justin A.; Tisdale, Anna C.; Jones, John A.; Wood, Petra B.; Buehler, David A.; Smalling, Curtis G.; Siefferman, Lynn; Larkin, Jeffrey L.

2017-01-01

For at-risk wildlife species, it is important to consider conservation within the process of adaptive management. Golden-winged Warblers (Vermivora chrysoptera) are Neotropical migratory songbirds that are experiencing long-term population declines due in part to the loss of early-successional nesting habitat. Recently-developed Golden-winged Warbler habitat management guidelines are being implemented by USDA: Natural Resource Conservation Service (2014) and its partners through the Working Lands For Wildlife (WLFW) program. During 2012–2014, we studied the nesting ecology of Golden-winged Warblers in managed habitats of the eastern US that conformed to WLFW conservation practices. We evaluated five NRCS “management scenarios” with respect to nesting success and attainment of recommended nest site vegetation conditions outlined in the Golden-winged Warbler breeding habitat guidelines. Using estimates of territory density, pairing rate, nest survival, and clutch size, we also estimated fledgling productivity (number of fledglings/ha) for each management scenario. In general, Golden-winged Warbler nest survival declined as each breeding season advanced, but nest survival was similar across management scenarios. Within each management scenario, vegetation variables had little influence on nest survival. Still, percent Rubus cover and density of >2 m tall shrubs were relevant in some management scenarios. All five management scenarios rarely attained recommended levels of nest site vegetation conditions for Golden-winged, yet nest survival was high. Fledgling productivity estimates for each management scenario ranged from 2.1 to 8.6 fledglings/10 hectares. Our results indicate that targeted habitat management for Golden-winged Warblers using a variety of management techniques on private lands has the capability to yield high nest survival and fledgling productivity, and thus have the potential to contribute to the species recovery.

A network extension of species occupancy models in a patchy environment applied to the Yosemite toad (Anaxyrus canorus)

USGS Publications Warehouse

Berlow, Eric L.; Knapp, Roland A.; Ostoja, Steven M.; Williams, Richard J.; McKenny, Heather; Matchett, John R.; Guo, Qinghau; Fellers, Gary M.; Kleeman, Patrick; Brooks, Matthew L.; Joppa, Lucas

2013-01-01

A central challenge of conservation biology is using limited data to predict rare species occurrence and identify conservation areas that play a disproportionate role in regional persistence. Where species occupy discrete patches in a landscape, such predictions require data about environmental quality of individual patches and the connectivity among high quality patches. We present a novel extension to species occupancy modeling that blends traditionalpredictions of individual patch environmental quality with network analysis to estimate connectivity characteristics using limited survey data. We demonstrate this approach using environmental and geospatial attributes to predict observed occupancy patterns of the Yosemite toad (Anaxyrus (= Bufo) canorus) across >2,500 meadows in Yosemite National Park (USA). A. canorus, a Federal Proposed Species, breeds in shallow water associated with meadows. Our generalized linear model (GLM) accurately predicted ~84% of true presence-absence data on a subset of data withheld for testing. The predicted environmental quality of each meadow was iteratively ‘boosted’ by the quality of neighbors within dispersal distance. We used this park-wide meadow connectivity network to estimate the relative influence of an individual Meadow’s ‘environmental quality’ versus its ‘network quality’ to predict: a) clusters of high quality breeding meadows potentially linked by dispersal, b) breeding meadows with high environmental quality that are isolated from other such meadows, c) breeding meadows with lower environmental quality where long-term persistence may critically depend on the network neighborhood, and d) breeding meadows with the biggest impact on park-wide breeding patterns. Combined with targeted data on dispersal, genetics, disease, and other potential stressors, these results can guide designation of core conservation areas for A. canorus in Yosemite National Park.

The impact of using old germplasm on genetic merit and diversity-A cattle breed case study.

PubMed

Eynard, Sonia E; Windig, Jack J; Hulsegge, Ina; Hiemstra, Sipke-Joost; Calus, Mario P L

2018-05-29

Artificial selection and high genetic gains in livestock breeds led to a loss of genetic diversity. Current genetic diversity conservation actions focus on long-term maintenance of breeds under selection. Gene banks play a role in such actions by storing genetic materials for future use and the recent development of genomic information is facilitating characterization of gene bank material for better use. Using the Meuse-Rhine-Issel Dutch cattle breed as a case study, we inferred the potential role of germplasm of old individuals for genetic diversity conservation of the current population. First, we described the evolution of genetic merit and diversity over time and then we applied the optimal contribution (OC) strategy to select individuals for maximizing genetic diversity, or maximizing genetic merit while constraining loss of genetic diversity. In the past decades, genetic merit increased while genetic diversity decreased. Genetic merit and diversity were both higher in an OC scenario restricting the rate of inbreeding when old individuals were considered for selection, compared to considering only animals from the current population. Thus, our study shows that gene bank material, in the form of old individuals, has the potential to support long-term maintenance and selection of breeds. © 2018 The Authors. Journal of Animal Breeding and Genetics Published by Blackwell Verlag GmbH.

Low effect of young afforestations on bird communities inhabiting heterogeneous Mediterranean cropland

PubMed Central

Rey Benayas, José M.; Carrascal, Luis M.

2015-01-01

Afforestation programs such as the one promoted by the EU Common Agricultural Policy have spread tree plantations on former cropland. These afforestations attract generalist forest and ubiquitous species but may cause severe damage to open habitat species, especially birds of high conservation value. We investigated the effects of young (<20 yr) tree plantations dominated by pine P. halepensis on bird communities inhabiting the adjacent open farmland habitat in central Spain. We hypothesize that pine plantations located at shorter distances from open fields and with larger surface would affect species richness and conservation value of bird communities. Regression models controlling for the influence of land use types around plantations revealed positive effects of higher distance to pine plantation edge on community species richness in winter, and negative effects on an index of conservation concern (SPEC) during the breeding season. However, plantation area did not have any effect on species richness or community conservation value. Our results indicate that the effects of pine afforestation on bird communities inhabiting Mediterranean cropland are diluted by heterogeneous agricultural landscapes. PMID:26664801

Using occupancy models of forest breeding birds to prioritize conservation planning

USGS Publications Warehouse

De Wan, A. A.; Sullivan, P.J.; Lembo, A.J.; Smith, C.R.; Maerz, J.C.; Lassoie, J.P.; Richmond, M.E.

2009-01-01

As urban development continues to encroach on the natural and rural landscape, land-use planners struggle to identify high priority conservation areas for protection. Although knowing where urban-sensitive species may be occurring on the landscape would facilitate conservation planning, research efforts are often not sufficiently designed to make quality predictions at unknown locations. Recent advances in occupancy modeling allow for more precise estimates of occupancy by accounting for differences in detectability. We applied these techniques to produce robust estimates of habitat occupancy for a subset of forest breeding birds, a group that has been shown to be sensitive to urbanization, in a rapidly urbanizing yet biological diverse region of New York State. We found that detection probability ranged widely across species, from 0.05 to 0.8. Our models suggest that detection probability declined with increasing forest fragmentation. We also found that the probability of occupancy of forest breeding birds is negatively influenced by increasing perimeter-area ratio of forest fragments and urbanization in the surrounding habitat matrix. We capitalized on our random sampling design to produce spatially explicit models that predict high priority conservation areas across the entire region, where interior-species were most likely to occur. Finally, we use our predictive maps to demonstrate how a strict sampling design coupled with occupancy modeling can be a valuable tool for prioritizing biodiversity conservation in land-use planning. ?? 2009 Elsevier Ltd.

A Miocene breeding ground of an extinct baleen whale (Cetacea: Mysticeti).

PubMed

Tsai, Cheng-Hsiu

2017-01-01

Locating breeding sites is definitely a key to understanding the ecological requirements and maintaining the sustainability of populations/species. Here I re-examined published specimens of an extinct baleen whale, Parietobalaena yamaokai , from the lower part of Itahashi Formation (16.1-15.6 Ma, Middle Miocene) in Shobara, Hiroshima, Japan. A critical and previously unnoticed feature, the open suture between the supraoccipital and exoccipital, in one specimen indicates the preservation of a very young individual-under six months old and even close to a new-born calf. Given the occurrence of a new-born whale and relatively abundant assemblage of Parietobalaena yamaokai , I propose a previously hidden and unknown breeding ground for the extinct baleen whale, P. yamaokai , in the Middle Miocene of Shobara (16.1-15.6 Ma), Hiroshima. Discovery of paleo-breeding sites of extinct populations/species should further help us to understand biological extinctions from a long-term perspective as conservation paleobiology aims to offer new insights into policy making for conserving endangered populations/species.

Climate Watch and Spoonbill Watch: Engaging Communities in Climate Science and Bird Conservation

NASA Astrophysics Data System (ADS)

Michel, N. L.; Baker, R.; Bergstrom, E.; Cox, D.; Cox, G.; Dale, K.; Jensen, C.; Langham, G.; LeBaron, G.; Loftus, W.; Rowden, J.; Slavin, Z.; Smithson-Stanley, L.; Wilsey, C.

2016-12-01

Climate change poses serious challenges for conservation scientists and policymakers. Yet with these challenges come equally great opportunities to engage communities of concerned citizens in climate science and conservation. National Audubon Society's 2014 Birds and Climate Change report found that 314 North American bird species could lose over half their breeding or wintering ranges by 2080 due to climate change. Consequently, in 2016 Audubon developed two new crowd-sourced science programs that mobilized existing birding communities (i.e., Audubon Society chapters) in partnership with scientists to evaluate climate change effects on birds, and take action to protect vulnerable populations. Climate Watch expands upon traditional monitoring programs by involving citizen scientists in hypothesis-driven science, testing predictions of climate-driven range expansion in bluebirds developed by National Audubon Society scientists. Spoonbill Watch is a partnership between an Audubon research scientist and the Pelican Island Audubon Society community, in which citizen scientists monitor a Roseate Spoonbill colony recently established in response to changing habitat and climatic conditions. Additionally, Spoonbill Watch participants and leaders have moved beyond monitoring to take action to protect the colony, by working with the Florida Fish and Wildlife Conservation Commission towards getting the site declared as a Critical Wildlife Area and by conducting local outreach and education efforts. We will present overviews, lessons learned, and conservation goals and opportunities achieved during the pilot year of Climate Watch and Spoonbill Watch. Scientific - community partnerships such as these are essential to confront the threats posed by climate change.

Population structure of elephant foot yams (Amorphophallus paeoniifolius (Dennst.) Nicolson) in Asia

PubMed Central

Misra, Raj Shekhar; Boonkorkaew, Patchareeya; Thanomchit, Kanokwan

2017-01-01

The corms and leaves of elephant foot yams (Amorphophallus paeoniifolius (Dennst.) Nicolson) are important foods in the local diet in many Asian regions. The crop has high productivity and wide agroecological adaptation and exhibits suitability for the agroforestry system. Although the plant is assumed to reproduce via panmixia, a comprehensive study on the genetic background across regions to enhance wider consumer palatability is still lacking. Here, ten informative microsatellites were analyzed in 29 populations across regions in India, Indonesia and Thailand to understand the genetic diversity, population structure and distribution to improve breeding and conservation programs. The genetic diversity was high among and within regions. Some populations exhibited excess heterozygosity and bottlenecking. Pairwise FST indicated very high genetic differentiation across regions (FST = 0.274), and the Asian population was unlikely to be panmictic. Phylogenetic tree construction grouped the populations according to country of origin with the exception of the Medan population from Indonesia. The current gene flow was apparent within the regions but was restricted among the regions. The present study revealed that Indonesia and Thailand populations could be alternative centers of the gene pool, together with India. Consequently, regional action should be incorporated in genetic conservation and breeding efforts to develop new varieties with global acceptance. PMID:28658282

Schemes for Oestrus Synchronization Protocols and Controlled Breeding Programs in Cattle

NASA Astrophysics Data System (ADS)

Sabo, Y. G.; Sandabe, U. K.; Maina, V. A.; Balla, H. G.

Today prostaglandin and progesterone has been found widely used in several schemes of oestrus synchronization and controlled breeding program. Several controlled breeding program, have been developed for synchronizing groups of all open or lactating cows within a breeding group with or without ovarian palpation. Such programs are reviewed in this article which involves extending the luteal phase by treatment with exogenous progesterone such as: progesterone treatment regimes using syncro-mate-B, progesterone releasing intravaginal device, melengesterol acetate-select and melegestrol acetate plus prostaglandin. Also reviewed in the program is the termination of the luteal phase by treatment with prostaglandin or its analogues. These includes, controlled breeding without ovarian palpation such as, the 7-days program; 11-days program, target breeding, ovsynch program, Heat synch, Cosynch and pre synch-ovsynch program. In our opinion full potential of progesterone and prostaglandin for the detection of oestrus and timed artificial insemination should be utilized. This reduces the much labour input employed in previous years. The practitioner of the livestock herd health must-develop strategies for the delivery of this technology to livestock farmers, its use and limitations.

Grassland bird use of Conservation Reserve Program fields in the Great Plains

USGS Publications Warehouse

Johnson, Douglas H.; Haufler, Jonathan B.

2005-01-01

An enormous area in the Great Plains is currently enrolled in the Conservation Reserve Program (CRP): 19.5 million acres (nearly 8 million ha) in Montana, North Dakota, South Dakota, Wyoming, Nebraska, Colorado, Kansas, Oklahoma, and Texas. This change in land use from cropland to grassland since 1985 has markedly influenced grassland bird populations. Many, but certainly not all, grassland species do well in CRP fields. The responses by birds to the program differ not only by species but also by region, year, the vegetation composition in a field, and whether or not a field has been hayed or grazed. The large scale and extent of the program has allowed researchers to address important conservation questions, such as the effect of the size of habitat patch and the influence of landscape features on bird use. However, most studies on nongame bird use of CRP in or near the Great Plains have been short-lived; 83% lasted only 1-3 years. Further, attention to the topic seems to have waned in recent years; the number of active studies peaked in the early 1990s and dramatically declined after 1995. Because breeding-bird use of CRP fields varies dramatically in response both to vegetational succession and to climatic variation, long-term studies are important. What was learned about CRP in its early stages may no longer be applicable. Finally, although the CRP provisions of the Farm Bill have been beneficial to many grassland birds, it is critical that gains in grassland habitat produced by the program not be off set by losses of native prairie.

Genetic Footprints of Iberian Cattle in America 500 Years after the Arrival of Columbus

PubMed Central

Martínez, Amparo M.; Gama, Luis T.; Cañón, Javier; Ginja, Catarina; Delgado, Juan V.; Dunner, Susana; Landi, Vincenzo; Martín-Burriel, Inmaculada; Penedo, M. Cecilia T.; Rodellar, Clementina; Vega-Pla, Jose Luis; Acosta, Atzel; Álvarez, Luz A.; Camacho, Esperanza; Cortés, Oscar; Marques, Jose R.; Martínez, Roberto; Martínez, Ruben D.; Melucci, Lilia; Martínez-Velázquez, Guillermo; Muñoz, Jaime E.; Postiglioni, Alicia; Quiroz, Jorge; Sponenberg, Philip; Uffo, Odalys; Villalobos, Axel; Zambrano, Delsito; Zaragoza, Pilar

2012-01-01

Background American Creole cattle presumably descend from animals imported from the Iberian Peninsula during the period of colonization and settlement, through different migration routes, and may have also suffered the influence of cattle directly imported from Africa. The introduction of European cattle, which began in the 18th century, and later of Zebu from India, has threatened the survival of Creole populations, some of which have nearly disappeared or were admixed with exotic breeds. Assessment of the genetic status of Creole cattle is essential for the establishment of conservation programs of these historical resources. Methodology/Principal Findings We sampled 27 Creole populations, 39 Iberian, 9 European and 6 Zebu breeds. We used microsatellite markers to assess the origins of Creole cattle, and to investigate the influence of different breeds on their genetic make-up. The major ancestral contributions are from breeds of southern Spain and Portugal, in agreement with the historical ports of departure of ships sailing towards the Western Hemisphere. This Iberian contribution to Creoles may also include some African influence, given the influential role that African cattle have had in the development of Iberian breeds, but the possibility of a direct influence on Creoles of African cattle imported to America can not be discarded. In addition to the Iberian influence, the admixture with other European breeds was minor. The Creoles from tropical areas, especially those from the Caribbean, show clear signs of admixture with Zebu. Conclusions/Significance Nearly five centuries since cattle were first brought to the Americas, Creoles still show a strong and predominant signature of their Iberian ancestors. Creole breeds differ widely from each other, both in genetic structure and influences from other breeds. Efforts are needed to avoid their extinction or further genetic erosion, which would compromise centuries of selective adaptation to a wide range of environmental conditions. PMID:23155451

High genetic diversity and demographic history of captive Siamese and Saltwater crocodiles suggest the first step toward the establishment of a breeding and reintroduction program in Thailand

PubMed Central

Lapbenjakul, Sorravis; Thapana, Watcharaporn; Twilprawat, Panupon; Muangmai, Narongrit; Kanchanaketu, Thiti; Temsiripong, Yosapong; Unajak, Sasimanas; Peyachoknagul, Surin

2017-01-01

The Siamese crocodile (Crocodylus siamensis) and Saltwater crocodile (C. porosus) are two of the most endangered animals in Thailand. Their numbers have been reduced severely by hunting and habitat fragmentation. A reintroduction plan involving captive-bred populations that are used commercially is important and necessary as a conservation strategy to aid in the recovery of wild populations. Here, the genetic diversity and population structure of 69 individual crocodiles, mostly members of captive populations, were analyzed using both mitochondrial D-loop DNA and microsatellite markers. The overall haplotype diversity was 0.924–0.971 and the mean expected heterozygosity across 22 microsatellite loci was 0.578–0.701 for the two species. This agreed with the star-like shaped topology of the haplotype network, which suggests a high level of genetic diversity. The mean ratio of the number of alleles to the allelic range (M ratio) for the populations of both species was considerably lower than the threshold of 0.68, which was interpreted as indicative of a historical genetic bottleneck. Microsatellite markers provided evidence of introgression for three individual crocodiles, which suggest that hybridization might have occurred between C. siamensis and C. porosus. D-loop sequence analysis detected bi-directional hybridization between male and female individuals of the parent species. Therefore, identification of genetically non-hybrid and hybrid individuals is important for long-term conservation management. Relatedness values were low within the captive populations, which supported their genetic integrity and the viability of a breeding and reintroduction management plan. This work constitutes the first step in establishing an appropriate source population from a scientifically managed perspective for an in situ/ex situ conservation program and reintroduction of crocodile individuals to the wild in Thailand. PMID:28953895

Sharks in Captivity: The Role of Husbandry, Breeding, Education, and Citizen Science in Shark Conservation.

PubMed

Grassmann, Michael; McNeil, Bryan; Wharton, Jim

The role of public aquariums in promoting conservation has changed substantially over the decades, evolving from entertainment attractions to educational and research centres. In many facilities, larger sharks are an essential part of the collection and represent one of the biggest draws for the public. Displaying healthy elasmobranchs comes with many challenges, but improvements in husbandry techniques have enabled aquariums to have success with a variety of species. The establishment of organisations such as the Association of Zoos and Aquariums, and the completion of texts like the Elasmobranch Husbandry Manual, has helped set high standards of care for sharks in captivity and promoted international conservation efforts. Aquariums keeping sharks are in a unique position to influence local, regional, and international attitudes and policies by acting as both educational and research facilities. Interactions with multiple stakeholders of diverse educational and demographic backgrounds through the use of in-house advocacy, public outreach, media interviews, and partnerships with academic and government institutions enable these facilities to engage and share information with a broad audience. Although the data collected on sharks in captivity often cannot be directly translated to animals in the wild, it offers better insight into a number of life history traits and poorly understood behaviours, and has been the foundation for many captive breeding programs. Several Northeast Pacific (NEP) shark species are commonly displayed for long durations or bred in aquariums, while other less studied species have been held for short periods to collect valuable data that can be applied towards ongoing studies and conservation measures. Here, we discuss past and current tangible benefits of holding NEP sharks in captivity, as well as noting several ways in which future research and education activities will continue to inform and shape public opinions on shark management and conservation. © 2017 Elsevier Ltd All rights reserved.

Breeding strategies for north central tree improvement programs

Treesearch

Ronald P. Overton; Hyun Kang

1985-01-01

The rationales and concepts of long-term tree breeding are discussed and compared with those for short-term breeding. A model breeding program is reviewed which maximizes short-term genetic gain for currently important traits and provides genetic resources that can be used effectively in future short-term breeding. The resources of the north-central region are examined...

Post-independence fledgling ecology in a migratory songbird: Implications for breeding-grounds conservation

USGS Publications Warehouse

Streby, H.M.; Peterson, S.M.; Kramer, G.R.; Anderson, D.E.

2014-01-01

For migratory songbirds, breeding-grounds conservation and management plans are generally focused on habitat associated with locations of singing males and sometimes nesting females. However, habitat structure is often different in areas used for raising fledglings compared with areas used for song territories, and very little is known about habitat use by fledglings after independence from adult care. From 2010 to 2012, we used radiotelemetry to monitor 68 fledgling golden-winged warblers Vermivora chrysoptera after independence from adult care in mixed managed forests of Minnesota, US and Manitoba, Canada. This species is of high conservation concern in the US, is listed as threatened in Canada and is listed as near threatened on the International Union for Conservation of Nature Red List. We assessed distance and orientation of independent fledgling movements and we used compositional analysis to test for selection among cover types. Fledglings of this species, commonly described as a shrubland specialist, selected mature forest (78% of locations) over all other cover types, and foraged in forest canopy and understory in mixed-species flocks. Fledgling golden-winged warbler movements were apparently associated with habitat optimization (although prioritizing foraging over predator avoidance), and likely not with commencement of migration, or scouting future breeding territories. Ten days after independence, fledglings were an average of 1238 m north of their nest, which may be related to homing-target formation and the species' northward range expansion. We conclude that consideration for independent fledgling habitat associations is necessary for developing full-fledged forest management plans on the breeding grounds of migratory songbirds.

Historical changes in population structure during rice breeding programs in the northern limits of rice cultivation.

PubMed

Shinada, Hiroshi; Yamamoto, Toshio; Yamamoto, Eiji; Hori, Kiyosumi; Yonemaru, Junichi; Matsuba, Shuichi; Fujino, Kenji

2014-04-01

The rice local population was clearly differentiated into six groups over the 100-year history of rice breeding programs in the northern limit of rice cultivation over the world. Genetic improvements in plant breeding programs in local regions have led to the development of new cultivars with specific agronomic traits under environmental conditions and generated the unique genetic structures of local populations. Understanding historical changes in genome structures and phenotypic characteristics within local populations may be useful for identifying profitable genes and/or genetic resources and the creation of new gene combinations in plant breeding programs. In the present study, historical changes were elucidated in genome structures and phenotypic characteristics during 100-year rice breeding programs in Hokkaido, the northern limit of rice cultivation in the world. We selected 63 rice cultivars to represent the historical diversity of this local population from landraces to the current breeding lines. The results of the phylogenetic analysis demonstrated that these cultivars clearly differentiated into six groups over the history of rice breeding programs. Significant differences among these groups were detected in five of the seven traits, indicating that the differentiation of the Hokkaido rice population into these groups was correlated with these phenotypic changes. These results demonstrated that breeding practices in Hokkaido have created new genetic structures for adaptability to specific environmental conditions and breeding objectives. They also provide a new strategy for rice breeding programs in which such unique genes in local populations in the world can explore the genetic potentials of the local populations.

Non-migratory breeding by isolated green sea turtles (Chelonia mydas) in the Indian Ocean: biological and conservation implications.

PubMed

Whiting, Scott D; Murray, Wendy; Macrae, Ismail; Thorn, Robert; Chongkin, Mohammad; Koch, Andrea U

2008-04-01

Green sea turtles (Chelonia mydas) are renowned for their long-distance migrations but have less fame for short-distance migrations or non-migratory behavior. We present satellite telemetric evidence from Cocos (Keeling) Islands, Indian Ocean for the first predominantly non-migratory green sea turtle (C. mydas) population. The mean migration distance from the nesting beach to the foraging grounds was 35.5 km with a maximum mean transit time of 3.4 days. The behavior of this population has major implications for our general understanding of green turtle behavior and their life cycle and for conservation. Firstly, these results indicate a level of juvenile or adult non-breeding homing behavior from the open ocean to foraging grounds adjacent to their natal nesting beach. Secondly, a non-migratory breeding phase reduces the consumption of reproductive energy utilized, potentially resulting in higher fecundity for this population. Thirdly, the close proximity of the nesting and foraging habitats allows for uniformity in management and conservation strategies rarely possible for wide-ranging green turtle populations.

Non-migratory breeding by isolated green sea turtles ( Chelonia mydas) in the Indian Ocean: biological and conservation implications

NASA Astrophysics Data System (ADS)

Whiting, Scott D.; Murray, Wendy; Macrae, Ismail; Thorn, Robert; Chongkin, Mohammad; Koch, Andrea U.

2008-04-01

Green sea turtles ( Chelonia mydas) are renowned for their long-distance migrations but have less fame for short-distance migrations or non-migratory behavior. We present satellite telemetric evidence from Cocos (Keeling) Islands, Indian Ocean for the first predominantly non-migratory green sea turtle ( C. mydas) population. The mean migration distance from the nesting beach to the foraging grounds was 35.5 km with a maximum mean transit time of 3.4 days. The behavior of this population has major implications for our general understanding of green turtle behavior and their life cycle and for conservation. Firstly, these results indicate a level of juvenile or adult non-breeding homing behavior from the open ocean to foraging grounds adjacent to their natal nesting beach. Secondly, a non-migratory breeding phase reduces the consumption of reproductive energy utilized, potentially resulting in higher fecundity for this population. Thirdly, the close proximity of the nesting and foraging habitats allows for uniformity in management and conservation strategies rarely possible for wide-ranging green turtle populations.

Putting the brakes on reproduction: Implications for conservation, global climate change and biomedicine.

PubMed

Wingfield, John C; Perfito, Nicole; Calisi, Rebecca; Bentley, George; Ubuka, T; Mukai, M; O'Brien, Sara; Tsutsui, K

2016-02-01

Seasonal breeding is widespread in vertebrates and involves sequential development of the gonads, onset of breeding activities (e.g. cycling in females) and then termination resulting in regression of the reproductive system. Whereas males generally show complete spermatogenesis prior to and after onset of breeding, females of many vertebrate species show only partial ovarian development and may delay onset of cycling (e.g. estrous), yolk deposition or germinal vesicle breakdown until conditions conducive for ovulation and onset of breeding are favorable. Regulation of this "brake" on the onset of breeding remains relatively unknown, but could have profound implications for conservation efforts and for "mismatches" of breeding in relation to global climate change. Using avian models it is proposed that a brain peptide, gonadotropin-inhibitory hormone (GnIH), may be the brake to prevent onset of breeding in females. Evidence to date suggests that although GnIH may be involved in the regulation of gonadal development and regression, it plays more regulatory roles in the process of final ovarian development leading to ovulation, transitions from sexual to parental behavior and suppression of reproductive function by environmental stress. Accumulating experimental evidence strongly suggests that GnIH inhibits actions of gonadotropin-releasing hormones on behavior (central effects), gonadotropin secretion (central and hypophysiotropic effects), and has direct actions in the gonad to inhibit steroidogenesis. Thus, actual onset of breeding activities leading to ovulation may involve environmental cues releasing an inhibition (brake) on the hypothalamo-pituitary-gonad axis. Copyright © 2015 Elsevier Inc. All rights reserved.

Forest area and distribution in the Mississippi alluvial valley: Implications for breeding bird conservation

USGS Publications Warehouse

Twedt, D.J.; Loesch, C.R.

1999-01-01

Knowing the current forest distribution and patch size characteristics is integral to the development of geographically defined, habitat-based conservation objectives for breeding birds. Towards this end, we classified 2.6 million ha of forest cover within the Mississippi Alluvial Valley using 1992 thematic mapper satellite imagery. Although historically this area, from southern Illinois to southern Louisiana, was dominated by forested wetlands, forest cover remains on less than 25% of the floodplain. Remaining forest cover is comprised of > 38,000 discrete forest patches > 2 ha. Mean patch area (64.1?5.2 ha; 0 ?SE) was highly skewed towards small fragment size. Larger patches had a higher proportion of more hydric forest cover classes than did smaller patches which had a higher proportion of less hydric forest cover classes. Public lands accounted for 16% of remaining forested wetlands. Fewer than 100 forest patches exceeded our hypothesized habitat objective (4000 ha minimum contiguous forest area) intended to support self-sustaining populations of forest breeding birds. To increase the number of forest patches exceeding 4000 ha contiguous area, and thereby increase the likelihood of successful forest bird conservation, we recommend afforestation adjoining existing forest fragments ?1012 ha and focused within designated Forest Bird Conservation Regions.

Unbiased survival estimates and evidence for skipped breeding opportunities in females

USGS Publications Warehouse

Muths, Erin L.; Scherer, Rick D.; Lambert, Brad A.

2010-01-01

5. Establishing the occurrence of temporary emigration not only reduces bias in estimates of survival probabilities but also provides information about expected breeding attempts by females, a critical element in understanding the ecology of an organism and the impacts of outside stressors and conservation actions.

Conservation priorities for tree crop wild relatives in the United States

USDA-ARS?s Scientific Manuscript database

Our native crop wild relatives have proved useful as genetic resources in breeding more productive, nutritious, and resilient crops. Their utilization is expected only to increase with better information on the species and improving breeding tools, but may well be constrained by their limited repres...

Ecogeography and utility to plant breeding of the crop wild relatives of sunflower (Helianthus annuus L.)

USDA-ARS?s Scientific Manuscript database

Crop wild relatives (CWR) are a rich source of genetic diversity for crop improvement. Combining ecogeographic and phylogenetic techniques can inform both conservation and breeding. Geographic occurrence, bioclimatic, and biophysical data were used to predict species distributions, range overlap and...

Estimating the breeding population of long-billed curlew in the United States

USGS Publications Warehouse

Stanley, T.R.; Skagen, S.K.

2007-01-01

Determining population size and long-term trends in population size for species of high concern is a priority of international, national, and regional conservation plans. Long-billed curlews (Numenius americanus) are a species of special concern in North America due to apparent declines in their population. Because long-billed curlews are not adequately monitored by existing programs, we undertook a 2-year study with the goals of 1) determining present long-billed curlew distribution and breeding population size in the United States and 2) providing recommendations for a long-term long-billed curlew monitoring protocol. We selected a stratified random sample of survey routes in 16 western states for sampling in 2004 and 2005, and we analyzed count data from these routes to estimate detection probabilities and abundance. In addition, we evaluated habitat along roadsides to determine how well roadsides represented habitat throughout the sampling units. We estimated there were 164,515 (SE = 42,047) breeding long-billed curlews in 2004, and 109,533 (SE = 31,060) breeding individuals in 2005. These estimates far exceed currently accepted estimates based on expert opinion. We found that habitat along roadsides was representative of long-billed curlew habitat in general. We make recommendations for improving sampling methodology, and we present power curves to provide guidance on minimum sample sizes required to detect trends in abundance.

Developing core collections to optimize the management and the exploitation of diversity of the coffee Coffea canephora.

PubMed

Leroy, Thierry; De Bellis, Fabien; Legnate, Hyacinthe; Musoli, Pascal; Kalonji, Adrien; Loor Solórzano, Rey Gastón; Cubry, Philippe

2014-06-01

The management of diversity for conservation and breeding is of great importance for all plant species and is particularly true in perennial species, such as the coffee Coffea canephora. This species exhibits a large genetic and phenotypic diversity with six different diversity groups. Large field collections are available in the Ivory Coast, Uganda and other Asian, American and African countries but are very expensive and time consuming to establish and maintain in large areas. We propose to improve coffee germplasm management through the construction of genetic core collections derived from a set of 565 accessions that are characterized with 13 microsatellite markers. Core collections of 12, 24 and 48 accessions were defined using two methods aimed to maximize the allelic diversity (Maximization strategy) or genetic distance (Maximum-Length Sub-Tree method). A composite core collection of 77 accessions is proposed for both objectives of an optimal management of diversity and breeding. This core collection presents a gene diversity value of 0.8 and exhibits the totality of the major alleles (i.e., 184) that are present in the initial set. The seven proposed core collections constitute a valuable tool for diversity management and a foundation for breeding programs. The use of these collections for collection management in research centers and breeding perspectives for coffee improvement are discussed.

Surviving a Dry Future: Abscisic Acid (ABA)-Mediated Plant Mechanisms for Conserving Water under Low Humidity

PubMed Central

McAdam, Scott A. M.

2017-01-01

Angiosperms are able to respond rapidly to the first sign of dry conditions, a decrease in air humidity, more accurately described as an increase in the vapor pressure deficit between the leaf and the atmosphere (VPD), by abscisic acid (ABA)-mediated stomatal closure. The genes underlying this response offer valuable candidates for targeted selection of crop varieties with improved drought tolerance, a critical goal for current plant breeding programs, to maximize crop production in drier and increasingly marginalized environments, and meet the demands of a growing population in the face of a changing climate. Here, we review current understanding of the genetic mechanisms underpinning ABA-mediated stomatal closure, a key means for conserving water under dry conditions, examine how these mechanisms evolved, and discuss what remains to be investigated. PMID:29113039

Description and physical localization of the bovine survival of motor neuron gene (SMN).

PubMed

Pietrowski, D; Goldammer, T; Meinert, S; Schwerin, M; Förster, M

1998-01-01

Proximal spinal muscular atrophy (SMA) is an autosomal recessive disease in humans and other mammals, characterized by degeneration of anterior horn cells of the spinal cord. In humans, the survival of motor neuron gene (SMN) has been recognized as the SMA-determining gene and has been mapped to 5q13. In cattle, SMA is a recurrent, inherited disease that plays an important economic role in breeding programs of Brown Swiss stock. Now we have identified the full- length cDNA sequence of the bovine SMN gene. Molecular analysis and characterization of the sequence documents 85% identity to its human counterpart and three evolutionarily conserved domains in different species. Physical mapping data reveals that bovine SMN is localized to chromosome region 20q12-->q13, supporting the conserved synteny of this chromosomal region between humans and cattle.

A conservation plan for native fishes of the Lower Colorado River

USGS Publications Warehouse

Minckley, W.L.; Marsh, P.C.; Deacon, J.E.; Dowling, T.E.; Hedrick, P.W.; Matthews, W.J.; Mueller, G.

2003-01-01

The native fish fauna of the lower Colorado River, in the western United States, includes four “big-river” fishes that are federally listed as endangered. Existing recovery implementation plans are inadequate for these critically imperiled species. We describe a realistic, proactive management program founded on demographic and genetic principles and crafted to avoid potential conflicts with nonnative sport fisheries. In this program, native species would breed and their progeny grow in isolated, protected, off-channel habitats in the absence of nonnative fishes. Panmictic adult populations would reside in the main channel and connected waters, exchanging reproductive adults and repatriated subadults with populations occupying isolated habitats. Implementation of the plan would greatly enhance recovery potential of the four listed fishes.

Migratory double breeding in Neotropical migrant birds.

PubMed

Rohwer, Sievert; Hobson, Keith A; Rohwer, Vanya G

2009-11-10

Neotropical migratory songbirds typically breed in temperate regions and then travel long distances to spend the majority of the annual cycle in tropical wintering areas. Using stable-isotope methodology, we provide quantitative evidence of dual breeding ranges for 5 species of Neotropical migrants. Each is well known to have a Neotropical winter range and a breeding range in the United States and Canada. However, after their first bout of breeding in the north, many individuals migrate hundreds to thousands of kilometers south in midsummer to breed a second time during the same summer in coastal west Mexico or Baja California Sur. They then migrate further south to their final wintering areas in the Neotropics. Our discovery of dual breeding ranges in Neotropical migrants reveals a hitherto unrealized flexibility in life-history strategies for these species and underscores that demographic models and conservation plans must consider dual breeding for these migrants.

Increased genetic gains in sheep, beef and dairy breeding programs from using female reproductive technologies combined with optimal contribution selection and genomic breeding values.

PubMed

Granleese, Tom; Clark, Samuel A; Swan, Andrew A; van der Werf, Julius H J

2015-09-14

Female reproductive technologies such as multiple ovulation and embryo transfer (MOET) and juvenile in vitro embryo production and embryo transfer (JIVET) can boost rates of genetic gain but they can also increase rates of inbreeding. Inbreeding can be managed using the principles of optimal contribution selection (OCS), which maximizes genetic gain while placing a penalty on the rate of inbreeding. We evaluated the potential benefits and synergies that exist between genomic selection (GS) and reproductive technologies under OCS for sheep and cattle breeding programs. Various breeding program scenarios were simulated stochastically including: (1) a sheep breeding program for the selection of a single trait that could be measured either early or late in life; (2) a beef breeding program with an early or late trait; and (3) a dairy breeding program with a sex limited trait. OCS was applied using a range of penalties (severe to no penalty) on co-ancestry of selection candidates, with the possibility of using multiple ovulation and embryo transfer (MOET) and/or juvenile in vitro embryo production and embryo transfer (JIVET) for females. Each breeding program was simulated with and without genomic selection. All breeding programs could be penalized to result in an inbreeding rate of 1 % increase per generation. The addition of MOET to artificial insemination or natural breeding (AI/N), without the use of GS yielded an extra 25 to 60 % genetic gain. The further addition of JIVET did not yield an extra genetic gain. When GS was used, MOET and MOET + JIVET programs increased rates of genetic gain by 38 to 76 % and 51 to 81 % compared to AI/N, respectively. Large increases in genetic gain were found across species when female reproductive technologies combined with genomic selection were applied and inbreeding was managed, especially for breeding programs that focus on the selection of traits measured late in life or that are sex-limited. Optimal contribution selection was an effective tool to optimally allocate different combinations of reproductive technologies. Applying a range of penalties to co-ancestry of selection candidates allows a comprehensive exploration of the inbreeding vs. genetic gain space.

Effect of genetic European taurine ancestry on milk yield of Ankole-Holstein crossbred dairy cattle in mixed smallholders system of Burundi highlands.

PubMed

Manirakiza, J; Hatungumukama, G; Thévenon, S; Gautier, M; Besbes, B; Flori, L; Detilleux, J

2017-10-01

Different breeding systems associated with specific bovine genetic resources have coexisted in Burundi. To prepare for the development of a national action plan for the improvement of bovine genetic resources in Burundi, we aimed at performing genetic characterization of Ankole and Ankole × European crossbred individuals and assessing the effect of European ancestry on milk productivity of cows kept under the mixed crops livestock system. To that end, we genotyped 37 Ankole and 138 crossbred individuals on 42 636 SNPs and combined these genotypes with those from 21 cattle breeds, representative of the bovine genetic diversity. We also measured milk yield not suckled and estimated suckled milk. Given the results, we confirmed the indicine × African taurine admixed origin of the Ankole in Burundi and showed that crossbred individuals present a high proportion of European ancestry (i.e. 57% on average). As the proportion of European ancestry increased, milk yield increased by 0.03 ± 0.01 l/day, at a lower extent than expected. We also observed that breeders were unable to correctly evaluate the European proportion in their livestock. Our results may provide useful information for objective dairy breeding in Burundi. As an example, an ex-situ conservation program of Ankole within the framework of value chains is proposed as an accompanying strategy to improve the sustainability of the crossbreeding program. © 2017 Stichting International Foundation for Animal Genetics.

Conservation and gene banking

USDA-ARS?s Scientific Manuscript database

Plant conservation has several objectives the main ones include safeguarding our food supply, preserving crop wild relatives for breeding and selection of new cultivars, providing material for industrial and pharmaceutical uses and preserving the beauty and diversity of our flora for generations to ...

Breeding and Selection of New Switchgrass Varieties for Increased Biomass Production

DOE Office of Scientific and Technical Information (OSTI.GOV)

Taliaferro, C.M.

2003-05-27

Switchgrass breeding and genetics research was conducted from 1992-2002 at the Oklahoma State University as part of the national DOE-Bioenergy Feedstock Development Program (BFDP) effort to develop the species as a bioenergy feedstock crop. The fundamental objective of the program was to implement and conduct a breeding program to increase biomass yield capability in switchgrass and develop cultivars for the central and southern United States. Supporting research objectives included: (1) switchgrass germplasm collection, characterization, and enhancement; (2) elucidation of cytogenetic and breeding behavior; and (3) identification of best breeding procedures.

Prioritization for conservation of northern European cattle breeds based on analysis of microsatellite data.

PubMed

Tapio, I; Värv, S; Bennewitz, J; Maleviciute, J; Fimland, E; Grislis, Z; Meuwissen, T H E; Miceikiene, I; Olsaker, I; Viinalass, H; Vilkki, J; Kantanen, J

2006-12-01

Northern European indigenous cattle breeds are currently endangered and at a risk of becoming extinct. We analyzed variation at 20 microsatellite loci in 23 indigenous, 3 old imported, and 9 modern commercial cattle breeds that are presently distributed in northern Europe. We measured the breeds' allelic richness and heterozygosity, and studied their genetic relationships with a neighbor-joining tree based on the Chord genetic distance matrix. We used the Weitzman approach and the core set diversity measure of Eding et al. (2002) to quantify the contribution of each breed to the maximum amount of genetic diversity and to identify breeds important for the conservation of genetic diversity. We defined 11 breeds as a "safe set" of breeds (not endangered) and estimated a reduction in genetic diversity if all nonsafe (endangered) breeds were lost. We then calculated the increase in genetic diversity by adding one by one each of the nonsafe breeds to the safe set (the safe-set-plus-one approach). The neighbor-joining tree grouped the northern European cattle breeds into Black-and-White type, Baltic Red, and Nordic cattle groups. Väne cattle, Bohus Poll, and Danish Jersey had the highest relative contribution to the maximum amount of genetic diversity when the diversity was quantified by the Weitzman diversity measure. These breeds not only showed phylogenetic distinctiveness but also low within-population variation. When the Eding et al. method was applied, Eastern Finncattle and Lithuanian White Backed cattle contributed most of the genetic variation. If the loss of the nonsafe set of breeds happens, the reduction in genetic diversity would be substantial (72%) based on the Weitzman approach, but relatively small (1.81%) based on the Eding et al. method. The safe set contained only 66% of the observed microsatellite alleles. The safe-set-plus-one approach indicated that Bohus Poll and Väne cattle contributed most to the Weitzman diversity, whereas the Eastern Finncattle contribution was the highest according to the Eding et al. method. Our results indicate that both methods of Weitzman and Eding et al. recognize the importance of local populations as a valuable resource of genetic variation.

Flexible risk metrics for identifying and monitoring conservation-priority species

USGS Publications Warehouse

Stanton, Jessica C.; Semmens, Brice X.; McKann, Patrick C.; Will, Tom; Thogmartin, Wayne E.

2016-01-01

Region-specific conservation programs should have objective, reliable metrics for species prioritization and progress evaluation that are customizable to the goals of a program, easy to comprehend and communicate, and standardized across time. Regional programs may have vastly different goals, spatial coverage, or management agendas, and one-size-fits-all schemes may not always be the best approach. We propose a quantitative and objective framework for generating metrics for prioritizing species that is straightforward to implement and update, customizable to different spatial resolutions, and based on readily available time-series data. This framework is also well-suited to handling missing-data and observer error. We demonstrate this approach using North American Breeding Bird Survey (NABBS) data to identify conservation priority species from a list of over 300 landbirds across 33 bird conservation regions (BCRs). To highlight the flexibility of the framework for different management goals and timeframes we calculate two different metrics. The first identifies species that may be inadequately monitored by NABBS protocols in the near future (TMT, time to monitoring threshold), and the other identifies species likely to decline significantly in the near future based on recent trends (TPD, time to percent decline). Within the individual BCRs we found up to 45% (mean 28%) of the species analyzed had overall declining population trajectories, which could result in up to 37 species declining below a minimum NABBS monitoring threshold in at least one currently occupied BCR within the next 50 years. Additionally, up to 26% (mean 8%) of the species analyzed within the individual BCRs may decline by 30% within the next decade. Conservation workers interested in conserving avian diversity and abundance within these BCRs can use these metrics to plan alternative monitoring schemes or highlight the urgency of those populations experiencing the fastest declines. However, this framework is adaptable to many taxa besides birds where abundance time-series data are available.

Improving Aquatic Warbler Population Assessments by Accounting for Imperfect Detection

PubMed Central

Oppel, Steffen; Marczakiewicz, Piotr; Lachmann, Lars; Grzywaczewski, Grzegorz

2014-01-01

Monitoring programs designed to assess changes in population size over time need to account for imperfect detection and provide estimates of precision around annual abundance estimates. Especially for species dependent on conservation management, robust monitoring is essential to evaluate the effectiveness of management. Many bird species of temperate grasslands depend on specific conservation management to maintain suitable breeding habitat. One such species is the Aquatic Warbler (Acrocephalus paludicola), which breeds in open fen mires in Central Europe. Aquatic Warbler populations have so far been assessed using a complete survey that aims to enumerate all singing males over a large area. Because this approach provides no estimate of precision and does not account for observation error, detecting moderate population changes is challenging. From 2011 to 2013 we trialled a new line transect sampling monitoring design in the Biebrza valley, Poland, to estimate abundance of singing male Aquatic Warblers. We surveyed Aquatic Warblers repeatedly along 50 randomly placed 1-km transects, and used binomial mixture models to estimate abundances per transect. The repeated line transect sampling required 150 observer days, and thus less effort than the traditional ‘full count’ approach (175 observer days). Aquatic Warbler abundance was highest at intermediate water levels, and detection probability varied between years and was influenced by vegetation height. A power analysis indicated that our line transect sampling design had a power of 68% to detect a 20% population change over 10 years, whereas raw count data had a 9% power to detect the same trend. Thus, by accounting for imperfect detection we increased the power to detect population changes. We recommend to adopt the repeated line transect sampling approach for monitoring Aquatic Warblers in Poland and in other important breeding areas to monitor changes in population size and the effects of habitat management. PMID:24713994

Somatic embryogenesis and cryostorage for conservation and restoration of threatened forest trees

Treesearch

S.A. Merkle; A.R. Tull; H.J. Gladfelter; P.M. Montello; J.E. Mitchell; C. Ahn; R.D. McNeill

2017-01-01

Threats to North American forest trees from exotic pests and pathogens or habitat loss, make it imperative that every available tool be employed for conservation and restoration of these at risk species. One such tool, in vitro propagation, could greatly enhance conservation of forest tree genetic material and selection and breeding of resistant or...

A stewardship approach to grassland bird habitat conservation in Saskatchewan, Canada

Treesearch

Stephen K. Davis; Bob Springer; Jennifer Lohmeyer; Lesley Hall; Tom Harrison

2005-01-01

Saskatchewan provides habitat for a number of grassland specialists that are of high conservation concern. For example, 10 of 12 “primary endemic,” and 17 of 25 “secondary endemic” species of the Great Plains identified by Mengel (1970) regularly breed in Saskatchewan. In addition, each of the 30 species of high conservation...

Nest-site competition between invasive and native cavity nesting birds and its implication for conservation.

PubMed

Charter, Motti; Izhaki, Ido; Ben Mocha, Yitzchak; Kark, Salit

2016-10-01

Nesting cavities are often a limited resource that multiple species use. There is an ongoing discussion on whether invasive cavity nesting birds restrict the availability of this key limited resource. While the answer to this question has important conservation implications, little experimental work has been done to examine it. Here, we aimed to experimentally test whether alien cavity nesting birds affect the occupancy of cavities and the resulting breeding success of native cavity breeders in a large urban park located in Tel Aviv, Israel. Over three breeding seasons, we manipulated the entry size of nest boxes and compared the occupancy and breeding success of birds in nest boxes of two treatments. These included nest boxes with large-entrance and small-entrance holes. The large-entrance holes allowed access for both the native and invasive birds (the two main aliens in the park are the common mynas and rose-ringed parakeets). The smaller-entrance boxes, on the other hand, allowed only the smaller sized native cavity breeders (great tits and house sparrows) to enter the boxes but prevented the alien species from entering. We found that the large-entrance nest boxes were occupied by five different bird species, comprising three natives (great tit, house sparrow, Scops owl) and two invasive species (common myna, rose-ringed parakeet) while the small-entrance boxes were only occupied by the two native species. The alien common mynas and rose-ringed parakeets occupied 77.5% of the large-entrance nest boxes whereas native species, mainly great tits, occupied less than 9% of the large-entrance boxes and 36.5% of the small-entrance boxes. When examining the occupancy of those cavities that were not occupied by the aliens, natives occupied both the small and large-entrance nest boxes equally. Three quarters (78%) of the great tits breeding in the large-entrance boxes were usurped by common mynas during the breeding season and as a result breeding success was significantly lower for great tits breeding in the large-entrance boxes compared with the small-entrance boxes. The results of this study suggests that the invasive alien species can reduce the breeding potential of native cavity breeders both by exploiting the limited breeding resource (nest cavities) and by directly usurping cavities already occupied by the native species. Since the majority of large-entrance nest boxes were occupied by the larger alien birds, less native species bred in the limited number of unoccupied large-entrance nest boxes because of exploitation competition. We propose that for management purposes, nest-box programs that alter the entrance size of available natural cavities may be a practical approach, reducing the competition between native cavity breeders and alien invasive birds, and especially benefiting the smaller native cavity breeders. Copyright © 2016 Elsevier Ltd. All rights reserved.

Edible peanut worm ( Sipunculus nudus) in the Beibu Gulf: Resource, aquaculture, ecological impact and counterplan

NASA Astrophysics Data System (ADS)

Li, Junwei; Xie, Xiaoyong; Zhu, Changbo; Guo, Yongjian; Chen, Suwen

2017-10-01

Sipunculus nudus is an important economic species because of its high nutritional and medicinal values. The exploitation and utilization of S. nudus primarily occur in the coastal regions of the Beibu Gulf. However, wild resource of S. nudus is rapidly decreasing because of the overexploitation, which has led to considerable developments of artificial breeding techniques. The cultivation scale of S. nudus has increased in response to successful artificial breeding; however, methods for culturing S. nudus in tidal flats or ponds require further study. Most studies have focused on the breeding, nutrition, medical value and ecological impact of these worms. Studies on the distribution, sediment requirements, nutrition characteristics, breeding techniques and aquaculture ecology of this species are summarized in this paper to promote the development of the aquaculture industry for S. nudus. The high biomass of S. nudus in the Beibu Gulf is positively correlated with the sediment characteristics and water quality of the region. The production of peanut worm has improved to some extent through culturing; however, the nutrient value and ecological environment problems have been observed, which reflect the over exploitation of trace elements and the sediment. These problems will worsen unless they are resolved, and the release of organic materials, nitrogen and phosphorus during harvesting impacts the coastal environment. Moreover, genetic erosion is a potential risk for larvae in artificial breeding programs in tidal flats. Therefore, culturing and collecting methods should be improved and the wild resource conservation should be implemented to promote the sustainable development of the peanut worm.

Which Individuals To Choose To Update the Reference Population? Minimizing the Loss of Genetic Diversity in Animal Genomic Selection Programs.

PubMed

Eynard, Sonia E; Croiseau, Pascal; Laloë, Denis; Fritz, Sebastien; Calus, Mario P L; Restoux, Gwendal

2018-01-04

Genomic selection (GS) is commonly used in livestock and increasingly in plant breeding. Relying on phenotypes and genotypes of a reference population, GS allows performance prediction for young individuals having only genotypes. This is expected to achieve fast high genetic gain but with a potential loss of genetic diversity. Existing methods to conserve genetic diversity depend mostly on the choice of the breeding individuals. In this study, we propose a modification of the reference population composition to mitigate diversity loss. Since the high cost of phenotyping is the limiting factor for GS, our findings are of major economic interest. This study aims to answer the following questions: how would decisions on the reference population affect the breeding population, and how to best select individuals to update the reference population and balance maximizing genetic gain and minimizing loss of genetic diversity? We investigated three updating strategies for the reference population: random, truncation, and optimal contribution (OC) strategies. OC maximizes genetic merit for a fixed loss of genetic diversity. A French Montbéliarde dairy cattle population with 50K SNP chip genotypes and simulations over 10 generations were used to compare these different strategies using milk production as the trait of interest. Candidates were selected to update the reference population. Prediction bias and both genetic merit and diversity were measured. Changes in the reference population composition slightly affected the breeding population. Optimal contribution strategy appeared to be an acceptable compromise to maintain both genetic gain and diversity in the reference and the breeding populations. Copyright © 2018 Eynard et al.

50 CFR 15.26 - Approval of cooperative breeding programs.

Code of Federal Regulations, 2014 CFR

2014-10-01

... 50 Wildlife and Fisheries 1 2014-10-01 2014-10-01 false Approval of cooperative breeding programs. 15.26 Section 15.26 Wildlife and Fisheries UNITED STATES FISH AND WILDLIFE SERVICE, DEPARTMENT OF THE... program requested for the exotic bird species, including: (i) A breeding protocol, including a genetic...

50 CFR 15.26 - Approval of cooperative breeding programs.

Code of Federal Regulations, 2013 CFR

2013-10-01

... 50 Wildlife and Fisheries 1 2013-10-01 2013-10-01 false Approval of cooperative breeding programs. 15.26 Section 15.26 Wildlife and Fisheries UNITED STATES FISH AND WILDLIFE SERVICE, DEPARTMENT OF THE... program requested for the exotic bird species, including: (i) A breeding protocol, including a genetic...

50 CFR 15.26 - Approval of cooperative breeding programs.

Code of Federal Regulations, 2012 CFR

2012-10-01

... 50 Wildlife and Fisheries 1 2012-10-01 2012-10-01 false Approval of cooperative breeding programs. 15.26 Section 15.26 Wildlife and Fisheries UNITED STATES FISH AND WILDLIFE SERVICE, DEPARTMENT OF THE... program requested for the exotic bird species, including: (i) A breeding protocol, including a genetic...

Persian walnut breeding in California

Treesearch

Charles A. Leslie; Gale H. McGranahan

2004-01-01

For over 50 years the University of California Davis Walnut Breeding Program has worked to address the needs of California walnut growers by identifying genetic approaches to problems and developing improved cultivars. The breeding program is a cooperative endeavor that draws on the efforts and resources of university researchers and facilities, USDA germplasm programs...

Breed distribution and history of canine mdr1-1Δ, a pharmacogenetic mutation that marks the emergence of breeds from the collie lineage

PubMed Central

Neff, Mark W.; Robertson, Kathryn R.; Wong, Aaron K.; Safra, Noa; Broman, Karl W.; Slatkin, Montgomery; Mealey, Katrina L.; Pedersen, Niels C.

2004-01-01

A mutation in the canine multidrug resistance gene, MDR1, has previously been associated with drug sensitivities in two breeds from the collie lineage. We exploited breed phylogeny and reports of drug sensitivity to survey other purebred populations that might be genetically at risk. We found that the same allele, mdr1-1Δ, segregated in seven additional breeds, including two sighthounds that were not expected to share collie ancestry. A mutant haplotype that was conserved among affected breeds indicated that the allele was identical by descent. Based on breed histories and the extent of linkage disequilibrium, we conclude that all dogs carrying mdr1-1Δ are descendants of a dog that lived in Great Britain before the genetic isolation of breeds by registry (ca. 1873). The breed distribution and frequency of mdr1-1Δ have applications in veterinary medicine and selective breeding, whereas the allele's history recounts the emergence of formally recognized breeds from an admixed population of working sheepdogs. PMID:15289602

Breed distribution and history of canine mdr1-1Delta, a pharmacogenetic mutation that marks the emergence of breeds from the collie lineage.

PubMed

Neff, Mark W; Robertson, Kathryn R; Wong, Aaron K; Safra, Noa; Broman, Karl W; Slatkin, Montgomery; Mealey, Katrina L; Pedersen, Niels C

2004-08-10

A mutation in the canine multidrug resistance gene, MDR1, has previously been associated with drug sensitivities in two breeds from the collie lineage. We exploited breed phylogeny and reports of drug sensitivity to survey other purebred populations that might be genetically at risk. We found that the same allele, mdr1-1Delta, segregated in seven additional breeds, including two sighthounds that were not expected to share collie ancestry. A mutant haplotype that was conserved among affected breeds indicated that the allele was identical by descent. Based on breed histories and the extent of linkage disequilibrium, we conclude that all dogs carrying mdr1-1Delta are descendants of a dog that lived in Great Britain before the genetic isolation of breeds by registry (ca. 1873). The breed distribution and frequency of mdr1-1Delta have applications in veterinary medicine and selective breeding, whereas the allele's history recounts the emergence of formally recognized breeds from an admixed population of working sheepdogs.

Breeding and genetic resources of five-needle pines: Growth, adaptability, and pest resistance

Treesearch

Richard A. Sniezko; Safiya Samman; Scott E. Schlarbaum; Howard B. Kriebel

2004-01-01

This volume presents 29 overview and research papers on the breeding, genetic variation, genecology, gene conservation, and pest resistance of five-needle pines (Pinus L. subgenus Strobus Lemm.) from throughout the world. Overview papers provide information on past and present research as well as future needs for research on white...

77 FR 19225 - Notice of Availability of Draft Documents for Public Comment Related to a Fishery Conservation...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-03-30

... behavioral patterns, including breeding, feeding, and sheltering (64 FR 60727, November 8, 1999). ``Harass... breeding, feeding, and sheltering. NMFS may issue permits, under limited circumstances, to allow the take... (Oncorhyncus tshawytscha) are incidentally caught in the commercial shrimp trawl fishery and the recreational...

Global impact of accelerated plant breeding: Evidence from a meta-analysis on rice breeding.

PubMed

Lenaerts, Bert; de Mey, Yann; Demont, Matty

2018-01-01

Rice breeders in Asia and elsewhere in the world have long overlooked trying to shorten the time it takes to develop new varieties. Plant breeders have proposed a technique called Rapid Generation Advance (RGA) as a way to accelerate the results of public rice breeding programs. However, little is known about RGA's potential impact. Here, we present the first results of a global impact study of RGA. More specifically, we calculated the multiplicator effects of RGA on the research benefits generated by conventional rice breeding programs and applied them to a meta-analysis of selected impact studies in the literature. These insights are a first crucial step in developing a targeted approach for disseminating RGA technology among rice breeders to accelerate the impact of their public rice breeding programs around the world. We show that the additional benefits due to time savings are considerable and offer some insights into the economics of breeding. Our results confirm that the adoption of accelerated breeding would lead to substantial advantages to rice breeding programs and the earlier variety release leads to significant economic benefits to society. This can be important to policy makers when reshaping their public breeding methods and optimising their return on research investments in breeding.

Efficiency of a Protected-Area Network in a Mediterranean Region: A Multispecies Assessment with Raptors

NASA Astrophysics Data System (ADS)

Abellán, María D.; Martínez, José E.; Palazón, José A.; Esteve, Miguel Á.; Calvo, José F.

2011-05-01

Three different systems of designating protected areas in a Mediterranean region in southeastern Spain were studied, referring to their effectiveness and efficiency for protecting both the breeding territories and the suitable habitat of a set of ten raptor species. Taking into consideration the varying degrees of endangerment of these species, a map of multispecies conservation values was also drawn up and superimposed on the three protected-area systems studied. In order to compare the levels of protection afforded by the three systems, we considered two indices that measured their relative effectiveness and efficiency. The effectiveness estimated the proportion of territories or optimal habitat protected by the networks while efficiency implicitly considered the area of each system (percentage of breeding territories or optimal habitat protected per 1% of land protected). Overall, our results showed that the most efficient system was that formed by the set of regional parks and reserves (17 protected breeding territories per 100 km2), although, given its small total area, it was by far the least effective (only protecting the 21% of the breeding territories of all species and 17% of the area of high conservation value). The systems formed by the Special Protection Areas (designated under the EU "Birds Directive") and by the Special Conservation Areas (designated under the EU "Habitats Directive") notably increased the percentages of protected territories of all species (61%) and area of high conservation value (57%), but their efficiency was not as high as expected in most cases. The overall level of protection was high for all species except for the Lesser Kestrel ( Falco naumanni), an endangered falcon that inhabits pseudo-steppe and traditional agricultural habitats, which are clearly underrepresented in the protected-area network of the study region.

Using species distribution models to define nesting habitat of the eastern metapopulation of double-crested cormorants.

PubMed

Sheehan, Kate L; Esswein, Samuel T; Dorr, Brian S; Yarrow, Greg K; Johnson, Ron J

2017-01-01

When organisms with similar phenotypes have conflicting management and conservation initiatives, approaches are needed to differentiate among subpopulations or discrete groups. For example, the eastern metapopulation of the double-crested cormorant ( Phalacrocorax auritus ) has a migratory phenotype that is culled because they are viewed as a threat to commercial and natural resources, whereas resident birds are targeted for conservation. Understanding the distinct breeding habitats of resident versus migratory cormorants would aid in identification and management decisions. Here, we use species distribution models (SDM: Maxent) of cormorant nesting habitat to examine the eastern P. auritus metapopulation and the predicted breeding sites of its phenotypes. We then estimate the phenotypic identity of breeding colonies of cormorants where management plans are being developed. We transferred SDMs trained on data from resident bird colonies in Florida and migratory bird colonies in Minnesota to South Carolina in an effort to identify the phenotype of breeding cormorants there based on the local landscape characteristics. Nesting habitat characteristics of cormorant colonies in South Carolina more closely resembled those of the Florida phenotype than those of birds of the Minnesota phenotype. The presence of the resident phenotype in summer suggests that migratory and resident cormorants will co-occur in South Carolina in winter. Thus, there is an opportunity for separate management strategies for the two phenotypes in that state. We found differences in nesting habitat characteristics that could be used to refine management strategies and reduce human conflicts with abundant winter migrants and, at the same time, conserve less common colonies of resident cormorants. The models we use here show potential for advancing the study of geographically overlapping phenotypes with differing conservation and management priorities.

Genomic selection needs to be carefully assessed to meet specific requirements in livestock breeding programs

PubMed Central

Jonas, Elisabeth; de Koning, Dirk-Jan

2015-01-01

Genomic selection is a promising development in agriculture, aiming improved production by exploiting molecular genetic markers to design novel breeding programs and to develop new markers-based models for genetic evaluation. It opens opportunities for research, as novel algorithms and lab methodologies are developed. Genomic selection can be applied in many breeds and species. Further research on the implementation of genomic selection (GS) in breeding programs is highly desirable not only for the common good, but also the private sector (breeding companies). It has been projected that this approach will improve selection routines, especially in species with long reproduction cycles, late or sex-limited or expensive trait recording and for complex traits. The task of integrating GS into existing breeding programs is, however, not straightforward. Despite successful integration into breeding programs for dairy cattle, it has yet to be shown how much emphasis can be given to the genomic information and how much additional phenotypic information is needed from new selection candidates. Genomic selection is already part of future planning in many breeding companies of pigs and beef cattle among others, but further research is needed to fully estimate how effective the use of genomic information will be for the prediction of the performance of future breeding stock. Genomic prediction of production in crossbreeding and across-breed schemes, costs and choice of individuals for genotyping are reasons for a reluctance to fully rely on genomic information for selection decisions. Breeding objectives are highly dependent on the industry and the additional gain when using genomic information has to be considered carefully. This review synthesizes some of the suggested approaches in selected livestock species including cattle, pig, chicken, and fish. It outlines tasks to help understanding possible consequences when applying genomic information in breeding scenarios. PMID:25750652

Genomic selection needs to be carefully assessed to meet specific requirements in livestock breeding programs.

PubMed

Jonas, Elisabeth; de Koning, Dirk-Jan

2015-01-01

Genomic selection is a promising development in agriculture, aiming improved production by exploiting molecular genetic markers to design novel breeding programs and to develop new markers-based models for genetic evaluation. It opens opportunities for research, as novel algorithms and lab methodologies are developed. Genomic selection can be applied in many breeds and species. Further research on the implementation of genomic selection (GS) in breeding programs is highly desirable not only for the common good, but also the private sector (breeding companies). It has been projected that this approach will improve selection routines, especially in species with long reproduction cycles, late or sex-limited or expensive trait recording and for complex traits. The task of integrating GS into existing breeding programs is, however, not straightforward. Despite successful integration into breeding programs for dairy cattle, it has yet to be shown how much emphasis can be given to the genomic information and how much additional phenotypic information is needed from new selection candidates. Genomic selection is already part of future planning in many breeding companies of pigs and beef cattle among others, but further research is needed to fully estimate how effective the use of genomic information will be for the prediction of the performance of future breeding stock. Genomic prediction of production in crossbreeding and across-breed schemes, costs and choice of individuals for genotyping are reasons for a reluctance to fully rely on genomic information for selection decisions. Breeding objectives are highly dependent on the industry and the additional gain when using genomic information has to be considered carefully. This review synthesizes some of the suggested approaches in selected livestock species including cattle, pig, chicken, and fish. It outlines tasks to help understanding possible consequences when applying genomic information in breeding scenarios.

Simulated selection responses for breeding programs including resistance and resilience to parasites in Creole goats.

PubMed

Gunia, M; Phocas, F; Gourdine, J-L; Bijma, P; Mandonnet, N

2013-02-01

The Creole goat is a local breed used for meat production in Guadeloupe (French West Indies). As in other tropical countries, improvement of parasite resistance is needed. In this study, we compared predicted selection responses for alternative breeding programs with or without parasite resistance and resilience traits. The overall breeding goal included traits for production, reproduction, and parasite resilience and resistance to ensure a balanced selection outcome. The production traits were BW and dressing percentage (DP). The reproduction trait was fertility (FER), which was the number of doe kiddings per mating. The resistance trait was worm fecal egg count (FEC), which is a measurement of the number of gastro-intestinal parasite eggs found in the feces. The resilience trait was the packed cell volume (PCV), which is a measurement of the volume of red blood cells in the blood. Dressing percentage, BW, and FEC were measured at 11 mo of age, which is the mating or selling age. Fertility and PCV were measured on females at each kidding period. The breeding program accounting for the overall breeding goal and a selection index including all traits gave annual selection responses of 800 g for BW, 3.75% for FER, 0.08% for DP, -0.005 ln(eggs/g) for FEC, and 0.28% for PCV. The expected selection responses for BW and DP in this breeding program were reduced by 2% and 6%, respectively, compared with a breeding program not accounting for FEC and PCV. The overall breeding program, proposed for the Creole breed, offers the best breeding strategy in terms of expected selection responses, making it possible to improve all traits together. It offers a good balance between production and adaptation traits and may present some interest for the selection of other goat breeds in the tropics.

Decision analysis for conservation breeding: Maximizing production for reintroduction of whooping cranes

USGS Publications Warehouse

Smith, Des H.V.; Converse, Sarah J.; Gibson, Keith; Moehrenschlager, Axel; Link, William A.; Olsen, Glenn H.; Maguire, Kelly

2011-01-01

Captive breeding is key to management of severely endangered species, but maximizing captive production can be challenging because of poor knowledge of species breeding biology and the complexity of evaluating different management options. In the face of uncertainty and complexity, decision-analytic approaches can be used to identify optimal management options for maximizing captive production. Building decision-analytic models requires iterations of model conception, data analysis, model building and evaluation, identification of remaining uncertainty, further research and monitoring to reduce uncertainty, and integration of new data into the model. We initiated such a process to maximize captive production of the whooping crane (Grus americana), the world's most endangered crane, which is managed through captive breeding and reintroduction. We collected 15 years of captive breeding data from 3 institutions and used Bayesian analysis and model selection to identify predictors of whooping crane hatching success. The strongest predictor, and that with clear management relevance, was incubation environment. The incubation period of whooping crane eggs is split across two environments: crane nests and artificial incubators. Although artificial incubators are useful for allowing breeding pairs to produce multiple clutches, our results indicate that crane incubation is most effective at promoting hatching success. Hatching probability increased the longer an egg spent in a crane nest, from 40% hatching probability for eggs receiving 1 day of crane incubation to 95% for those receiving 30 days (time incubated in each environment varied independently of total incubation period). Because birds will lay fewer eggs when they are incubating longer, a tradeoff exists between the number of clutches produced and egg hatching probability. We developed a decision-analytic model that estimated 16 to be the optimal number of days of crane incubation needed to maximize the number of offspring produced. These results show that using decision-analytic tools to account for uncertainty in captive breeding can improve the rate at which such programs contribute to wildlife reintroductions. 

Biology and conservation of Xantus's Murrelet: Discovery, taxonomy and distribution

USGS Publications Warehouse

Carter, Harry R.; Sealy, Spencer G.; Burkett, Esther E.; Piatt, John F.

2005-01-01

The biology of Xantus's Murrelets Synthliboramphus hypoleucus is similar in many respects to better-studied Ancient Murrelets S. antiquus, especially regarding morphology and the species' precocial mode of post-hatching development. It nests mainly in rock crevices but also under shrubs on islands in southern California, United States, and northwestern Baja California, Mexico (27oN to 34oN). The species was discovered in 1859 by Janos Xantus. Two subspecies (S. h. hypoleucus and S. h. scrippsi) are recognized that show limited evidence of interbreeding. At sea, closely related Craveri's Murrelets S. craveri co-occur with Xantus's Murrelets off California and western Baja California during half the year, but the former species has a discrete breeding range in the Gulf of California, Mexico. Breeding was documented at 13 island groups between 1863 and 1976. Post-breeding dispersal as far north as central British Columbia, Canada (c. 52oN) was observed in the 1940s to 1960s. A few Xantus's Murrelets disperse south of breeding colonies to Magdalena Bay, Baja California (c. 24oN). The southernmost record is the type specimen collected by Xantus near Cabo San Lucas, Baja California (c. 23oN). Chief threats to this species include introduced mammalian predators on breeding islands, heightened predation by natural predators in human-modified island habitats, and oil pollution. In January 2005, a Pacific Seabird Group special symposium, "Biology and conservation of the Xantus's Murrelet," highlighted conservation concerns and promoted publication of recent studies of this little-known alcid, with nine symposium papers published in this issue of Marine Ornithology. Much of what we know about Xantus's Murrelets has been learned in recent years, and many aspects of biology remain to be described.

Nest-site selection, reproductive ecology and shifts within core-use areas of Black-necked Cranes at the northern limit of the Tibetan Plateau

PubMed Central

An, Bei; Shu, Meilin

2017-01-01

We investigated population dynamics, breeding pairs, breeding habitat selection, nest density, distance between neighboring nests, nest survival, reproductive success, and recruitment rate for Black-necked Cranes (BNC, Grus nigricollis) during 2013–2015 in Yanchiwan National Nature Reserve (YCW), Gansu, China. Numbers of BNC and breeding pairs remained relatively stable at around 140 individuals and 40 pairs. Recruitment rates ranged from 15.7% to 25.8%. The average nest distance was 718.66 ± 430.50 m (2013), 1064.51 ± 323.99 m (2014) and 534.99 ± 195.45 m (2015). Average nest survival rate, hatching success, and breeding success of all 29 nests were 65.56 ± 5.09%, 57.04 ± 6.12% and 32.78% ± 2.55. Water depth, water body area, and distance to land were positively related to nest survival, while disturbance level showed a negative relationship. However, nest site selection of BNC was determined by habitat type, disturbance and water depth. BNC often foraged in mudflats and freshwater marsh but seldom foraged in saline-alkali wet meadows due to food density and quantity in April, the month when BNC choose nest sites. Conservation strategies based on habitats should consider ecological factors that may not be well predicted by nest site selection. Shifts within core-use areas from satellite tracking of BNC demonstrated that maintaining populations demands that conservation areas are large enough to permit breeding BNC changes in space use. Our results are important for conservation management and provide quantitative reproductive data for this species. PMID:28168110

Nest-site selection, reproductive ecology and shifts within core-use areas of Black-necked Cranes at the northern limit of the Tibetan Plateau.

PubMed

Zhang, Lixun; An, Bei; Shu, Meilin; Yang, Xiaojun

2017-01-01

We investigated population dynamics, breeding pairs, breeding habitat selection, nest density, distance between neighboring nests, nest survival, reproductive success, and recruitment rate for Black-necked Cranes (BNC, Grus nigricollis ) during 2013-2015 in Yanchiwan National Nature Reserve (YCW), Gansu, China. Numbers of BNC and breeding pairs remained relatively stable at around 140 individuals and 40 pairs. Recruitment rates ranged from 15.7% to 25.8%. The average nest distance was 718.66 ± 430.50 m (2013), 1064.51 ± 323.99 m (2014) and 534.99 ± 195.45 m (2015). Average nest survival rate, hatching success, and breeding success of all 29 nests were 65.56 ± 5.09%, 57.04 ± 6.12% and 32.78% ± 2.55. Water depth, water body area, and distance to land were positively related to nest survival, while disturbance level showed a negative relationship. However, nest site selection of BNC was determined by habitat type, disturbance and water depth. BNC often foraged in mudflats and freshwater marsh but seldom foraged in saline-alkali wet meadows due to food density and quantity in April, the month when BNC choose nest sites. Conservation strategies based on habitats should consider ecological factors that may not be well predicted by nest site selection. Shifts within core-use areas from satellite tracking of BNC demonstrated that maintaining populations demands that conservation areas are large enough to permit breeding BNC changes in space use. Our results are important for conservation management and provide quantitative reproductive data for this species.

Potential misuse of avian density as a conservation metric

USGS Publications Warehouse

Skagen, Susan K.; Yackel Adams, Amy A.

2011-01-01

Effective conservation metrics are needed to evaluate the success of management in a rapidly changing world. Reproductive rates and densities of breeding birds (as a surrogate for reproductive rate) have been used to indicate the quality of avian breeding habitat, but the underlying assumptions of these metrics rarely have been examined. When birds are attracted to breeding areas in part by the presence of conspecifics and when breeding in groups influences predation rates, the effectiveness of density and reproductive rate as indicators of habitat quality is reduced. It is beneficial to clearly distinguish between individual- and population-level processes when evaluating habitat quality. We use the term reproductive rate to refer to both levels and further distinguish among levels by using the terms per capita fecundity (number of female offspring per female per year, individual level) and population growth rate (the product of density and per capita fecundity, population level). We predicted how density and reproductive rate interact over time under density-independent and density-dependent scenarios, assuming the ideal free distribution model of how birds settle in breeding habitats. We predicted population density of small populations would be correlated positively with both per capita fecundity and population growth rate due to the Allee effect. For populations in the density-dependent growth phase, we predicted no relation between density and per capita fecundity (because individuals in all patches will equilibrate to the same success rate) and a positive relation between density and population growth rate. Several ecological theories collectively suggest that positive correlations between density and per capita fecundity would be difficult to detect. We constructed a decision tree to guide interpretation of positive, neutral, nonlinear, and negative relations between density and reproductive rates at individual and population levels. ?? 2010 Society for Conservation Biology.

Algal subsidies enhance invertebrate prey for threatened shorebirds: A novel conservation tool on ocean beaches?

NASA Astrophysics Data System (ADS)

Schlacher, Thomas A.; Hutton, Briony M.; Gilby, Ben L.; Porch, Nicholaus; Maguire, Grainne S.; Maslo, Brooke; Connolly, Rod M.; Olds, Andrew D.; Weston, Michael A.

2017-05-01

Birds breeding on ocean beaches are threatened globally, often requiring significant investments in species conservation and habitat management. Conservation actions typically encompass spatial and temporal threat reductions and protection of eggs and broods. Still, populations decline or recover only slowly, calling for fresh approaches in beach-bird conservation. Because energetic demands are critically high during the nesting and chick rearing phases, and chick survival is particularly low, supplementing prey to breeding birds and their offspring is theoretically attractive as a means to complement more traditional conservation measures. Prey for plovers and similar species on ocean beaches consists of invertebrates (e.g. small crustaceans, insects) many of which feed on stranded masses of plant material (e.g. kelp and seagrass) and use this 'wrack' as habitat. We added wrack to the upper beach where plovers nest and their chicks forage to test whether algal subsidies promote the abundance and diversity of their invertebrate prey. Adding wrack to the upper beach significantly increased the abundance and diversity of invertebrate prey items. At wrack subsidies greater than 50% of surface cover invertebrate assemblages became highly distinct compared with those that received smaller additions of wrack. Substantial (2-4 fold) increases in the abundance amphipods and isopods that are principal prey items for plovers drove these shifts. This proof-of-concept study demonstrates the feasibility of food provisioning for birds on ocean shores. Whilst novel, it is practicable, inexpensive and does not introduce further restrictions or man-made structures. Thus, it can meaningfully add to the broader arsenal of conservation tools for threatened species that are wholly reliant on sandy beaches as breeding and foraging habitats.

Conservation Action Based on Threatened Species Capture Taxonomic and Phylogenetic Richness in Breeding and Wintering Populations of Central Asian Birds

PubMed Central

Schweizer, Manuel; Ayé, Raffael; Kashkarov, Roman; Roth, Tobias

2014-01-01

Although phylogenetic diversity has been suggested to be relevant from a conservation point of view, its role is still limited in applied nature conservation. Recently, the practice of investing conservation resources based on threatened species was identified as a reason for the slow integration of phylogenetic diversity in nature conservation planning. One of the main arguments is based on the observation that threatened species are not evenly distributed over the phylogenetic tree. However this argument seems to dismiss the fact that conservation action is a spatially explicit process, and even if threatened species are not evenly distributed over the phylogenetic tree, the occurrence of threatened species could still indicate areas with above average phylogenetic diversity and consequently could protect phylogenetic diversity. Here we aim to study the selection of important bird areas in Central Asia, which were nominated largely based on the presence of threatened bird species. We show that although threatened species occurring in Central Asia do not capture phylogenetically more distinct species than expected by chance, the current spatially explicit conservation approach of selecting important bird areas covers above average taxonomic and phylogenetic diversity of breeding and wintering birds. We conclude that the spatially explicit processes of conservation actions need to be considered in the current discussion of whether new prioritization methods are needed to complement conservation action based on threatened species. PMID:25337861

Developing Spatially Explicit Habitat Models for Grassland Bird Conservation Planning in the Prairie Pothole Region of North Dakota

Treesearch

Neal D. Niemuth; Michael E. Estey; Charles R. Loesch

2005-01-01

Conservation planning for birds is increasingly focused on landscapes. However, little spatially explicit information is available to guide landscape-level conservation planning for many species of birds. We used georeferenced 1995 Breeding Bird Survey (BBS) data in conjunction with land-cover information to develop a spatially explicit habitat model predicting the...

Genetic diversity revealed by single nucleotide polymorphism markers in a worldwide germplasm collection of durum wheat.

PubMed

Ren, Jing; Sun, Daokun; Chen, Liang; You, Frank M; Wang, Jirui; Peng, Yunliang; Nevo, Eviatar; Sun, Dongfa; Luo, Ming-Cheng; Peng, Junhua

2013-03-28

Evaluation of genetic diversity and genetic structure in crops has important implications for plant breeding programs and the conservation of genetic resources. Newly developed single nucleotide polymorphism (SNP) markers are effective in detecting genetic diversity. In the present study, a worldwide durum wheat collection consisting of 150 accessions was used. Genetic diversity and genetic structure were investigated using 946 polymorphic SNP markers covering the whole genome of tetraploid wheat. Genetic structure was greatly impacted by multiple factors, such as environmental conditions, breeding methods reflected by release periods of varieties, and gene flows via human activities. A loss of genetic diversity was observed from landraces and old cultivars to the modern cultivars released during periods of the Early Green Revolution, but an increase in cultivars released during the Post Green Revolution. Furthermore, a comparative analysis of genetic diversity among the 10 mega ecogeographical regions indicated that South America, North America, and Europe possessed the richest genetic variability, while the Middle East showed moderate levels of genetic diversity.

D-loop haplotype diversity in Brazilian horse breeds

PubMed Central

Ianella, Patrícia; Albuquerque, Maria do Socorro Maués; Paiva, Samuel Rezende; do Egito, Andréa Alves; Almeida, Leonardo Daniel; Sereno, Fabiana T. P. S.; Carvalho, Luiz Felipe Ramos; Mariante, Arthur da Silva; McManus, Concepta Margaret

2017-01-01

Abstract The first horses were brought to Brazil by the colonizers after 1534. Over the centuries, these animals evolved and adapted to local environmental conditions usually unsuitable for exotic breeds, thereby originating locally adapted Brazilian breeds. The present work represents the first description of maternal genetic diversity in these horse breeds based on D-loop sequences. A D-Loop HSV-I fragment of 252 bp, from 141 horses belonging to ten Brazilian breeds / genetic groups (locally adapted and specialized breeds) were analysed. Thirty-five different haplotypes belonging to 18 haplogroups were identified with 33 polymorphic sites. Haplotype diversity (varying from 0.20 to 0.96) and nucleotide diversity (varying from 0.0039 to 0.0239) was lower for locally adapted than for specialized breeds, with the same pattern observed for FST values. Haplogroups identified in Brazilian breeds are in agreement with previous findings in South American samples. The low variability observed mainly in locally adapted breeds, indicates that, to ensure conservation of these breeds, careful reproductive management is needed. Additional genetic characterization studies are required to support accurate decision-making. PMID:28863209

Jamaica’s Critically Endangered Butterfly: A Review of the Biology and Conservation Status of the Homerus Swallowtail (Papilio (Pterourus) homerus Fabricius)

PubMed Central

Kramer, Valerie R.; Rawlins, John E.; Verdecia, Vanessa; Daniels, Jaret C.

2017-01-01

The Homerus swallowtail, Papilio (Pterourus) homerus Fabricius, is listed as an endangered species and is endemic to the Caribbean island of Jamaica. The largest butterfly in the Western Hemisphere, P. homerus once inhabited seven of Jamaica’s 14 parishes and consisted of at least three populations; however, now only two stronghold populations remain, a western population in the rugged Cockpit Country and an eastern population in the Blue and John Crow Mountains. Despite numerous studies of its life history, much about the population biology, including estimates of total numbers of individuals in each population, remains unknown. In addition, a breeding program is needed to establish an experimental population, which could be used to augment wild populations and ensure the continued survival of the species. Here, we present a review of the biology of P. homerus and recommendations for a conservation plan. PMID:28698508

Metabolic rates of giant pandas inform conservation strategies.

PubMed

Fei, Yuxiang; Hou, Rong; Spotila, James R; Paladino, Frank V; Qi, Dunwu; Zhang, Zhihe

2016-06-06

The giant panda is an icon of conservation and survived a large-scale bamboo die off in the 1980s in China. Captive breeding programs have produced a large population in zoos and efforts continue to reintroduce those animals into the wild. However, we lack sufficient knowledge of their physiological ecology to determine requirements for survival now and in the face of climate change. We measured resting and active metabolic rates of giant pandas in order to determine if current bamboo resources were sufficient for adding additional animals to populations in natural reserves. Resting metabolic rates were somewhat below average for a panda sized mammal and active metabolic rates were in the normal range. Pandas do not have exceptionally low metabolic rates. Nevertheless, there is enough bamboo in natural reserves to support both natural populations and large numbers of reintroduced pandas. Bamboo will not be the limiting factor in successful reintroduction.

Jamaica's Critically Endangered Butterfly: A Review of the Biology and Conservation Status of the Homerus Swallowtail (Papilio (Pterourus) homerus Fabricius).

PubMed

Lehnert, Matthew S; Kramer, Valerie R; Rawlins, John E; Verdecia, Vanessa; Daniels, Jaret C

2017-07-10

The Homerus swallowtail, Papilio ( Pterourus ) homerus Fabricius, is listed as an endangered species and is endemic to the Caribbean island of Jamaica. The largest butterfly in the Western Hemisphere, P. homerus once inhabited seven of Jamaica's 14 parishes and consisted of at least three populations; however, now only two stronghold populations remain, a western population in the rugged Cockpit Country and an eastern population in the Blue and John Crow Mountains. Despite numerous studies of its life history, much about the population biology, including estimates of total numbers of individuals in each population, remains unknown. In addition, a breeding program is needed to establish an experimental population, which could be used to augment wild populations and ensure the continued survival of the species. Here, we present a review of the biology of P. homerus and recommendations for a conservation plan.

Metabolic rates of giant pandas inform conservation strategies

NASA Astrophysics Data System (ADS)

Fei, Yuxiang; Hou, Rong; Spotila, James R.; Paladino, Frank V.; Qi, Dunwu; Zhang, Zhihe

2016-06-01

The giant panda is an icon of conservation and survived a large-scale bamboo die off in the 1980s in China. Captive breeding programs have produced a large population in zoos and efforts continue to reintroduce those animals into the wild. However, we lack sufficient knowledge of their physiological ecology to determine requirements for survival now and in the face of climate change. We measured resting and active metabolic rates of giant pandas in order to determine if current bamboo resources were sufficient for adding additional animals to populations in natural reserves. Resting metabolic rates were somewhat below average for a panda sized mammal and active metabolic rates were in the normal range. Pandas do not have exceptionally low metabolic rates. Nevertheless, there is enough bamboo in natural reserves to support both natural populations and large numbers of reintroduced pandas. Bamboo will not be the limiting factor in successful reintroduction.

Metabolic rates of giant pandas inform conservation strategies

PubMed Central

Fei, Yuxiang; Hou, Rong; Spotila, James R.; Paladino, Frank V.; Qi, Dunwu; Zhang, Zhihe

2016-01-01

The giant panda is an icon of conservation and survived a large-scale bamboo die off in the 1980s in China. Captive breeding programs have produced a large population in zoos and efforts continue to reintroduce those animals into the wild. However, we lack sufficient knowledge of their physiological ecology to determine requirements for survival now and in the face of climate change. We measured resting and active metabolic rates of giant pandas in order to determine if current bamboo resources were sufficient for adding additional animals to populations in natural reserves. Resting metabolic rates were somewhat below average for a panda sized mammal and active metabolic rates were in the normal range. Pandas do not have exceptionally low metabolic rates. Nevertheless, there is enough bamboo in natural reserves to support both natural populations and large numbers of reintroduced pandas. Bamboo will not be the limiting factor in successful reintroduction. PMID:27264109

Breeding system and its consequence on fruit set of a rare sand dune shrub Eremosparton songoricum (Fabaceae: Papilionoideae): implications for conservation

USDA-ARS?s Scientific Manuscript database

The breeding system and its consequence on fruit set of Eremosparton songoricum (Litv.) Vass., a rare shrubby legume occurring in moving or semi-fixed sand dunes of Central Asian deserts, were examined by manipulative experiments and observational studies in natural populations during the period of ...

Conservation priorities for tree crop wild relatives in the United States

Treesearch

Colin K. Khoury; Stephanie L. Greene; Karen A. Williams; Chrystian C. Sosa; Chris Richards

2017-01-01

Crop wild relatives native to the United States have proved useful as genetic resources in breeding more productive, nutritious, and resilient crops. Their utilization is expected to increase with better information about the species and improving breeding tools. But this utilization may be constrained by their limited representation in genebanks and the ongoing loss...

Neotropical migratory landbird species and their habitats of special concern within the Southeast Region

Treesearch

William C. Hunter; David N. Pashley; Ronald E. F. Escano

1993-01-01

The Southeast Management Working Group for Partners in Flight initiated a prioritization scheme in April 1991 to help guide regional and local conservation efforts for Neotropical migratory landbirds. Preliminary breeding season priorities have been established in each of 24 physiographic areas for species and habitats, with some non-breeding season priorities set as...

The chapter breeding program of the American Chestnut Foundation

Treesearch

Sara Fitzsimmons; Kendra Gurney; William White; Katy McCune

2012-01-01

A unique feature of the American Chestnut Foundation breeding program is the use of volunteers to conduct most of the regional breeding that will help increase genetic diversity and preserve local adaptation in the products of our program. This effort is coordinated by the four authors of this abstract, who are employees of the Foundation. The Foundation has...

Tree improvement in the Pacific Northwest.

Treesearch

R. Johnson

2000-01-01

Advanced-generation tree breeding programs are underway for Douglas-fir and coastal western hemlock. These programs will continue to improve growth rates and other traits. Regardless of whether seeds is from a seed orchard or natural collection, it must be used in its appropriated breeding zone or seed zone. These zones vary by species. Breeding programs are underway...

Evaluating Conservation Breeding Success for an Extinct-in-the-Wild Antelope.

PubMed

Little, Holly A; Gilbert, Tania C; Athorn, Marie L; Marshall, Andrew R

2016-01-01

With the number of threatened species increasing globally, conservation breeding is vitally important now more than ever. However, no previous peer-reviewed study has attempted to determine how the varying conditions across zoos have influenced breeding by an extinct-in-the-wild species. We therefore use questionnaires and studbook data to evaluate the influence of husbandry practices and enclosure design on scimitar-horned oryx (Oryx dammah) breeding success, at the herd level. Regression models were used to identify the variables that best predicted breeding success among 29 zoos across a five-year period. Calf survival decreased with herd age and the use of soft substrates in hardstand areas (yard area usually adjacent to the indoor housing), explaining 30.7% of overall variation. Calf survival also decreased where herds were small and where food provisions were not raised (and hence likely incited competition), although these were less influential. Likewise, birth rate decreased with soft substrates in hardstand areas and unraised food provisions, although these were less influential than for calf survival. Birth rate increased with year-round male presence, yet this decreased calf survival. Compared to previous studies, the number of enclosure/husbandry influences on breeding were relatively few. Nevertheless, these few enclosure/husbandry influences explained over one third of the variation in calf survival. Our data therefore suggest some potential improvements and hence that extinct-in-the-wild species stand a greater chance of survival with empirical design of zoo enclosures and husbandry methods.

Paradigms for parasite conservation.

PubMed

Dougherty, Eric R; Carlson, Colin J; Bueno, Veronica M; Burgio, Kevin R; Cizauskas, Carrie A; Clements, Christopher F; Seidel, Dana P; Harris, Nyeema C

2016-08-01

Parasitic species, which depend directly on host species for their survival, represent a major regulatory force in ecosystems and a significant component of Earth's biodiversity. Yet the negative impacts of parasites observed at the host level have motivated a conservation paradigm of eradication, moving us farther from attainment of taxonomically unbiased conservation goals. Despite a growing body of literature highlighting the importance of parasite-inclusive conservation, most parasite species remain understudied, underfunded, and underappreciated. We argue the protection of parasitic biodiversity requires a paradigm shift in the perception and valuation of their role as consumer species, similar to that of apex predators in the mid-20th century. Beyond recognizing parasites as vital trophic regulators, existing tools available to conservation practitioners should explicitly account for the unique threats facing dependent species. We built upon concepts from epidemiology and economics (e.g., host-density threshold and cost-benefit analysis) to devise novel metrics of margin of error and minimum investment for parasite conservation. We define margin of error as the risk of accidental host extinction from misestimating equilibrium population sizes and predicted oscillations, while minimum investment represents the cost associated with conserving the additional hosts required to maintain viable parasite populations. This framework will aid in the identification of readily conserved parasites that present minimal health risks. To establish parasite conservation, we propose an extension of population viability analysis for host-parasite assemblages to assess extinction risk. In the direst cases, ex situ breeding programs for parasites should be evaluated to maximize success without undermining host protection. Though parasitic species pose a considerable conservation challenge, adaptations to conservation tools will help protect parasite biodiversity in the face of an uncertain environmental future. © 2015 Society for Conservation Biology.

Bridging the conservation design and delivery gap for wetland bird habitat maintenance and restoration in the Midwestern United States

USGS Publications Warehouse

Thogmartin, W.E.; Potter, B.; Soulliere, G.

2011-01-01

The U.S. Fish and Wildlife Service's adoption of Strategic Habitat Conservation is intended to increase the effectiveness and efficiency of conservation delivery by targeting effort in areas where biological benefits are greatest. Conservation funding has not often been allocated in accordance with explicit biological endpoints, and the gap between conservation design (the identification of conservation priority areas) and delivery needs to be bridged to better meet conservation goals for multiple species and landscapes. We introduce a regional prioritization scheme for North American Wetlands Conservation Act funding which explicitly addresses Midwest regional goals for wetland-dependent birds. We developed decision-support maps to guide conservation of breeding and non-breeding wetland bird habitat. This exercise suggested ~55% of the Midwest consists of potential wetland bird habitat, and areas suited for maintenance (protection) were distinguished from those most suited to restoration. Areas with greater maintenance focus were identified for central Minnesota, southeastern Wisconsin, the Upper Mississippi and Illinois rivers, and the shore of western Lake Erie and Saginaw Bay. The shores of Lakes Michigan and Superior accommodated fewer waterbird species overall, but were also important for wetland bird habitat maintenance. Abundant areas suited for wetland restoration occurred in agricultural regions of central Illinois, western Iowa, and northern Indiana and Ohio. Use of this prioritization scheme can increase effectiveness, efficiency, transparency, and credibility to land and water conservation efforts for wetland birds in the Midwestern United States.

Post-Breeding Season Migrations of a Top Predator, the Harbor Seal (Phoca vitulina richardii), from a Marine Protected Area in Alaska

PubMed Central

Womble, Jamie N.; Gende, Scott M.

2013-01-01

Marine protected areas (MPAs) are increasingly being used as a conservation tool for highly mobile marine vertebrates and the focus is typically on protecting breeding areas where individuals are aggregated seasonally. Yet movements during the non-breeding season can overlap with threats that may be equally as important to population dynamics. Thus understanding habitat use and movements of species during the non-breeding periods is critical for conservation. Glacier Bay National Park, Alaska, is one of the largest marine mammal protected areas in the world and has the only enforceable protection measures for reducing disturbance to harbor seals in the United States. Yet harbor seals have declined by up to 11.5%/year from 1992 to 2009. We used satellite-linked transmitters that were attached to 37 female harbor seals to quantify the post-breeding season migrations of seals and the amount of time that seals spent inside vs. outside of the MPA of Glacier Bay. Harbor seals traveled extensively beyond the boundaries of the MPA of Glacier Bay during the post-breeding season, encompassing an area (25,325 km2) significantly larger than that used by seals during the breeding season (8,125 km2). These movements included the longest migration yet recorded for a harbor seal (3,411 km) and extended use (up to 23 days) of pelagic areas by some seals. Although the collective utilization distribution of harbor seals during the post-breeding season was quite expansive, there was a substantial degree of individual variability in the percentage of days that seals spent in the MPA. Nevertheless, harbor seals demonstrated a high degree of inter-annual site fidelity (93%) to Glacier Bay the following breeding season. Our results highlight the importance of understanding the threats that seals may interact with outside of the boundaries of the MPA of Glacier Bay for understanding population dynamics of seals in Glacier Bay. PMID:23457468

Potential benefits of genomic selection on genetic gain of small ruminant breeding programs.

PubMed

Shumbusho, F; Raoul, J; Astruc, J M; Palhiere, I; Elsen, J M

2013-08-01

In conventional small ruminant breeding programs, only pedigree and phenotype records are used to make selection decisions but prospects of including genomic information are now under consideration. The objective of this study was to assess the potential benefits of genomic selection on the genetic gain in French sheep and goat breeding designs of today. Traditional and genomic scenarios were modeled with deterministic methods for 3 breeding programs. The models included decisional variables related to male selection candidates, progeny testing capacity, and economic weights that were optimized to maximize annual genetic gain (AGG) of i) a meat sheep breeding program that improved a meat trait of heritability (h(2)) = 0.30 and a maternal trait of h(2) = 0.09 and ii) dairy sheep and goat breeding programs that improved a milk trait of h(2) = 0.30. Values of ±0.20 of genetic correlation between meat and maternal traits were considered to study their effects on AGG. The Bulmer effect was accounted for and the results presented here are the averages of AGG after 10 generations of selection. Results showed that current traditional breeding programs provide an AGG of 0.095 genetic standard deviation (σa) for meat and 0.061 σa for maternal trait in meat breed and 0.147 σa and 0.120 σa in sheep and goat dairy breeds, respectively. By optimizing decisional variables, the AGG with traditional selection methods increased to 0.139 σa for meat and 0.096 σa for maternal traits in meat breeding programs and to 0.174 σa and 0.183 σa in dairy sheep and goat breeding programs, respectively. With a medium-sized reference population (nref) of 2,000 individuals, the best genomic scenarios gave an AGG that was 17.9% greater than with traditional selection methods with optimized values of decisional variables for combined meat and maternal traits in meat sheep, 51.7% in dairy sheep, and 26.2% in dairy goats. The superiority of genomic schemes increased with the size of the reference population and genomic selection gave the best results when nref > 1,000 individuals for dairy breeds and nref > 2,000 individuals for meat breed. Genetic correlation between meat and maternal traits had a large impact on the genetic gain of both traits. Changes in AGG due to correlation were greatest for low heritable maternal traits. As a general rule, AGG was increased both by optimizing selection designs and including genomic information.

Admixture and Local Breed Marginalization Threaten Algerian Sheep Diversity

PubMed Central

Ciani, Elena; Kdidi, Samia; Aouissat, Miloud; Dhimi, Laziz; Lafri, Mohamed; Maftah, Abderrahman; Mehtar, Nadhira

2015-01-01

Due to its geo-climatic conditions, Algeria represents a biodiversity hotspot, with sheep breeds well adapted to a patchwork of extremely heterogeneous harsh habitats. The importance of this peculiar genetic reservoir increases as climate change drives the demand for new adaptations. However, the expansion of a single breed (Ouled-Djellal) which occurred in the last decades has generated a critical situation for the other breeds; some of them are being subjected to uncontrolled cross-breeding with the favored breed and/or to marginalization (effective size contraction). This study investigated genetic diversity within and among six of the nine Algerian breeds, by use of 30 microsatellite markers. Our results showed that, in spite of the census contraction experienced by most of the considered breeds, genetic diversity is still substantial (average gene diversity ranging 0.68 to 0.76) and inbreeding was not identified as a problem. However, two breeds (Rembi and Taâdmit) appeared to have lost most of their genetic originality because of intensive cross-breeding with Ouled-Djellal. Based on the above evidence, we suggest Hamra, Sidaoun, and D’man as breeds deserving the highest priority for conservation in Algeria. PMID:25875832

Genetics, evolution and conservation of Bromeliaceae

PubMed Central

Zanella, Camila M.; Janke, Aline; Palma-Silva, Clarisse; Kaltchuk-Santos, Eliane; Pinheiro, Felipe G.; Paggi, Gecele M.; Soares, Luis E.S.; Goetze, Márcia; Büttow, Miriam V.; Bered, Fernanda

2012-01-01

Bromeliaceae is a morphologically distinctive and ecologically diverse family originating in the New World. Three centers of diversity, 58 genera, and about 3,140 bromeliad species are currently recognized. We compiled all of the studies related to the reproductive biology, genetic diversity, and population structure of the Bromeliaceae, and discuss the evolution and conservation of this family. Bromeliads are preferentially pollinated by vertebrates and show marked variation in breeding systems, from predominant inbreeding to predominant outcrossing, as well as constancy in chromosome number (2n = 2x = 50). Autogamous or mixed mating system bromeliads have a high inbreeding coefficient (FIS), while outcrossing species show low FIS. The degree of differentiation among populations (FST)of species ranges from 0.043 to 0.961, which can be influenced by pollen and seed dispersal effects, clonal growth, gene flow rates, and connectivity among populations. The evolutionary history of the Bromeliaceae is poorly known, although some studies have indicated that the family arose in the Guayana Shield roughly 100 Mya. We believe that genetic, cytogenetic, and reproductive data will be essential for diagnosing species status and for assisting conservation programs. PMID:23412953

Identification of key ancestors of modern germplasm in a breeding program of maize.

PubMed

Technow, F; Schrag, T A; Schipprack, W; Melchinger, A E

2014-12-01

Probabilities of gene origin computed from the genomic kinships matrix can accurately identify key ancestors of modern germplasms Identifying the key ancestors of modern plant breeding populations can provide valuable insights into the history of a breeding program and provide reference genomes for next generation whole genome sequencing. In an animal breeding context, a method was developed that employs probabilities of gene origin, computed from the pedigree-based additive kinship matrix, for identifying key ancestors. Because reliable and complete pedigree information is often not available in plant breeding, we replaced the additive kinship matrix with the genomic kinship matrix. As a proof-of-concept, we applied this approach to simulated data sets with known ancestries. The relative contribution of the ancestral lines to later generations could be determined with high accuracy, with and without selection. Our method was subsequently used for identifying the key ancestors of the modern Dent germplasm of the public maize breeding program of the University of Hohenheim. We found that the modern germplasm can be traced back to six or seven key ancestors, with one or two of them having a disproportionately large contribution. These results largely corroborated conjectures based on early records of the breeding program. We conclude that probabilities of gene origin computed from the genomic kinships matrix can be used for identifying key ancestors in breeding programs and estimating the proportion of genes contributed by them.

Genetic relationships among Vietnamese local pigs investigated using genome-wide SNP markers.

PubMed

Ishihara, S; Arakawa, A; Taniguchi, M; Luu, Q M; Pham, D L; Nguyen, B V; Mikawa, S; Kikuchi, K

2018-02-01

Vietnam is one of the most important countries for pig domestication, and a total of 26 local breeds have been reported. In the present study, genetic relationships among the various pig breeds were investigated using 90 samples collected from local pigs (15 breeds) in 15 distantly separated, distinct areas of the country and six samples from Landrace pigs in Hanoi as an out-group of a common Western breed. All samples were genotyped using the Illumina Porcine SNP60 v2 Genotyping BeadChip. We used 15 160-15 217 SNPs that showed a high degree of polymorphism in the Vietnamese breeds for identifying genetic relationships among the Vietnamese breeds. Principal components analysis showed that most pigs indigenous to Vietnam formed clusters correlated with their original geographic locations. Some Vietnamese breeds formed a cluster that was genetically related to the Western breed Landrace, suggesting the possibility of crossbreeding. These findings will be useful for the conservation and management of Vietnamese local pig breeds. © 2018 Stichting International Foundation for Animal Genetics.

Genetic diversity within and among four South European native horse breeds based on microsatellite DNA analysis: implications for conservation.

PubMed

Solis, A; Jugo, B M; Mériaux, J C; Iriondo, M; Mazón, L I; Aguirre, A I; Vicario, A; Estomba, A

2005-01-01

In the present study, genetic analyses of diversity and differentiation were performed on four Basque-Navarrese semiferal native horse breeds. In total, 417 animals were genotyped for 12 microsatellite markers. Mean heterozygosity was higher than in other horse breeds, surely as a consequence of management. Although the population size of some of these breeds has declined appreciably in the past century, no genetic bottleneck was detected in any of the breeds, possibly because it was not narrow enough to be detectable. In the phylogenetic tree, the Jaca Navarra breed was very similar to the Pottoka, but appeared to stand in an intermediate position between this and the meat breeds. Assuming that Pottoka is the breed less affected by admixture, the others gradually distanced themselves from it through varying influences from outside breeds, among other factors. In a comparative study with other breeds, the French breeds Ardanais, Comtois, and Breton were the closest to the four native breeds. Three different approaches for evaluating the distribution of genetic diversity were applied. The high intrabreed variability of Euskal Herriko Mendiko Zaldia (EHMZ) was pointed out in these analyses. In our opinion, cultural, economic, and scientific factors should also be considered in the management of these horse breeds.

Reproductive success and habitat characteristics of Golden-winged Warblers in high-elevation pasturelands

USGS Publications Warehouse

Wood, Petra; Aldinger, Kyle R.

2016-01-01

The Golden-winged Warbler (Vermivora chrysoptera) is one of the most rapidly declining vertebrate species in the Appalachian Mountains. It is the subject of extensive range-wide research and conservation action. However, little is known about this species' breeding ecology in high-elevation pasturelands, a breeding habitat with conservation potential considering the U.S. Natural Resource Conservation Service's Working Lands for Wildlife program targeting private lands in the Appalachian Mountains. We located 100 nests of Golden-winged Warblers in pastures in and around the Monongahela National Forest in West Virginia during 2008–2012. Daily nest survival rate (mean ± SE  =  0.962 ± 0.006), clutch size (4.5 ± 0.1), and number of young fledged per nest attempt (2.0 ± 0.2) and successful nest (4.0 ± 0.1) fell within the range of values reported in other parts of the species' range and were not significantly affected by year or the presence/absence of cattle grazing. Classification tree analysis revealed that nests were in denser vegetation (≥52%) and closer to forest edges (<36.0 m) and shrubs (<7.0 cm) than random locations within the male's territory. Successful nests had significantly more woody cover (≥9%) within 1 m than failed nests. Our results suggest that cattle grazing at 1.2–2.4 ha of forage/animal unit with periodic mowing can create and maintain these characteristics without interfering with the nesting of Golden-winged Warblers. High-elevation pasturelands may provide a refuge for remaining populations of Golden-winged Warblers in this region.

Transboundary conservation: An ecoregional approach to protect neotropical migratory birds in South America

NASA Astrophysics Data System (ADS)

Roca, Roberto; Adkins, Leslie; Wurschy, Maria Christina; Skerl, Kevin

1996-11-01

Future conservation efforts will need to transcend geopolitical boundaries in efforts to protect entire landscapes and ecosystems. Neotropical migratory birds are as a group a useful conservation tool for linking diverse landscapes and people due to their dependence on multiple habitats, sensitivity to habitat changes, and universal public appeal. The conservation of neotropical migrants can therefore function as a powerful hemispheric umbrella for ecosystem protection. Efforts to protect neotropical migratory birds on their nonbreeding grounds have traditionally been focused on Mexico, Central America, and the Caribbean. To assess the importance of South America to neotropical migrants, an ecoregional classification system was used to determine species distributions in the Andean/Southern Cone Region (Bolivia, Colombia, Ecuador, Paraguay, Peru, and Venezuela). The occurrence of migrants in protected areas that are part of The Nature Conservancy's Parks in Peril program was also assessed. Of the 406 neotropical migrant species, nearly one third (132) occur as regular nonbreeding residents in the region and for almost half of these species (53), South America is their main nonbreeding ground. All Parks in Peril sites were found to harbor neotropical migrants. Forty-eight species (36%) have declining longterm North American Breeding Bird Survey population trends and/or high Partners in Flight concern scores and thus are of significant conservation concern. Most importantly, 29 species (22%) of conservation concern use South America as their primary nonbreeding ground, indicating a need for focused conservation action. The nature of the ecoregional approach used in this endeavor makes future prioritization of ecoregions and conservation strategies for neotropical migrants across national boundaries possible. The ability to link diverse landscapes using a common element such as migratory birds allows for unique transboundary partnerships and opportunities for habitat conservation, which support the goal of the Conservancy's new Migratory Bird Initiative.

Analysis of genetic and cultural conservation value of three indigenous Croatian cattle breeds in a local and global context.

PubMed

Ramljak, J; Ivanković, A; Veit-Kensch, C E; Förster, M; Medugorac, I

2011-02-01

It is widely accepted that autochthonous cattle breeds can be important genetic resources for unforeseeable environmental conditions in the future. Apart from that, they often represent local culture and tradition and thus assist in the awareness of ethnic identity of a country. In Croatia, there are only three indigenous cattle breeds, Croatian Buša, Slavonian Syrmian Podolian and Istrian Cattle. All of them are threatened but specialized in a particular habitat and production system. We analysed 93 microsatellites in 51 animals of each breed to get thorough information about genetic diversity and population structure. We further set them within an existing frame of additional 16 breeds that have been genotyped for the same marker set and cover a geographical area from the domestication centre near Anatolia, through the Balkan and alpine regions, to the north-west of Europe. The cultural value was evaluated regarding the role in landscape, gastronomy, folklore and handicraft. The overall results recognize Croatian Buša being partly admixed but harbouring an enormous genetic diversity comparable with other traditional unselected Buša breeds in the Anatolian and Balkan areas. The Podolian cattle showed the lowest genetic diversity at the highest genetic distance to all remaining breeds but are playing an important role as part of the cultural landscape and thus contribute to the tourist industry. The genetic diversity of the Istrian cattle was found in the middle range of this study. It is already included in the tourist industry as a local food speciality. Current and future conservation strategies are discussed. © 2010 Blackwell Verlag GmbH.

A multiscaled model of southwestern willow flycatcher breeding habitat

USGS Publications Warehouse

Hatten, J.R.; Paradzick, C.E.

2003-01-01

The southwestern willow flycatcher (SWFL; Empidonax traillii extimus) is an endangered songbird whose habitat has declined dramatically over the last century. Understanding habitat selection patterns and the ability to identify potential breeding areas for the SWFL is crucial to the management and conservation of this species. We developed a multiscaled model of SWTL breeding habitat with a Geographic Information System (GIS), survey data, GIS variables, and multiple logistic regressions. We obtained presence and absence survey data from a riverine ecosystem and a reservoir delta in south-central Arizona, USA, in 1999. We extracted the GIS variables from satellite imagery and digital elevation models to characterize vegetation and floodplain within the project area. We used multiple logistic regressions within a cell-based (30 X 30 m) modeling environment to (1) determine associations between GIS variables and breeding-site occurrence at different spatial scales (0.09-72 ha), and (2) construct a predictive model. Our best model explained 54% of the variability in breeding-site occurrence with the following variables: vegetation density at the site (0.09 ha), proportion of dense vegetation and variability in vegetation density within a 4.5-ha neighborhood, and amount of floodplain or flat terrain within a 41-ha neighborhood. The density of breeding sites was highest in areas that the model predicted to be most suitable within the project area and at an external test site 200 km away. Conservation efforts must focus on protecting not only occupied patches, but also surrounding riparian forests and floodplain to ensure long-term viability of SWTL. We will use the multiscaled model to map SWTL breeding habitat in Arizona, prioritize future survey effort, and examine changes in habitat abundance and quality over time.

Changes in early-successional hardwood forest area in four bird conservation regions across four decades

Treesearch

Sonja N. Oswalt; Kathleen E. Franzreb; David A. Buehler

2012-01-01

Early successional hardwood forests constitute important breeding habitat for many migratory songbirds. Declines in populations of these species suggest changes in habitat availability either on the species’ wintering grounds or on their early successional breeding grounds. We used Forest Inventory and Analysis data from 11 states across four decades to examine changes...

A resistant-kernel model of connectivity for amphibians that breed in vernal pools

Treesearch

Bradley W. Compton; Kevin McGarigal; Samuel A. Cushman; Lloyd R. Gamble

2007-01-01

Pool-breeding amphibian populations operate at multiple scales, from the individual pool to surrounding upland habitat to clusters of pools. When metapopulation dynamics play a role in long-term viability, conservation efforts limited to the protection of individual pools or even pools with associated upland habitat may be ineffective over the long term if connectivity...

Suggestions for a Silvicultural Prescription for Cerulean Warblers in the Lower Mississippi Alluvial Valley

Treesearch

Paul B. Hamel

2005-01-01

Conservation of species with high Partners in Flight concern scores may require active habitat management. Cerulean Warbler (Dendroica cerulea) occurs at low numbers in the Lower Mississippi Alluvial Valley in the western part of its breeding range. A study of the breeding ecology of the species was initiated in 1992 on three sites there....

Quantifying functional connectivity: The role of breeding habitat, abundance, and landscape features on range-wide gene flow in sage-grouse

Treesearch

Jeffrey R. Row; Kevin E. Doherty; Todd B. Cross; Michael K. Schwartz; Sara Oyler-McCance; Dave E. Naugle; Steven T. Knick; Bradley C. Fedy

2018-01-01

Functional connectivity, quantified using landscape genetics, can inform conservation through the identification of factors linking genetic structure to landscape mechanisms. We used breeding habitat metrics, landscape attributes and indices of grouse abundance, to compare fit between structural connectivity and genetic differentiation within five long‐established Sage...

[Status of traditional Chinese medicine materials seed and seedling breeding bases].

PubMed

Li, Ying; Huang, Lu-Qi; Zhang, Xiao-Bo; Wang, Hui; Cheng, Meng; Zhang, Tian; Yang, Guang

2017-11-01

Seeds and seedlings are the material basis of traditional Chinese medicine materials production, and the construction of traditional Chinese medicine materials seed and seedling breeding bases is beneficial to the production of high-quality traditional Chinese medicine materials. The construction of traditional Chinese medicine materials seed and seedling breeding bases is one of the major topics of Chinese medica resources census pilot. Targets, tasks of traditional Chinese medicine materials seed and seedling breeding bases based on Chinese medica resources census pilot were expounded.Construction progress including hardware construction, germplasm conservation and breeding, procedures and standardsestablishment, social servicesare presented. Development counter measures were proposed for the next step: perfect the standard and system, maintain and strengthen the breeding function, strengthen the cultivation of multi-level talents, explore market development model, joint efforts to deepen services and development. Copyright© by the Chinese Pharmaceutical Association.

Selective breeding in fish and conservation of genetic resources for aquaculture.

PubMed

Lind, C E; Ponzoni, R W; Nguyen, N H; Khaw, H L

2012-08-01

To satisfy increasing demands for fish as food, progress must occur towards greater aquaculture productivity whilst retaining the wild and farmed genetic resources that underpin global fish production. We review the main selection methods that have been developed for genetic improvement in aquaculture, and discuss their virtues and shortcomings. Examples of the application of mass, cohort, within family, and combined between-family and within-family selection are given. In addition, we review the manner in which fish genetic resources can be lost at the intra-specific, species and ecosystem levels and discuss options to best prevent this. We illustrate that fundamental principles of genetic management are common in the implementation of both selective breeding and conservation programmes, and should be emphasized in capacity development efforts. We highlight the value of applied genetics approaches for increasing aquaculture productivity and the conservation of fish genetic resources. © 2012 Blackwell Verlag GmbH.

A pre-breeding screening program for transgenic boars based on fluorescence in situ hybridization assay.

PubMed

Bou, Gerelchimeg; Sun, Mingju; Lv, Ming; Zhu, Jiang; Li, Hui; Wang, Juan; Li, Lu; Liu, Zhongfeng; Zheng, Zhong; He, Wenteng; Kong, Qingran; Liu, Zhonghua

2014-08-01

For efficient transgenic herd expansion, only the transgenic animals that possess the ability to transmit transgene into next generation are considered for breeding. However, for transgenic pig, practically lacking a pre-breeding screening program, time, labor and money is always wasted to maintain non-transgenic pigs, low or null transgenic transmission pigs and the related fruitless gestations. Developing a pre-breeding screening program would make the transgenic herd expansion more economical and efficient. In this technical report, we proposed a three-step pre-breeding screening program for transgenic boars simply through combining the fluorescence in situ hybridization (FISH) assay with the common pre-breeding screening workflow. In the first step of screening, combined with general transgenic phenotype analysis, FISH is used to identify transgenic boars. In the second step of screening, combined with conventional semen test, FISH is used to detect transgenic sperm, thus to identify the individuals producing high quality semen and transgenic sperm. In the third step of screening, FISH is used to assess the in vitro fertilization embryos, thus finally to identify the individuals with the ability to produce transgenic embryos. By this three-step screening, the non-transgenic boars and boars with no ability to produce transgenic sperm or transgenic embryos would be eliminated; therefore only those boars could produce transgenic offspring are maintained and used for breeding and herd expansion. It is the first time a systematic pre-breeding screening program is proposed for transgenic pigs. This program might also be applied in other transgenic large animals, and provide an economical and efficient strategy for herd expansion.

Selective breeding of food sized rainbow trout against Flavobacteriosis

USDA-ARS?s Scientific Manuscript database

Selective breeding of rainbow trout is an important component of an integrated fish health management program. The current goals of our selective breeding program are to improve disease resistance, growth and survival in a reuse water environment. To improve these traits, data are recorded on thousa...

Selective breeding of food size rainbow trout against Flavobacteriosis

USDA-ARS?s Scientific Manuscript database

Selective breeding of rainbow trout is an important component of an integrated fish health management program. The current goals of our selective breeding program are to improve disease resistance, growth and survival in a reuse water environment. To improve these traits, data are recorded on thousa...

Conservation genetics and species recovery

USGS Publications Warehouse

Pendleton, Ed; Vandergast, A.G.; King, T.L.

2008-01-01

Recent advances in molecular genetics have proven to be extremely useful in efforts to conserve imperiled species. Genetics data are used to identify appropriate units of management (e.g., populations, metapopulations), effective sizes of breeding populations, population mixing rates, and other variables. These data help managers make decisions about which populations to preserve, whether to move individuals from one site to another, how to breed species most effectively in captivity, and even, in some cases, what taxonomic classification is most appropriate. Many U.S. Geological Survey (USGS) Science Centers and Cooperative Fish and Wildlife Research Units have developed capabilities in genetics research. The two case studies that follow illustrate how USGS geneticists are assisting managers in recovering species on the brink.

Leaf physiology and morphology of Castanea dentata (Marsh) Borkh., Castanea mollissima Blume, and three backcross breeding generations planted in the southern Appalachians, USA

Treesearch

Benjamin O. Knapp; G. Geoff Wang; Stacy L Clark; Lauren S. Pile; Scott E. Schlarbaum

2014-01-01

Backcross breeding programs have been used to transfer disease resistance and other traits from one forest tree species to another in order to meet restoration objectives. Evaluating the field performance of such material is critical for determining the success of breeding programs. In eastern North America, The American Chestnut Foundation has a backcross breeding...

Conceptual ecological model for management of breeding shrubland birds in the Mid-Atlantic Region

USGS Publications Warehouse

Peterjohn, Bruce G.

2006-01-01

While grassland birds have become the focus of increased conservation activities, the status of birds occupying shrubland habitats has received relatively little attention (Hunter et al. 2001). Yet, in eastern North America, shrubland birds exhibited consistent population declines during the past 40 years, based on data from the North American Breeding Bird Survey (Pardieck and Sauer 2001). These population declines primarily reflect large-scale changes in land use patterns during the previous century (Lorimer 2001). Large areas of marginal farmland were abandoned and underwent secondary succession during the first half of the twentieth century, producing abundant successional habitats favored by shrubland birds. As these habitats matured, combined with strict fire-suppression policies (Hunter et al. 2001), shrublands succeeded into mature forests, and shrubland bird communities were replaced by woodland birds (Irland 1982; Askins 1993). For example, while nearly 29% of New England forests were classified as sapling stage in 1950, only 8% remained at that stage in the 1980s (Askins 1993). The trend towards forest maturation and loss of shrubland habitats continues, yet concerted conservation activities have not been directed to benefit declining shrubland bird populations. The National Park Service (NPS) could contribute to shrubland bird conservation in the Mid- Atlantic Region. The NPS maintains a number of historic sites and former battlefields managed for their cultural significance but also support wildlife populations. Many of these “cultural parks” maintain open landscapes, recreating land use patterns existing at the times of the historical events. While these open landscapes are frequently managed grasslands, some parks also support successional habitats that could be managed to benefit shrubland birds. In 2005, the NPS initiated a project exploring the potential of “cultural parks” to support significant breeding grassland and shrubland bird communities. This project involved parks within three NPS Inventory and Monitoring Program (I&M) networks, Mid-Atlantic, National Capital, and Eastern Rivers and Mountains. Five parks were selected for the initial focus of this study, all of which maintain open landscapes for interpreting historic events. Most parks were selected because they contain the most extensive grassland habitats within their networks, although some also support shrubby successional habitats. The five parks included in this study are Antietam National Battlefield, Fort Necessity National Battlefield, Gettysburg National Battlefield, Manassas National Battlefield, and Monocacy National Battlefield. This conceptual ecological model is one product of this project. The information presented below allows NPS network coordinators to understand which factors should be considered when making decisions concerning shrubland management within their networks. This model provides park resource managers with information on shrubland ecology in the Mid-Atlantic Region, the ecological requirements of shrubland birds likely to occur in their parks, and management issues influencing whether significant breeding populations can occupy shrublands created and maintained in the parks. Resource managers can then make informed decisions concerning their ability to create and maintain shrubland habitats. The emphasis of this conceptual model is restricted to management of breeding shrubland birds. Additional species occur during migration and winter, and habitat requirements of shrubland birds during nonbreeding seasons may differ from those described for the breeding season.

A suite of microsatellite markers optimized for amplification of DNA from Addax (Addax nasomaculatus) blood preserved on FTA cards.

PubMed

Heim, Brett C; Ivy, Jamie A; Latch, Emily K

2012-01-01

The addax (Addax nasomaculatus) is a critically endangered antelope that is currently maintained in zoos through regional, conservation breeding programs. As for many captive species, incomplete pedigree data currently impedes the ability of addax breeding programs to confidently manage the genetics of captive populations and to select appropriate animals for reintroduction. Molecular markers are often used to improve pedigree resolution, thereby improving the long-term effectiveness of genetic management. When developing a suite of molecular markers, it is important to consider the source of DNA, as the utility of markers may vary across DNA sources. In this study, we optimized a suite of microsatellite markers for use in genotyping captive addax blood samples collected on FTA cards. We amplified 66 microsatellite loci previously described in other Artiodactyls. Sixteen markers amplified a single product in addax, but only 5 of these were found to be polymorphic in a sample of 37 addax sampled from a captive herd at Fossil Rim Wildlife Center in the US. The suite of microsatellite markers developed in this study provides a new tool for the genetic management of captive addax, and demonstrates that FTA cards can be a useful means of sample storage, provided appropriate loci are used in downstream analyses. © 2011 Wiley Periodicals, Inc.

Genetic diversity analysis of Varronia curassavica Jacq. accessions using ISSR markers.

PubMed

Brito, F A; Nizio, D A C; Silva, A V C; Diniz, L E C; Rabbani, A R C; Arrigoni-Blank, M F; Alvares-Carvalho, S V; Figueira, G M; Montanari Júnior, I; Blank, A F

2016-09-02

Varronia curassavica Jacq. is a medicinal and aromatic plant from Brazil with significant economic importance. Studies on genetic diversity in active germplasm banks (AGB) are essential for conservation and breeding programs. The aim of this study was to analyze the genetic diversity of V. curassavica accessions of the AGB of Medicinal and Aromatic Plants of the Federal University of Sergipe (UFS), using inter-simple sequence repeat molecular markers. Twenty-four primers were tested, and 14 were polymorphic and informative, resulting in 149 bands with 97.98% polymorphism. The UPGMA dendrogram divided the accessions into Clusters I and II. Jaccard similarity coefficients for pair-wise comparisons of accessions ranged between 0.24 and 0.78. The pairs of accessions VCUR-001/VCUR-503, VCUR-001/VCUR-504, and VCUR-104/VCUR-501 showed relatively low similarity (0.24), and the pair of accessions VCUR-402/VCUR- 403 showed medium similarity (0.78). Twenty-eight accessions were divided into three distinct clusters, according to the STRUCTURE analysis. The genetic diversity of V. curassavica in the AGB of UFS is low to medium, and it requires expansion. Accession VCUR-802 is the most suitable for selection in breeding program of this species, since it clearly represents all of the diversity present in the AGB.

A simple language to script and simulate breeding schemes: the breeding scheme language

USDA-ARS?s Scientific Manuscript database

It is difficult for plant breeders to determine an optimal breeding strategy given that the problem involves many factors, such as target trait genetic architecture and breeding resource availability. There are many possible breeding schemes for each breeding program. Although simulation study may b...

Genetic management guidelines for captive propagation of freshwater mussels (unionoidea)

USGS Publications Warehouse

Jones, J.W.; Hallerman, E.M.; Neves, R.J.

2006-01-01

Although the greatest global diversity of freshwater mussels (???300 species) resides in the United States, the superfamily Unionoidea is also the most imperiled taxon of animals in the nation. Thirty-five species are considered extinct, 70 species are listed as endangered or threatened, and approximately 100 more are species of conservation concern. To prevent additional species losses, biologists have developed methods for propagating juvenile mussels for release into the wild to restore or augment populations. Since 1997, mussel propagation facilities in the United States have released over 1 million juveniles of more than a dozen imperiled species, and survival of these juveniles in the wild has been documented. With the expectation of continued growth of these programs, agencies and facilities involved with mussel propagation must seriously consider the genetic implications of releasing captive-reared progeny. We propose 10 guidelines to help maintain the genetic resources of cultured and wild populations. Preservation of genetic diversity will require robust genetic analysis of source populations to define conservation units for valid species, subspecies, and unique populations. Hatchery protocols must be implemented that minimize risks of artificial selection and other genetic hazards affecting adaptive traits of progeny subsequently released to the wild. We advocate a pragmatic, adaptive approach to species recovery that incorporates the principles of conservation genetics into breeding programs, and prioritizes the immediate demographic needs of critically endangered mussel species.

Moving across the border: Modeling migratory bat populations

USGS Publications Warehouse

Ruscena, Wiederholt; López-Hoffman, Laura; Cline, Jon; Medellin, Rodrigo; Cryan, Paul M.; Russell, Amy; McCracken, Gary; Diffendorfer, Jay; Semmens, Darius J.

2013-01-01

The migration of animals across long distances and between multiple habitats presents a major challenge for conservation. For the migratory Mexican free-tailed bat (Tadarida brasiliensis mexicana), these challenges include identifying and protecting migratory routes and critical roosts in two countries, the United States and Mexico. Knowledge and conservation of bat migratory routes is critical in the face of increasing threats from climate change and wind turbines that might decrease migratory survival. We employ a new modeling approach for bat migration, network modeling, to simulate migratory routes between winter habitat in southern Mexico and summer breeding habitat in northern Mexico and the southwestern United States. We use the model to identify key migratory routes and the roosts of greatest conservation value to the overall population. We measure roost importance by the degree to which the overall bat population declined when the roost was removed from the model. The major migratory routes—those with the greatest number of migrants—were between winter habitat in southern Mexico and summer breeding roosts in Texas and the northern Mexican states of Sonora and Nuevo Leon. The summer breeding roosts in Texas, Sonora, and Nuevo Leon were the most important for maintaining population numbers and network structure – these are also the largest roosts. This modeling approach contributes to conservation efforts by identifying the most influential areas for bat populations, and can be used as a tool to improve our understanding of bat migration for other species. We anticipate this approach will help direct coordination of habitat protection across borders.

Reproductive Performance of a Declining Forest Passerine in Relation to Environmental and Social Factors: Implications for Species Conservation

PubMed Central

Grendelmeier, Alex; Arlettaz, Raphaël; Gerber, Michael; Pasinelli, Gilberto

2015-01-01

Identifying factors influencing a species' ecological niche and demography is a prerequisite for species conservation. However, our understanding of the interplay between demographic rates and biotic/abiotic factors is still poor for most species of conservation concern. We evaluated relevance of eight hypotheses relating to timing of breeding, temporal nest exposure, nest concealment, topography, tree structure, predation risk and disturbance, density dependence and weather for explaining variation in reproductive performance of the declining wood warbler Phylloscopus sibilatrix in northern Switzerland. Reproductive performance was monitored with cameras at 136 nests from 2010 to 2012 and was associated to temporal exposure, timing of breeding and concealment of nests. Daily nest survival was positively related to the number of grass and sedge tussocks, nest concealment and nest age. Clutch size and number of fledglings decreased, the later in the season a nest was initiated. Nest survival over an average nesting period of 31 days was 46.9 ± 0.07% (mean ± SE), daily nest survival rate was 0.976 ± 0.002. As for many ground-breeding birds, nest predation was the principal cause of nest failure, accounting for 79% of all nest losses. Conservation measures should aim at increasing the area of relatively homogenous forest stands featuring suitable habitats characterized by abundant and accessible grass and sedge tussocks. In managed forests, such conditions can be found in stands of middle age (i.e. pole wood) with little to no shrub layer. PMID:26172954

Reproductive Performance of a Declining Forest Passerine in Relation to Environmental and Social Factors: Implications for Species Conservation.

PubMed

Grendelmeier, Alex; Arlettaz, Raphaël; Gerber, Michael; Pasinelli, Gilberto

2015-01-01

Identifying factors influencing a species' ecological niche and demography is a prerequisite for species conservation. However, our understanding of the interplay between demographic rates and biotic/abiotic factors is still poor for most species of conservation concern. We evaluated relevance of eight hypotheses relating to timing of breeding, temporal nest exposure, nest concealment, topography, tree structure, predation risk and disturbance, density dependence and weather for explaining variation in reproductive performance of the declining wood warbler Phylloscopus sibilatrix in northern Switzerland. Reproductive performance was monitored with cameras at 136 nests from 2010 to 2012 and was associated to temporal exposure, timing of breeding and concealment of nests. Daily nest survival was positively related to the number of grass and sedge tussocks, nest concealment and nest age. Clutch size and number of fledglings decreased, the later in the season a nest was initiated. Nest survival over an average nesting period of 31 days was 46.9 ± 0.07% (mean ± SE), daily nest survival rate was 0.976 ± 0.002. As for many ground-breeding birds, nest predation was the principal cause of nest failure, accounting for 79% of all nest losses. Conservation measures should aim at increasing the area of relatively homogenous forest stands featuring suitable habitats characterized by abundant and accessible grass and sedge tussocks. In managed forests, such conditions can be found in stands of middle age (i.e. pole wood) with little to no shrub layer.

Ecohealth System Dynamic Model as a Planning Tool for the Reduction of Breeding Sites

NASA Astrophysics Data System (ADS)

Respati, T.; Raksanagara, A.; Djuhaeni, H.; Sofyan, A.; Shandriasti, A.

2017-03-01

Dengue is still one of major health problem in Indonesia. Dengue transmission is influenced by dengue prevention and eradication program, community participation, housing environment and climate. The complexity of the disease coupled with limited resources necessitates different approach for prevention methods that include factors contribute to the transmission. One way to prevent the dengue transmission is by reducing the mosquito’s breeding sites. Four factors suspected to influence breeding sites are dengue prevention and eradication program, community participation, housing environment, and weather condition. In order to have an effective program in reducing the breeding site it is needed to have a model which can predict existence of the breeding sites while the four factors under study are controlled. The objective of this study is to develop an Ecohealth model using system dynamic as a planning tool for the reduction of breeding sites to prevent dengue transmission with regard to dengue prevention and eradication program, community participation, housing environment, and weather condition. The methodology is a mixed method study using sequential exploratory design. The study comprised of 3 stages: first a qualitative study to 14 respondents using in-depth interview and 6 respondents for focus group discussion. The results from the first stage was used to develop entomology and household survey questionnaires for second stage conducted in 2036 households across 12 sub districts in Bandung City. Ecohealth system dynamic model was developed using data from first and second stages. Analyses used are thematic analysis for qualitative data; spatial, generalized estimating equation (GEE) and structural equation modeling for quantitative data; also average mean error (AME) and average variance error (AVE) for dynamic system model validation. System dynamic model showed that the most effective approach to eliminate breeding places was by ensuring the availability of basic sanitation for all houses. Weather factors such as precipitation can be compensated with the eradication of breeding sites activities which is conducted as scheduled and at the same time for the whole areas. Conclusion of this study is that dengue prevention and eradication program, community participation, and housing environment contributed to breeding places elimination influenced the existence of the breeding sites. The availability of basic sanitation and breeding places eradication program done timely and collectively are the most effective approach to eradicate breeding sites. Ecohealth dynamic system model can be used as a tool for the planning of breeding sites eradication program to prevent disease transmissions at city level.

Defining and evaluating the umbrella species concept for conserving and restoring landscape connectivity.

PubMed

Breckheimer, Ian; Haddad, Nick M; Morris, William F; Trainor, Anne M; Fields, William R; Jobe, R Todd; Hudgens, Brian R; Moody, Aaron; Walters, Jeffrey R

2014-12-01

Conserving or restoring landscape connectivity between patches of breeding habitat is a common strategy to protect threatened species from habitat fragmentation. By managing connectivity for some species, usually charismatic vertebrates, it is often assumed that these species will serve as conservation umbrellas for other species. We tested this assumption by developing a quantitative method to measure overlap in dispersal habitat of 3 threatened species-a bird (the umbrella), a butterfly, and a frog-inhabiting the same fragmented landscape. Dispersal habitat was determined with Circuitscape, which was parameterized with movement data collected for each species. Despite differences in natural history and breeding habitat, we found substantial overlap in the spatial distributions of areas important for dispersal of this suite of taxa. However, the intuitive umbrella species (the bird) did not have the highest overlap with other species in terms of the areas that supported connectivity. Nevertheless, we contend that when there are no irreconcilable differences between the dispersal habitats of species that cohabitate on the landscape, managing for umbrella species can help conserve or restore connectivity simultaneously for multiple threatened species with different habitat requirements. © 2014 Society for Conservation Biology.

Identifying a breeding habitat of a critically endangered fish, Acheilognathus typus, in a natural river in Japan

NASA Astrophysics Data System (ADS)

Sakata, Masayuki K.; Maki, Nobutaka; Sugiyama, Hideki; Minamoto, Toshifumi

2017-12-01

Freshwater biodiversity has been severely threatened in recent years, and to conserve endangered species, their distribution and breeding habitats need to be clarified. However, identifying breeding sites in a large area is generally difficult. Here, by combining the emerging environmental DNA (eDNA) analysis with subsequent traditional collection surveys, we successfully identified a breeding habitat for the critically endangered freshwater fish Acheilognathus typus in the mainstream of Omono River in Akita Prefecture, Japan, which is one of the original habitats of this species. Based on DNA cytochrome B sequences of A. typus and closely related species, we developed species-specific primers and a probe that were used in real-time PCR for detecting A. typus eDNA. After verifying the specificity and applicability of the primers and probe on water samples from known artificial habitats, eDNA analysis was applied to water samples collected at 99 sites along Omono River. Two of the samples were positive for A. typus eDNA, and thus, small fixed nets and bottle traps were set out to capture adult fish and verify egg deposition in bivalves (the preferred breeding substrate for A. typus) in the corresponding regions. Mature female and male individuals and bivalves containing laid eggs were collected at one of the eDNA-positive sites. This was the first record of adult A. typus in Omono River in 11 years. This study highlights the value of eDNA analysis to guide conventional monitoring surveys and shows that combining both methods can provide important information on breeding sites that is essential for species' conservation.

Identifying a breeding habitat of a critically endangered fish, Acheilognathus typus, in a natural river in Japan.

PubMed

Sakata, Masayuki K; Maki, Nobutaka; Sugiyama, Hideki; Minamoto, Toshifumi

2017-11-14

Freshwater biodiversity has been severely threatened in recent years, and to conserve endangered species, their distribution and breeding habitats need to be clarified. However, identifying breeding sites in a large area is generally difficult. Here, by combining the emerging environmental DNA (eDNA) analysis with subsequent traditional collection surveys, we successfully identified a breeding habitat for the critically endangered freshwater fish Acheilognathus typus in the mainstream of Omono River in Akita Prefecture, Japan, which is one of the original habitats of this species. Based on DNA cytochrome B sequences of A. typus and closely related species, we developed species-specific primers and a probe that were used in real-time PCR for detecting A. typus eDNA. After verifying the specificity and applicability of the primers and probe on water samples from known artificial habitats, eDNA analysis was applied to water samples collected at 99 sites along Omono River. Two of the samples were positive for A. typus eDNA, and thus, small fixed nets and bottle traps were set out to capture adult fish and verify egg deposition in bivalves (the preferred breeding substrate for A. typus) in the corresponding regions. Mature female and male individuals and bivalves containing laid eggs were collected at one of the eDNA-positive sites. This was the first record of adult A. typus in Omono River in 11 years. This study highlights the value of eDNA analysis to guide conventional monitoring surveys and shows that combining both methods can provide important information on breeding sites that is essential for species' conservation.

Habitat use and home range of the endangered gold-spotted pond frog (Rana chosenica).

PubMed

Ra, Nam-Yong; Sung, Ha-Cheol; Cheong, Seokwan; Lee, Jung-Hyun; Eom, Junho; Park, Daesik

2008-09-01

Because of their complex life styles, amphibians and reptiles living in wetlands require both aquatic and terrestrial buffer zones in their protected conservation areas. Due to steep declines in wild populations, the gold-spotted pond frog (Rana chosenica) is listed as vulnerable by the IUCN. However, lack of data about its movements and use of habitat prevents effective conservation planning. To determine the habitat use and home range of this species, we radio-tracked 44 adult frogs for 37 days between 10 July and 4 Nov. 2007 to observe three different populations in the breeding season, non-breeding season, and late fall. The gold-spotted pond frog was very sedentary; its daily average movement was 9.8 m. Frogs stayed close to breeding ponds (within 6.6 m), and did not leave damp areas surrounding these ponds, except for dormancy migration to terrestrial sites such as dried crop fields. The average distance of dormancy migration of seven frogs from the edge of their breeding ponds was 32.0 m. The average size of an individual's home range was 713.8 m(2) (0.07 ha). The year-round population home range, which accounts for the home ranges of a population of frogs, was determined for two populations to be 8,765.0 m(2) (0.88 ha) and 3,700.9 m(2) (0.37 ha). Our results showed that to conserve this endangered species, appropriately sized wetlands and extended terrestrial buffer areas surrounding the wetlands (at least 1.33 ha, diameter 130 m) should be protected.

A review of some characteristics, socio-economic aspects and utilization of Zulu sheep: implications for conservation.

PubMed

Kunene, Nokuthula Winfred; Bezuidenhout, Carlos C; Nsahlai, Ignatius V; Nesamvuni, Edward A

2011-08-01

Zulu sheep are Nguni sheep of Zululand and are adapted to the harsh conditions of KwaZulu-Natal. They are used by rural farmers for economic purposes. Their numbers are declining, indicating a potential extinction threat. Knowledge of their phenotypic and genotypic characteristics is essential for conservation planning. In this review, there is a focus on the utilization, socio-economic aspects, phenotypic and genotypic characteristics as well as a proposed breeding programme. A survey has shown that rural farmers in the areas of northern KwaZulu-Natal prefer to keep this breed for its adaptability, resistance to diseases and meat quality. Zulu sheep are small-framed multi-coloured animals. Mature males weigh up to 38 kg and females up to 32 kg. Based on four morphological traits and live weight, phenotypic diversity between three populations was estimated at 48%. A genetic diversity between these three populations was estimated at 22%. Live weight of Zulu sheep can be estimated using the heart girth and wither height measurements. Scrotum circumference of young rams (up to 22 months old) is reliable for estimating the live weight. Animals that were characterized in the studies were grazed extensively and no supplements were provided. There is therefore a potential of weight increase if these animals are reared in a semi-extensive environment. An open nucleus breeding scheme is thus recommended for a sustainable use and conservation of this breed. For more conclusive results, larger numbers of phenotypic and genetic characteristics, in larger numbers of Zulu sheep populations, should be investigated.

Polymorphisms in the canine monoamine oxidase a (MAOA) gene: identification and variation among five broad dog breed groups.

PubMed

Sacco, James; Ruplin, Andrew; Skonieczny, Paul; Ohman, Michael

2017-01-01

In humans, reduced activity of the enzyme monoamine oxidase type A (MAOA) due to genetic polymorphisms within the MAOA gene leads to increased brain neurotransmitter levels associated with aggression. In order to study MAOA genetic diversity in dogs, we designed a preliminary study whose objectives were to identify novel alleles in functionally important regions of the canine MAOA gene, and to investigate whether the frequencies of these polymorphisms varied between five broad breed groups (ancient, herding, mastiff, modern European, and mountain). Fifty dogs representing these five breed groups were sequenced. A total of eleven polymorphisms were found. Seven were single nucleotide polymorphisms (SNPs; two exonic, two intronic and three in the promoter), while four were repeat intronic variations. The most polymorphic loci were repeat regions in introns 1, 2 (7 alleles) and 10 (3 alleles), while the exonic and the promoter regions were highly conserved. Comparison of the allele frequencies of certain microsatellite polymorphisms among the breed groups indicated a decreasing or increasing trend in the number of repeats at different microsatellite loci, as well as the highest genetic diversity for the ancient breeds and the lowest for the most recent mountain breeds, perhaps attributable to canine domestication and recent breed formation. While a specific promoter SNP (-212A > G) is rare in the dog, it is the major allele in wolves. Replacement of this ancestral allele in domestic dogs may lead to the deletion of heat shock factor binding sites on the MAOA promoter. Dogs exhibit significant variation in certain intronic regions of the MAOA gene, while the coding and promoter regions are well-conserved. Distinct genetic differences were observed between breed groups. Further studies are now required to establish whether such polymorphisms are associated in any way with MAOA level and canine behaviour including aggression.

Monitoring programs to assess reintroduction efforts: A critical component in recovery

USGS Publications Warehouse

Muths, E.; Dreitz, V.

2008-01-01

Reintroduction is a powerful tool in our conservation toolbox. However, the necessary follow-up, i.e. long-term monitoring, is not commonplace and if instituted may lack rigor. We contend that valid monitoring is possible, even with sparse data. We present a means to monitor based on demographic data and a projection model using the Wyoming toad (Bufo baxten) as an example. Using an iterative process, existing data is built upon gradually such that demographic estimates and subsequent inferences increase in reliability. Reintroduction and defensible monitoring may become increasingly relevant as the outlook for amphibians, especially in tropical regions, continues to deteriorate and emergency collection, captive breeding, and reintroduction become necessary. Rigorous use of appropriate modeling and an adaptive approach can validate the use of reintroduction and substantially increase its value to recovery programs. ?? 2008 Museu de Cie??ncies Naturals.

Genetic diversity and differentiation of five Cuban cattle breeds using 30 microsatellite loci.

PubMed

Acosta, A C; Uffo, O; Sanz, A; Ronda, R; Osta, R; Rodellar, C; Martin-Burriel, I; Zaragoza, P

2013-02-01

Conservation and improvement strategies in farm animals should be based on a combination of genetic and phenotypic characteristics. Genotype data from 30 microsatellites were used to assess the genetic diversity and relationships among five Cuban cattle breeds (Siboney de Cuba, Criollo Cubano, Cebú Cubano, Mambí de Cuba and Taíno de Cuba). All microsatellite markers were highly polymorphic in all the breeds. The expected heterozygosity ranged from 0.67 ± 0.02 in the Taíno de Cuba breed to 0.75 ± 0.02 in the Mambí de Cuba breed, and the observed heterozygosity ranged from 0.66 ± 0.03 in the Cebú Cubano breed to 0.73 ± 0.02 in the Siboney de Cuba breed. The genetic differentiation between the breeds was significant (p < 0.01) based on the infinitesimal model (F(ST)). The exact test for Hardy-Weinberg equilibrium within breeds showed a significant deviation in each breed (p < 0.0003) for one or more loci. The genetic distance and structure analysis showed that a significant amount of genetic variation is maintained in the local cattle population and that all breeds studied could be considered genetically distinct. The Siboney de Cuba and Mambí de Cuba breeds seem to be the most genetically related among the studied five breeds. © 2012 Blackwell Verlag GmbH.

Molecular Study of the Amazonian Macabea Cattle History.

PubMed

Vargas, Julio; Landi, Vincenzo; Martínez, Amparo; Gómez, Mayra; Camacho, María Esperanza; Álvarez, Luz Ángela; Aguirre, Lenin; Delgado, Juan Vicente

2016-01-01

Macabea cattle are the only Bos taurus breed that have adapted to the wet tropical conditions of the Amazon. This breed has integrated into the culture of the indigenous Shuar-Asuar nations probably since its origins, being one of the few European zoogenetic resources assimilated by the deep-jungle Amazon communities. Despite its potential for local endogenous sustainable development, this breed is currently endangered. The present study used molecular genetics tools to investigate the within- and between-breeds diversity, in order to characterize the breed population, define its associations with other breeds, and infer its origin and evolution. The within-breed genetic diversity showed high values, as indicated by all genetic parameters, such as the mean number of alleles (MNA = 7.25±2.03), the observed heterozygosity (Ho = 0.72±0.02) and the expected heterozygosity (He = 0.72±0.02). The between-breeds diversity analysis, which included factorial correspondence analysis, Reynolds genetic distance, neighbor-joining analysis, and genetic structure analysis, showed that the Macabea breed belongs to the group of the American Creoles, with a Southern-Spain origin. Our outcomes demonstrated that the Macabea breed has a high level of purity and null influences of exotic cosmopolitan breeds with European or Asiatic origin. This breed is an important zoogenetic resource of Ecuador, with relevant and unique attributes; therefore, there is an urgent need to develop conservation strategies for the Macabea breed.

Molecular Study of the Amazonian Macabea Cattle History

PubMed Central

Vargas, Julio; Martínez, Amparo; Gómez, Mayra; Camacho, María Esperanza; Álvarez, Luz Ángela; Aguirre, Lenin; Delgado, Juan Vicente

2016-01-01

Macabea cattle are the only Bos taurus breed that have adapted to the wet tropical conditions of the Amazon. This breed has integrated into the culture of the indigenous Shuar-Asuar nations probably since its origins, being one of the few European zoogenetic resources assimilated by the deep-jungle Amazon communities. Despite its potential for local endogenous sustainable development, this breed is currently endangered. The present study used molecular genetics tools to investigate the within- and between-breeds diversity, in order to characterize the breed population, define its associations with other breeds, and infer its origin and evolution. The within-breed genetic diversity showed high values, as indicated by all genetic parameters, such as the mean number of alleles (MNA = 7.25±2.03), the observed heterozygosity (Ho = 0.72±0.02) and the expected heterozygosity (He = 0.72±0.02). The between-breeds diversity analysis, which included factorial correspondence analysis, Reynolds genetic distance, neighbor-joining analysis, and genetic structure analysis, showed that the Macabea breed belongs to the group of the American Creoles, with a Southern-Spain origin. Our outcomes demonstrated that the Macabea breed has a high level of purity and null influences of exotic cosmopolitan breeds with European or Asiatic origin. This breed is an important zoogenetic resource of Ecuador, with relevant and unique attributes; therefore, there is an urgent need to develop conservation strategies for the Macabea breed. PMID:27776178

Building the Foundation for International Conservation Planning for Breeding Ducks across the U.S. and Canadian Border

PubMed Central

Doherty, Kevin E.; Evans, Jeffrey S.; Walker, Johann; Devries, James H.; Howerter, David W.

2015-01-01

We used publically available data on duck breeding distribution and recently compiled geospatial data on upland habitat and environmental conditions to develop a spatially explicit model of breeding duck populations across the entire Prairie Pothole Region (PPR). Our spatial population models were able to identify key areas for duck conservation across the PPR and predict between 62.1 – 79.1% (68.4% avg.) of the variation in duck counts by year from 2002 – 2010. The median difference in observed vs. predicted duck counts at a transect segment level was 4.6 ducks. Our models are the first seamless spatially explicit models of waterfowl abundance across the entire PPR and represent an initial step toward joint conservation planning between Prairie Pothole and Prairie Habitat Joint Ventures. Our work demonstrates that when spatial and temporal variation for highly mobile birds is incorporated into conservation planning it will likely increase the habitat area required to support defined population goals. A major goal of the current North American Waterfowl Management Plan and subsequent action plan is the linking of harvest and habitat management. We contend incorporation of spatial aspects will increase the likelihood of coherent joint harvest and habitat management decisions. Our results show at a minimum, it is possible to produce spatially explicit waterfowl abundance models that when summed across survey strata will produce similar strata level population estimates as the design-based Waterfowl Breeding Pair and Habitat Survey (r2 = 0.977). This is important because these design-based population estimates are currently used to set duck harvest regulations and to set duck population and habitat goals for the North American Waterfowl Management Plan. We hope this effort generates discussion on the important linkages between spatial and temporal variation in population size, and distribution relative to habitat quantity and quality when linking habitat and population goals across this important region. PMID:25714747

Long-distance flights and high-risk breeding by nomadic waterbirds on desert salt lakes.

PubMed

Pedler, Reece D; Ribot, Raoul F H; Bennett, Andrew T D

2018-02-01

Understanding and conserving mobile species presents complex challenges, especially for animals in stochastic or changing environments. Nomadic waterbirds must locate temporary water in arid biomes where rainfall is highly unpredictable in space and time. To achieve this they need to travel over vast spatial scales and time arrival to exploit pulses in food resources. How they achieve this is an enduring mystery.  We investigated these challenges in the colonial-nesting Banded Stilt (Cladorhynchus leucocephalus), a nomadic shorebird of conservation concern. Hitherto, Banded Stilts were hypothesized to have only 1-2 chances to breed during their long lifetime, when flooding rain fills desert salt lakes, triggering mass-hatching of brine shrimp. Over 6 years, we satellite tagged 57 individuals, conducted 21 aerial surveys to detect nesting colonies on 14 Australian desert salt lakes, and analyzed 3 decades of Landsat and MODIS satellite imagery to quantify salt-lake flood frequency and extent. Within days of distant inland rainfall, Banded Stilts flew 1,000-2,000 km to reach flooded salt lakes. On arrival, females laid over half their body weight in eggs. We detected nesting episodes across the species' range at 7 times the frequency reported during the previous 80 years. Nesting colonies of thousands formed following minor floods, yet most were subsequently abandoned when the water rapidly evaporated prior to egg hatching. Satellite imagery revealed twice as many flood events sufficient for breeding-colony initiation as recorded colonies, suggesting that nesting at remote sites has been underdetected. Individuals took risk on uncertain breeding opportunities by responding to frequent minor flood events between infrequent extensive flooding, exemplifying the extreme adaptability and trade-offs of species exploiting unstable environments. The conservation challenges of nest predation by overabundant native gulls and anthropogenic modifications to salt lakes filling frequencies require investigation, as do the physiological and navigational mechanisms that enable such extreme strategies. © 2017 Society for Conservation Biology.

75 FR 60802 - Availability of a Draft Environmental Assessment and Habitat Conservation Plan, and Receipt of...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-10-01

... impairing essential behavioral patterns, including breeding, feeding, and sheltering. We may issue permits... taylorii)--and one species of concern--the peacock larkspur (Delphinium pavonaceum). Although take of plant..., plant species are proposed to be included on the permit in recognition of the conservation benefits...

Conservation strategies for forest gene resources

Treesearch

F. Thomas Ledig

1986-01-01

Gene conservation has three facets: (1) the maintenance of diversity in production plantations to buffer against vulnerability to pests and climatic extremes; (2) the preservation of genes for their future value in breeding; (3) the protection of species to promote ecosystem stability. Maintaining diversity as a hedge against damaging agents is a simple strategy in...

76 FR 40927 - Endangered and Threatened Wildlife and Plants; Draft Habitat Conservation Plan and Environmental...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-07-12

...] Endangered and Threatened Wildlife and Plants; Draft Habitat Conservation Plan and Environmental Assessment..., a golf and racquet club facility, a network of man-made navigable lagoons, a restaurant, commercial... year at sea, forage in the open ocean, and breed on Kauai. Beginning in March and April, adults...

Ex situ conservation of Holstein-Friesian cattle: Comparing the Dutch, French and USA germplasm collections

USDA-ARS?s Scientific Manuscript database

Holstein-Friesian (HF) gene bank collections were established in France, the Netherlands and USA in order to conserve genetic diversity for this breed. Genetic diversity of HF collections within and between countries was assessed and compared with active HF bulls in each country by using pedigree da...

Classification and conservation priority of five Deccani sheep ecotypes of Maharashtra, India

PubMed Central

Arora, Reena; Jain, Anand

2017-01-01

Characterization of Indian livestock breeds has mostly been limited to single breed/population focused on either physical description of traditionally recognized breeds/populations or to their genetic description. Usually, morphological and genetic characterization has taken place in isolation. A parallel morphological characterization of genetically identified breeds or genetic characterization of morphologically described breeds is mostly missing, and their conservation priorities have largely been based on solely considering degree of endangerment. This study uses parallel approach based on morphometric and genetic differentiation for classification of five sheep ecotypes of Maharashtra state, and sets their conservation priority using threat parameters, current utilities/merits and contribution to genetic diversity. A total of 1101 animals were described for 7 body measurements for morphometric characterization. From this sample set, 456 animals were genotyped for 25 microsatellite markers for genetic characterization. Conservation priorities were assessed combining genetic and non-genetic factors. All studied traits varied significantly among ecotypes (p<0.05). All morphometric traits exhibited substantial sexual dimorphism except ear length. Males were 42% heavier than females. Madgyal sheep were the largest amongst the five ecotypes. In the stepwise discriminant analysis, all measured traits were significant and were found to have potential discriminatory power. Tail length was the most discriminatory trait. The Mahalanobis distance of the morphological traits between Kolhapuri and Madgyal was maximum (12.07) while the least differentiation was observed between Madgyal and Solapuri (1.50). Discriminant analysis showed that 68.12% sheep were classified into their source population. The Sangamneri sheep showed least assignment error (22%) whilst Solapuri exhibited maximum error level (41%). A total of 407 alleles were observed, with an average of 16.28 alleles per locus. Sufficient levels of genetic diversity were observed in all the ecotypes with observed heterozygosity values exceeding 0.47 and gene diversity values exceeding 0.76. About 6% of the total genetic variation was explained by population differences (FST = 0.059). Pairwise FST values indicated least differentiation between Solapuri and Madgyal (0.025). In terms of genetic distances, Kolhapuri and Lonand were most closely related (Ds = 0.177). The most probable structure clustering of the five studied populations was at K = 5. The study showed a fair congruence between the dendrogram constructed on the basis of Mahalanobis distances and Nei’s as well as Reynolds genetic distances. The findings gave highest conservation priority to Lonand and least to Solapuri ecotype. PMID:28910329

Migration ecology and stopover population size of Red Knots Calidris canutus rufa at Mingan Archipelago after exiting the breeding grounds

USGS Publications Warehouse

Lyons, James E.; Baker, Allan J.; González, Patricia M.; Aubry, Yves; Buidin, Christophe; Rochepault, Yann

2018-01-01

Populations of migratory birds present unique conservation challenges given the often vast distances separating critical resources throughout the annual cycle. Migration areas close to the breeding grounds represent a link between two key stages of the annual cycle, and understanding migration ecology as birds exit the breeding grounds may be particularly informative for successful conservation. We studied migration phenology and stopover ecology of an endangered subspecies of the Red Knot Calidris canutus rufa at a migration area relatively close to its breeding range. Using mark-recapture/resight data and a Jolly-Seber model for open populations, we described the arrival and departure schedules, stopover duration, and passage population size at the Mingan Archipelago, Quebec, Canada. Red Knots arrived at the study area in two distinct waves of birds separated by approximately 22 days. Nearly 30% of the passage population arrived in the first wave of arrivals during 15–18 July, and approximately 22% arrived in a second wave during 8–11 August. The sex-ratio in the stopover population at the time of the first wave was slightly skewed toward females, whereas the second wave was heavily skewed toward males. Because males remain on the breeding grounds to care for young, this may reflect successfulbreeding in the year of our study. The estimated stopover duration (population mean) was 11 days (95% credible interval: 10.3–11.7 days), but stopover persistence was variable throughout the season. We estimated a passage population size of 9,450 birds (8,355–10,710), a minimum estimate for reasons related to the duration of our sampling. Mingan Archipelago is thus an important migration area for this endangered subspecies and could be a priority in conservation planning. Our results also emphasize the advantages of mark-recapture/resight approaches for estimating migration phenology and stopover persistence.

Potential misuse of avian density as a conservation metric.

PubMed

Skagen, Susan K; Yackel Adams, Amy A

2011-02-01

Effective conservation metrics are needed to evaluate the success of management in a rapidly changing world. Reproductive rates and densities of breeding birds (as a surrogate for reproductive rate) have been used to indicate the quality of avian breeding habitat, but the underlying assumptions of these metrics rarely have been examined. When birds are attracted to breeding areas in part by the presence of conspecifics and when breeding in groups influences predation rates, the effectiveness of density and reproductive rate as indicators of habitat quality is reduced. It is beneficial to clearly distinguish between individual- and population-level processes when evaluating habitat quality. We use the term reproductive rate to refer to both levels and further distinguish among levels by using the terms per capita fecundity (number of female offspring per female per year, individual level) and population growth rate (the product of density and per capita fecundity, population level). We predicted how density and reproductive rate interact over time under density-independent and density-dependent scenarios, assuming the ideal free distribution model of how birds settle in breeding habitats. We predicted population density of small populations would be correlated positively with both per capita fecundity and population growth rate due to the Allee effect. For populations in the density-dependent growth phase, we predicted no relation between density and per capita fecundity (because individuals in all patches will equilibrate to the same success rate) and a positive relation between density and population growth rate. Several ecological theories collectively suggest that positive correlations between density and per capita fecundity would be difficult to detect. We constructed a decision tree to guide interpretation of positive, neutral, nonlinear, and negative relations between density and reproductive rates at individual and population levels. Journal compilation ©2010 Society for Conservation Biology. No claim to original US government works.

Genetic analysis of the Venezuelan Criollo horse.

PubMed

Cothran, E G; Canelon, J L; Luis, C; Conant, E; Juras, R

2011-10-07

Various horse populations in the Americas have an origin in Spain; they are remnants of the first livestock introduced to the continent early in the colonial period (16th and 17th centuries). We evaluated genetic variability within the Venezuelan Criollo horse and its relationship with other horse breeds. We observed high levels of genetic diversity within the Criollo breed. Significant population differentiation was observed between all South American breeds. The Venezuelan Criollo horse showed high levels of genetic diversity, and from a conservation standpoint, there is no immediate danger of losing variation unless there is a large drop in population size.

Planning tiger recovery: Understanding intraspecific variation for effective conservation

PubMed Central

Wilting, Andreas; Courtiol, Alexandre; Christiansen, Per; Niedballa, Jürgen; Scharf, Anne K.; Orlando, Ludovic; Balkenhol, Niko; Hofer, Heribert; Kramer-Schadt, Stephanie; Fickel, Jörns; Kitchener, Andrew C.

2015-01-01

Although significantly more money is spent on the conservation of tigers than on any other threatened species, today only 3200 to 3600 tigers roam the forests of Asia, occupying only 7% of their historical range. Despite the global significance of and interest in tiger conservation, global approaches to plan tiger recovery are partly impeded by the lack of a consensus on the number of tiger subspecies or management units, because a comprehensive analysis of tiger variation is lacking. We analyzed variation among all nine putative tiger subspecies, using extensive data sets of several traits [morphological (craniodental and pelage), ecological, molecular]. Our analyses revealed little variation and large overlaps in each trait among putative subspecies, and molecular data showed extremely low diversity because of a severe Late Pleistocene population decline. Our results support recognition of only two subspecies: the Sunda tiger, Panthera tigris sondaica, and the continental tiger, Panthera tigris tigris, which consists of two (northern and southern) management units. Conservation management programs, such as captive breeding, reintroduction initiatives, or trans-boundary projects, rely on a durable, consistent characterization of subspecies as taxonomic units, defined by robust multiple lines of scientific evidence rather than single traits or ad hoc descriptions of one or few specimens. Our multiple-trait data set supports a fundamental rethinking of the conventional tiger taxonomy paradigm, which will have profound implications for the management of in situ and ex situ tiger populations and boost conservation efforts by facilitating a pragmatic approach to tiger conservation management worldwide. PMID:26601191

Planning tiger recovery: Understanding intraspecific variation for effective conservation.

PubMed

Wilting, Andreas; Courtiol, Alexandre; Christiansen, Per; Niedballa, Jürgen; Scharf, Anne K; Orlando, Ludovic; Balkenhol, Niko; Hofer, Heribert; Kramer-Schadt, Stephanie; Fickel, Jörns; Kitchener, Andrew C

2015-06-01

Although significantly more money is spent on the conservation of tigers than on any other threatened species, today only 3200 to 3600 tigers roam the forests of Asia, occupying only 7% of their historical range. Despite the global significance of and interest in tiger conservation, global approaches to plan tiger recovery are partly impeded by the lack of a consensus on the number of tiger subspecies or management units, because a comprehensive analysis of tiger variation is lacking. We analyzed variation among all nine putative tiger subspecies, using extensive data sets of several traits [morphological (craniodental and pelage), ecological, molecular]. Our analyses revealed little variation and large overlaps in each trait among putative subspecies, and molecular data showed extremely low diversity because of a severe Late Pleistocene population decline. Our results support recognition of only two subspecies: the Sunda tiger, Panthera tigris sondaica, and the continental tiger, Panthera tigris tigris, which consists of two (northern and southern) management units. Conservation management programs, such as captive breeding, reintroduction initiatives, or trans-boundary projects, rely on a durable, consistent characterization of subspecies as taxonomic units, defined by robust multiple lines of scientific evidence rather than single traits or ad hoc descriptions of one or few specimens. Our multiple-trait data set supports a fundamental rethinking of the conventional tiger taxonomy paradigm, which will have profound implications for the management of in situ and ex situ tiger populations and boost conservation efforts by facilitating a pragmatic approach to tiger conservation management worldwide.

Implementing the use of a biobank in the endangered black-footed ferret (Mustela nigripes).

PubMed

Santymire, Rachel

2016-03-09

In the current global health climate, many conservation biologists are managing crisis situations, including increased species extinction rates. One strategy for securing wildlife populations into the future is to preserve biomaterials in genome resource banks (GRB; or 'biobanks'). However, for GRBs to be successful we must understand the fundamental reproductive biology of species, along with developing assisted reproductive techniques (ARTs), including AI and semen cryopreservation. ART has been successfully used for several taxa, from amphibians to mammals, including ungulates, carnivores and primates. Not all these success stories implemented the use of a biobank, but one example that discussed herein is the black-footed ferret (Mustela nigripes) GRB. From a founder population of seven individuals, this species has been breeding in a managed setting for nearly 30 years. The goal of the breeding program is to maintain genetic integrity by ensuring each individual has the opportunity to pass his/her genes onto the next generation, while simultaneously providing animals for release into the wild. Scientists have used ART (e.g. AI) in the recovery program. Recently, semen from an individual of the founder population that was cryopreserved for up to 20 years was used successfully for AI, which improved the genetic diversity of the population. The black-footed ferret recovery program can serve as a model for other endangered species and demonstrates the usefulness of ART and GRBs to maintain highly endangered species into the future.

Wheat CBF gene family: identification of polymorphisms in the CBF coding sequence.

PubMed

Mohseni, Sara; Che, Hua; Djillali, Zakia; Dumont, Estelle; Nankeu, Joseph; Danyluk, Jean

2012-12-01

Expression of cold-regulated genes needed for protection against freezing stress is mediated, in part, by the CBF transcription factor family. Previous studies with temperate cereals suggested that the CBF gene family in wheat was large, and that CBF genes were at the base of an important low temperature tolerance trait. Therefore, the goal of our study was to identify the CBF repertoire in the freezing-tolerant hexaploid wheat cultivar Norstar, and then to examine if the coding region of CBF genes in two spring cultivars contain polymorphisms that could affect the protein sequence and structure. Our analyses reveal that hexaploid wheat contains a complex CBF family consisting of at least 65 CBF genes of which 60 are known to be expressed in the cultivar Norstar. They represent 27 paralogous genes with 1-3 homeologous copies for the A, B, and D genomes. The cultivar Norstar contains two pseudogenes and at least 24 additional proteins having sequences and (or) structures that deviate from the consensus in the conserved AP2 DNA-binding and (or) C-terminal activation-domains. This suggests that in cultivars such as Norstar, low temperature tolerance may be increased through breeding of additional optimal alleles. The examination of the CBF repertoire present in the two spring cultivars, Chinese Spring and Manitou, reveals that they have additional polymorphisms affecting conserved positions in these domains. Understanding the effects of these polymorphisms will provide additional information for the selection of optimum CBF alleles in Triticeae breeding programs.

Characterization of the village goat production systems in the rural communities of the Eastern Cape, KwaZulu-Natal, Limpopo and North West Provinces of South Africa.

PubMed

Mdladla, Khanyisile; Dzomba, Edgar Farai; Muchadeyi, Farai Catherine

2017-03-01

Expansion of goat improvement programs requires exploration of the factors that influence the production system and breeding initiatives. Characterization of goat breeds or populations is crucial in providing information on prevalent goat types and their attributes and may suffice as a guideline on conservation, development, and selection for improved productivity. This study investigated the existing village goat production system and phenotypic diversity of the different village populations from four South African provinces. The study further investigated the use of phenotypic attributes to classify goats to breeds or populations. Data was collected from 142 households in 26 villages of the Eastern Cape (n = 2 villages), KwaZulu-Natal (n = 6 villages), Limpopo (n = 13 villages), and North West (n = 5 villages) provinces through a survey. Individual interviews and focus group discussions revealed that the mean goat herd size per household was least in Limpopo at 13.2 ± 12.40 and highest in Eastern Cape (34.18 ± 28.36). Flocks had more (p < 0.05) adults than kids, and the distribution of breeding animals was biased towards does and less bucks. Goats were kept mainly for meat, for selling, and for ritual ceremonies. The goat production system was mainly scavenging. Goat health was a major challenge across households and villages. Qualitative traits such coat, horn, ears, and wattle characteristics were recorded for populations of village goats (n = 319) and a feral Tankwa breed (n = 50). The dominant coat pattern was plain (74.53%) with black as the most common coat color (31.98%). Across breeds, a majority (88.08%) of the goats had horns, and 7.59% had wattles while 56.64% had beard. Adult goats (<3 years; n = 398) were further analyzed for five quantitative traits of chest girth, height, length, and pin bone and there were significant (p < 0.05) breed differences in all. A stepwise discriminatory procedure was used to rank the quantitative traits according to their discriminatory power to separate breeds or populations. Significant traits were then subjected to canonical discriminant analysis for principle component analysis. Based on the quantitative traits, the Tankwa, Xhosa, and Tswana goats formed their own cluster separated from commercial meat type breeds and the Venda and Zulu ecotypes. The discriminant function analysis correctly classified 90.41% of the Zulu goats and 82.93% of the Xhosa village populations. None of the Savanna goats were correctly classified. The study demonstrated diversity in village goat populations and production systems, which would allow for within population selection in genetic improvement programs. The heterogeneity in the phenotypic traits in the village goats is reflective of the role of village production systems in the maintenance of animal diversity in local populations.

The efficiency of close inbreeding to reduce genetic adaptation to captivity

PubMed Central

Theodorou, K; Couvet, D

2015-01-01

Although ex situ conservation is indispensable for thousands of species, captive breeding is associated with negative genetic changes: loss of genetic variance and genetic adaptation to captivity that is deleterious in the wild. We used quantitative genetic individual-based simulations to model the effect of genetic management on the evolution of a quantitative trait and the associated fitness of wild-born individuals that are brought to captivity. We also examined the feasibility of the breeding strategies under a scenario of a large number of loci subject to deleterious mutations. We compared two breeding strategies: repeated half-sib mating and a method of minimizing mean coancestry (referred to as gc/mc). Our major finding was that half-sib mating is more effective in reducing genetic adaptation to captivity than the gc/mc method. Moreover, half-sib mating retains larger allelic and adaptive genetic variance. Relative to initial standing variation, the additive variance of the quantitative trait increased under half-sib mating during the sojourn in captivity. Although fragmentation into smaller populations improves the efficiency of the gc/mc method, half-sib mating still performs better in the scenarios tested. Half-sib mating shows two caveats that could mitigate its beneficial effects: low heterozygosity and high risk of extinction when populations are of low fecundity and size and one of the following conditions are met: (i) the strength of selection in captivity is comparable with that in the wild, (ii) deleterious mutations are numerous and only slightly deleterious. Experimental validation of half-sib mating is therefore needed for the advancement of captive breeding programs. PMID:25052417

Application of microsatellite markers as potential tools for traceability of Girgentana goat breed dairy products.

PubMed

Sardina, Maria Teresa; Tortorici, Lina; Mastrangelo, Salvatore; Di Gerlando, Rosalia; Tolone, Marco; Portolano, Baldassare

2015-08-01

In livestock, breed assignment may play a key role in the certification of products linked to specific breeds. Traceability of farm animals and authentication of their products can contribute to improve breed profitability and sustainability of animal productions with significant impact on the rural economy of particular geographic areas and on breed and biodiversity conservation. With the goal of developing a breed genetic traceability system for Girgentana dairy products, the aim of this study was to identify specific microsatellite markers able to discriminate among the most important Sicilian dairy goat breeds, in order to detect possible adulteration in Girgentana dairy products. A total of 20 microsatellite markers were analyzed on 338 individual samples from Girgentana, Maltese, and Derivata di Siria goat breeds. Specific microsatellite markers useful for traceability of dairy products were identified. Eight microsatellite markers showed alleles present at the same time in Maltese and Derivata di Siria and absent in Girgentana and, therefore, they were tested on DNA pools of the three breeds. Considering the electropherograms' results, only FCB20, SRCRSP5, and TGLA122 markers were tested on DNA samples extracted from cheeses of Girgentana goat breed. These three microsatellite markers could be applied in a breed genetic traceability system of Girgentana dairy products in order to detect adulteration due to Maltese and Derivata di Siria goat breeds. Copyright © 2015 Elsevier Ltd. All rights reserved.

Genetic diversity and population structure among six cattle breeds in South Africa using a whole genome SNP panel

PubMed Central

Makina, Sithembile O.; Muchadeyi, Farai C.; van Marle-Köster, Este; MacNeil, Michael D.; Maiwashe, Azwihangwisi

2014-01-01

Information about genetic diversity and population structure among cattle breeds is essential for genetic improvement, understanding of environmental adaptation as well as utilization and conservation of cattle breeds. This study investigated genetic diversity and the population structure among six cattle breeds in South African (SA) including Afrikaner (n = 44), Nguni (n = 54), Drakensberger (n = 47), Bonsmara (n = 44), Angus (n = 31), and Holstein (n = 29). Genetic diversity within cattle breeds was analyzed using three measures of genetic diversity namely allelic richness (AR), expected heterozygosity (He) and inbreeding coefficient (f). Genetic distances between breed pairs were evaluated using Nei's genetic distance. Population structure was assessed using model-based clustering (ADMIXTURE). Results of this study revealed that the allelic richness ranged from 1.88 (Afrikaner) to 1.73 (Nguni). Afrikaner cattle had the lowest level of genetic diversity (He = 0.24) and the Drakensberger cattle (He = 0.30) had the highest level of genetic variation among indigenous and locally-developed cattle breeds. The level of inbreeding was lower across the studied cattle breeds. As expected the average genetic distance was the greatest between indigenous cattle breeds and Bos taurus cattle breeds but the lowest among indigenous and locally-developed breeds. Model-based clustering revealed some level of admixture among indigenous and locally-developed breeds and supported the clustering of the breeds according to their history of origin. The results of this study provided useful insight regarding genetic structure of SA cattle breeds. PMID:25295053

Genetic diversity and population structure among six cattle breeds in South Africa using a whole genome SNP panel.

PubMed

Makina, Sithembile O; Muchadeyi, Farai C; van Marle-Köster, Este; MacNeil, Michael D; Maiwashe, Azwihangwisi

2014-01-01

Information about genetic diversity and population structure among cattle breeds is essential for genetic improvement, understanding of environmental adaptation as well as utilization and conservation of cattle breeds. This study investigated genetic diversity and the population structure among six cattle breeds in South African (SA) including Afrikaner (n = 44), Nguni (n = 54), Drakensberger (n = 47), Bonsmara (n = 44), Angus (n = 31), and Holstein (n = 29). Genetic diversity within cattle breeds was analyzed using three measures of genetic diversity namely allelic richness (AR), expected heterozygosity (He) and inbreeding coefficient (f). Genetic distances between breed pairs were evaluated using Nei's genetic distance. Population structure was assessed using model-based clustering (ADMIXTURE). Results of this study revealed that the allelic richness ranged from 1.88 (Afrikaner) to 1.73 (Nguni). Afrikaner cattle had the lowest level of genetic diversity (He = 0.24) and the Drakensberger cattle (He = 0.30) had the highest level of genetic variation among indigenous and locally-developed cattle breeds. The level of inbreeding was lower across the studied cattle breeds. As expected the average genetic distance was the greatest between indigenous cattle breeds and Bos taurus cattle breeds but the lowest among indigenous and locally-developed breeds. Model-based clustering revealed some level of admixture among indigenous and locally-developed breeds and supported the clustering of the breeds according to their history of origin. The results of this study provided useful insight regarding genetic structure of SA cattle breeds.

Relationships among and variation within rare breeds of swine.

PubMed

Roberts, K S; Lamberson, W R

2015-08-01

Extinction of rare breeds of livestock threatens to reduce the total genetic variation available for selection in the face of the changing environment and new diseases. Swine breeds facing extinction typically share characteristics such as small size, slow growth rate, and high fat percentage, which limit them from contributing to commercial production. Compounding the risk of loss of variation is the lack of pedigree information for many rare breeds due to inadequate herd books, which increases the chance that producers are breeding closely related individuals. By making genetic data available, producers can make more educated breeding decisions to preserve genetic diversity in future generations, and conservation organizations can prioritize investments in breed preservation. The objective of this study was to characterize genetic variation within and among breeds of swine and prioritize heritage breeds for preservation. Genotypes from the Illumina PorcineSNP60 BeadChip (GeneSeek, Lincoln, NE) were obtained for Guinea, Ossabaw Island, Red Wattle, American Saddleback, Mulefoot, British Saddleback, Duroc, Landrace, Large White, Pietrain, and Tamworth pigs. A whole-genome analysis toolset was used to construct a genomic relationship matrix and to calculate inbreeding coefficients for the animals within each breed. Relatedness and average inbreeding coefficient differed among breeds, and pigs from rare breeds were generally more closely related and more inbred ( < 0.05). A multidimensional scaling diagram was constructed based on the SNP genotypes. Animals within breeds clustered tightly together except for 2 Guinea pigs. Tamworth, Duroc, and Mulefoot tended to not cluster with the other 7 breeds.

Isolation and characterization of microsatellite markers in Acca sellowiana (Berg) Burret.

PubMed

Santos, K L; Santos, M O; Laborda, P R; Souza, A P; Peroni, N; Nodari, R O

2008-09-01

Acca sellowiana has commercial potential due to the quality and the unique flavor of its fruit. Conservation of natural populations and management of breeding programmes would benefit from the availability of molecular markers that could be used to characterize levels and distribution of genetic variability. Thus, 13 microsatellite markers were developed from an enriched genomic library of A. sellowiana. They were characterized using 40 samples. The expected and observed heterozygosities ranged from 0.513 to 0.913 and from 0.200 to 0.889, respectively. These are the first microsatellite loci characterized from A. sellowiana that will contribute to improve researches on its genetic conservation, characterization and breeding. © 2008 The Authors. Journal compilation © 2008 Blackwell Publishing Ltd.

Isolation and characterization of microsatellite markers in Acca sellowiana (Berg) Burret.

PubMed

Santos, K L; Santos, M O; Laborda, P R; Souza, A P; Peroni, N; Nodari, R O

2008-11-01

Acca sellowiana has commercial potential because of the quality and the unique flavor of its fruit. Conservation of natural populations and management of breeding programmes would benefit from the availability of molecular markers that could be used to characterize levels and distribution of genetic variability. Thus, 13 microsatellite markers were developed from an enriched genomic library of A. sellowiana. They were characterized using 40 samples. The expected and observed heterozygosities ranged from 0.513 to 0.913 and from 0.200 to 0.889, respectively. These are the first microsatellite loci characterized from A. sellowiana that will contribute to improve researches on the genetic conservation, characterization and breeding. Journal compilation © 2008 Blackwell Publishing Ltd. No claim to original US government works.

50 CFR 15.21 - General application procedures.

Code of Federal Regulations, 2013 CFR

2013-10-01

... purposes only: Scientific research; zoological breeding or display programs; cooperative breeding programs...: Office of Management Authority), 4401 N. Fairfax Drive, Room 700, Arlington, VA 22203. Each application...

50 CFR 15.21 - General application procedures.

Code of Federal Regulations, 2012 CFR

2012-10-01

... purposes only: Scientific research; zoological breeding or display programs; cooperative breeding programs...: Office of Management Authority), 4401 N. Fairfax Drive, Room 700, Arlington, VA 22203. Each application...

Development, validation, and application of a urinary relaxin radioimmunoassay for the diagnosis and monitoring of pregnancy in felids.

PubMed

de Haas van Dorsser, Florine J; Swanson, William F; Lasano, Salamia; Steinetz, Bernard G

2006-06-01

Many nondomestic felids are highly endangered, and captive breeding programs have become essential components of holistic conservation efforts for these species. The ability to diagnose pregnancy early in gestation is fundamental to developing effective breeding programs. The purpose of this study was to develop a radioimmunoassay (RIA) for the detection of urinary relaxin in felids and assess its applicability for early, noninvasive pregnancy diagnosis in domestic cats (Felis silvestris catus) and leopards (Panthera pardus). Urine was collected from pregnant and nonpregnant domestic cats and leopards at mating, and then weekly thereafter for the duration of gestation. Paired serum samples were also collected from the domestic cats. A RIA for relaxin that uses an antiserum against synthetic canine relaxin was validated for felid urine and shown to detect relaxin immunoreactivity in pregnant cat urine subjected to acid-acetone extraction. In the cat, urinary relaxin was first detected between Days 21 and 28 of gestation; levels peaked at 42-49 days, and the concentrations then declined over 2 wk prior to parturition. The urinary relaxin profiles of the cat mirrored those in serum. In the leopard, urinary relaxin was first detected at Day 25-28 of gestation; levels peaked at Day 60-64 and declined in the last 3-4 wk of pregnancy. These results indicate that measurement of urinary relaxin in the cat and leopard provides a reliable method for pregnancy determination from as early as 3-4 wk of gestation. This method of pregnancy diagnosis and monitoring may prove useful in the breeding management of domestic cats and other felid and canid species, and provides a foundation for future studies on pregnancy in captive exotic carnivores.

Nest trampling and ground nesting birds: Quantifying temporal and spatial overlap between cattle activity and breeding redshank.

PubMed

Sharps, Elwyn; Smart, Jennifer; Mason, Lucy R; Jones, Kate; Skov, Martin W; Garbutt, Angus; Hiddink, Jan G

2017-08-01

Conservation grazing for breeding birds needs to balance the positive effects on vegetation structure and negative effects of nest trampling. In the UK, populations of Common redshank Tringa totanus breeding on saltmarshes declined by >50% between 1985 and 2011. These declines have been linked to changes in grazing management. The highest breeding densities of redshank on saltmarshes are found in lightly grazed areas. Conservation initiatives have encouraged low-intensity grazing at <1 cattle/ha, but even these levels of grazing can result in high levels of nest trampling. If livestock distribution is not spatially or temporally homogenous but concentrated where and when redshank breed, rates of nest trampling may be much higher than expected based on livestock density alone. By GPS tracking cattle on saltmarshes and monitoring trampling of dummy nests, this study quantified (i) the spatial and temporal distribution of cattle in relation to the distribution of redshank nesting habitats and (ii) trampling rates of dummy nests. The distribution of livestock was highly variable depending on both time in the season and the saltmarsh under study, with cattle using between 3% and 42% of the saltmarsh extent and spending most their time on higher elevation habitat within 500 m of the sea wall, but moving further onto the saltmarsh as the season progressed. Breeding redshank also nest on these higher elevation zones, and this breeding coincides with the early period of grazing. Probability of nest trampling was correlated to livestock density and was up to six times higher in the areas where redshank breed. This overlap in both space and time of the habitat use of cattle and redshank means that the trampling probability of a nest can be much higher than would be expected based on standard measures of cattle density. Synthesis and applications : Because saltmarsh grazing is required to maintain a favorable vegetation structure for redshank breeding, grazing management should aim to keep livestock away from redshank nesting habitat between mid-April and mid-July when nests are active, through delaying the onset of grazing or introducing a rotational grazing system.

Reproductive ecology of American Oystercatchers nesting on shell rakes

USGS Publications Warehouse

Jodice, Patrick G.R.; Thibault, Janet M.; Collins, S.A.; Spinks, Mark D.; Sanders, Felicia J.

2014-01-01

Degradation of nesting habitat for coastal birds has led to the use of nontraditional nesting habitat. The American Oystercatcher (Haematopus palliatus) is listed as a "Species of High Concern'' by the U. S. Shorebird Conservation Plan and is declining in the southern portion of its U. S. breeding range, where ~ 50% of breeding oystercatchers nest on shell substrate instead of beachfront habitat. We measured daily survival rates during incubation and chick rearing in shell rake habitats over five breeding seasons in the Cape Romain region of South Carolina, USA. Of 354 nesting attempts monitored, 16.1% hatched at least one egg. During incubation, daily survival rate was 0.938, corresponding to 22.8% success to hatching (nest success). For broods, daily survival was 0.991, or 74.0% success from hatching to fledging. Productivity in the Cape Romain region is primarily being lost during the incubation phase, when nests are exposed to overwash and predation. Mobile chicks may, however, be able to avoid flood events or predators by relocating to higher or more protected portions of a shell rake. Based on comparative data for American Oystercatchers from elsewhere in their range, it does not appear that shell rakes in the Cape Romain region are inferior breeding habitat. Our data suggest that conservation actions targeting nest and chick loss from flooding and predation have the greatest opportunity to enhance reproductive success in this core breeding area, and that an assessment of the availability, structure, avian use, and protection status of shell rakes is warranted.

Phylogeography and origin of Chinese domestic chicken.

PubMed

Wu, Y P; Huo, J H; Xie, J F; Liu, L X; Wei, Q P; Xie, M G; Kang, Z F; Ji, H Y; Ma, Y H

2014-04-01

The loss of local chicken breeds as result of replacement with cosmopolitan breeds indicates the need for conservation measures to protect the future of local genetic stocks. The aim of this study is to describe the patterns of polymorphism of the hypervariable control region of mitochondrial DNA (HVR1) in domestic chicken in China's Jiangxi province to investigate genetic diversity, genetic structure and phylo-dynamics. To this end, we sequenced the mtDNA HVR1 in 231 chickens including 22 individuals which belonged to previously published sequences. A neighbor-joining tree revealed that these samples clustered into five lineages (Lineages A, B, C, E and G). The highest haplotype diversity and nucleotide diversity were both found in Anyi tile-liked gray breed. We estimated that the most recent common ancestor of the local chicken existed approximately 16 million years ago. The mismatch distribution analysis showed two major peaks at positions 4 and 9, while the neutrality test (Tajima's D = -2.19, p < 0.05) and Fu's F-statistics (-8.59, p < 0.05) revealed a significant departure from the neutrality assumption. These results support the idea that domestication of chickens facilitated population increases. Results of a global AMOVA indicated that there was no obvious geographic structure among the local chicken breeds analyzed in this study. The data obtained in this study will assist future conservation management of local breeds and also reveals intriguing implications for the history of human population movements and commerce.

Population genetics of commercial and feral honey bees in Western Australia.

PubMed

Chapman, Nadine C; Lim, Julianne; Oldroyd, Benjamin P

2008-04-01

Due to the introduction of exotic honey bee (Apis mellifera L.) diseases in the eastern states, the borders of the state of Western Australia were closed to the import of bees for breeding and other purposes > 25 yr ago. To provide genetically improved stock for the industry, a closed population breeding program was established that now provides stock for the majority of Western Australian beekeepers. Given concerns that inbreeding may have resulted from the closed population breeding structure, we assessed the genetic diversity within and between the breeding lines by using microsatellite and mitochondrial markers. We found that the breeding population still maintains considerable genetic diversity, despite 25 yr of selective breeding. We also investigated the genetic distance of the closed population breeding program to that of beekeepers outside of the program, and the feral Western Australian honey bee population. The feral population is genetically distinct from the closed population, but not from the genetic stock maintained by beekeepers outside of the program. The honey bees of Western Australia show three mitotypes, originating from two subspecies: Apis mellifera ligustica (mitotypes C1 and M7b) and Apis mellifera iberica (mitotype M6). Only mitotypes C1 and M6 are present in the commercial populations. The feral population contains all three mitotypes.

Selecting loblolly pine parents for seed orchards to minimize the cost of producing pulp

Treesearch

W.J. Lowe; T.D. Byram; F.E. Bridgwater

1999-01-01

Southern pine cooperative breeding programs currently emphasize genetic improvement of growth rates. When a deployment population, typically a seed orchard, is established, there is an opportunity to emphasize traits other than growth rate to maximize the profit of individual cooperators in the breeding program. The authors studied a southeast Texas breeding population...

Incorporating incorporating economic models into seasonal pool conservation planning

USGS Publications Warehouse

Freeman, Robert C.; Bell, Kathleen P.; Calhoun, Aram J.K.; Loftin, Cyndy

2012-01-01

Massachusetts, New Jersey, Connecticut, and Maine have adopted regulatory zones around seasonal (vernal) pools to conserve terrestrial habitat for pool-breeding amphibians. Most amphibians require access to distinct seasonal habitats in both terrestrial and aquatic ecosystems because of their complex life histories. These habitat requirements make them particularly vulnerable to land uses that destroy habitat or limit connectivity (or permeability) among habitats. Regulatory efforts focusing on breeding pools without consideration of terrestrial habitat needs will not ensure the persistence of pool-breeding amphibians. We used GIS to combine a discrete-choice, parcel-scale economic model of land conversion with a landscape permeability model based on known habitat requirements of wood frogs (Lithobates sylvaticus) in Maine (USA) to examine permeability among habitat elements for alternative future scenarios. The economic model predicts future landscapes under different subdivision open space and vernal pool regulatory requirements. Our model showed that even “no build” permit zones extending 76 m (250 ft) outward from the pool edge were insufficient to assure permeability among required habitat elements. Furthermore, effectiveness of permit zones may be inconsistent due to interactions with other growth management policies, highlighting the need for local and state planning for the long-term persistence of pool-breeding amphibians in developing landscapes.

Genetic differentiation induced by spaceflight treatment of Cistanche deserticola and identification of inter-simple sequence repeat markers associated with its medicinal constituent contents

NASA Astrophysics Data System (ADS)

Wu, Y.; Yang, D. Y.; Tu, P. F.; Tian, Y. Z.; Guo, Y. H.; Wang, X. M.; Li, X. B.

2011-02-01

The dried, fleshy stems of Cistanche deserticola (Orobanchaceae) are popular tonics in Traditional Chinese Medicine (TCM) to treat the inability of kidney in expelling extra fluid in the body, causing fluid retention, and reform reproductive system. However, the wild plants of C. deserticola have become endangered due to habitat downsizing and over-harvesting for its medicinal usages. The present research was carried out for the following purposes: (1) promoting the space-breeding research; (2) providing molecular evidence for agricultural selective breeding; and (3) protecting this endangered herbal medicine and conserving its genetic resources.In this study, plants were cultivated from seeds specifically treated in spaceflight for seven days, and sampled to screen positive mutants and identify ISSR markers associated with their medicinal constituents. As a result, nine out of the 94 ISSR primers were showed high polymorphism, and a total of 118 bands were generated, of which 80 were polymorphic, ranging from 250 to 2600 bp. The spaceflight mutants were found to have lower coefficient of gene differentiation (Gst = 0.0269), and higher gene flow (Nm = 18.0740) than those of the controls (Gst = 0.2067 and Nm = 1.9185). The results demonstrated that most of the genetic variation were harnessed within populations (>97%). The Analysis of Molecular Variance (AMOVA) revealed high genetic variation within populations (88.03%) and low genetic differentiation among regions (-18.83%) and populations (30.79%), respectively. The results also indicated a profound difference between spaceflight condition and that on the earth. The unique vacuum environment of spaceflight was suggested to induce DNA mutation and various variations of C. deserticola. In addition, six particular ISSR markers were identified, cloned and sequenced; one of them, CA41939-934, was found positively correlated with acteoside with correlation coefficient values of 0.264 (P < 0.05). Our work may provide a valuable molecular evidence for establishing conservation strategies and space-breeding research program.

North American migratory bird management issues

USGS Publications Warehouse

Wilson, M.H.; Ryan, D.A.

1995-01-01

As human population and industry have grown in North America, land-use practices have greatly altered the landscape. As a result of this changed landscape, several migratory bird populations have declined in recent years. For waterbirds, there have been several milestones: the 1986 North American Waterfowl Management Plan (NAWMP) and the 1989 North American Wetlands Conservation Act. As a result, the United States and Canada have established 12 habitat and 2 species joint ventures. The primary emphasis of waterfowl management in Canada-U.S. has been land purchase and lease, wetland restoration, and coordination of harvest rates. Because of its different biological and cultural context, Mexico has established other conservation priorities. Mexico has had a long-standing concern to conserve its biodiversity and, in addition, conservation of Mexican resources goes hand in hand with human community development. Unlike Canada-U.S., wetland conservation projects in'Mexico include information gathering, environmental education, and management planning for its 32 priority wetlands. For migratory landbirds' scientists attribute declines in several migrant populations to forest fragmentation on the breeding grounds, deforestation on the wintering grounds, pesticide poisoning, or the cumulative effects of habitat changes. In 1990, the Neotropical Migratory Bird Conservation Program, commonly known as Partners in Flight-Aves de las Americas-was initiated. The next step that is being proposed is the formation of a habitat conservation plan for landbirds modeled after the NAWMP. Management of migratory birds requires a strong international approach in order to coordinate actions for the benefit of migratory birds, their habitats, and the uses they provide.

Grassland vegetation and bird communities in the southern Great Plains of North America

USGS Publications Warehouse

Chapman, R.N.; Engle, David M.; Masters, R.E.; Leslie, David M.

2004-01-01

Structure and composition of vegetation and abundance of breeding birds in grasslands seeded to Old World bluestem (Bothriochloa ischmaeum) were compared to native mixed prairie in the southern Great Plains of North America. Abundance of birds was determined using fixed-radius point counts. Detrended correspondence analysis was used to compare plant community composition and canonical correspondence analysis was used to examine the relationships between plant species composition and vegetation structure with the bird community. Plant species composition differed distinctly between seeded grassland and native mixed prairie, but the differences were not reflected in habitat structure, bird community composition, or abundance of bird species. Seeded grassland was inferior to native mixed prairie in terms of diversity of plant species, but that difference did not translate into meaningful differences in structure that drove habitat selection by breeding birds. Conservation programs that promote establishment of seeded grassland and do not allow for suitable disturbance regimes will selectively benefit a narrow suite of birds regardless of plant species composition. ?? 2004 Elsevier B.V. All rights reserved.

Investigating the population structure and genetic differentiation of livestock guard dog breeds.

PubMed

Bigi, D; Marelli, S P; Liotta, L; Frattini, S; Talenti, A; Pagnacco, G; Polli, M; Crepaldi, P

2018-01-14

Livestock guarding dogs are a valuable adjunct to the pastoral community. Having been traditionally selected for their working ability, they fulfil their function with minimal interaction or command from their human owners. In this study, the population structure and the genetic differentiation of three Italian livestock guardian breeds (Sila's Dog, Maremma and Abruzzese Sheepdog and Mannara's Dog) and three functionally and physically similar breeds (Cane Corso, Central Asian Shepherd Dog and Caucasian Shepherd Dog), totalling 179 dogs unrelated at the second generation, were investigated with 18 autosomal microsatellite markers. Values for the number of alleles per locus, observed and expected heterozygosity, Hardy-Weinberg Equilibrium, F stats, Nei's and Reynold's genetic distances, clustering and sub-population formation abilities and individual genetic structures were calculated. Our results show clear breed differentiation, whereby all the considered breeds show reasonable genetic variability despite small population sizes and variable selection schemes. These results provide meaningful data to stakeholders in specific breed and environmental conservation programmes.

Conservation of a domestic metapopulation structured into related and partly admixed strains.

PubMed

Ramljak, Jelena; Bunevski, Gjoko; Bytyqi, Hysen; Marković, Božidarka; Brka, Muhamed; Ivanković, Ante; Kume, Kristaq; Stojanović, Srđan; Nikolov, Vasil; Simčič, Mojca; Sölkner, Johann; Kunz, Elisabeth; Rothammer, Sophie; Seichter, Doris; Grünenfelder, Hans-Peter; Broxham, Elli T; Kugler, Waltraud; Medugorac, Ivica

2018-04-01

Preservation of genetic diversity is one of the most pressing challenges in the planetary boundaries concept. Within this context, we focused on genetic diversity in a native, unselected and highly admixed domesticated metapopulation. A set of 1,828 individuals from 60 different cattle breeds was analysed using a medium density SNP chip. Among these breeds, 14 Buša strains formed a metapopulation represented by 350 individuals, while the remaining 46 breeds represented the global cattle population. Genetic analyses showed that the scarcely selected and less differentiated Buša metapopulation contributed a substantial proportion (52.6%) of the neutral allelic diversity to this global taurine population. Consequently, there is an urgent need for synchronized maintenance of this highly fragmented domestic metapopulation, which is distributed over several countries without sophisticated infrastructure and highly endangered by continuous replacement crossing as part of the global genetic homogenization process. This study collected and evaluated samples, data and genomewide information and developed genome-assisted cross-border conservation concepts. To detect and maintain genetic integrity of the metapopulation strains, we designed and applied a composite test that combines six metrics based on additive genetic relationships, a nearest neighbour graph and the distribution of semiprivate alleles. Each metric provides distinct information components about past admixture events and offers an objective and powerful tool for the detection of admixed outliers. The here developed conservation methods and presented experiences could easily be adapted to comparable conservation programmes of domesticated or other metapopulations bred and kept in captivity or under some other sort of human control. © 2018 John Wiley & Sons Ltd.

76 FR 78942 - Draft Environmental Impact Statement and Proposed Vernal Pool Habitat Conservation Plan for the...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-12-20

... behavioral patterns, including breeding, feeding, or sheltering (50 CFR 17.3). The term ``harass'' is defined... annoying it to such an extent as to significantly disrupt normal behavioral patterns, which include, but... be included in the VPHCP in recognition of the conservation benefits to be provided for them under...

77 FR 23745 - Proposed Low-Effect Habitat Conservation Plan for the Bay Checkerspot Butterfly and Serpentine...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-04-20

... patterns, including breeding, feeding, or sheltering (50 CFR 17.3). The term ``harass'' is defined in the... as to significantly disrupt normal behavioral patterns, which include, but are not limited to... permit, plant species may be included on a permit in recognition of the conservation benefits provided to...

Genetic recapture identifies long-distance breeding dispersal in Greater Sage-Grouse (Centrocercus urophasianus)

Treesearch

Todd B. Cross; David E. Naugle; John C. Carlson; Michael K. Schwartz

2017-01-01

Dispersal can strongly influence the demographic and evolutionary trajectory of populations. For many species, little is known about dispersal, despite its importance to conservation. The Greater Sage-Grouse (Centrocercus urophasianus) is a species of conservation concern that ranges across 11 western U.S. states and 2 Canadian provinces. To investigate dispersal...

Addressing conservation needs of birds during the migratory period: problems and issues

Treesearch

Mark S. Demarest Woodrey; Ernesto Ruela Inzunza

2005-01-01

The conservation of declining intercontinental landbird and shorebird migrants is complicated by the migratory nature of these organisms. Although debate over the causes of declines in most species will no doubt continue for some time, continued attention has focused largely on events associated with the breeding and wintering phases of the migrant's annual cycle...

Conservation Priorities for Terrestrial Birds in the Northeastern United States

Treesearch

Kenneth V. Rosenberg; Jeffrey V. Wells

2005-01-01

As part of the Partners in Flight (PIF) bird-conservation planning process, we assessed breeding land bird species according to seven categories of population vulnerability to derive a priority species pool in each of 12 physiographic areas that overlap the northeastern U.S. We then grouped species into the following habitat-species suites: (1) boreal-mountaintop...

The National Audubon Society's eastern forest conservation initiative: examining opportunities for bird conservation at a regional scale

Treesearch

Curtis Smalling; Mary Elfner

2010-01-01

The forests of the east are under tremendous pressure from a variety of sources, including increasing development and fragmentation, declining air quality, declining water quality, and global climate change. Many priority bird species depend on these forested habitats, including a high percentage (75 percent) of neotropical migrant breeding species.

Genomic Characterisation of the Indigenous Irish Kerry Cattle Breed

PubMed Central

Browett, Sam; McHugo, Gillian; Richardson, Ian W.; Magee, David A.; Park, Stephen D. E.; Fahey, Alan G.; Kearney, John F.; Correia, Carolina N.; Randhawa, Imtiaz A. S.; MacHugh, David E.

2018-01-01

Kerry cattle are an endangered landrace heritage breed of cultural importance to Ireland. In the present study we have used genome-wide SNP array data to evaluate genomic diversity within the Kerry population and between Kerry cattle and other European breeds. Patterns of genetic differentiation and gene flow among breeds using phylogenetic trees with ancestry graphs highlighted historical gene flow from the British Shorthorn breed into the ancestral population of modern Kerry cattle. Principal component analysis (PCA) and genetic clustering emphasised the genetic distinctiveness of Kerry cattle relative to comparator British and European cattle breeds. Modelling of genetic effective population size (Ne) revealed a demographic trend of diminishing Ne over time and that recent estimated Ne values for the Kerry breed may be less than the threshold for sustainable genetic conservation. In addition, analysis of genome-wide autozygosity (FROH) showed that genomic inbreeding has increased significantly during the 20 years between 1992 and 2012. Finally, signatures of selection revealed genomic regions subject to natural and artificial selection as Kerry cattle adapted to the climate, physical geography and agro-ecology of southwest Ireland. PMID:29520297

Environmental gradients explain species richness and community composition of coastal breeding birds in the Baltic Sea.

PubMed

Nord, Maria; Forslund, Pär

2015-01-01

Scientifically-based systematic conservation planning for reserve design requires knowledge of species richness patterns and how these are related to environmental gradients. In this study, we explore a large inventory of coastal breeding birds, in total 48 species, sampled in 4646 1 km2 squares which covered a large archipelago in the Baltic Sea on the east coast of Sweden. We analysed how species richness (α diversity) and community composition (β diversity) of two groups of coastal breeding birds (specialists, i.e. obligate coastal breeders; generalists, i.e. facultative coastal breeders) were affected by distance to open sea, land area, shoreline length and archipelago width. The total number of species per square increased with increasing shoreline length, but increasing land area counteracted this effect in specialists. The number of specialist bird species per square increased with decreasing distance to open sea, while the opposite was true for the generalists. Differences in community composition between squares were associated with differences in land area and distance to open sea, both when considering all species pooled and each group separately. Fourteen species were nationally red-listed, and showed similar relationships to the environmental gradients as did all species, specialists and generalists. We suggest that availability of suitable breeding habitats, and probably also proximity to feeding areas, explain much of the observed spatial distributions of coastal birds in this study. Our findings have important implications for systematic conservation planning of coastal breeding birds. In particular, we provide information on where coastal breeding birds occur and which environments they seem to prefer. Small land areas with long shorelines are highly valuable both in general and for red-listed species. Thus, such areas should be prioritized for protection against human disturbance and used by management in reserve selection.

Environmental Gradients Explain Species Richness and Community Composition of Coastal Breeding Birds in the Baltic Sea

PubMed Central

Nord, Maria; Forslund, Pär

2015-01-01

Scientifically-based systematic conservation planning for reserve design requires knowledge of species richness patterns and how these are related to environmental gradients. In this study, we explore a large inventory of coastal breeding birds, in total 48 species, sampled in 4646 1 km2 squares which covered a large archipelago in the Baltic Sea on the east coast of Sweden. We analysed how species richness (α diversity) and community composition (β diversity) of two groups of coastal breeding birds (specialists, i.e. obligate coastal breeders; generalists, i.e. facultative coastal breeders) were affected by distance to open sea, land area, shoreline length and archipelago width. The total number of species per square increased with increasing shoreline length, but increasing land area counteracted this effect in specialists. The number of specialist bird species per square increased with decreasing distance to open sea, while the opposite was true for the generalists. Differences in community composition between squares were associated with differences in land area and distance to open sea, both when considering all species pooled and each group separately. Fourteen species were nationally red-listed, and showed similar relationships to the environmental gradients as did all species, specialists and generalists. We suggest that availability of suitable breeding habitats, and probably also proximity to feeding areas, explain much of the observed spatial distributions of coastal birds in this study. Our findings have important implications for systematic conservation planning of coastal breeding birds. In particular, we provide information on where coastal breeding birds occur and which environments they seem to prefer. Small land areas with long shorelines are highly valuable both in general and for red-listed species. Thus, such areas should be prioritized for protection against human disturbance and used by management in reserve selection. PMID:25714432

Transcriptomic Profiling of Fruit Development in Black Raspberry Rubus coreanus

PubMed Central

Hu, Yaodong

2018-01-01

The wild Rubus species R. coreanus, which is widely distributed in southwest China, shows great promise as a genetic resource for breeding. One of its outstanding properties is adaptation to high temperature and humidity. To facilitate its use in selection and breeding programs, we assembled de novo 179,738,287 R. coreanus reads (125 bp in length) generated by RNA sequencing from fruits at three representative developmental stages. We also used the recently released draft genome of R. occidentalis to perform reference-guided assembly. We inferred a final 95,845-transcript reference for R. coreanus. Of these genetic resources, 66,597 (69.5%) were annotated. Based on these results, we carried out a comprehensive analysis of differentially expressed genes. Flavonoid biosynthesis, phenylpropanoid biosynthesis, plant hormone signal transduction, and cutin, suberin, and wax biosynthesis pathways were significantly enriched throughout the ripening process. We identified 23 transcripts involved in the flavonoid biosynthesis pathway whose expression perfectly paralleled changes in the metabolites. Additionally, we identified 119 nucleotide-binding site leucine-rich repeat (NBS-LRR) protein-coding genes, involved in pathogen resistance, of which 74 were in the completely conserved domain. These results provide, for the first time, genome-wide genetic information for understanding developmental regulation of R. coreanus fruits. They have the potential for use in breeding through functional genetic approaches in the near future. PMID:29805970

Effects of reintroduced beaver (Castor canadensis) on riparian bird community structure along the upper San Pedro River, southeastern Arizona and northern Sonora, Mexico

USGS Publications Warehouse

Johnson, Glenn E.; van Riper, Charles

2014-01-01

Chapter 1.—We measured bird abundance and richness along the upper San Pedro River in 2005 and 2006, in order to document how beavers (Castor canadensis) may act as ecosystem engineers after their reintroduction to a desert riparian area in the Southwestern United States. In areas where beavers colonized, we found higher bird abundance and richness of bird groups, such as all breeding birds, insectivorous birds, and riparian specialists, and higher relative abundance of many individual species—including several avian species of conservation concern. Chapter 2.—We conducted bird surveys in riparian areas along the upper San Pedro River in southeastern Arizona (United States) and northern Sonora (Mexico) in order to describe factors influencing bird community dynamics and the distribution and abundance of species, particularly those of conservation concern. These surveys were also used to document the effects of the ecosystem-altering activities of a recently reintroduced beavers (Castor canadensis). Chapter 3.—We reviewed Southwestern Willow Flycatcher (Empidonax traillii extimus) nest records and investigated the potential for future breeding along the upper San Pedro River in southeastern Arizona, where in July 2005 we encountered the southernmost verifiable nest attempt for the species. Continued conservation and management of the area’s riparian vegetation and surface water has potential to contribute additional breeding sites for this endangered Willow Flycatcher subspecies. Given the nest record along the upper San Pedro River and the presence of high-density breeding sites to the north, the native cottonwood-willow forests of the upper San Pedro River could become increasingly important to E. t. extimus recovery, especially considering the anticipated effect of the tamarisk leaf beetle (Diorhabda carinulata) on riparian habitat north of the region.

Laying the foundations for a human-predator conflict solution: assessing the impact of Bonelli's eagle on rabbits and partridges.

PubMed

Moleón, Marcos; Sánchez-Zapata, José A; Gil-Sánchez, José M; Barea-Azcón, José M; Ballesteros-Duperón, Elena; Virgós, Emilio

2011-01-01

Predation may potentially lead to negative effects on both prey (directly via predators) and predators (indirectly via human persecution). Predation pressure studies are, therefore, of major interest in the fields of theoretical knowledge and conservation of prey or predator species, with wide ramifications and profound implications in human-wildlife conflicts. However, detailed works on this issue in highly valuable--in conservation terms--Mediterranean ecosystems are virtually absent. This paper explores the predator-hunting conflict by examining a paradigmatic, Mediterranean-wide (endangered) predator-two prey (small game) system. We estimated the predation impact ('kill rate' and 'predation rate', i.e., number of prey and proportion of the prey population eaten, respectively) of Bonelli's eagle Aquila fasciata on rabbit Oryctolagus cuniculus and red-legged partridge Alectoris rufa populations in two seasons (the eagle's breeding and non-breeding periods, 100 days each) in SE Spain. The mean estimated kill rate by the seven eagle reproductive units in the study area was c. 304 rabbits and c. 262 partridges in the breeding season, and c. 237 rabbits and c. 121 partridges in the non-breeding period. This resulted in very low predation rates (range: 0.3-2.5%) for both prey and seasons. The potential role of Bonelli's eagles as a limiting factor for rabbits and partridges at the population scale was very poor. The conflict between game profitability and conservation interest of either prey or predators is apparently very localised, and eagles, quarry species and game interests seem compatible in most of the study area. Currently, both the persecution and negative perception of Bonelli's eagle (the 'partridge-eating eagle' in Spanish) have a null theoretical basis in most of this area.

Laying the Foundations for a Human-Predator Conflict Solution: Assessing the Impact of Bonelli's Eagle on Rabbits and Partridges

PubMed Central

Moleón, Marcos; Sánchez-Zapata, José A.; Gil-Sánchez, José M.; Barea-Azcón, José M.; Ballesteros-Duperón, Elena; Virgós, Emilio

2011-01-01

Background Predation may potentially lead to negative effects on both prey (directly via predators) and predators (indirectly via human persecution). Predation pressure studies are, therefore, of major interest in the fields of theoretical knowledge and conservation of prey or predator species, with wide ramifications and profound implications in human-wildlife conflicts. However, detailed works on this issue in highly valuable –in conservation terms– Mediterranean ecosystems are virtually absent. This paper explores the predator-hunting conflict by examining a paradigmatic, Mediterranean-wide (endangered) predator-two prey (small game) system. Methodology/Principal Findings We estimated the predation impact (‘kill rate’ and ‘predation rate’, i.e., number of prey and proportion of the prey population eaten, respectively) of Bonelli's eagle Aquila fasciata on rabbit Oryctolagus cuniculus and red-legged partridge Alectoris rufa populations in two seasons (the eagle's breeding and non-breeding periods, 100 days each) in SE Spain. The mean estimated kill rate by the seven eagle reproductive units in the study area was c. 304 rabbits and c. 262 partridges in the breeding season, and c. 237 rabbits and c. 121 partridges in the non-breeding period. This resulted in very low predation rates (range: 0.3–2.5%) for both prey and seasons. Conclusions/Significance The potential role of Bonelli's eagles as a limiting factor for rabbits and partridges at the population scale was very poor. The conflict between game profitability and conservation interest of either prey or predators is apparently very localised, and eagles, quarry species and game interests seem compatible in most of the study area. Currently, both the persecution and negative perception of Bonelli's eagle (the ‘partridge-eating eagle’ in Spanish) have a null theoretical basis in most of this area. PMID:21818399

Prospects and challenges for the conservation of farm animal genomic resources, 2015-2025

PubMed Central

Bruford, Michael W.; Ginja, Catarina; Hoffmann, Irene; Joost, Stéphane; Orozco-terWengel, Pablo; Alberto, Florian J.; Amaral, Andreia J.; Barbato, Mario; Biscarini, Filippo; Colli, Licia; Costa, Mafalda; Curik, Ino; Duruz, Solange; Ferenčaković, Maja; Fischer, Daniel; Fitak, Robert; Groeneveld, Linn F.; Hall, Stephen J. G.; Hanotte, Olivier; Hassan, Faiz-ul; Helsen, Philippe; Iacolina, Laura; Kantanen, Juha; Leempoel, Kevin; Lenstra, Johannes A.; Ajmone-Marsan, Paolo; Masembe, Charles; Megens, Hendrik-Jan; Miele, Mara; Neuditschko, Markus; Nicolazzi, Ezequiel L.; Pompanon, François; Roosen, Jutta; Sevane, Natalia; Smetko, Anamarija; Štambuk, Anamaria; Streeter, Ian; Stucki, Sylvie; Supakorn, China; Telo Da Gama, Luis; Tixier-Boichard, Michèle; Wegmann, Daniel; Zhan, Xiangjiang

2015-01-01

Livestock conservation practice is changing rapidly in light of policy developments, climate change and diversifying market demands. The last decade has seen a step change in technology and analytical approaches available to define, manage and conserve Farm Animal Genomic Resources (FAnGR). However, these rapid changes pose challenges for FAnGR conservation in terms of technological continuity, analytical capacity and integrative methodologies needed to fully exploit new, multidimensional data. The final conference of the ESF Genomic Resources program aimed to address these interdisciplinary problems in an attempt to contribute to the agenda for research and policy development directions during the coming decade. By 2020, according to the Convention on Biodiversity's Aichi Target 13, signatories should ensure that “…the genetic diversity of …farmed and domesticated animals and of wild relatives …is maintained, and strategies have been developed and implemented for minimizing genetic erosion and safeguarding their genetic diversity.” However, the real extent of genetic erosion is very difficult to measure using current data. Therefore, this challenging target demands better coverage, understanding and utilization of genomic and environmental data, the development of optimized ways to integrate these data with social and other sciences and policy analysis to enable more flexible, evidence-based models to underpin FAnGR conservation. At the conference, we attempted to identify the most important problems for effective livestock genomic resource conservation during the next decade. Twenty priority questions were identified that could be broadly categorized into challenges related to methodology, analytical approaches, data management and conservation. It should be acknowledged here that while the focus of our meeting was predominantly around genetics, genomics and animal science, many of the practical challenges facing conservation of genomic resources are societal in origin and are predicated on the value (e.g., socio-economic and cultural) of these resources to farmers, rural communities and society as a whole. The overall conclusion is that despite the fact that the livestock sector has been relatively well-organized in the application of genetic methodologies to date, there is still a large gap between the current state-of-the-art in the use of tools to characterize genomic resources and its application to many non-commercial and local breeds, hampering the consistent utilization of genetic and genomic data as indicators of genetic erosion and diversity. The livestock genomic sector therefore needs to make a concerted effort in the coming decade to enable to the democratization of the powerful tools that are now at its disposal, and to ensure that they are applied in the context of breed conservation as well as development. PMID:26539210

Prospects and challenges for the conservation of farm animal genomic resources, 2015-2025.

PubMed

Bruford, Michael W; Ginja, Catarina; Hoffmann, Irene; Joost, Stéphane; Orozco-terWengel, Pablo; Alberto, Florian J; Amaral, Andreia J; Barbato, Mario; Biscarini, Filippo; Colli, Licia; Costa, Mafalda; Curik, Ino; Duruz, Solange; Ferenčaković, Maja; Fischer, Daniel; Fitak, Robert; Groeneveld, Linn F; Hall, Stephen J G; Hanotte, Olivier; Hassan, Faiz-Ul; Helsen, Philippe; Iacolina, Laura; Kantanen, Juha; Leempoel, Kevin; Lenstra, Johannes A; Ajmone-Marsan, Paolo; Masembe, Charles; Megens, Hendrik-Jan; Miele, Mara; Neuditschko, Markus; Nicolazzi, Ezequiel L; Pompanon, François; Roosen, Jutta; Sevane, Natalia; Smetko, Anamarija; Štambuk, Anamaria; Streeter, Ian; Stucki, Sylvie; Supakorn, China; Telo Da Gama, Luis; Tixier-Boichard, Michèle; Wegmann, Daniel; Zhan, Xiangjiang

2015-01-01

Livestock conservation practice is changing rapidly in light of policy developments, climate change and diversifying market demands. The last decade has seen a step change in technology and analytical approaches available to define, manage and conserve Farm Animal Genomic Resources (FAnGR). However, these rapid changes pose challenges for FAnGR conservation in terms of technological continuity, analytical capacity and integrative methodologies needed to fully exploit new, multidimensional data. The final conference of the ESF Genomic Resources program aimed to address these interdisciplinary problems in an attempt to contribute to the agenda for research and policy development directions during the coming decade. By 2020, according to the Convention on Biodiversity's Aichi Target 13, signatories should ensure that "…the genetic diversity of …farmed and domesticated animals and of wild relatives …is maintained, and strategies have been developed and implemented for minimizing genetic erosion and safeguarding their genetic diversity." However, the real extent of genetic erosion is very difficult to measure using current data. Therefore, this challenging target demands better coverage, understanding and utilization of genomic and environmental data, the development of optimized ways to integrate these data with social and other sciences and policy analysis to enable more flexible, evidence-based models to underpin FAnGR conservation. At the conference, we attempted to identify the most important problems for effective livestock genomic resource conservation during the next decade. Twenty priority questions were identified that could be broadly categorized into challenges related to methodology, analytical approaches, data management and conservation. It should be acknowledged here that while the focus of our meeting was predominantly around genetics, genomics and animal science, many of the practical challenges facing conservation of genomic resources are societal in origin and are predicated on the value (e.g., socio-economic and cultural) of these resources to farmers, rural communities and society as a whole. The overall conclusion is that despite the fact that the livestock sector has been relatively well-organized in the application of genetic methodologies to date, there is still a large gap between the current state-of-the-art in the use of tools to characterize genomic resources and its application to many non-commercial and local breeds, hampering the consistent utilization of genetic and genomic data as indicators of genetic erosion and diversity. The livestock genomic sector therefore needs to make a concerted effort in the coming decade to enable to the democratization of the powerful tools that are now at its disposal, and to ensure that they are applied in the context of breed conservation as well as development.

Towards population-level conservation in the critically endangered Antarctic blue whale: the number and distribution of their populations

PubMed Central

Attard, Catherine R. M.; Beheregaray, Luciano B.; Möller, Luciana M.

2016-01-01

Population-level conservation is required to prevent biodiversity loss within a species, but it first necessitates determining the number and distribution of populations. Many whale populations are still depleted due to 20th century whaling. Whales are one of the most logistically difficult and expensive animals to study because of their mobility, pelagic lifestyle and often remote habitat. We tackle the question of population structure in the Antarctic blue whale (Balaenoptera musculus intermedia) – a critically endangered subspecies and the largest extant animal – by capitalizing on the largest genetic dataset to date for Antarctic blue whales. We found evidence of three populations that are sympatric in the Antarctic feeding grounds and likely occupy separate breeding grounds. Our study adds to knowledge of population structure in the Antarctic blue whale. Future research should invest in locating the breeding grounds and migratory routes of Antarctic blue whales through satellite telemetry to confirm their population structure and allow population-level conservation. PMID:26951747

Towards population-level conservation in the critically endangered Antarctic blue whale: the number and distribution of their populations

NASA Astrophysics Data System (ADS)

Attard, Catherine R. M.; Beheregaray, Luciano B.; Möller, Luciana M.

2016-03-01

Population-level conservation is required to prevent biodiversity loss within a species, but it first necessitates determining the number and distribution of populations. Many whale populations are still depleted due to 20th century whaling. Whales are one of the most logistically difficult and expensive animals to study because of their mobility, pelagic lifestyle and often remote habitat. We tackle the question of population structure in the Antarctic blue whale (Balaenoptera musculus intermedia) - a critically endangered subspecies and the largest extant animal - by capitalizing on the largest genetic dataset to date for Antarctic blue whales. We found evidence of three populations that are sympatric in the Antarctic feeding grounds and likely occupy separate breeding grounds. Our study adds to knowledge of population structure in the Antarctic blue whale. Future research should invest in locating the breeding grounds and migratory routes of Antarctic blue whales through satellite telemetry to confirm their population structure and allow population-level conservation.

Evaluation of genetic diversity and population structure of West-Central Indian cattle breeds.

PubMed

Shah, Tejas M; Patel, Jaina S; Bhong, Chandrakant D; Doiphode, Aakash; Umrikar, Uday D; Parmar, Shivnandan S; Rank, Dharamshibhai N; Solanki, Jitendra V; Joshi, Chaitanya G

2013-08-01

Evaluations of genetic diversity in domestic livestock populations are necessary to implement region-specific conservation measures. We determined the genetic diversity and evolutionary relationships among eight geographically and phenotypically diverse cattle breeds indigenous to west-central India by genotyping these animals for 22 microsatellite loci. A total of 326 alleles were detected, and the expected heterozygosity ranged from 0.614 (Kenkatha) to 0.701 (Dangi). The mean number of alleles among the cattle breeds ranged from 7.182 (Khillar) to 9.409 (Gaolao). There were abundant genetic variations displayed within breeds, and the genetic differentiation was also high between the Indian cattle breeds, which displayed 15.9% of the total genetic differentiation among the different breeds. The genetic differentiation (pairwise FST ) among the eight Indian breeds varied from 0.0126 for the Kankrej-Malvi pair to 0.2667 for Khillar-Kenkatha pair. The phylogeny, principal components analysis, and structure analysis further supported close grouping of Kankrej, Malvi, Nimari and Gir; Gaolao and Kenkatha, whereas Dangi and Khillar remained at distance from other breeds. © 2012 The Authors, Animal Genetics © 2012 Stichting International Foundation for Animal Genetics.

[Estimation of Genetic Diversity of Romanov Sheep by the Coefficient of Genetic Originality Based on ISSR-Fingerprinting Data].

PubMed

Nesteruk, L V; Makarova, N N; Svishcheva, G R; Stolpovsky, Yu A

2015-07-01

Estimation of the state of the genetic diversity and the originality of the breed structure is required for the conservation and management of domestic breeds of agricultural animals. The Romanov breed of sheep from the leading breeding and gene pool farms in Yaroslavl oblast (Russia) is the object of our study. ISS R fingerprinting was used as a molecular method of the study of sheep gene pools. Forty-three DNA fragments were detected (25 and 18, respectively) by two primers ((AG)9C and (GA)9C). Of the discovered ISSR markers, 81% were polymorphic. The coefficient of genetic originality was for the first time used for the study of the specificity and originality of the Romanov-breed gene pool. Based on its values, the studied individuals were divided into five classes depending on the frequency of the ISSR fragment. The most original or the rarest, as well as typical genotypes, were singled out in the Romanov sheep gene pool. Use the obtained data on genetic originality was proposed as a means to increase the efficiency of selection and breeding during the breeding of autochthonous breeds of domesticated animal species.

In vitro conservation of Dendrobium germplasm.

PubMed

Teixeira da Silva, Jaime A; Zeng, Songjun; Galdiano, Renato Fernandes; Dobránszki, Judit; Cardoso, Jean Carlos; Vendrame, Wagner A

2014-09-01

Dendrobium is a large genus in the family Orchidaceae that exhibits vast diversity in floral characteristics, which is of considerable importance to orchid breeders, biotechnologists and collectors. Native species have high value as a result of their medicinal properties, while their hybrids are important as ornamental commodities, either as cut flowers or potted plants and are thus veritable industrial crops. Thus, preservation of Dendrobium germplasm is valuable for species conservation, breeding programs and the floriculture industry. Cryopreservation represents the only safe, efficient and cost-effective long-term storage option to facilitate the conservation of genetic resources of plant species. This review highlights 16 years of literature related to the preservation of Dendrobium germplasm and comprises the most comprehensive assessment of thorough studies performed to date, which shows reliable and reproducible results. Air-drying, encapsulation-dehydration, encapsulation-vitrification, vitrification and droplet-vitrification are the current cryopreservation methodologies that have been used to cryopreserve Dendrobium germplasm. Mature seeds, pollen, protoplasts, shoot primordia, protocorms and somatic embryos or protocorm-like bodies (PLBs) have been cryopreserved with different levels of success. Encapsulation-vitrification and encapsulation-dehydration are the most used protocol, while PLBs represent the main explant explored.

The Use of Genomics in Conservation Management of the Endangered Visayan Warty Pig (Sus cebifrons).

PubMed

Nuijten, Rascha J M; Bosse, Mirte; Crooijmans, Richard P M A; Madsen, Ole; Schaftenaar, Willem; Ryder, Oliver A; Groenen, Martien A M; Megens, Hendrik-Jan

2016-01-01

The list of threatened and endangered species is growing rapidly, due to various anthropogenic causes. Many endangered species are present in captivity and actively managed in breeding programs in which often little is known about the founder individuals. Recent developments in genetic research techniques have made it possible to sequence and study whole genomes. In this study we used the critically endangered Visayan warty pig (Sus cebifrons) as a case study to test the use of genomic information as a tool in conservation management. Two captive populations of S. cebifrons exist, which originated from two different Philippine islands. We found some evidence for a recent split between the two island populations; however all individuals that were sequenced show a similar demographic history. Evidence for both past and recent inbreeding indicated that the founders were at least to some extent related. Together with this, the low level of nucleotide diversity compared to other Sus species potentially poses a threat to the viability of the captive populations. In conclusion, genomic techniques answered some important questions about this critically endangered mammal and can be a valuable toolset to inform future conservation management in other species as well.

Reproductive biology of endemic Solanum melissarum Bohs (Solanaceae) and updating of its current geographic distribution as the basis for its conservation in the Brazilian Cerrado.

PubMed

Coelho, C P; Gomes, D C; Guilherme, F A G; Souza, L F

2017-11-01

The genus Solanum (family Solanaceae) includes more than 1400 species and has buzz-pollinated flowers with poricidal anthers. The present study aimed to describe the distribution, breeding system and pollination mechanism of Solanum melissarum, a species endemic to Brazil. The study of breeding system was conducted in an urban forest fragment in Jataí, GO. Distribution data were gathered from floristic surveys and digital plant databases. The floral morphology and the pollination mechanism were studied on through field observations and preserved flowers. The breeding system was determined through hand pollination treatments. The species has a distribution only in the Brazilian Atlantic forest coastal, and this study provides the first records of S. melissarum for the state of Goiás. The pendulous flowers have poricidal anthers close to the stigma, with membranous thecae joined by a connective bearing osmophores that attract males of Euglossa cordata bees. As they collect fragrances, the bees press the thecae and pollen is released through a bellows mechanism. Based on the hand-pollination treatments, this species is self-incompatible. Isolated forest fragments may not include enough pollinators to ensure the pollination of plants with specialized systems. However, they are essential for the conservation of species with interesting phytogeographic patterns, such as the vicariance observed in S. melissarum, and for the conservation of regional diversity.

Advances and Challenges in Genomic Selection for Disease Resistance.

PubMed

Poland, Jesse; Rutkoski, Jessica

2016-08-04

Breeding for disease resistance is a central focus of plant breeding programs, as any successful variety must have the complete package of high yield, disease resistance, agronomic performance, and end-use quality. With the need to accelerate the development of improved varieties, genomics-assisted breeding is becoming an important tool in breeding programs. With marker-assisted selection, there has been success in breeding for disease resistance; however, much of this work and research has focused on identifying, mapping, and selecting for major resistance genes that tend to be highly effective but vulnerable to breakdown with rapid changes in pathogen races. In contrast, breeding for minor-gene quantitative resistance tends to produce more durable varieties but is a more challenging breeding objective. As the genetic architecture of resistance shifts from single major R genes to a diffused architecture of many minor genes, the best approach for molecular breeding will shift from marker-assisted selection to genomic selection. Genomics-assisted breeding for quantitative resistance will therefore necessitate whole-genome prediction models and selection methodology as implemented for classical complex traits such as yield. Here, we examine multiple case studies testing whole-genome prediction models and genomic selection for disease resistance. In general, whole-genome models for disease resistance can produce prediction accuracy suitable for application in breeding. These models also largely outperform multiple linear regression as would be applied in marker-assisted selection. With the implementation of genomic selection for yield and other agronomic traits, whole-genome marker profiles will be available for the entire set of breeding lines, enabling genomic selection for disease at no additional direct cost. In this context, the scope of implementing genomics selection for disease resistance, and specifically for quantitative resistance and quarantined pathogens, becomes a tractable and powerful approach in breeding programs.

The North American Breeding Bird Survey 1966–2011: Summary analysis and species accounts

USGS Publications Warehouse

Sauer, John R.; Link, William A.; Fallon, Jane E.; Pardieck, Keith L.; Ziolkowski, David J.

2013-01-01

The North American Breeding Bird Survey is a roadside, count-based survey conducted by volunteer observers. Begun in 1966, it now is a primary source of information on spatial and temporal patterns of population change for North American birds. We analyze population change for states, provinces, Bird Conservation Regions, and the entire survey within the contiguous United States and southern Canada for 426 species using a hierarchical log-linear model that controls for observer effects in counting. We also map relative abundance and population change for each species using a spatial smoothing of data at the scale of survey routes. We present results in accounts that describe major breeding habitats, migratory status, conservation status, and population trends for each species at several geographic scales. We also present composite results for groups of species categorized by habitats and migratory status. The survey varies greatly among species in percentage of species' range covered and precision of results, but consistent patterns of decline occur among eastern forest, grassland, and aridland obligate birds while generalist bird species are increasing.

Genetic evaluation of ex situ conservation breeding projects of Cheer Pheasant (Catreus wallichii) and Western Tragopan (Tragopan melanocephalus) in India.

PubMed

Mukesh; Garg, Shipra; Javed, Ruheena; Sood, Shudhanta; Singh, Harvinder

2016-05-01

When setting-up a captive population, genetic assessment of founders is essential to formulate effective breeding strategies that minimize the negative effects of inbreeding in the successive generations caused by mating between genetically related individuals. We carried out molecular genetic analysis of Cheer Pheasant and Western Tragopan populations of Chail and Sarahan Pheasantries in the State of Himachal Pradesh. The results revealed that the captive stock of Cheer Pheasant is sustaining well and does not exhibit signatures of inbreeding. Conversely, inbreeding is strongly evident in Western Tragopan population. Our study adds new dimensions to the captive management of Cheer Pheasant and Western Tragopan populations and contradicts with a previous study conducted on the same Western Tragopan population of Sarahan Pheasantry using studbook data. This study demonstrates strong evidence for retaining genetic assessment as an integral part to formulate policies/strategies for conservation breeding projects and proposes refining existing studbook records by incorporating microsatellites data and genetic analyses. Zoo Biol. 35:269-273, 2016. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Diversity of the TLR4 Immunity Receptor in Czech Native Cattle Breeds Revealed Using the Pacific Biosciences Sequencing Platform.

PubMed

Novák, Karel; Pikousová, Jitka; Czerneková, Vladimíra; Mátlová, Věra

2017-07-03

The allelic variants of immunity genes in historical breeds likely reflect local infection pressure and therefore represent a reservoir for breeding. Screening to determine the diversity of the Toll-like receptor gene TLR4 was conducted in two conserved cattle breeds: Czech Red and Czech Red Pied. High-throughput sequencing of pooled PCR amplicons using the PacBio platform revealed polymorphisms, which were subsequently confirmed via genotyping techniques. Eight SNPs found in coding and adjacent regions were grouped into 18 haplotypes, representing a significant portion of the known diversity in the global breed panel and presumably exceeding diversity in production populations. Notably, the ancient Czech Red breed appeared to possess greater haplotype diversity than the Czech Red Pied breed, a Simmental variant, although the haplotype frequencies might have been distorted by significant crossbreeding and bottlenecks in the history of Czech Red cattle. The differences in haplotype frequencies validated the phenotypic distinctness of the local breeds. Due to the availability of Czech Red Pied production herds, the effect of intensive breeding on TLR diversity can be evaluated in this model. The advantages of the Pacific Biosciences technology for the resequencing of long PCR fragments with subsequent direct phasing were independently validated.

Assessment of Polycyclic Aromatic Hydrocarbon Contamination of Breeding Pools Utilized by the Puerto Rican Crested Toad, Peltophryne lemur

PubMed Central

Gjeltema, Jenessa; Stoskopf, Michael; Shea, Damian; De Voe, Ryan

2012-01-01

Habitat preservation and management may play an important role in the conservation of the Puerto Rican crested toad, Peltophryne lemur, due to this species' small geographic range and declining native wild population. Bioavailable water concentrations of Polycyclic Aromatic Hydrocarbon (PAH) contaminants within breeding pools at 3 sites were established using Passive Sampling Devices (PSDs) and gas chromatography-mass spectrometry (GC/MS). A more diverse population of PAH analytes were found in higher concentrations at the breeding site that allowed direct vehicular access, but calculated risk quotients indicated low risk to toad reproduction associated with the current PAH analyte levels. PMID:23762634

Exploitation of data from breeding programs supports rapid implementation of genomic selection for key agronomic traits in perennial ryegrass.

PubMed

Pembleton, Luke W; Inch, Courtney; Baillie, Rebecca C; Drayton, Michelle C; Thakur, Preeti; Ogaji, Yvonne O; Spangenberg, German C; Forster, John W; Daetwyler, Hans D; Cogan, Noel O I

2018-06-02

Exploitation of data from a ryegrass breeding program has enabled rapid development and implementation of genomic selection for sward-based biomass yield with a twofold-to-threefold increase in genetic gain. Genomic selection, which uses genome-wide sequence polymorphism data and quantitative genetics techniques to predict plant performance, has large potential for the improvement in pasture plants. Major factors influencing the accuracy of genomic selection include the size of reference populations, trait heritability values and the genetic diversity of breeding populations. Global diversity of the important forage species perennial ryegrass is high and so would require a large reference population in order to achieve moderate accuracies of genomic selection. However, diversity of germplasm within a breeding program is likely to be lower. In addition, de novo construction and characterisation of reference populations are a logistically complex process. Consequently, historical phenotypic records for seasonal biomass yield and heading date over a 18-year period within a commercial perennial ryegrass breeding program have been accessed, and target populations have been characterised with a high-density transcriptome-based genotyping-by-sequencing assay. Ability to predict observed phenotypic performance in each successive year was assessed by using all synthetic populations from previous years as a reference population. Moderate and high accuracies were achieved for the two traits, respectively, consistent with broad-sense heritability values. The present study represents the first demonstration and validation of genomic selection for seasonal biomass yield within a diverse commercial breeding program across multiple years. These results, supported by previous simulation studies, demonstrate the ability to predict sward-based phenotypic performance early in the process of individual plant selection, so shortening the breeding cycle, increasing the rate of genetic gain and allowing rapid adoption in ryegrass improvement programs.

Can functional hologenomics aid tackling current challenges in plant breeding?

PubMed

Nogales, Amaia; Nobre, Tânia; Valadas, Vera; Ragonezi, Carla; Döring, Matthias; Polidoros, Alexios; Arnholdt-Schmitt, Birgit

2016-07-01

Molecular plant breeding usually overlooks the genetic variability that arises from the association of plants with endophytic microorganisms, when looking at agronomic interesting target traits. This source of variability can have crucial effects on the functionality of the organism considered as a whole (the holobiont), and therefore can be selectable in breeding programs. However, seeing the holobiont as a unit for selection and improvement in breeding programs requires novel approaches for genotyping and phenotyping. These should not focus just at the plant level, but also include the associated endophytes and their functional effects on the plant, to make effective desirable trait screenings. The present review intends to draw attention to a new research field on functional hologenomics that if associated with adequate phenotyping tools could greatly increase the efficiency of breeding programs. © The Author 2015. Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com.

The Importance of Rotational Crops for Biodiversity Conservation in Mediterranean Areas.

PubMed

Chiatante, Gianpasquale; Meriggi, Alberto

2016-01-01

Nowadays we are seeing the largest biodiversity loss since the extinction of the dinosaurs. To conserve biodiversity it is essential to plan protected areas using a prioritization approach, which takes into account the current biodiversity value of the sites. Considering that in the Mediterranean Basin the agro-ecosystems are one of the most important parts of the landscape, the conservation of crops is essential to biodiversity conservation. In the framework of agro-ecosystem conservation, farmland birds play an important role because of their representativeness, and because of their steady decline in the last Century in Western Europe. The main aim of this research was to define if crop dominated landscapes could be useful for biodiversity conservation in a Mediterranean area in which the landscape was modified by humans in the last thousand years and was affected by the important biogeographical phenomenon of peninsula effect. To assess this, we identify the hotspots and the coldspots of bird diversity in southern Italy both during the winter and in the breeding season. In particular we used a scoring method, defining a biodiversity value for each cell of a 1-km grid superimposed on the study area, using data collected by fieldwork following a stratified random sampling design. This value was analysed by a multiple linear regression analysis and was predicted in the whole study area. Then we defined the hotspots and the coldspots of the study area as 15% of the cells with higher and lower value of biodiversity, respectively. Finally, we used GAP analysis to compare hotspot distribution with the current network of protected areas. This study showed that the winter hotspots of bird diversity were associated with marshes and water bodies, shrublands, and irrigated crops, whilst the breeding hotspots were associated with more natural areas (e.g. transitional wood/shrubs), such as open areas (natural grasslands, pastures and not irrigated crops). Moreover, the results underlined the negative effects of permanent crops, such as vineyards, olive groves, and orchards, in particular during the winter season. This research highlights the importance of farmland areas mainly for wintering species and the importance of open areas for breeding species in the Mediterranean Basin. This may be true even when the species' spatial distribution could be affected by biogeography. An important result showed that the hotspots for breeding species cannot be used as a surrogate for the wintering species, which were often not considered in the planning of protected areas.

The Importance of Rotational Crops for Biodiversity Conservation in Mediterranean Areas

PubMed Central

Chiatante, Gianpasquale; Meriggi, Alberto

2016-01-01

Nowadays we are seeing the largest biodiversity loss since the extinction of the dinosaurs. To conserve biodiversity it is essential to plan protected areas using a prioritization approach, which takes into account the current biodiversity value of the sites. Considering that in the Mediterranean Basin the agro-ecosystems are one of the most important parts of the landscape, the conservation of crops is essential to biodiversity conservation. In the framework of agro-ecosystem conservation, farmland birds play an important role because of their representativeness, and because of their steady decline in the last Century in Western Europe. The main aim of this research was to define if crop dominated landscapes could be useful for biodiversity conservation in a Mediterranean area in which the landscape was modified by humans in the last thousand years and was affected by the important biogeographical phenomenon of peninsula effect. To assess this, we identify the hotspots and the coldspots of bird diversity in southern Italy both during the winter and in the breeding season. In particular we used a scoring method, defining a biodiversity value for each cell of a 1-km grid superimposed on the study area, using data collected by fieldwork following a stratified random sampling design. This value was analysed by a multiple linear regression analysis and was predicted in the whole study area. Then we defined the hotspots and the coldspots of the study area as 15% of the cells with higher and lower value of biodiversity, respectively. Finally, we used GAP analysis to compare hotspot distribution with the current network of protected areas. This study showed that the winter hotspots of bird diversity were associated with marshes and water bodies, shrublands, and irrigated crops, whilst the breeding hotspots were associated with more natural areas (e.g. transitional wood/shrubs), such as open areas (natural grasslands, pastures and not irrigated crops). Moreover, the results underlined the negative effects of permanent crops, such as vineyards, olive groves, and orchards, in particular during the winter season. This research highlights the importance of farmland areas mainly for wintering species and the importance of open areas for breeding species in the Mediterranean Basin. This may be true even when the species’ spatial distribution could be affected by biogeography. An important result showed that the hotspots for breeding species cannot be used as a surrogate for the wintering species, which were often not considered in the planning of protected areas. PMID:26918960

Improving Charging-Breeding Simulations with Space-Charge Effects

NASA Astrophysics Data System (ADS)

Bilek, Ryan; Kwiatkowski, Ania; Steinbrügge, René

2016-09-01

Rare-isotope-beam facilities use Highly Charged Ions (HCI) for accelerators accelerating heavy ions and to improve measurement precision and resolving power of certain experiments. An Electron Beam Ion Trap (EBIT) is able to create HCI through successive electron impact, charge breeding trapped ions into higher charge states. CBSIM was created to calculate successive charge breeding with an EBIT. It was augmented by transferring it into an object-oriented programming language, including additional elements, improving ion-ion collision factors, and exploring the overlap of the electron beam with the ions. The calculation is enhanced with the effects of residual background gas by computing the space charge due to charge breeding. The program assimilates background species, ionizes and charge breeds them alongside the element being studied, and allows them to interact with the desired species through charge exchange, giving fairer overview of realistic charge breeding. Calculations of charge breeding will be shown for realistic experimental conditions. We reexamined the implementation of ionization energies, cross sections, and ion-ion interactions when charge breeding.

Seabird Conservation Planning in the Pacific Region

Treesearch

Kyra L. Mills; Maura Naughton; Gregg Elliott

2005-01-01

The North Pacific is a highly productive marine area, sustaining millions of resident and migratory marine birds. These birds are faced with a variety of threats, both on land, where they breed and roost, and at sea, where they forage for food. Several seabird conservation plans are currently underway in this region. The U. S. Fish and Wildlife Service (USFWS) Pacific...

[Strategies for Conservation of Endangered Amphibian and Reptile Species].

PubMed

Anan'eva, N B; Uteshev, V K; Orlova, N L; Gakhova, E N

2015-01-01

Strategies for conservation of endangered amphibian and reptile species are discussed. One-fifth of all vertebrates belongs to the category of "endangered species," and amphibians are first on the list (41%). Every fifth reptile species is in danger of extinction, and insufficient information is characteristic of every other fifth. As has been demonstrated, efficient development of a network of nature conservation areas, cryopreservation, and methods for laboratory breeding and reintroduction play.the key roles in adequate strategies for preservation of amphibians and reptiles.

Counteracting wetland overgrowth increases breeding and staging bird abundances

NASA Astrophysics Data System (ADS)

Lehikoinen, Petteri; Lehikoinen, Aleksi; Mikkola-Roos, Markku; Jaatinen, Kim

2017-01-01

Human actions have led to loss and degradation of wetlands, impairing their suitability as habitat especially for waterbirds. Such negative effects may be mitigated through habitat management. To date scientific evidence regarding the impacts of these actions remains scarce. We studied guild specific abundances of breeding and staging birds in response to habitat management on 15 Finnish wetlands. In this study management actions comprised several means of vegetation removal to thwart overgrowth. Management cost efficiency was assessed by examining the association between site-specific costs and bird abundances. Several bird guilds exhibited positive connections with both habitat management as well as with invested funds. Most importantly, however, red-listed species and species with special conservation concern as outlined by the EU showed positive correlations with management actions, underlining the conservation value of wetland management. The results suggest that grazing was especially efficient in restoring overgrown wetlands. As a whole this study makes it clear that wetland habitat management constitutes a feasible conservation tool. The marked association between invested funds and bird abundance may prove to be a valuable tool for decision makers when balancing costs and impact of conservation measures against one another.

[Current status and prospects of traditional Chinese medicine resource ex-situ conservation].

PubMed

Que, Ling; Yang, Guang; Miao, Jian-Hua; Wang, Hai-Yang; Chen, Min; Zang, Chun-Xin

2016-10-01

Protection of traditional Chinese medicine (TCM) resources is the foundation of sustainable development of TCM industry, which includes the in-situ and ex-situ conservation. The development of TCM resource ex-situ conservation was reviewed, and hotpots in the conservation and its development practices were analyzed. Therefore national TCM resource ex-situ conservation systems were proposed, including the establishment of TCM resources introduction gardens, TCM resource in vitro conservation library and TCM resource bio-information sharing platform, rational distribution of TCM resources ex-situ conservation agencies, along with the advancement of TCM varieties breeding, and the perfection of Chinese herbal medicines seed and seedlings market, which are of significant importance on the guidance of TCM resource ex-situ conservation development. Copyright© by the Chinese Pharmaceutical Association.

DNA typing of Pakistani cattle breeds Tharparkar and Red Sindhi by microsatellite markers.

PubMed

Azam, Amber; Babar, Masroor Ellahi; Firyal, Sehrish; Anjum, Aftab Ahmad; Akhtar, Nabeela; Asif, Muhammad; Hussain, Tanveer

2012-02-01

Microsatellite markers are used for any individual identity and breed characterization in animals that is an efficient and successful way of investigation. They are used for multiple purposes as genetic detectors including, rapid mutation rate, high level of polymorphism, and range of variety of microsatellite markers available. A panel of 19 microsatellite markers was developed for breed characterization in Tharparkar and Red Sindhi breeds of cattle in Pakistan. Forty four blood samples of cattle (each breed) were collected from Department of Livestock Management, Sindh Agriculture University, Tandojam, Tando Qaiser, Tharparkar Cattle Farm Nabi sar Road, Umer Kot, Sindh, and Govt. Red Sindhi Cattle Breeding Farm, Tando Muhammad Khan Pakistan. Breed characterization was 100% successful. Average PIC, He and Power of Exclusion values were found to be 0.91, 0.62 and 13.28, respectively. Pattern of allelic frequencies of most of the microsatellite markers were clearly distinct between two breeds. As a result of present study a reliable, efficient and very informative panel of microsatellite markers was successfully developed which was capable to interpret individual identity, forensic cases and breed characterization in cattle. This facility is ready to be provided to local cattle breeder at commercial level for DNA testing of cattle. This study will also be highly helpful for breed conservation of cattle. In addition this study can also become a basis to open up new disciplines of animal forensics in Pakistan.

Breeding design considerations for coastal Douglas-fir.

Treesearch

Randy Johnson

1998-01-01

The basic principles of designing forest tree breeding programs are reviewed for Douglas-fir (Pseudotsuga menziesii (Mirb.) Franco) in the Pacific Northwest. Breeding populations are discussed given current and future breeding zone sizes and seed orchard designs. Seed orchard composition is discussed for potential genetic gain and maintaining...

Habitat selection, movement patterns, and hazards encountered by northern leopard frogs (Lithobates pipiens) in an agricultural landscape

USGS Publications Warehouse

Knutson, Melinda G.; Herner-Thogmartin, Jennifer H.; Thogmartin, Wayne E.; Kapfer, Joshua M.; Nelson, John

2018-01-01

Telemetry data for 59 Northern Leopard Frogs (Lithobates pipiens) breeding in ponds in Houston and Winona Counties, MN; 2001-2002. Agricultural intensification is causing declines in many wildlife species, including Northern Leopard Frogs (Lithobates pipiens). Specific information about frog movements, habitat selection, and sources of mortality can be used to inform conservation-focused land management and acquisition. We studied Northern Leopard Frogs in southeastern Minnesota, part of the Driftless Area ecoregion, characterized by hills and valleys and a mix of agriculture, forests, small towns and farmsteads. In this area, small farm ponds, originally built to control soil erosion are used by the species for breeding and wintering in addition to riparian wetlands. But, this agricultural landscape may be hazardous for frogs moving between breeding, feeding, and wintering habitats. We surgically implanted transmitters into the peritoneal cavity of 59 Northern Leopard Frogs and tracked them from May to October 2001-2002. The total distance traveled by radio-tagged frogs ranged from 12 to 3316 m, the 95% home range averaged 5.3 ± 1.2 (SE) ha, and the 50% core area averaged 1.05 ± 0.3 (SE) ha. As expected, Northern Leopard Frogs selected wetlands over all other land cover classes and row crops were generally avoided at all levels of selection. Only a few tracked frogs were successful at dispersing (n = 6). Most frogs attempting to disperse (n =31) ended up missing (n = 14), died due to mowing (n = 8), or were recorded as transmitter failure (n = 2) or unknown mortalities (n = 1). For the conservation of Northern Leopard Frogs in this agricultural setting, we must consider both the aquatic and the terrestrial needs of this species. Conservation agencies that restore, manage, and acquire wetlands should consider the hazards posed by land uses adjacent to frog breeding and wintering sites and plan for movement corridors between these locations. For example, grasslands that are mowed or hayed between April and October in the north central U.S. and are adjacent to wetlands, pose a direct threat to frogs because these cultivated grasslands are primary locations for summer occupancy. When conservation land managers are selecting sites for acquisition or restoration they should avoid investments that will situate the wetland adjacent to heavily travelled roads and agricultural lands likely to be mowed or hayed. Increasing habitat amount and quality at amphibian breeding, feeding and wintering sites should reduce the energy required and hazards associated with moving long distances. Large, diverse wetlands probably provide all of the requirements needed by Northern Leopard Frogs for survival including food, shelter, breeding and overwintering areas.

Historical use of cultivars as parents in Florida and Louisiana sugarcane breeding program

USDA-ARS?s Scientific Manuscript database

Sugarcane (Saccharum L. spp. hybrids) growers depend on breeding programs for new, high-yielding cultivars that have resistance to abiotic and biotic stresses, so breeders continually seek out widely adapted, high yielding germplasm to be used as parents for their programs. Cultivars are sometimes u...

Dynamics of habitat selection in birds: adaptive response to nest predation depends on multiple factors.

PubMed

Devries, J H; Clark, R G; Armstrong, L M

2018-05-01

According to theory, habitat selection by organisms should reflect underlying habitat-specific fitness consequences and, in birds, reproductive success has a strong impact on population growth in many species. Understanding processes affecting habitat selection also is critically important for guiding conservation initiatives. Northern pintails (Anas acuta) are migratory, temperate-nesting birds that breed in greatest concentrations in the prairies of North America and their population remains below conservation goals. Habitat loss and changing land use practices may have decoupled formerly reliable fitness cues with respect to nest habitat choices. We used data from 62 waterfowl nesting study sites across prairie Canada (1997-2009) to examine nest survival, a primary fitness metric, at multiple scales, in combination with estimates of habitat selection (i.e., nests versus random points), to test for evidence of adaptive habitat choices. We used the same habitat covariates in both analyses. Pintail nest survival varied with nest initiation date, nest habitat, pintail breeding pair density, landscape composition and annual moisture. Selection of nesting habitat reflected patterns in nest survival in some cases, indicating adaptive selection, but strength of habitat selection varied seasonally and depended on population density and landscape composition. Adaptive selection was most evident late in the breeding season, at low breeding densities and in cropland-dominated landscapes. Strikingly, at high breeding density, habitat choice appears to become maladaptive relative to nest predation. At larger spatial scales, the relative availability of habitats with low versus high nest survival, and changing land use practices, may limit the reproductive potential of pintails.

Population trends of Rhinolophus affinis during the breeding and non-breeding season roosting at the Kota Gelanggi limestone complex, Pahang

NASA Astrophysics Data System (ADS)

Sia, Ting Jin; Zubaid, Akbar; Foo, Ng Yong

2015-09-01

Monitoring population trends of bats in caves is difficult but is very important for their conservation. Their vulnerability to decline cannot be taken lightly and must be monitored for future management purposes especially in places open to the public. No studies have been done on bats roosting in caves at Kota Gelanggi and there are very few published studies of cave-dwelling bats in Malaysia. To fill this gap, a study on monitoring the population trends of Rhinolophus affinis was carried out in two caves namely, Gua Kepala Gajah and Gua Tongkat. This study was conducted from October 2013 until December 2014. The population size was estimated by direct visual counts and photographic methods during the day. The bats were caught by using mists net and harp traps. The reproductive condition of both female and male individuals was examined. The mean estimated population size for R. affinis in Gua Kepala Gajah was 221 individuals and 464 in Gua Tongkat. The population size of R. affinis showed an obvious decline during the breeding season and increased gradually after that for both caves. Pregnant R. affinis were found in April 2014 and lactating in June 2014 in both caves. It is important to know the breeding and non-breeding season of bats in both caves and their roosting behaviour in order to protect the bats from human disturbance as these caves are open to the public. The findings will enable the TEKAM management to come out with a proper conservation and management plan for protecting the bat fauna in these caves.

Genetic profile of scrapie codons 146, 211 and 222 in the PRNP gene locus in three breeds of dairy goats.

PubMed

Vouraki, Sotiria; Gelasakis, Athanasios I; Alexandri, Panoraia; Boukouvala, Evridiki; Ekateriniadou, Loukia V; Banos, Georgios; Arsenos, Georgios

2018-01-01

Polymorphisms at PRNP gene locus have been associated with resistance against classical scrapie in goats. Genetic selection on this gene within appropriate breeding programs may contribute to the control of the disease. The present study characterized the genetic profile of codons 146, 211 and 222 in three dairy goat breeds in Greece. A total of 766 dairy goats from seven farms were used. Animals belonged to two indigenous Greek, Eghoria (n = 264) and Skopelos (n = 287) and a foreign breed, Damascus (n = 215). Genomic DNA was extracted from blood samples from individual animals. Polymorphisms were detected in these codons using Real-Time PCR analysis and four different Custom TaqMan® SNP Genotyping Assays. Genotypic, allelic and haplotypic frequencies were calculated based on individual animal genotypes. Chi-square tests were used to examine Hardy-Weinberg equilibrium state and compare genotypic distribution across breeds. Genetic distances among the three breeds, and between these and 30 breeds reared in other countries were estimated based on haplotypic frequencies using fixation index FST with Arlequin v3.1 software; a Neighbor-Joining tree was created using PHYLIP package v3.695. Level of statistical significance was set at P = 0.01. All scrapie resistance-associated alleles (146S, 146D, 211Q and 222K) were detected in the studied population. Significant frequency differences were observed between the indigenous Greek and Damascus breeds. Alleles 222K and 146S had the highest frequency in the two indigenous and the Damascus breed, respectively (ca. 6.0%). The studied breeds shared similar haplotypic frequencies with most South Italian and Turkish breeds but differed significantly from North-Western European, Far East and some USA goat breeds. Results suggest there is adequate variation in the PRNP gene locus to support breeding programs for enhanced scrapie resistance in goats reared in Greece. Genetic comparisons among goat breeds indicate that separate breeding programs should apply to the two indigenous and the imported Damascus breeds.

Conservation Status of North American Birds in the Face of Future Climate Change.

PubMed

Langham, Gary M; Schuetz, Justin G; Distler, Trisha; Soykan, Candan U; Wilsey, Chad

2015-01-01

Human-induced climate change is increasingly recognized as a fundamental driver of biological processes and patterns. Historic climate change is known to have caused shifts in the geographic ranges of many taxa and future climate change is expected to result in even greater redistributions of species. As a result, predicting the impact of climate change on future patterns of biodiversity will greatly aid conservation planning. Using the North American Breeding Bird Survey and Audubon Christmas Bird Count, two of the most comprehensive continental datasets of vertebrates in the world, and correlative distribution modeling, we assessed geographic range shifts for 588 North American bird species during both the breeding and non-breeding seasons under a range of future emission scenarios (SRES A2, A1B, B2) through the end of the century. Here we show that 314 species (53%) are projected to lose more than half of their current geographic range across three scenarios of climate change through the end of the century. For 126 species, loss occurs without concomitant range expansion; whereas for 188 species, loss is coupled with potential to colonize new replacement range. We found no strong associations between projected climate sensitivities and existing conservation prioritizations. Moreover, species responses were not clearly associated with habitat affinities, migration strategies, or climate change scenarios. Our results demonstrate the need to include climate sensitivity into current conservation planning and to develop adaptive management strategies that accommodate shrinking and shifting geographic ranges. The persistence of many North American birds will depend on their ability to colonize climatically suitable areas outside of current ranges and management actions that target climate adaptation.

Reproductive traits affect the rescue of valuable and endangered multipurpose tropical trees

PubMed Central

Sinébou, Viviane; Quinet, Muriel; Ahohuendo, Bonaventure C.; Jacquemart, Anne-Laure

2016-01-01

Conservation strategies are urgently needed in Tropical areas for widely used tree species. Increasing numbers of species are threatened by overexploitation and their recovery might be poor due to low reproductive success and poor regeneration rates. One of the first steps in developing any conservation policy should be an assessment of the reproductive biology of species that are threatened by overexploitation. This work aimed to study the flowering biology, pollination and breeding system of V. doniana, a multipurpose threatened African tree, as one step in assessing the development of successful conservation strategies. To this end, we studied (1) traits directly involved in pollinator attraction like flowering phenology, flower numbers and morphology, and floral rewards; (2) abundance, diversity and efficiency of flower visitors; (3) breeding system, through controlled hand-pollination experiments involving exclusion of pollinators and pollen from different sources; and (4) optimal conditions for seed germination. The flowering phenology was asynchronous among inflorescences, trees and sites. The flowers produced a large quantity of pollen and nectar with high sugar content. Flowers attracted diverse and abundant visitors, counting both insects and birds, and efficient pollinators included several Hymenoptera species. We detected no spontaneous self-pollination, indicating a total dependence on pollen vectors. Vitex doniana is self-compatible and no inbreeding depression occurred in the first developmental stages. After extraction of the seed from the fruit, seed germination did not require any particular conditions or pre-treatments and the seeds showed high germination rates. These pollination and breeding characteristics as well as germination potential offer the required conditions to develop successful conservation strategies. Protection, cultivation and integration in agroforestry systems are required to improve the regeneration of the tree. PMID:27354660

Conservation Status of North American Birds in the Face of Future Climate Change

PubMed Central

Langham, Gary M.; Schuetz, Justin G.; Distler, Trisha; Soykan, Candan U.; Wilsey, Chad

2015-01-01

Human-induced climate change is increasingly recognized as a fundamental driver of biological processes and patterns. Historic climate change is known to have caused shifts in the geographic ranges of many taxa and future climate change is expected to result in even greater redistributions of species. As a result, predicting the impact of climate change on future patterns of biodiversity will greatly aid conservation planning. Using the North American Breeding Bird Survey and Audubon Christmas Bird Count, two of the most comprehensive continental datasets of vertebrates in the world, and correlative distribution modeling, we assessed geographic range shifts for 588 North American bird species during both the breeding and non-breeding seasons under a range of future emission scenarios (SRES A2, A1B, B2) through the end of the century. Here we show that 314 species (53%) are projected to lose more than half of their current geographic range across three scenarios of climate change through the end of the century. For 126 species, loss occurs without concomitant range expansion; whereas for 188 species, loss is coupled with potential to colonize new replacement range. We found no strong associations between projected climate sensitivities and existing conservation prioritizations. Moreover, species responses were not clearly associated with habitat affinities, migration strategies, or climate change scenarios. Our results demonstrate the need to include climate sensitivity into current conservation planning and to develop adaptive management strategies that accommodate shrinking and shifting geographic ranges. The persistence of many North American birds will depend on their ability to colonize climatically suitable areas outside of current ranges and management actions that target climate adaptation. PMID:26333202

Reproductive traits affect the rescue of valuable and endangered multipurpose tropical trees.

PubMed

Sinébou, Viviane; Quinet, Muriel; Ahohuendo, Bonaventure C; Jacquemart, Anne-Laure

2016-01-01

Conservation strategies are urgently needed in Tropical areas for widely used tree species. Increasing numbers of species are threatened by overexploitation and their recovery might be poor due to low reproductive success and poor regeneration rates. One of the first steps in developing any conservation policy should be an assessment of the reproductive biology of species that are threatened by overexploitation. This work aimed to study the flowering biology, pollination and breeding system of V. doniana, a multipurpose threatened African tree, as one step in assessing the development of successful conservation strategies. To this end, we studied (1) traits directly involved in pollinator attraction like flowering phenology, flower numbers and morphology, and floral rewards; (2) abundance, diversity and efficiency of flower visitors; (3) breeding system, through controlled hand-pollination experiments involving exclusion of pollinators and pollen from different sources; and (4) optimal conditions for seed germination. The flowering phenology was asynchronous among inflorescences, trees and sites. The flowers produced a large quantity of pollen and nectar with high sugar content. Flowers attracted diverse and abundant visitors, counting both insects and birds, and efficient pollinators included several Hymenoptera species. We detected no spontaneous self-pollination, indicating a total dependence on pollen vectors. Vitex doniana is self-compatible and no inbreeding depression occurred in the first developmental stages. After extraction of the seed from the fruit, seed germination did not require any particular conditions or pre-treatments and the seeds showed high germination rates. These pollination and breeding characteristics as well as germination potential offer the required conditions to develop successful conservation strategies. Protection, cultivation and integration in agroforestry systems are required to improve the regeneration of the tree. Published by Oxford University Press on behalf of the Annals of Botany Company.

Extending RosBREED in the Pacific Northwest for strawberry processing traits: year 1

USDA-ARS?s Scientific Manuscript database

In an effort to implement marker-assisted breeding in Rosaceae, many traits need to be characterized in diverse germplasm. The USDA-NIFA Specialty Crop Research Initiative-funded RosBREED project includes breeding programs of four Rosaceae crops (apple, peach, cherry, and strawberry). Phenotyping ea...

Genome-wide genetic diversity, population structure and admixture analysis in African and Asian cattle breeds.

PubMed

Edea, Z; Bhuiyan, M S A; Dessie, T; Rothschild, M F; Dadi, H; Kim, K S

2015-02-01

Knowledge about genetic diversity and population structure is useful for designing effective strategies to improve the production, management and conservation of farm animal genetic resources. Here, we present a comprehensive genome-wide analysis of genetic diversity, population structure and admixture based on 244 animals sampled from 10 cattle populations in Asia and Africa and genotyped for 69,903 autosomal single-nucleotide polymorphisms (SNPs) mainly derived from the indicine breed. Principal component analysis, STRUCTURE and distance analysis from high-density SNP data clearly revealed that the largest genetic difference occurred between the two domestic lineages (taurine and indicine), whereas Ethiopian cattle populations represent a mosaic of the humped zebu and taurine. Estimation of the genetic influence of zebu and taurine revealed that Ethiopian cattle were characterized by considerable levels of introgression from South Asian zebu, whereas Bangladeshi populations shared very low taurine ancestry. The relationships among Ethiopian cattle populations reflect their history of origin and admixture rather than phenotype-based distinctions. The high within-individual genetic variability observed in Ethiopian cattle represents an untapped opportunity for adaptation to changing environments and for implementation of within-breed genetic improvement schemes. Our results provide a basis for future applications of genome-wide SNP data to exploit the unique genetic makeup of indigenous cattle breeds and to facilitate their improvement and conservation.

Annual migratory patterns of long-billed curlews in the American west

USGS Publications Warehouse

Page, Gary W.; Warnock, Nils; Tibbitts, T. Lee; Jorgensen, Dennis; Hartman, C. Alex; Stenzel, Lynne E.

2014-01-01

Effective conservation of migratory species requires comprehensive knowledge of annual movement patterns. Such information is sparse for the Long-billed Curlew (Numenius americanus), a North American endemic shorebird of conservation concern. To test hypotheses about individual and area differences in migratory patterns across western North America, we tagged 29 curlews with satellite transmitters at breeding sites in Oregon, Nevada, and Montana. Transmissions from 28 birds for up to 4 years demonstrated that all wintered within the species’ known winter range, including 9 from Oregon tracked to agricultural areas of California’s Central Valley; 5 from Nevada tracked to the Central Valley, northern Gulf of California, or west coast of Baja California, Mexico; and 14 from Montana that wintered inland, from the Texas Panhandle south to the Mexican Plateau, or near the Gulf of Mexico. Montana breeders migrated east of the Rocky Mountains and traveled more than twice the distance of Oregon and Nevada breeders. Montana birds also stopped more often and longer during most passages. As a group, curlews arrived on their Oregon breeding grounds earlier than in Montana, while males preceded females in Montana and possibly Oregon. No consistent pattern emerged between sexes in departure from breeding areas, although within pairs males departed later than their mates. Individuals exhibited strong fidelity to breeding and wintering sites, and many birds showed a strong propensity for agricultural regions during winter. Our results underscore the importance of studying

PALLAS BARLEY, A VARIETY PRODUCED BY IONIZING RADIATION: ITS SIGNIFICANCE FOR PLANT BREEDING AND EVOLUTION

DOE Office of Scientific and Technical Information (OSTI.GOV)

Borg, G.; Froier, K.f Gustafsson, A.

1959-10-31

Results are reported from plant breeding programs in which mutations induced in barley by irradiation resulted in the development of a variety with characteristics superior to the parents. Good results were also reported in the development of superior varieties of oil rape, white mustard, and pea plants. The usefulness of radiation-induced mutations in plant breeding programs is discussed. (C.H.)

Genetic characterization of Russian honey bee stock selected for improved resistance to Varroa destructor.

PubMed

Bourgeois, A Lelania; Rinderer, Thomas E

2009-06-01

Maintenance of genetic diversity among breeding lines is important in selective breeding and stock management. The Russian Honey Bee Breeding Program has strived to maintain high levels of heterozygosity among its breeding lines since its inception in 1997. After numerous rounds of selection for resistance to tracheal and varroa mites and improved honey production, 18 lines were selected as the core of the program. These lines were grouped into three breeding blocks that were crossbred to improve overall heterozygosity levels of the population. Microsatellite DNA data demonstrated that the program has been successful. Heterozygosity and allelic richness values are high and there are no indications of inbreeding among the three blocks. There were significant levels of genetic structure measured among the three blocks. Block C was genetically distinct from both blocks A and B (F(ST) = 0.0238), whereas blocks A and B did not differ from each other (F(ST) = 0.0074). The same pattern was seen for genic (based on numbers of alleles) differentiation. Genetic distance, as measured by chord distance, indicates that all of the 18 lines are equally distant, with minimal clustering. The data indicate that the overall design of the breeding program has been successful in maintaining high levels of diversity and avoiding problems associated with inbreeding.

The disadvantages of mating outside home: How breeding in captivity affects the reproductive success of seahorses?

NASA Astrophysics Data System (ADS)

Faleiro, Filipa; Narciso, Luís

2013-04-01

In captivity, husbandry conditions are distinct from those experienced by fish in the wild and may have a significant effect on reproductive success. This study evaluates the effect of supportive breeding (i.e., breeding animals in captivity using wild parents) on some quantitative and qualitative aspects of the reproductive success of the long-snouted seahorse, Hippocampus guttulatus. Wild and captive broods were compared in terms of juvenile number, size, condition and fatty acid profile at birth. Reproductive investment and breeding success of H. guttulatus decreased considerably in captivity. Juveniles from captive broods were fewer in number, smaller, generally thinner and with lower fatty acid contents (per juvenile) than those from wild broods, although their fatty acid composition (μg mg- 1 DW or %TFA) was not significantly affected. Although not greatly encouraging, the poor reproductive performance of captive seahorses should not, however, efface the potential of supportive breeding as a tool for seahorse conservation. Enhanced conditions and long-term breeding in captivity will allow to improve the reproductive success of the species and the quality of the fingerlings.

Assessing ecological correlates of marine bird declines to inform marine conservation.

PubMed

Vilchis, L Ignacio; Johnson, Christine K; Evenson, Joseph R; Pearson, Scott F; Barry, Karen L; Davidson, Peter; Raphael, Martin G; Gaydos, Joseph K

2015-02-01

Identifying drivers of ecosystem change in large marine ecosystems is central for their effective management and conservation. This is a sizable challenge, particularly in ecosystems transcending international borders, where monitoring and conservation of long-range migratory species and their habitats are logistically and financially problematic. Here, using tools borrowed from epidemiology, we elucidated common drivers underlying species declines within a marine ecosystem, much in the way epidemiological analyses evaluate risk factors for negative health outcomes to better inform decisions. Thus, we identified ecological traits and dietary specializations associated with species declines in a community of marine predators that could be reflective of ecosystem change. To do so, we integrated count data from winter surveys collected in long-term marine bird monitoring programs conducted throughout the Salish Sea--a transboundary large marine ecosystem in North America's Pacific Northwest. We found that decadal declines in winter counts were most prevalent among pursuit divers such as alcids (Alcidae) and grebes (Podicipedidae) that have specialized diets based on forage fish, and that wide-ranging species without local breeding colonies were more prone to these declines. Although a combination of factors is most likely driving declines of diving forage fish specialists, we propose that changes in the availability of low-trophic prey may be forcing wintering range shifts of diving birds in the Salish Sea. Such a synthesis of long-term trends in a marine predator community not only provides unique insights into the types of species that are at risk of extirpation and why, but may also inform proactive conservation measures to counteract threats--information that is paramount for species-specific and ecosystem-wide conservation. © 2014 The Authors. Conservation Biology published by Wiley Periodicals, Inc., on behalf of the Society for Conservation Biology.

Genetic diversity in intraspecific hybrid populations of Eucommia ulmoides Oliver evaluated from ISSR and SRAP molecular marker analysis.

PubMed

Yu, J; Wang, Y; Ru, M; Peng, L; Liang, Z S

2015-07-03

Eucommia ulmoides Oliver, the only extant species of Eucommiaceae, is a second-category state-protected endangered plant in China. Evaluation of genetic diversity among some intraspecific hybrid populations of E. ulmoides Oliver is vital for breeding programs and further conservation of this rare species. We studied the genetic diversity of 130 accessions from 13 E. ulmoides intraspecific hybrid populations using inter-simple sequence related (ISSR) and sequence-related amplified polymorphism (SRAP) markers. Of the 100 ISSR primers and 100 SRAP primer combinations screened, eight ISSRs and eight SRAPs were used to evaluate the level of polymorphism and discriminating capacity. A total number of 65 bands were amplified using eight ISSR primers, in which 50 bands (76.9%) were polymorphic, with an average of 8.1 polymorphic fragments per primer. Alternatively, another 244 bands were observed using eight SRAP primer combinations, and 163 (66.8%) of them were polymorphic, with an average of 30.5 polymorphic fragments per primer. The unweighted pair-group method (UPGMA) analysis showed that these 13 populations could be classified into three groups by the ISSR marker and two groups by the SRAP marker. Principal coordinate analysis using SRAP was completely identical to the UPGMA-based clustering, although this was partly confirmed by the results of UPGMA cluster analysis using the ISSR marker. This study provides insights into the genetic background of E. ulmoides intraspecific hybrids. The progenies of the variations "Huazhong-3", "big fruit", "Yanci", and "smooth bark" present high genetic diversity and offer great potential for E. ulmoides breeding and conservation.

Access to bird population data

USGS Publications Warehouse

Martin, E.; Peterjohn, B.G.; Koneff, M.D.

2001-01-01

Access to bird population data is critical for effective conservation planning and implementation. Although a tremendous volume of baseline data exists, it is often diffusely distributed and inaccessible to the resource manager and decision maker. A mechanism that facilitates assembly, documentation and delivery of avian data in a user-friendly manner is needed in order to integrate bird-related information resources across agencies and organizations. To address this fundamental need, the National Biological Information Infrastructure (NBII), in partnership with the U.S. Geological Survey's Patuxent Wildlife Research Center and the U.S. Fish and Wildlife Service, is developing a web-based interactive system that will focus on access to bird population and habitat data used in bird management and conservation. This system, known as the NBII Bird Conservation Node, will support planning and evaluation of bird conservation activities within the context of the North American Bird Conservation Initiative (NABCI), a framework for collaboration among organizations interested in bird conservation across North America. Initial development of the NBII Bird Conservation Node will focus on creating a prototype mapping application that will provide interactive access to data from the North American Breeding Bird Survey, the Colonial Waterbird Survey, the Breeding Waterfowl Population and Habitat Survey, and the Atlantic Flyway Mid-winter Waterfowl Survey. This prototype mapping application, to be available on-line at http://www.nbii.gov by Sep 2001, will lay the foundation for establishment of a Migratory Bird Data Center at Patuxent Wildlife Research Center, and will provide an opportunity for linking to and establishing partnerships with other sources of bird population and habitat data available over the Internet.

Fuel Breeding and Core Behavior Analyses on In Core Fuel Management of Water Cooled Thorium Reactors

DOE Office of Scientific and Technical Information (OSTI.GOV)

Permana, Sidik; Department of Physics, Bandung Institute of Technology, Gedung Fisika, Jl. Ganesha 10, Bandung 40132; Sekimoto, Hiroshi

2010-12-23

Thorium fuel cycle with recycled U-233 has been widely recognized having some contributions to improve the water-cooled breeder reactor program which has been shown by a feasible area of breeding and negative void reactivity which confirms that fissile of 233U contributes to better fuel breeding and effective for obtaining negative void reactivity coefficient as the main fissile material. The present study has the objective to estimate the effect of whole core configuration as well as burnup effects to the reactor core profile by adopting two dimensional model of fuel core management. About more than 40 months of cycle period hasmore » been employed for one cycle fuel irradiation of three batches fuel system for large water cooled thorium reactors. All position of fuel arrangement contributes to the total core conversion ratio which gives conversion ratio less than unity of at the BOC and it contributes to higher than unity (1.01) at the EOC after some irradiation process. Inner part and central part give the important part of breeding contribution with increasing burnup process, while criticality is reduced with increasing the irradiation time. Feasibility of breeding capability of water-cooled thorium reactors for whole core fuel arrangement has confirmed from the obtained conversion ratio which shows higher than unity. Whole core analysis on evaluating reactivity change which is caused by the change of voided condition has been employed for conservative assumption that 100% coolant and moderator are voided. It obtained always a negative void reactivity coefficient during reactor operation which shows relatively more negative void coefficient at BOC (fresh fuel composition), and it becomes less negative void coefficient with increasing the operation time. Negative value of void reactivity coefficient shows the reactor has good safety properties in relation to the reactivity profile which is the main parameter in term of criticality safety analysis. Therefore, this evaluation has confirmed that breeding condition and negative coefficient can be obtained simultaneously for water-cooled thorium reactor obtains based on the whole core fuel arrangement.« less

Global spatial ecology of three closely-related gadfly petrels

PubMed Central

Ramos, Raül; Ramírez, Iván; Paiva, Vitor H.; Militão, Teresa; Biscoito, Manuel; Menezes, Dília; Phillips, Richard A.; Zino, Francis; González-Solís, Jacob

2016-01-01

The conservation status and taxonomy of the three gadfly petrels that breed in Macaronesia is still discussed partly due to the scarce information on their spatial ecology. Using geolocator and capture-mark-recapture data, we examined phenology, natal philopatry and breeding-site fidelity, year-round distribution, habitat usage and at-sea activity of the three closely-related gadfly petrels that breed in Macaronesia: Zino’s petrel Pterodroma madeira, Desertas petrel P. deserta and Cape Verde petrel P. feae. All P. feae remained around the breeding area during their non-breeding season, whereas P. madeira and P. deserta dispersed far from their colony, migrating either to the Cape Verde region, further south to equatorial waters in the central Atlantic, or to the Brazil Current. The three taxa displayed a clear allochrony in timing of breeding. Habitat modelling and at-sea activity patterns highlighted similar environmental preferences and foraging behaviours of the three taxa. Finally, no chick or adult was recaptured away from its natal site and survival estimates were relatively high at all study sites, indicating strong philopatry and breeding-site fidelity for the three taxa. The combination of high philopatry, marked breeding asynchrony and substantial spatio-temporal segregation of their year-round distribution suggest very limited gene flow among the three taxa. PMID:27001141

Global spatial ecology of three closely-related gadfly petrels

NASA Astrophysics Data System (ADS)

Ramos, Raül; Ramírez, Iván; Paiva, Vitor H.; Militão, Teresa; Biscoito, Manuel; Menezes, Dília; Phillips, Richard A.; Zino, Francis; González-Solís, Jacob

2016-03-01

The conservation status and taxonomy of the three gadfly petrels that breed in Macaronesia is still discussed partly due to the scarce information on their spatial ecology. Using geolocator and capture-mark-recapture data, we examined phenology, natal philopatry and breeding-site fidelity, year-round distribution, habitat usage and at-sea activity of the three closely-related gadfly petrels that breed in Macaronesia: Zino’s petrel Pterodroma madeira, Desertas petrel P. deserta and Cape Verde petrel P. feae. All P. feae remained around the breeding area during their non-breeding season, whereas P. madeira and P. deserta dispersed far from their colony, migrating either to the Cape Verde region, further south to equatorial waters in the central Atlantic, or to the Brazil Current. The three taxa displayed a clear allochrony in timing of breeding. Habitat modelling and at-sea activity patterns highlighted similar environmental preferences and foraging behaviours of the three taxa. Finally, no chick or adult was recaptured away from its natal site and survival estimates were relatively high at all study sites, indicating strong philopatry and breeding-site fidelity for the three taxa. The combination of high philopatry, marked breeding asynchrony and substantial spatio-temporal segregation of their year-round distribution suggest very limited gene flow among the three taxa.

Genomics of a revived breed: Case study of the Belgian campine cattle

PubMed Central

Wijnrocx, Katrien; Colinet, Frédéric G.; Gengler, Nicolas; Hulsegge, Bettine; Windig, Jack J.; Buys, Nadine

2017-01-01

Through centuries of both natural and artificial selection, a variety of local cattle populations arose with highly specific phenotypes. However, the intensification and expansion of scale in animal production systems led to the predominance of a few highly productive cattle breeds. The loss of local populations is often considered irreversible and with them specific qualities and rare variants could be lost as well. Over these last years, the interest in these local breeds has increased again leading to increasing efforts to conserve these breeds or even revive lost populations, e.g. through the use of crosses with similar breeds. However, the remaining populations are expected to contain crossbred individuals resulting from introgressions. They are likely to carry exogenous genes that affect the breed’s authenticity on a genomic level. Using the revived Campine breed as a case study, 289 individuals registered as purebreds were genotyped on the Illumina BovineSNP50. In addition, genomic information on the Illumina BovineHD and Illumina BovineSNP50 of ten breeds was available to assess the current population structure, genetic diversity, and introgression with phenotypically similar and/or historically related breeds. Introgression with Holstein and beef cattle genotypes was limited to only a few farms. While the current population shows a substantial amount of within-breed variation, the majority of genotypes can be separated from other breeds in the study, supporting the re-establishment of the Campine breed. The majority of the population is genetically close to the Deep Red (NL), Improved Red (NL) and Eastern Belgium Red and White (BE) cattle, breeds known for their historical ties to the Campine breed. This would support an open herdbook policy, thereby increasing the population size and consequently providing a more secure future for the breed. PMID:28426822

Postbreeding movements of the dark gopher frog, Rana sevosa goin and netting: Implications for conservation and management

Treesearch

Stephen C. Richter; Jeanne E. Young; Richard A. Seigal; Glen N. Johnson

2001-01-01

Conservation plans for amphibians often focus on activities at the breeding site, but for species that use temstrial habitats for much of the year, an understanding of nonbreeding habitat use is also essential. We used radio telemetry to study the postbreeding movements of individuals of the only known population of dark gopher frogs, Rana sevosa,...

A context for bird conservation in México: challenges and opportunities

Treesearch

Eduardo Santana C.

2005-01-01

With over 1,060 species of birds, México is among the most important countries for the conservation of birds in the world. Within the American continent it harbors the highest wintering diversity and abundance of Nearctic-Neotropical migratory land birds that breed in Canada and the U.S., as well as an exceptionally high number of endemic species (Hutto 1986...

Methods for shorebird surveys in the Arctic

Treesearch

Jonathan Bart; Susan L. Earnst

2005-01-01

A substantial effort is being made to develop a longterm monitoring program for shorebirds in North American (Brown et al. 2000, Donaldson et al. 2001, Bart et al. this volume). The current program, PRISM (Program for Regional and International Shorebird Monitoring), has four segments: arctic and boreal breeding surveys, temperate breeding surveys, temperate non-...

Integrating molecular tools and conventional approaches in the Oregon State University hazelnut breeding program

Treesearch

Shawn A. Mehlenbacher

2012-01-01

The Oregon State University (OSU) hazelnut breeding program, initiated in 1969, continues to develop new cultivars for the hazelnut industry that combine suitability to the blanched kernel market with resistance to eastern filbert blight (EFB) caused by Anisogramma anomala. Oregon's hazelnut growers support the program through the Oregon...

Lunar Gene Bank For Endangered Species

NASA Astrophysics Data System (ADS)

Swain, R.; Behera, D.; Sahoo, P. K.; Swain, S. K.; Sasmal, A.

2012-09-01

Before the dawn of the 22nd century, we face the huge risk of losing our genetic heritage accumulated during aeons of evolution. The losses include hundreds of vertebrates, hundreds of thousands of plants and over a million insect species. The gene pools of many human ethnic groups are also threatened. As we have observed, adequate conservation of habitat is unfeasible and active breeding programs cover only a handful of the many thousand species threatened. Against such indispensable losses scientists are starting cryopreservation of germplasms by creation of gene banks. I propose to construct a cDNA library based gene bank for endangered species in the permanently shadowed polar lunar craters that would provide immunity from both natural disadvantages and humanitarian intrusions [4].

Parthenogenesis in a Brazilian rainbow boa (Epicrates cenchria cenchria).

PubMed

Kinney, Matthew E; Wack, Raymund F; Grahn, Robert A; Lyons, Leslie

2013-03-01

A 22-year-old captive Brazilian rainbow boa (Epicrates cenchria cenchria) gave birth to four offspring after being housed with a vasectomized male. Sexual reproduction as a result of failed prior vasectomy, recanalization of the vas deferens, or prolonged sperm storage was ruled out using the clinical history, histopathology, and gross necropsy. Short tandem repeat (STR) DNA markers were genotyped in the male, female, and four offspring. None of the offspring possessed a diagnostic STR allele present in the potential sire. In addition, all offspring were homozygous at each STR locus evaluated, supporting parthenogenetic reproduction. This is the first report of parthenogenesis in a Brazilian rainbow boa and has implications for the conservation of reptiles maintained in captive breeding programs. © 2012 Wiley Periodicals, Inc.

Genetic Diversity Analysis of Medicinally Important Horticultural Crop Aegle marmelos by ISSR Markers.

PubMed

Mujeeb, Farina; Bajpai, Preeti; Pathak, Neelam; Verma, Smita Rastogi

2017-01-01

Inter simple sequence repeat (ISSR) markers help in identifying and determining the extent of genetic diversity in cultivars. Here, we describe their application in determining the genetic diversity of bael (Aegle marmelos Corr.). Universal ISSR primers are selected and their marker characteristics such as polymorphism information content, effective multiplex ratio and marker index have been evaluated. ISSR-PCR is then performed using universal ISSR primers to generate polymorphic bands. This information is used to determine the degree of genetic similarity among the bael varieties/accessions by cluster analysis using unweighted pair-group method with arithmetic averages (UPGMA). This technology is valuable for biodiversity conservation and for making an efficient choice of parents in breeding programs.

Integrating geo-referenced multiscale and multidisciplinary data for the management of biodiversity in livestock genetic resources.

PubMed

Joost, S; Colli, L; Baret, P V; Garcia, J F; Boettcher, P J; Tixier-Boichard, M; Ajmone-Marsan, P

2010-05-01

In livestock genetic resource conservation, decision making about conservation priorities is based on the simultaneous analysis of several different criteria that may contribute to long-term sustainable breeding conditions, such as genetic and demographic characteristics, environmental conditions, and role of the breed in the local or regional economy. Here we address methods to integrate different data sets and highlight problems related to interdisciplinary comparisons. Data integration is based on the use of geographic coordinates and Geographic Information Systems (GIS). In addition to technical problems related to projection systems, GIS have to face the challenging issue of the non homogeneous scale of their data sets. We give examples of the successful use of GIS for data integration and examine the risk of obtaining biased results when integrating datasets that have been captured at different scales.

Climate as a driver of phenological change in southern seabirds.

PubMed

Chambers, Lynda E; Dann, Peter; Cannell, Belinda; Woehler, Eric J

2014-05-01

Seabirds are one of the most threatened groups of birds globally and, overall, their conservation status is deteriorating rapidly. Southern hemisphere countries are over-represented in the number of species of conservation concern yet long-term phenological data on seabirds in the southern hemisphere is limited. A better understanding of the implications of changes in the marine and terrestrial environments to seabird species is required in order to improve their management and conservation status. Here we conducted a meta-analysis of the phenological drivers and trends among southern hemisphere seabirds. Overall there was a general trend towards later phenological events over time (34 % of all data series, N = 47; 67 % of all significant trends), though this varied by taxa and location. The strongest trends towards later events were for seabirds breeding in Australia, the Laridae (gulls, noddies, terns) and migratory southern polar seabirds. In contrast, earlier phenologies were more often observed for the Spheniscidae (penguins) and for other seabirds breeding in the Antarctic and subantarctic. Phenological changes were most often associated with changes in oceanographic conditions, with sea-ice playing an important role for more southerly species. For some species in some locations, such as the Little Penguin Eudyptula minor in south-eastern Australia, warmer oceans projected under various climate change scenarios are expected to correspond to increased seabird productivity, manifested through earlier breeding, heavier chicks, an increased chance of double brooding, at least in the short-term.

Fruit Phenolic Profiling: A New Selection Criterion in Olive Breeding Programs

PubMed Central

Pérez, Ana G.; León, Lorenzo; Sanz, Carlos; de la Rosa, Raúl

2018-01-01

Olive growing is mainly based on traditional varieties selected by the growers across the centuries. The few attempts so far reported to obtain new varieties by systematic breeding have been mainly focused on improving the olive adaptation to different growing systems, the productivity and the oil content. However, the improvement of oil quality has rarely been considered as selection criterion and only in the latter stages of the breeding programs. Due to their health promoting and organoleptic properties, phenolic compounds are one of the most important quality markers for Virgin olive oil (VOO) although they are not commonly used as quality traits in olive breeding programs. This is mainly due to the difficulties for evaluating oil phenolic composition in large number of samples and the limited knowledge on the genetic and environmental factors that may influence phenolic composition. In the present work, we propose a high throughput methodology to include the phenolic composition as a selection criterion in olive breeding programs. For that purpose, the phenolic profile has been determined in fruits and oils of several breeding selections and two varieties (“Picual” and “Arbequina”) used as control. The effect of three different environments, typical for olive growing in Andalusia, Southern Spain, was also evaluated. A high genetic effect was observed on both fruit and oil phenolic profile. In particular, the breeding selection UCI2-68 showed an optimum phenolic profile, which sums up to a good agronomic performance previously reported. A high correlation was found between fruit and oil total phenolic content as well as some individual phenols from the two different matrices. The environmental effect on phenolic compounds was also significant in both fruit and oil, although the low genotype × environment interaction allowed similar ranking of genotypes on the different environments. In summary, the high genotypic variance and the simplified procedure of the proposed methodology for fruit phenol evaluation seems to be convenient for breeding programs aiming at obtaining new cultivars with improved phenolic profile. PMID:29535752

Fruit Phenolic Profiling: A New Selection Criterion in Olive Breeding Programs.

PubMed

Pérez, Ana G; León, Lorenzo; Sanz, Carlos; de la Rosa, Raúl

2018-01-01

Olive growing is mainly based on traditional varieties selected by the growers across the centuries. The few attempts so far reported to obtain new varieties by systematic breeding have been mainly focused on improving the olive adaptation to different growing systems, the productivity and the oil content. However, the improvement of oil quality has rarely been considered as selection criterion and only in the latter stages of the breeding programs. Due to their health promoting and organoleptic properties, phenolic compounds are one of the most important quality markers for Virgin olive oil (VOO) although they are not commonly used as quality traits in olive breeding programs. This is mainly due to the difficulties for evaluating oil phenolic composition in large number of samples and the limited knowledge on the genetic and environmental factors that may influence phenolic composition. In the present work, we propose a high throughput methodology to include the phenolic composition as a selection criterion in olive breeding programs. For that purpose, the phenolic profile has been determined in fruits and oils of several breeding selections and two varieties ("Picual" and "Arbequina") used as control. The effect of three different environments, typical for olive growing in Andalusia, Southern Spain, was also evaluated. A high genetic effect was observed on both fruit and oil phenolic profile. In particular, the breeding selection UCI2-68 showed an optimum phenolic profile, which sums up to a good agronomic performance previously reported. A high correlation was found between fruit and oil total phenolic content as well as some individual phenols from the two different matrices. The environmental effect on phenolic compounds was also significant in both fruit and oil, although the low genotype × environment interaction allowed similar ranking of genotypes on the different environments. In summary, the high genotypic variance and the simplified procedure of the proposed methodology for fruit phenol evaluation seems to be convenient for breeding programs aiming at obtaining new cultivars with improved phenolic profile.

Within- and across-breed genomic predictions and genomic relationships for Western Pyrenees dairy sheep breeds Latxa, Manech, and Basco-Béarnaise.

PubMed

Legarra, A; Baloche, G; Barillet, F; Astruc, J M; Soulas, C; Aguerre, X; Arrese, F; Mintegi, L; Lasarte, M; Maeztu, F; Beltrán de Heredia, I; Ugarte, E

2014-05-01

Genotypes, phenotypes and pedigrees of 6 breeds of dairy sheep (including subdivisions of Latxa, Manech, and Basco-Béarnaise) from the Spain and France Western Pyrenees were used to estimate genetic relationships across breeds (together with genotypes from the Lacaune dairy sheep) and to verify by forward cross-validation single-breed or multiple-breed genetic evaluations. The number of rams genotyped fluctuated between 100 and 1,300 but generally represented the 10 last cohorts of progeny-tested rams within each breed. Genetic relationships were assessed by principal components analysis of the genomic relationship matrices and also by the conservation of linkage disequilibrium patterns at given physical distances in the genome. Genomic and pedigree-based evaluations used daughter yield performances of all rams, although some of them were not genotyped. A pseudo-single step method was used in this case for genomic predictions. Results showed a clear structure in blond and black breeds for Manech and Latxa, reflecting historical exchanges, and isolation of Basco-Béarnaise and Lacaune. Relatedness between any 2 breeds was, however, lower than expected. Single-breed genomic predictions had accuracies comparable with other breeds of dairy sheep or small breeds of dairy cattle. They were more accurate than pedigree predictions for 5 out of 6 breeds, with absolute increases in accuracy ranging from 0.05 to 0.30 points. They were significantly better, as assessed by bootstrapping of candidates, for 2 of the breeds. Predictions using multiple populations only marginally increased the accuracy for a couple of breeds. Pooling populations does not increase the accuracy of genomic evaluations in dairy sheep; however, single-breed genomic predictions are more accurate, even for small breeds, and make the consideration of genomic schemes in dairy sheep interesting. Copyright © 2014 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

Genome-wide analysis highlights genetic dilution in Algerian sheep.

PubMed

Gaouar, S B S; Lafri, M; Djaout, A; El-Bouyahiaoui, R; Bouri, A; Bouchatal, A; Maftah, A; Ciani, E; Da Silva, A B

2017-03-01

Algeria represents a reservoir of genetic diversity with local sheep breeds adapted to a large range of environments and showing specific features necessary to deal with harsh conditions. This remarkable diversity results from the traditional management of dryland by pastoralists over centuries. Most of these breeds are poorly productive, and the economic pressure leads farmers to realize anarchic cross-breeding (that is, not carried out in the framework of selection plans) with the hope to increase animal's conformation. In this study, eight of the nine local Algerian sheep breeds (D'men, Hamra, Ouled-Djellal, Rembi, Sidaoun, Tazegzawt, Berber and Barbarine) were investigated for the first time by genome-wide single-nucleotide polymorphism genotyping. At an international scale, Algerian sheep occupied an original position shaped by relations with African and European (particularly Italian) breeds. The strong genetic proximity with Caribbean and Brazilian breeds confirmed that the genetic make-up of these American breeds was largely influenced by the Atlantic slave trade. At a national scale, an alarming genetic dilution of the Berber (a primitive breed) and the Rembi was observed, as a consequence of uncontrolled mating practices with Ouled-Djellal. A similar, though less pronounced, phenomenon was also detected for the Barbarine, another ancestral breed. Genetic originality appeared to be better preserved in Tazegzawt, Hamra, D'men and Sidaoun. These breeds should be given high priority in the establishment of conservation plans to halt their progressive loss. For Berber and Barbarine that also occur in the bordering neighbor countries, urgent concerted transnational actions are needed.

Higher temporal variability of forest breeding bird communities in fragmented landscapes

USGS Publications Warehouse

Boulinier, T.; Nichols, J.D.; Hines, J.E.; Sauer, J.R.; Flather, C.H.; Pollock, K.H.

1998-01-01

Understanding the relationship between animal community dynamics and landscape structure has become a priority for biodiversity conservation. In particular, predicting the effects of habitat destruction that confine species to networks of small patches is an important prerequisite to conservation plan development. Theoretical models that predict the occurrence of species in fragmented landscapes, and relationships between stability and diversity do exist. However, reliable empirical investigations of the dynamics of biodiversity have been prevented by differences in species detection probabilities among landscapes. Using long-term data sampled at a large spatial scale in conjunction with a capture-recapture approach, we developed estimates of parameters of community changes over a 22-year period for forest breeding birds in selected areas of the eastern United States. We show that forest fragmentation was associated not only with a reduced number of forest bird species, but also with increased temporal variability in the number of species. This higher temporal variability was associated with higher local extinction and turnover rates. These results have major conservation implications. Moreover, the approach used provides a practical tool for the study of the dynamics of biodiversity.

Integration of genomic information into sport horse breeding programs for optimization of accuracy of selection.

PubMed

Haberland, A M; König von Borstel, U; Simianer, H; König, S

2012-09-01

Reliable selection criteria are required for young riding horses to increase genetic gain by increasing accuracy of selection and decreasing generation intervals. In this study, selection strategies incorporating genomic breeding values (GEBVs) were evaluated. Relevant stages of selection in sport horse breeding programs were analyzed by applying selection index theory. Results in terms of accuracies of indices (r(TI) ) and relative selection response indicated that information on single nucleotide polymorphism (SNP) genotypes considerably increases the accuracy of breeding values estimated for young horses without own or progeny performance. In a first scenario, the correlation between the breeding value estimated from the SNP genotype and the true breeding value (= accuracy of GEBV) was fixed to a relatively low value of r(mg) = 0.5. For a low heritability trait (h(2) = 0.15), and an index for a young horse based only on information from both parents, additional genomic information doubles r(TI) from 0.27 to 0.54. Including the conventional information source 'own performance' into the before mentioned index, additional SNP information increases r(TI) by 40%. Thus, particularly with regard to traits of low heritability, genomic information can provide a tool for well-founded selection decisions early in life. In a further approach, different sources of breeding values (e.g. GEBV and estimated breeding values (EBVs) from different countries) were combined into an overall index when altering accuracies of EBVs and correlations between traits. In summary, we showed that genomic selection strategies have the potential to contribute to a substantial reduction in generation intervals in horse breeding programs.

Assessing the impact of natural service bulls and genotype by environment interactions on genetic gain and inbreeding in organic dairy cattle genomic breeding programs.

PubMed

Yin, T; Wensch-Dorendorf, M; Simianer, H; Swalve, H H; König, S

2014-06-01

The objective of the present study was to compare genetic gain and inbreeding coefficients of dairy cattle in organic breeding program designs by applying stochastic simulations. Evaluated breeding strategies were: (i) selecting bulls from conventional breeding programs, and taking into account genotype by environment (G×E) interactions, (ii) selecting genotyped bulls within the organic environment for artificial insemination (AI) programs and (iii) selecting genotyped natural service bulls within organic herds. The simulated conventional population comprised 148 800 cows from 2976 herds with an average herd size of 50 cows per herd, and 1200 cows were assigned to 60 organic herds. In a young bull program, selection criteria of young bulls in both production systems (conventional and organic) were either 'conventional' estimated breeding values (EBV) or genomic estimated breeding values (GEBV) for two traits with low (h 2=0.05) and moderate heritability (h 2=0.30). GEBV were calculated for different accuracies (r mg), and G×E interactions were considered by modifying originally simulated true breeding values in the range from r g=0.5 to 1.0. For both traits (h 2=0.05 and 0.30) and r mg⩾0.8, genomic selection of bulls directly in the organic population and using selected bulls via AI revealed higher genetic gain than selecting young bulls in the larger conventional population based on EBV; also without the existence of G×E interactions. Only for pronounced G×E interactions (r g=0.5), and for highly accurate GEBV for natural service bulls (r mg>0.9), results suggests the use of genotyped organic natural service bulls instead of implementing an AI program. Inbreeding coefficients of selected bulls and their offspring were generally lower when basing selection decisions for young bulls on GEBV compared with selection strategies based on pedigree indices.

Addition of a breeding database in the Genome Database for Rosaceae

PubMed Central

Evans, Kate; Jung, Sook; Lee, Taein; Brutcher, Lisa; Cho, Ilhyung; Peace, Cameron; Main, Dorrie

2013-01-01

Breeding programs produce large datasets that require efficient management systems to keep track of performance, pedigree, geographical and image-based data. With the development of DNA-based screening technologies, more breeding programs perform genotyping in addition to phenotyping for performance evaluation. The integration of breeding data with other genomic and genetic data is instrumental for the refinement of marker-assisted breeding tools, enhances genetic understanding of important crop traits and maximizes access and utility by crop breeders and allied scientists. Development of new infrastructure in the Genome Database for Rosaceae (GDR) was designed and implemented to enable secure and efficient storage, management and analysis of large datasets from the Washington State University apple breeding program and subsequently expanded to fit datasets from other Rosaceae breeders. The infrastructure was built using the software Chado and Drupal, making use of the Natural Diversity module to accommodate large-scale phenotypic and genotypic data. Breeders can search accessions within the GDR to identify individuals with specific trait combinations. Results from Search by Parentage lists individuals with parents in common and results from Individual Variety pages link to all data available on each chosen individual including pedigree, phenotypic and genotypic information. Genotypic data are searchable by markers and alleles; results are linked to other pages in the GDR to enable the user to access tools such as GBrowse and CMap. This breeding database provides users with the opportunity to search datasets in a fully targeted manner and retrieve and compare performance data from multiple selections, years and sites, and to output the data needed for variety release publications and patent applications. The breeding database facilitates efficient program management. Storing publicly available breeding data in a database together with genomic and genetic data will further accelerate the cross-utilization of diverse data types by researchers from various disciplines. Database URL: http://www.rosaceae.org/breeders_toolbox PMID:24247530

Addition of a breeding database in the Genome Database for Rosaceae.

PubMed

Evans, Kate; Jung, Sook; Lee, Taein; Brutcher, Lisa; Cho, Ilhyung; Peace, Cameron; Main, Dorrie

2013-01-01

Breeding programs produce large datasets that require efficient management systems to keep track of performance, pedigree, geographical and image-based data. With the development of DNA-based screening technologies, more breeding programs perform genotyping in addition to phenotyping for performance evaluation. The integration of breeding data with other genomic and genetic data is instrumental for the refinement of marker-assisted breeding tools, enhances genetic understanding of important crop traits and maximizes access and utility by crop breeders and allied scientists. Development of new infrastructure in the Genome Database for Rosaceae (GDR) was designed and implemented to enable secure and efficient storage, management and analysis of large datasets from the Washington State University apple breeding program and subsequently expanded to fit datasets from other Rosaceae breeders. The infrastructure was built using the software Chado and Drupal, making use of the Natural Diversity module to accommodate large-scale phenotypic and genotypic data. Breeders can search accessions within the GDR to identify individuals with specific trait combinations. Results from Search by Parentage lists individuals with parents in common and results from Individual Variety pages link to all data available on each chosen individual including pedigree, phenotypic and genotypic information. Genotypic data are searchable by markers and alleles; results are linked to other pages in the GDR to enable the user to access tools such as GBrowse and CMap. This breeding database provides users with the opportunity to search datasets in a fully targeted manner and retrieve and compare performance data from multiple selections, years and sites, and to output the data needed for variety release publications and patent applications. The breeding database facilitates efficient program management. Storing publicly available breeding data in a database together with genomic and genetic data will further accelerate the cross-utilization of diverse data types by researchers from various disciplines. Database URL: http://www.rosaceae.org/breeders_toolbox.

Research on reproduction is essential for captive breeding of endangered carnivore species.

PubMed

Jewgenow, K; Braun, B C; Dehnhard, M; Zahmel, J; Goeritz, F

2017-04-01

Assisted reproductive technology (ART) has great potential for conservation, but its successful application in captive breeding programmes of endangered species is often compromised by limited background on species' biology. Although carnivore species benefit from knowledge obtained in domesticated species (dogs, cats and ferrets), the focus of research is different. In pet animals, research in reproduction has mainly been focused on ovarian function and contraception, although substantial progress has also been made in the field of in vitro embryo production, transgenic embryos and cloning to aid relevant medical models. In endangered species, however, research should focus on characterizing reproductive traits (cyclicity and seasonality) to unravel species-specific endocrine principles of reproduction physiology. Based on this knowledge, it is crucial to enhance the ability to manipulate female reproductive cycles, especially those of embryo recipients. Furthermore, research conducted on molecular and cellular mechanisms of gamete and embryo development, as well as on cryopreservation protocols of gametes and embryos, is required for successful implementation of advanced ART to wild carnivores. This review will provide a summary on the state of the art with focus on ART contributing to conservation breeding of endangered carnivores. © 2016 Blackwell Verlag GmbH.

Genetic diversity and population structure of the endangered Namaqua Afrikaner sheep.

PubMed

Qwabe, Sithembele O; van Marle-Köster, Este; Visser, Carina

2013-02-01

The Namaqua Afrikaner is an endangered sheep breed indigenous to South Africa, primarily used in smallholder farming systems. Genetic characterization is essential for the breed's conservation and utilization. In this study, a genetic characterization was performed on 144 Namaqua Afrikaner sheep kept at the Karakul Experimental Station (KES), Carnarvon Experimental Station (CES), and a private farm Welgeluk (WGK) using 22 microsatellite markers. The mean number of alleles observed was low (3.7 for KES, 3.9 for CES, and 4.2 for WGK). Expected heterozygosity values across loci ranged between 46 % for WGK, 48 % for KES, and 55 % for CES, indicating low to moderate genetic variation. The analysis of molecular variance revealed that 89.5 % of the genetic variation was due to differences within populations. The population structure confirmed the differentiation of three clusters with high relationships between the CES and WGK populations. In the population structure comparison with Pedi and South African Mutton Merino sheep, limited hybridization between the Namaqua Afrikaner sheep and both of these breeds was observed. The results of this study will serve as a reference for genetic management and conservation of Namaqua Afrikaner sheep.

Understanding geographic origins and history of admixture among chimpanzees in European zoos, with implications for future breeding programmes.

PubMed

Hvilsom, C; Frandsen, P; Børsting, C; Carlsen, F; Sallé, B; Simonsen, B T; Siegismund, H R

2013-06-01

Despite ample focus on this endangered species, conservation planning for chimpanzees residing outside Africa has proven a challenge because of the lack of ancestry information. Here, we analysed the largest number of chimpanzee samples to date, examining microsatellites in >100 chimpanzees from the range of the species in Africa, and 20% of the European zoo population. We applied the knowledge about subspecies differentiation throughout equatorial Africa to assign origin to chimpanzees in the largest conservation management programme globally. A total of 63% of the genotyped chimpanzees from the European zoos could be assigned to one of the recognized subspecies. The majority being of West African origin (40%) will help consolidate the current breeding programme for this subspecies and the identification of individuals belonging to the two other subspecies so far found in European zoos can form the basis for breeding programmes for these. Individuals of various degree of mixed ancestry made up 37% of the genotyped European zoo population and thus highlight the need for appropriate management programmes guided by genetic analysis to preserve maximum genetic diversity and reduce hybridization among subspecies.

Understanding geographic origins and history of admixture among chimpanzees in European zoos, with implications for future breeding programmes

PubMed Central

Hvilsom, C; Frandsen, P; Børsting, C; Carlsen, F; Sallé, B; Simonsen, B T; Siegismund, H R

2013-01-01

Despite ample focus on this endangered species, conservation planning for chimpanzees residing outside Africa has proven a challenge because of the lack of ancestry information. Here, we analysed the largest number of chimpanzee samples to date, examining microsatellites in >100 chimpanzees from the range of the species in Africa, and 20% of the European zoo population. We applied the knowledge about subspecies differentiation throughout equatorial Africa to assign origin to chimpanzees in the largest conservation management programme globally. A total of 63% of the genotyped chimpanzees from the European zoos could be assigned to one of the recognized subspecies. The majority being of West African origin (40%) will help consolidate the current breeding programme for this subspecies and the identification of individuals belonging to the two other subspecies so far found in European zoos can form the basis for breeding programmes for these. Individuals of various degree of mixed ancestry made up 37% of the genotyped European zoo population and thus highlight the need for appropriate management programmes guided by genetic analysis to preserve maximum genetic diversity and reduce hybridization among subspecies. PMID:23531981

Perennial plants for biofuel production: bridging genomics and field research.

PubMed

Alves, Alexandre Alonso; Laviola, Bruno G; Formighieri, Eduardo F; Carels, Nicolas

2015-04-01

Development of dedicated perennial crops has been indicated as a strategic action to meet the growing demand for biofuels. Breeding of perennial crops,however, is often time- and resource-consuming. As genomics offers a platform from which to learn more about the relationships of genes and phenotypes,its operational use in the context of breeding programs through strategies such as genomic selection promises to foster the development of perennial crops dedicated to biodiesel production by increasing the efficiency of breeding programs and by shortening the length of the breeding cycles. Copyright © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Population size, breeding biology and on-land threats of Cape Verde petrel (Pterodroma feae) in Fogo Island, Cape Verde

PubMed Central

Zango, Laura; Calabuig, Pascual; Stefan, Laura M.; González-Solís, Jacob

2017-01-01

Cape Verde petrel (Pterodroma feae) is currently considered near threatened, but little is known about its population size, breeding biology and on land threats, jeopardizing its management and conservation. To improve this situation, we captured, marked and recaptured (CMR) birds using mist-nets over 10 years; measured and sexed them; monitored up to 14 burrows, deployed GPS devices on breeders and analyzed activity data of geolocators retrieved from breeders in Fogo (Cape Verde). We set cat traps over the colony and investigated their domestic/feral origin by marking domestic cats from a nearby village with transponders, by deploying GPS devices on domestic cats and by performing stable isotope analyses of fur of the trapped and domestic cats. The population of Fogo was estimated to be 293 birds, including immatures (95% CI: 233–254, CMR modelling). Based on geolocator activity data and nest monitoring we determined the breeding phenology of this species and we found biometric differences between sexes. While monitoring breeding performance, we verified a still ongoing cat predation and human harvesting. Overall, data gathered from trapped cats without transponder, cats GPS trips and the distinct isotopic values between domestic and trapped cats suggest cats visiting the colony are of feral origin. GPS tracks from breeders showed birds left and returned to the colony using the sector NE of the islands, where high level of public lights should be avoided specially during the fledging period. Main threats for the Cape Verde petrel in the remaining breeding islands are currently unknown but likely to be similar to Fogo, calling for an urgent assessment of population trends and the control of main threats in all Cape Verde Islands and uplisting its conservation status. PMID:28369105

Population size, breeding biology and on-land threats of Cape Verde petrel (Pterodroma feae) in Fogo Island, Cape Verde.

PubMed

Militão, Teresa; Dinis, Herculano Andrade; Zango, Laura; Calabuig, Pascual; Stefan, Laura M; González-Solís, Jacob

2017-01-01

Cape Verde petrel (Pterodroma feae) is currently considered near threatened, but little is known about its population size, breeding biology and on land threats, jeopardizing its management and conservation. To improve this situation, we captured, marked and recaptured (CMR) birds using mist-nets over 10 years; measured and sexed them; monitored up to 14 burrows, deployed GPS devices on breeders and analyzed activity data of geolocators retrieved from breeders in Fogo (Cape Verde). We set cat traps over the colony and investigated their domestic/feral origin by marking domestic cats from a nearby village with transponders, by deploying GPS devices on domestic cats and by performing stable isotope analyses of fur of the trapped and domestic cats. The population of Fogo was estimated to be 293 birds, including immatures (95% CI: 233-254, CMR modelling). Based on geolocator activity data and nest monitoring we determined the breeding phenology of this species and we found biometric differences between sexes. While monitoring breeding performance, we verified a still ongoing cat predation and human harvesting. Overall, data gathered from trapped cats without transponder, cats GPS trips and the distinct isotopic values between domestic and trapped cats suggest cats visiting the colony are of feral origin. GPS tracks from breeders showed birds left and returned to the colony using the sector NE of the islands, where high level of public lights should be avoided specially during the fledging period. Main threats for the Cape Verde petrel in the remaining breeding islands are currently unknown but likely to be similar to Fogo, calling for an urgent assessment of population trends and the control of main threats in all Cape Verde Islands and uplisting its conservation status.

Breed relationships facilitate fine-mapping studies: A 7.8-kb deletion cosegregates with Collie eye anomaly across multiple dog breeds

PubMed Central

Parker, Heidi G.; Kukekova, Anna V.; Akey, Dayna T.; Goldstein, Orly; Kirkness, Ewen F.; Baysac, Kathleen C.; Mosher, Dana S.; Aguirre, Gustavo D.; Acland, Gregory M.; Ostrander, Elaine A.

2007-01-01

The features of modern dog breeds that increase the ease of mapping common diseases, such as reduced heterogeneity and extensive linkage disequilibrium, may also increase the difficulty associated with fine mapping and identifying causative mutations. One way to address this problem is by combining data from multiple breeds segregating the same trait after initial linkage has been determined. The multibreed approach increases the number of potentially informative recombination events and reduces the size of the critical haplotype by taking advantage of shortened linkage disequilibrium distances found across breeds. In order to identify breeds that likely share a trait inherited from the same ancestral source, we have used cluster analysis to divide 132 breeds of dog into five primary breed groups. We then use the multibreed approach to fine-map Collie eye anomaly (cea), a complex disorder of ocular development that was initially mapped to a 3.9-cM region on canine chromosome 37. Combined genotypes from affected individuals from four breeds of a single breed group significantly narrowed the candidate gene region to a 103-kb interval spanning only four genes. Sequence analysis revealed that all affected dogs share a homozygous deletion of 7.8 kb in the NHEJ1 gene. This intronic deletion spans a highly conserved binding domain to which several developmentally important proteins bind. This work both establishes that the primary cea mutation arose as a single disease allele in a common ancestor of herding breeds as well as highlights the value of comparative population analysis for refining regions of linkage. PMID:17916641

Recent breeding history of dog breeds in Sweden: modest rates of inbreeding, extensive loss of genetic diversity and lack of correlation between inbreeding and health

PubMed Central

Jansson, M; Laikre, L

2014-01-01

One problem in modern dogs is a high occurrence of physical diseases, defects and disorders. Many breeds exhibit physical problems that affect individual dogs throughout life. A potential cause of these problems is inbreeding that is known to reduce the viability of individuals. We investigated the possible correlation between recent inbreeding and health problems in dogs and used studbook data from 26 breeds provided by the Swedish Kennel Club for this purpose. The pedigrees date back to the mid-20th century and comprise 5–10 generations and 1 000–50 000 individuals per pedigree over our study period of 1980–2010. We compared levels of inbreeding and loss of genetic variation measured in relation to the number of founding animals during this period in the investigated dog breeds that we classified as ‘healthy’ (11 breeds) or ‘unhealthy’ (15) based on statistics on the extent of veterinary care obtained from Sweden's four largest insurance companies for pets. We found extensive loss of genetic variation and moderate levels of recent inbreeding in all breeds examined, but no strong indication of a difference in these parameters between healthy versus unhealthy breeds over this period. Thus, recent breeding history with respect to rate of inbreeding does not appear to be a main cause of poor health in the investigated dog breeds in Sweden. We identified both strengths and weaknesses of the dog pedigree data important to consider in future work of monitoring and conserving genetic diversity of dog breeds. PMID:24289536

77 FR 65398 - Tehachapi Uplands Multiple Species Habitat Conservation Plan; Kern County, CA; Final...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-10-26

... wildlife by significantly impairing essential behavioral patterns, including breeding, feeding, and... be authorized by an incidental take permit, plant species may be included on a permit in recognition...

50 CFR 15.41 - Criteria for including facilities as qualifying for imports. [Reserved

Code of Federal Regulations, 2010 CFR

2010-10-01

..., EXPORTATION, AND IMPORTATION OF WILDLIFE AND PLANTS WILD BIRD CONSERVATION ACT Qualifying Facilities Breeding Exotic Birds in Captivity § 15.41 Criteria for including facilities as qualifying for imports. [Reserved] ...

50 CFR 15.41 - Criteria for including facilities as qualifying for imports. [Reserved

Code of Federal Regulations, 2011 CFR

2011-10-01

..., EXPORTATION, AND IMPORTATION OF WILDLIFE AND PLANTS WILD BIRD CONSERVATION ACT Qualifying Facilities Breeding Exotic Birds in Captivity § 15.41 Criteria for including facilities as qualifying for imports. [Reserved] ...

Three New Species of Phytotelm-Breeding Melanophryniscus from the Atlantic Rainforest of Southern Brazil (Anura: Bufonidae)

PubMed Central

Bornschein, Marcos R.; Firkowski, Carina R.; Baldo, Diego; Ribeiro, Luiz F.; Belmonte-Lopes, Ricardo; Corrêa, Leandro; Morato, Sérgio A. A.; Pie, Marcio R.

2015-01-01

Three new species of Melanophryniscus are described from the Serra do Mar mountain range of the state of Santa Catarina, southern Brazil. All species are found at intermediate to high altitudes and share phytotelm-breeding as their reproductive strategy. The new species are distinguished from other phytotelm-breeding Melanophryniscus based on different combinations of the following traits: snout-vent length, presence of white and/or yellow spots on forearms, mouth, belly and cloaca, pattern and arrangement of warts, and presence and number of corneous spines. The discovery of these species in a rather restricted geographical area suggests that the diversity of phytotelm-breeding species of Melanophryniscus might be severely underestimated. The conservation status of these species is of particular concern, given that one of them is at risk of extinction not only due to its restricted habitat, but also because of anthropogenic disturbances. PMID:26630281

Metals, Parasites, and Environmental Conditions Affecting Breeding Populations of Spotted Salamanders (Ambystoma maculatum) in Northern Arkansas, USA.

PubMed

DeMali, Heather M; Trauth, Stanley E; Bouldin, Jennifer L

2016-06-01

The spotted salamander (Ambystoma maculatum) is indigenous to northern Arkansas, and several breeding sites are known to exist in the region. Spotted salamanders (n = 17) were collected and examined for parasites and only three females harbored nematodes (Physaloptera spp.). Chronic aquatic bioassays were conducted using water collected from eight breeding ponds during different hydroperiod events. No lethal or sublethal effects were measured in Ceriodaphnia dubia; however, decreased growth and survival were seen in Pimephales promelas. Aqueous, sediment, and salamander hepatic samples were analyzed for As, Cd, Cu, Pb, and Ni. Metal analysis revealed possible increased metal exposure following precipitation, with greatest metal concentrations measured in sediment samples. Hepatic metal concentrations were similar in parasitized and non-parasitized individuals, and greatest Pb concentrations were measured following normal precipitation events. Determining environmental stressors of amphibians, especially during their breeding and subsequent larval life stage, is imperative to improve species conservation.

Three New Species of Phytotelm-Breeding Melanophryniscus from the Atlantic Rainforest of Southern Brazil (Anura: Bufonidae).

PubMed

Bornschein, Marcos R; Firkowski, Carina R; Baldo, Diego; Ribeiro, Luiz F; Belmonte-Lopes, Ricardo; Corrêa, Leandro; Morato, Sérgio A A; Pie, Marcio R

2015-01-01

Three new species of Melanophryniscus are described from the Serra do Mar mountain range of the state of Santa Catarina, southern Brazil. All species are found at intermediate to high altitudes and share phytotelm-breeding as their reproductive strategy. The new species are distinguished from other phytotelm-breeding Melanophryniscus based on different combinations of the following traits: snout-vent length, presence of white and/or yellow spots on forearms, mouth, belly and cloaca, pattern and arrangement of warts, and presence and number of corneous spines. The discovery of these species in a rather restricted geographical area suggests that the diversity of phytotelm-breeding species of Melanophryniscus might be severely underestimated. The conservation status of these species is of particular concern, given that one of them is at risk of extinction not only due to its restricted habitat, but also because of anthropogenic disturbances.

Genetic Gain and Inbreeding from Genomic Selection in a Simulated Commercial Breeding Program for Perennial Ryegrass.

PubMed

Lin, Zibei; Cogan, Noel O I; Pembleton, Luke W; Spangenberg, German C; Forster, John W; Hayes, Ben J; Daetwyler, Hans D

2016-03-01

Genomic selection (GS) provides an attractive option for accelerating genetic gain in perennial ryegrass () improvement given the long cycle times of most current breeding programs. The present study used simulation to investigate the level of genetic gain and inbreeding obtained from GS breeding strategies compared with traditional breeding strategies for key traits (persistency, yield, and flowering time). Base population genomes were simulated through random mating for 60,000 generations at an effective population size of 10,000. The degree of linkage disequilibrium (LD) in the resulting population was compared with that obtained from empirical studies. Initial parental varieties were simulated to match diversity of current commercial cultivars. Genomic selection was designed to fit into a company breeding program at two selection points in the breeding cycle (spaced plants and miniplot). Genomic estimated breeding values (GEBVs) for productivity traits were trained with phenotypes and genotypes from plots. Accuracy of GEBVs was 0.24 for persistency and 0.36 for yield for single plants, while for plots it was lower (0.17 and 0.19, respectively). Higher accuracy of GEBVs was obtained for flowering time (up to 0.7), partially as a result of the larger reference population size that was available from the clonal row stage. The availability of GEBVs permit a 4-yr reduction in cycle time, which led to at least a doubling and trebling genetic gain for persistency and yield, respectively, than the traditional program. However, a higher rate of inbreeding per cycle among varieties was also observed for the GS strategy. Copyright © 2016 Crop Science Society of America.

On determining the significance of ephemeral continental wetlands to North American migratory shorebirds

USGS Publications Warehouse

Skagen, Susan K.; Granfors, Diane A.; Melcher, Cynthia P.

2008-01-01

Conservation challenges enhance the need for quantitative information on dispersed bird populations in extensive landscapes, for techniques to monitor populations and assess environmental effects, and for conservation strategies at appropriate temporal and spatial scales. By estimating population sizes of shorebirds in the U.S. portion of the prairie pothole landscape in central North America, where most migrating shorebirds exhibit a highly dispersed spatial pattern, we determined that the region may play a vital role in the conservation of shorebirds. During northward and southward migration, 7.3 million shorebirds (95% CI: 4.3–10.3 million) and 3.9 million shorebirds (95% CI: 1.7–6.0 million) stopped to rest and refuel in the study area; inclusion of locally breeding species increases the estimates by 0.1 million and 0.07 million shorebirds, respectively. Seven species of calidridine sandpipers, including Semipalmated Sandpipers (Calidris pusilla), White-rumped Sandpipers (C. fuscicollis), and Stilt Sandpipers (C. himantopus), constituted 50% of northbound migrants in our study area. We present an approach to population estimation and monitoring, based on stratified random selection of townships as sample units, that is well suited to 11 migratory shorebird species. For extensive and dynamic wetland systems, we strongly caution against a monitoring program based solely on repeated counts of known stopover sites with historically high numbers of shorebirds. We recommend refinements in methodology to address sample-size requirements and potential sources of bias so that our approach may form the basis of a rigorous migration monitoring program in this and other prairie wetland regions.

‘Norman’ southern highbush blueberry

USDA-ARS?s Scientific Manuscript database

‘Norman’ is the third cultivar released from the University of Arkansas blueberry breeding program, which began in the late 1970s and has involved cooperative efforts with the U.S. Department of Agriculture (USDA). Previous cultivars released from this breeding program were ‘Ozarkblue’ and ‘Summit’....

St. Paul's Pig Pack.

ERIC Educational Resources Information Center

Miller, Penny Folley

1982-01-01

Describes a guinea pig (cavy) breeding and management program developed as part of an elementary school science curriculum. Includes comments on show competitions (sponsored by the American Rabbit Breeders Association) to measure the success of the breeding program and to enable children to experience the business world. (Author/JN)

Assessing regional and interspecific variation in threshold responses of forest breeding birds through broad scale analyses.

PubMed

van der Hoek, Yntze; Renfrew, Rosalind; Manne, Lisa L

2013-01-01

Identifying persistence and extinction thresholds in species-habitat relationships is a major focal point of ecological research and conservation. However, one major concern regarding the incorporation of threshold analyses in conservation is the lack of knowledge on the generality and transferability of results across species and regions. We present a multi-region, multi-species approach of modeling threshold responses, which we use to investigate whether threshold effects are similar across species and regions. We modeled local persistence and extinction dynamics of 25 forest-associated breeding birds based on detection/non-detection data, which were derived from repeated breeding bird atlases for the state of Vermont. We did not find threshold responses to be particularly well-supported, with 9 species supporting extinction thresholds and 5 supporting persistence thresholds. This contrasts with a previous study based on breeding bird atlas data from adjacent New York State, which showed that most species support persistence and extinction threshold models (15 and 22 of 25 study species respectively). In addition, species that supported a threshold model in both states had associated average threshold estimates of 61.41% (SE = 6.11, persistence) and 66.45% (SE = 9.15, extinction) in New York, compared to 51.08% (SE = 10.60, persistence) and 73.67% (SE = 5.70, extinction) in Vermont. Across species, thresholds were found at 19.45-87.96% forest cover for persistence and 50.82-91.02% for extinction dynamics. Through an approach that allows for broad-scale comparisons of threshold responses, we show that species vary in their threshold responses with regard to habitat amount, and that differences between even nearby regions can be pronounced. We present both ecological and methodological factors that may contribute to the different model results, but propose that regardless of the reasons behind these differences, our results merit a warning that threshold values cannot simply be transferred across regions or interpreted as clear-cut targets for ecosystem management and conservation.

Genomic inbreeding estimation in small populations: evaluation of runs of homozygosity in three local dairy cattle breeds.

PubMed

Mastrangelo, S; Tolone, M; Di Gerlando, R; Fontanesi, L; Sardina, M T; Portolano, B

2016-05-01

In the local breeds with small population size, one of the most important problems is the increase of inbreeding coefficient (F). High levels of inbreeding lead to reduced genetic diversity and inbreeding depression. The availability of high-density single nucleotide polymorphism (SNP) arrays has facilitated the quantification of F by genomic markers in farm animals. Runs of homozygosity (ROH) are contiguous lengths of homozygous genotypes and represent an estimate of the degree of autozygosity at genome-wide level. The current study aims to quantify the genomic F derived from ROH (F ROH) in three local dairy cattle breeds. F ROH values were compared with F estimated from the genomic relationship matrix (F GRM), based on the difference between observed v. expected number of homozygous genotypes (F HOM) and the genomic homozygosity of individual i (F MOL i ). The molecular coancestry coefficient (f MOL ij ) between individuals i and j was also estimated. Individuals of Cinisara (71), Modicana (72) and Reggiana (168) were genotyped with the 50K v2 Illumina BeadChip. Genotypes from 96 animals of Italian Holstein cattle breed were also included in the analysis. We used a definition of ROH as tracts of homozygous genotypes that were >4 Mb. Among breeds, 3661 ROH were identified. Modicana showed the highest mean number of ROH per individual and the highest value of F ROH, whereas Reggiana showed the lowest ones. Differences among breeds existed for the ROH lengths. The individuals of Italian Holstein showed high number of short ROH segments, related to ancient consanguinity. Similar results showed the Reggiana with some extreme animals with segments covering 400 Mb and more of genome. Modicana and Cinisara showed similar results between them with the total length of ROH characterized by the presence of large segments. High correlation was found between F HOM and F ROH ranged from 0.83 in Reggiana to 0.95 in Cinisara and Modicana. The correlations among F ROH and other estimated F coefficients were generally lower ranged from 0.45 (F MOL i -F ROH) in Cinisara to 0.17 (F GRM-F ROH) in Modicana. On the basis of our results, recent inbreeding was observed in local breeds, considering that 16 Mb segments are expected to present inbreeding up to three generations ago. Our results showed the necessity of implementing conservation programs to control the rise of inbreeding and coancestry in the three Italian local dairy cattle breeds.

Recent breeding history of dog breeds in Sweden: modest rates of inbreeding, extensive loss of genetic diversity and lack of correlation between inbreeding and health.

PubMed

Jansson, M; Laikre, L

2014-04-01

One problem in modern dogs is a high occurrence of physical diseases, defects and disorders. Many breeds exhibit physical problems that affect individual dogs throughout life. A potential cause of these problems is inbreeding that is known to reduce the viability of individuals. We investigated the possible correlation between recent inbreeding and health problems in dogs and used studbook data from 26 breeds provided by the Swedish Kennel Club for this purpose. The pedigrees date back to the mid-20th century and comprise 5-10 generations and 1 000-50 000 individuals per pedigree over our study period of 1980-2010. We compared levels of inbreeding and loss of genetic variation measured in relation to the number of founding animals during this period in the investigated dog breeds that we classified as 'healthy' (11 breeds) or 'unhealthy' (15) based on statistics on the extent of veterinary care obtained from Sweden's four largest insurance companies for pets. We found extensive loss of genetic variation and moderate levels of recent inbreeding in all breeds examined, but no strong indication of a difference in these parameters between healthy versus unhealthy breeds over this period. Thus, recent breeding history with respect to rate of inbreeding does not appear to be a main cause of poor health in the investigated dog breeds in Sweden. We identified both strengths and weaknesses of the dog pedigree data important to consider in future work of monitoring and conserving genetic diversity of dog breeds. © 2013 The Authors Journal of Animal Breeding and Genetics Published by Blackwell Verlag GmbH.

Is income breeding an appropriate construct for waterfowl?

USGS Publications Warehouse

Janke, Adam K.; Anteau, Michael J.; Markl, Nicholas; Stafford, Joshua D.

2015-01-01

Breeding birds use a range of nutrient accumulation and allocation strategies to meet the nutritional demands of clutch formation and incubation. On one end of the spectrum, capital breeders use stored nutrients acquired prior to clutch formation and incubation to sustain metabolism during reproduction, while on the opposite end, income breeders derive nutrients solely from exogenous sources on the breeding grounds. Blue-winged Teal (Anas discors) are an ideal candidate to test for adoption of an income strategy among migratory waterfowl because of their small body size, temperate breeding range, and timing of reproduction relative to pulses in nutrient availability within breeding habitats. We collected migrating and pre-breeding Blue-winged Teal (n = 110) during the warmest spring in over a century in the southern edge of the species’ breeding range, which produced ideal conditions to test for adoption of an income breeding strategy among migratory waterfowl. Regression analyses revealed that females accumulated protein and fat reserves early in follicle development and appeared to mobilize at least some reserves coincident with the onset of clutch formation. Accumulation and subsequent mobilization of nutrient reserves was inconsistent with adherence to an income breeding strategy and suggested breeding Blue-winged Teal used capital (albeit locally acquired) for reproduction. Our results add to existing knowledge on the ubiquity of endogenous nutrient reserve accumulation prior to and during reproduction by waterfowl, perhaps suggesting endogenous nutrient reserves are universally used for clutch formation or incubation to some degree. If indeed Blue-winged Teal and other waterfowl universally use capital for breeding, research and conservation efforts should shift from evaluating whether an income breeding strategy is used and focus on when and where necessary capital is acquired prior to clutch formation.

Effects of haying on breeding birds in CRP grasslands

USGS Publications Warehouse

Igl, Lawrence D.; Johnson, Douglas H.

2016-01-01

The Conservation Reserve Program (CRP) is a voluntary program that is available to agricultural producers to help protect environmentally sensitive or highly erodible land. Management disturbances of CRP grasslands generally are not allowed unless authorized to provide relief to livestock producers during severe drought or a similar natural disaster (i.e., emergency haying and grazing) or to improve the quality and performance of the CRP cover (i.e., managed haying and grazing). Although CRP grasslands may not be hayed or grazed during the primary bird-nesting season, these disturbances may have short-term (1 yr after disturbance) and long-term (≥2 yr after disturbance) effects on grassland bird populations. We assessed the effects of haying on 20 grassland bird species in 483 CRP grasslands in 9 counties of 4 states in the northern Great Plains, USA between 1993 and 2008. We compared breeding bird densities (as determined by total-area counts) in idle and hayed fields to evaluate changes 1, 2, 3, and 4 years after haying. Haying of CRP grasslands had either positive or negative effects on grassland birds, depending on the species, the county, and the number of years after the initial disturbance. Some species (e.g., horned lark [Eremophila alpestris], bobolink [Dolichonyx oryzivorus]) responded positively after haying, and others (e.g., song sparrow [Melospiza melodia]) responded negatively. The responses of some species changed direction as the fields recovered from haying. For example, densities for common yellowthroat (Geothlypis trichas), sedge wren (Cistothorus platensis), and clay-colored sparrow (Spizella pallida) declined the first year after haying but increased in the subsequent 3 years. Ten species showed treatment × county interactions, indicating that the effects of haying varied geographically. This long-term evaluation on the effects of haying on breeding birds provides important information on the strength and direction of changes in bird populations following a disturbance. Results from this study can help guide management of CRP and other grasslands and inform future agricultural programs that address biomass energy production. © 2016 This article is a U.S. Government work and is in the public domain in the USA.

Size of the California Brown Pelican Metapopulation During a Non-El Nino Year

USGS Publications Warehouse

Anderson, Daniel W.; Henny, Charles J.; Godinez-Reyes, Carlos; Gress, Franklin; Palacios, Eduardo L.; Santos del Prado, Karina; Bredy, James

2007-01-01

Overall, we estimated a total metapopulation within the geographical range of the California brown pelican subspecies (Pelecanus occidentalis californicus) as about 70,680 ? 2,640 breeding pairs (mean ? SD). Little change in at least three decades is indicated in the total metapopulation south of the Southern California Bight (SCB) subpopulation, but significant improvements in the breeding subpopulation size in the SCB reported elsewhere, support the present high numbers observed in this northernmost subpopulation. The largest breeding aggregation within the entire range (consisting of three immediately adjacent sub-colonies), at the San Lorenzo Archipelago, consisted of about 17,225 breeding pairs, or about 24.4% of the metapopulation in 2006. Other, smaller colonies are no less important, however, although each subpopulation defined by us seemed to have a single or small number of large 'core' breeding colonies, plus many smaller colonies (for example, in 2006, one colony consisted of only 2 breeding pairs). Small colonies (< about 70 nests) comprised about 35.6% of the total occupied colonies, but only about 0.87% of the total estimated numbers (values corrected for detectability). The modal colony-size throughout the range was much smaller (about 230 to 1,300 breeding pairs, depending on subpopulation), indicating that small, scattered colonies and sub-colonies, especially on the range peripheries, function in brown pelican population dynamics and are no less important from a conservation viewpoint. These smaller breeding colonies probably represent some colonies of antiquity, but also range expansions and contractions that occur within the typically-defined metapopulation, and local manifestations of source-sink phenomena. Given such dynamics, even unoccupied islands within the range in 2006 have conservation importance from the viewpoint of such dynamics as potential alternate nesting sites. Natural variations in the estimated population levels seem to be related to the natural cycles of El Ni?o/Southern Oscillation (ENSO) phenomena where very low breeding populations (as low as no nesting in many areas) might be expected to occur in these same areas censused in 2006 at least 40% of the time. From the 2006 aerial survey, extensive commercial and sport-fishing activity, resort/tourist developments and associated human activities along the coastal areas and at offshore islands, and extensive aquacultural (and to a lesser degree, agricultural) developments seen from the Rio Colorado Delta region, Sonora, south at least through San Blas, Nayarit (the southern terminus of our 2006 aerial survey) may result in substantial loss of breeding habitat. Juvenile (young of the 2005 breeding season) plus subadult brown pelicans comprised 28.1% ? 0.33% (mean ? 95% CI) of the total numbers in age-ratio samples. Thus, our overall metapopulation estimate for P. o. californicus in 2006 was 195,900 ? 7,225 individuals.

Predicting cerulean warbler habitat use in the Cumberland Mountains of Tennessee

DOE Office of Scientific and Technical Information (OSTI.GOV)

Buehler, D.A.; Welton, M.J.; Beachy, T.A.

2006-12-15

We developed a habitat model to predict cerulean warbler (Dendroica cerulea) habitat availability in the Cumberland Mountains of eastern Tennessee. We used 7 remotely sensed vegetation and topographic landform explanatory variables and known locations of territorial male cerulean warblers mapped in 2003 as the response variable to develop a Mahalanobis distance statistic model of potential habitat. We evaluated the accuracy of the model based on field surveys for ceruleans during the 2004 breeding season. The model performed well with an 80% correct classification of cerulean presence based on the validation data, although prediction of absence was only 54% correct. Wemore » extrapolated from potential habitat to cerulean abundance based on density estimates from territory mapping on 8 20-ha plots in 2005. Over the 200,000-ha study area, we estimated there were 80,584 ha of potential habitat, capable of supporting about 36,500 breeding pairs. We applied the model to the 21,609-ha state-owned Royal Blue Wildlife Management Area to evaluate the potential effects of coal surface mining as one example of a potential conflict between land use and cerulean warbler conservation. Our models suggest coal surface mining could remove 2,954 ha of cerulean habitat on Royal Blue Wildlife Management Area and could displace 2,540 breeding pairs (23% of the Royal Blue population). A comprehensive conservation strategy is needed to address potential and realized habitat loss and degradation on the breeding grounds, during migration, and on the wintering grounds.« less

Floral biology, breeding system and pollination ecology of an endangered tree Tetracentron sinense Oliv. (Trochodendraceae).

PubMed

Gan, Xiaohong; Cao, Lingling; Zhang, Xia; Li, Huaichun

2013-12-01

Tetracentron sinense Oliv. is an endangered tree mainly distributed in south-central China. The breeding system and pollination ecology of T. sinense are unclear. With a conservation perspective, the floral biology, breeding system and pollination ecology of Tetracentron sinense Oliv. were investigated, in order to discuss the endangered factors related to pollination, and to provide important information for its conservation. Our results revealed four important aspects of the reproductive biology of T. sinense. 1) T. sinense usually flowers by the beginning of June, and the flowering period of the population is about two months, and the florescence of florets lasted for 15 to 24 days with delicate fragrance. 2) The pollen/ovule ratio is 720 ± 28, and the outcrossing index is three. Artificial pollination experiments showed that T. sinense is self-compatible, with facultative xenogamy and no indication of agamospermy. 3) The pollination syndrome is ambophily, and self-pollination plays an important role in fruit production if wind and insect pollination is unavailable. 4) Insect pollinators were predominantly represented by Coleoptera, Diptera and Hymenoptera. Syrphid fly and bees were the main effective pollinators. The results suggested that T. sinense exhibits a mixed-mating system, and autogamy in its breeding system may provide reproductive assurance for the population maintenance. During flowering and pollination in natural population, the decrease of population density and harsh environmental condition might be one of crucial reasons resulting in endanger for this species.

Genetic diversity in Spanish donkey breeds using microsatellite DNA markers

PubMed Central

Aranguren-Méndez, José; Jordana, Jordi; Gomez, Mariano

2001-01-01

Genetic diversity at 13 equine microsatellite loci was compared in five endangered Spanish donkey breeds: Andaluza, Catalana, Mallorquina, Encartaciones and Zamorano-Leonesa. All of the equine microsatellites used in this study were amplified and were polymorphic in the domestic donkey breeds with the exception of HMS1, which was monomorphic, and ASB2, which failed to amplify. Allele number, frequency distributions and mean heterozygosities were very similar among the Spanish donkey breeds. The unbiased expected heterozygosity (HE) over all the populations varied between 0.637 and 0.684 in this study. The low GST value showed that only 3.6% of the diversity was between breeds (P < 0.01). Significant deviations from Hardy-Weinberg equilibrium were shown for a number of locus-population combinations, except HMS5 that showed agreement in all analysed populations. The cumulative exclusion probability (PE) was 0.999 in each breed, suggesting that the loci would be suitable for donkey parentage testing. The constructed dendrogram from the DA distance matrix showed little differentiation between Spanish breeds, but great differentiation between them and the Moroccan ass and also with the horse, used as an outgroup. These results confirm the potential use of equine microsatellite loci as a tool for genetic studies in domestic donkey populations, which could also be useful for conservation plans. PMID:11559485

Evolutionary principles and their practical application

PubMed Central

Hendry, Andrew P; Kinnison, Michael T; Heino, Mikko; Day, Troy; Smith, Thomas B; Fitt, Gary; Bergstrom, Carl T; Oakeshott, John; Jørgensen, Peter S; Zalucki, Myron P; Gilchrist, George; Southerton, Simon; Sih, Andrew; Strauss, Sharon; Denison, Robert F; Carroll, Scott P

2011-01-01

Evolutionary principles are now routinely incorporated into medicine and agriculture. Examples include the design of treatments that slow the evolution of resistance by weeds, pests, and pathogens, and the design of breeding programs that maximize crop yield or quality. Evolutionary principles are also increasingly incorporated into conservation biology, natural resource management, and environmental science. Examples include the protection of small and isolated populations from inbreeding depression, the identification of key traits involved in adaptation to climate change, the design of harvesting regimes that minimize unwanted life-history evolution, and the setting of conservation priorities based on populations, species, or communities that harbor the greatest evolutionary diversity and potential. The adoption of evolutionary principles has proceeded somewhat independently in these different fields, even though the underlying fundamental concepts are the same. We explore these fundamental concepts under four main themes: variation, selection, connectivity, and eco-evolutionary dynamics. Within each theme, we present several key evolutionary principles and illustrate their use in addressing applied problems. We hope that the resulting primer of evolutionary concepts and their practical utility helps to advance a unified multidisciplinary field of applied evolutionary biology. PMID:25567966

Evolutionary principles and their practical application.

PubMed

Hendry, Andrew P; Kinnison, Michael T; Heino, Mikko; Day, Troy; Smith, Thomas B; Fitt, Gary; Bergstrom, Carl T; Oakeshott, John; Jørgensen, Peter S; Zalucki, Myron P; Gilchrist, George; Southerton, Simon; Sih, Andrew; Strauss, Sharon; Denison, Robert F; Carroll, Scott P

2011-03-01

Evolutionary principles are now routinely incorporated into medicine and agriculture. Examples include the design of treatments that slow the evolution of resistance by weeds, pests, and pathogens, and the design of breeding programs that maximize crop yield or quality. Evolutionary principles are also increasingly incorporated into conservation biology, natural resource management, and environmental science. Examples include the protection of small and isolated populations from inbreeding depression, the identification of key traits involved in adaptation to climate change, the design of harvesting regimes that minimize unwanted life-history evolution, and the setting of conservation priorities based on populations, species, or communities that harbor the greatest evolutionary diversity and potential. The adoption of evolutionary principles has proceeded somewhat independently in these different fields, even though the underlying fundamental concepts are the same. We explore these fundamental concepts under four main themes: variation, selection, connectivity, and eco-evolutionary dynamics. Within each theme, we present several key evolutionary principles and illustrate their use in addressing applied problems. We hope that the resulting primer of evolutionary concepts and their practical utility helps to advance a unified multidisciplinary field of applied evolutionary biology.

Adaptive traits of indigenous cattle breeds: The Mediterranean Baladi as a case study.

PubMed

Shabtay, Ariel

2015-11-01

Generally taken, breeds of Bos taurus ancestry are considered more productive, in comparison with Bos indicus derived breeds that present enhanced hardiness and disease resistance, low nutritional requirements and higher capability of feed utilization. While breeds of B. taurus have been mostly selected for intensive production systems, indigenous cattle, developed mostly from indicine and African taurines, flourish in extensive habitats. Worldwide demographic and economic processes face animal production with new challenges - the increasing demand for animal food products. Intensification of animal husbandry is thus a desired goal in stricken parts of the world. An introduction of productive traits to indigenous breeds might serve to generate improved biological and economic efficiencies. For this to succeed, the genetic merit of traits like efficiency of feed utilization and product quality should be revealed, encouraging the conservation initiatives of indigenous cattle populations, many of which are already extinct and endangered. Moreover, to overcome potential genetic homogeneity, controlled breeding practices should be undertaken. The Baladi cattle are a native local breed found throughout the Mediterranean basin. Purebred Baladi animals are rapidly vanishing, as more European breeds are being introduced or used for backcrosses leading to improved production. The superiority of Baladi over large-framed cattle, in feedlot and on Mediterranean pasture, with respect to adaptability and efficiency, is highlighted in the current review. Copyright © 2015 Elsevier Ltd. All rights reserved.

Teetering on the edge or too late? Conservation and research issues for avifauna of sagebrush habitats

USGS Publications Warehouse

Knick, Steven T.; Dobkin, David S.; Rotenberry, John T.; Schroeder, Michael A.; Vander Haegen, W. Matthew; van Riper, Charles

2003-01-01

Degradation, fragmentation, and loss of native sagebrush (Artemisia spp.) landscapes have imperiled these habitats and their associated avifauna. Historically, this vast piece of the Western landscape has been undervalued: even though more than 70% of all remaining sagebrush habitat in the United States is publicly owned, <3% of it is protected as federal reserves or national parks. We review the threats facing birds in sagebrush habitats to emphasize the urgency for conservation and research actions, and synthesize existing information that forms the foundation for recommended research directions. Management and conservation of birds in sagebrush habitats will require more research into four major topics: (1) identification of primary land-use practices and their influence on sagebrush habitats and birds, (2) better understanding of bird responses to habitat components and disturbance processes of sagebrush ecosystems, (3) improved hierarchical designs for surveying and monitoring programs, and (4) linking bird movements and population changes during migration and wintering periods to dynamics on the sagebrush breeding grounds. This research is essential because we already have seen that sagebrush habitats can be altered by land use, spread of invasive plants, and disrupted disturbance regimes beyond a threshold at which natural recovery is unlikely. Research on these issues should be instituted on lands managed by state or federal agencies because most lands still dominated by sagebrush are owned publicly. In addition to the challenge of understanding shrubsteppe bird-habitat dynamics, conservation of sagebrush landscapes depends on our ability to recognize and communicate their intrinsic value and on our resolve to conserve them.

Genetic fingerprinting of potato varieties from the Northwest Potato Variety Development Program

USDA-ARS?s Scientific Manuscript database

The Northwest Potato Variety Development Program using conventional breeding has successfully released more than 40 improved varieties of potato since its inception in 1983. Potato breeders rely primarily on morphological and phenotypic data for selection and breeding of potato cultivars. With the a...

Crop improvement and conservation through tissue culture techniques

USDA-ARS?s Scientific Manuscript database

Crop improvement through classic breeding and/or genetic engineering methods is possible in the majority of cultivated crops. However, gene manipulations, chromosome duplication, protoplast fusion, bioassays, interspecific cross recovery involve tissue culture techniques. For vegetatively propagated...

METAPOPULATION DYNAMICS AND AMPHIBIAN CONSERVATION

EPA Science Inventory

In many respects, amphibian spatial dynamics resemble classical metapopulation models, where subpopulations in breeding ponds blink in and out of existance and where extinction and colonization rates are functions of pond spatial arrangement. This "ponds-as-patches" view of amphi...

26 CFR 1.167(a)-6 - Depreciation in special cases.

Code of Federal Regulations, 2011 CFR

2011-04-01

... other physical property but not including land. Livestock acquired for work, breeding, or dairy purposes... to soil or water conservation expenditures. [T.D. 6500, 25 FR 11402, Nov. 26, 1960; 25 FR 14021, Dec...

26 CFR 1.167(a)-6 - Depreciation in special cases.

Code of Federal Regulations, 2012 CFR

2012-04-01

... other physical property but not including land. Livestock acquired for work, breeding, or dairy purposes... to soil or water conservation expenditures. [T.D. 6500, 25 FR 11402, Nov. 26, 1960; 25 FR 14021, Dec...

26 CFR 1.167(a)-6 - Depreciation in special cases.

Code of Federal Regulations, 2013 CFR

2013-04-01

... other physical property but not including land. Livestock acquired for work, breeding, or dairy purposes... to soil or water conservation expenditures. [T.D. 6500, 25 FR 11402, Nov. 26, 1960; 25 FR 14021, Dec...

26 CFR 1.167(a)-6 - Depreciation in special cases.

Code of Federal Regulations, 2014 CFR

2014-04-01

... other physical property but not including land. Livestock acquired for work, breeding, or dairy purposes... to soil or water conservation expenditures. [T.D. 6500, 25 FR 11402, Nov. 26, 1960; 25 FR 14021, Dec...