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Monday, 21 December 2015

What's new for 'birdRS' in PubMed. December Week 4, 2015

birdRS - Latest News

This message contains My NCBI what's new results from the National Center for Biotechnology Information (NCBI) at the U.S. National Library of Medicine (NLM).

View complete results in PubMed (results may change over time).


PubMed Results

1. Glob Change Biol Bioenergy. 2015 Jul 1;7(4):741-751. 

Balance between climate change mitigation benefits and land use impacts of bioenergy: conservation implications for European birds. 
Meller L(1), Thuiller W(2), Pironon S(3), Barbet-Massin M(4), Hof A(5), Cabeza M(6). Author information: (1)Metapopulation Research Group, Department of Biosciences, P.O. Box 65, 00014 University of Helsinki, Finland; tel. +35844-5377193; laura.meller@helsinki.fi ; Laboratoire d'Ecologie Alpine, UMR CNRS 5553, Université J. Fourier, Grenoble I, BP 53, 38041 Grenoble Cedex 9, France. (2)Laboratoire d'Ecologie Alpine, UMR CNRS 5553, Université J. Fourier, Grenoble I, BP 53, 38041 Grenoble Cedex 9, France. (3)Laboratoire d'Ecologie Alpine, UMR CNRS 5553, Université J. Fourier, Grenoble I, BP 53, 38041 Grenoble Cedex 9, France ; Instituto Pirenaico de Ecología (CSIC), 50080 Zaragoza, Spain. (4)Muséum National d'Histoire Naturelle, UMR 7204 MNHN-CNRS-UPMC, Centre de Recherches sur la Biologie des Populations d'Oiseaux, CP 51, 55 Rue Buffon, 75005, Paris, France ; Department of Ecology and Evolutionary Biology, Yale University, 165 Prospect Street, New Haven, CT 06520-8106, USA. (5)PBL Netherlands Environmental Assessment Agency, Bilthoven, The Netherlands. (6)Metapopulation Research Group, Department of Biosciences, P.O. Box 65, 00014 University of Helsinki, Finland; tel. +35844-5377193; laura.meller@helsinki.fi. 

Abstract
Both climate change and habitat modification exert serious pressure on biodiversity. Although climate change mitigation has been identified as an important strategy for biodiversity conservation, bioenergy remains a controversial mitigation action due to its potential negative ecological and socio-economic impacts which arise through habitat modification by land-use change. While the debate continues, the separate or simultaneous impacts of both climate change and bioenergy on biodiversity have not yet been compared. We assess projected range shifts of 156 European bird species by 2050 under two alternative climate change trajectories: a baseline scenario, where the global mean temperature increases by 4°C by the end of the century, and a 2 degrees scenario, where global concerted effort limits the temperature increase to below 2°C. For the latter scenario, we also quantify the pressure exerted by increased cultivation of energy biomass as modelled by IMAGE2.4, an integrated land-use model. The global bioenergy use in this scenario is in the lower end of the range of previously estimated sustainable potential. Under the assumptions of these scenarios, we find that the magnitude of range shifts due to climate change is far greater than the impact of land conversion to woody bioenergy plantations within the European Union, and that mitigation of climate change reduces the exposure experienced by species. However, we identified potential for local conservation conflict between priority areas for conservation and bioenergy production. These conflicts must be addressed by strict bioenergy sustainability criteria that acknowledge biodiversity conservation needs beyond existing protected areas and apply also to biomass imported from outside the European Union. PMID: 26681982 [PubMed] 


2. Mitochondrial DNA. 2015 Dec 18:1-2. [Epub ahead of print] 
The complete mitochondrial genome of the green-backed tit Parus monticolus (Passeriformes: Paridae). 
Wen L(1), Fu Y(1), Dai B(1), Liao J(1). Author information: (1)a Sichuan Institute Key Laboratory for Protecting Endangered Birds in the Southwest Mountains, College of Life Sciences, Leshan Normal University , Leshan , People's Republic of China. 

Abstract
The complete mitochondrial genome of the green-backed tit Parus monticolus was assembled from Illumina sequencing reads. The genome is 16 771 bp long, and harbors 22 transfer RNAs (tRNAs), 13 protein-coding genes (PCGs), two ribosomal RNAs (rRNAs), and one control region. All PCGs are initiated with the ATG codon except for COX1 with GTG as its start codon. Five distinct types of stop codons are inferred, i.e. AGA (ND1 and ND5), AGG (COX1), TAA (ATP6, ATP8, COX2, ND3 and ND4L), TAG (ND6), and the incomplete codon T/TA (COX3, CYTB, ND2 and ND4). The 22 tRNAs range in size from 66 to 75 bp. The 12S and 16S rRNAs are 982 and 1601 bp long, respectively, and are separated by tRNA-Val gene. The putative control region is located between tRNA-Glu and tRNA-Phe with a length of 1187 bp. Phylogenetic analysis indicated that this species is closely related to its congener P. major. PMID: 26681602 [PubMed - as supplied by publisher] 3. Genetica. 2015 Dec 17. [Epub ahead of print] Gene structure and evolution of transthyretin in the order Chiroptera. Khwanmunee J(1), Leelawatwattana L(1), Prapunpoj P(2). Author information: (1)Department of Biochemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, 90110, Thailand. (2)Department of Biochemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, 90110, Thailand. porntip.p@psu.ac.th. Bats are mammals in the order Chiroptera. Although many extensive morphologic and molecular genetics analyses have been attempted, phylogenetic relationships of bats has not been completely resolved. The paraphyly of microbats is of particular controversy that needs to be confirmed. In this study, we attempted to use the nucleotide sequence of transthyretin (TTR) intron 1 to resolve the relationship among bats. To explore its utility, the complete sequences of TTR gene and intron 1 region of bats in Vespertilionidae: genus Eptesicus (Eptesicus fuscus) and genus Myotis (Myotis brandtii, Myotis davidii, and Myotis lucifugus), and Pteropodidae (Pteropus alecto and Pteropus vampyrus) were extracted from the retrieved sequences, whereas those of Rhinoluphus affinis and Scotophilus kuhlii were amplified and sequenced. The derived overall amino sequences of bat TTRs were found to be very similar to those in other eutherians but differed from those in other classes of vertebrates. However, missing of amino acids from N-terminal or C-terminal region was observed. The phylogenetic analysis of amino acid sequences suggested bat and other eutherian TTRs lineal descent from a single most recent common ancestor which differed from those of non-placental mammals and the other classes of vertebrates. The splicing of bat TTR precursor mRNAs was similar to those of other eutherian but different from those of marsupial, bird, reptile and amphibian. Based on TTR intron 1 sequence, the inferred evolutionary relationship within Chiroptera revealed more closely relatedness of R. affinis to megabats than to microbats. Accordingly, the paraphyly of microbats was suggested. PMID: 26681450 [PubMed - as supplied by publisher] 


4. Mitochondrial DNA. 2015 Dec 18:1-2. [Epub ahead of print] 

The complete mitochondrial genome sequence of Japanese murrelet (Aves: Alcidae) and its phylogenetic position in Charadriiformes. 
Eo SH(1), An J(2). Author information: (1)a Department of Forest Resources , Kongju National University , Chungnam , Republic of Korea and. (2)b Animal Resources Division, National Institute of Biological Resources , Incheon , Republic of Korea. 

Abstract
The Japanese murrelet (Synthliboramphus wumizusume) is a threatened bird endemic to Japan, Korea, and Russia. We generated the complete mitochondrial genome sequence to provide molecular genetic information for phylogeny and conservation of the species. The S. wumizusume mitochondrial genome is 16 714 bp in length and comprises 13 protein-coding genes, 22 transfer RNAs, two ribosomal RNAs, a non-coding control region, and a repeat region. Gene composition and order in the genome is consistent with that of other mitochondrial genomes of the order Charadriiformes currently available in the GenBank. Phylogenetic analysis using all available Charadriiform mitochondrial genomes revealed that interfamilial relationships of the birds based on mitochondrial genes were in agreement with those based on multilocus nuclear genes. The complete mitochondrial genome of S. wumizusume we sequenced might be a useful genetic resource for phylogenetic relationships, evolutionary biology, and conservation of the species. PMID: 26680731 [PubMed - as supplied by publisher] 


5. Res Vet Sci. 2015 Dec;103:87-95. doi: 10.1016/j.rvsc.2015.09.015. Epub 2015 Sep 25. 

Drinking water application of Denagard® Tiamulin for control of Brachyspira pilosicoli infection of laying poultry.
Woodward MJ(1), Mappley L(1), Le Roy C(1), Claus SP(1), Davies P(2), Thompson G(2), La Ragione RM(3). Author information: (1)Department of Food and Nutritional Sciences, School of Chemistry, Food and Pharmacy, University of Reading, Whiteknights Parks, P.O. Box 226, Reading RG6 6AP, UK. (2)Animal Health Agency, Woodham Lane, New Haw, Addlestone, Surrey KT15 3NB, UK. (3)Animal Health Agency, Woodham Lane, New Haw, Addlestone, Surrey KT15 3NB, UK; School of Veterinary Medicine, Faculty of Health and Medical Sciences, University of Surrey, Guildford, Surrey GU2 7XH, UK. 

Abstract
Avian intestinal spirochaetosis (AIS) caused by Brachyspira spp., and notably Brachyspira pilosicoli, is common in layer flocks and reportedly of increasing incidence in broilers and broiler breeders. Disease manifests as diarrhoea, increased feed consumption, reduced growth rates and occasional mortality in broilers and these signs are shown in layers also associated with a delayed onset of lay, reduced egg weights, faecal staining of eggshells and non-productive ovaries. Treatment with Denagard® Tiamulin has been used to protect against B. pilosicoli colonisation, persistence and clinical presentation of AIS in commercial layers, but to date there has been no definitive study validating efficacy. Here, we used a poultry model of B. pilosicoli infection of layers to compare the impact of three doses of Denagard® Tiamulin. Four groups of thirty 17week old commercial pre-lay birds were all challenged with B. pilosicoli strain B2904 with three oral doses two days apart. All birds were colonised within 2days after the final oral challenge and mild onset of clinical signs were observed thereafter. A fifth group that was unchallenged and untreated was also included for comparison as healthy birds. Five days after the final oral Brachypira challenge three groups were given Denagard® Tiamulin in drinking water made up following the manufacturer's recommendations with doses verified as 58.7ppm, 113ppm and 225ppm. Weight gain body condition and the level of diarrhoea of birds infected with B. pilosicoli were improved and shedding of the organism reduced significantly (p=0.001) following treatment with Denagard® Tiamulin irrespective of dose given. The level and duration of colonisation of organs of birds infected with B. pilosicoli was also reduced. Confirming previous findings we showed that the ileum, caeca, colon, and both liver and spleen were colonised and here we demonstrated that treatment with Denagard® Tiamulin resulted in significant reduction in the numbers of Brachyspira found in each of these sites and dramatic reduction in faecal shedding (p<0.001) to approaching zero as assessed by culture of cloacal swabs. Although the number of eggs produced per bird and the level of eggshell staining appeared unaffected, egg weights of treated birds were greater than those of untreated birds for a period of approximately two weeks following treatment. These data conclusively demonstrate the effectiveness of Denagard® Tiamulin in reducing B. pilosicoli infection in laying hens. Copyright © 2015 Elsevier Ltd. All rights reserved. PMID: 26679801 [PubMed - in process] 


6. Mitochondrial DNA. 2015 Dec 18:1-2. [Epub ahead of print] 

The complete mitochondrial genome of the white-browed laughing thrush Garrulax sannio (Passeriformes: Leiothrichidae). 
Wen L(1,)(2), Wang Y(2), Fu Y(1), Dai B(1). Author information: (1)a Sichuan Institute Key Laboratory for Protecting Endangered Birds in the Southwest Mountains, College of Life Sciences, Leshan Normal University , Leshan , People's Republic of China and. (2)b Department of Biological and Environmental Sciences , Alabama A&M University , Normal , AL , USA. 

Abstract
The complete mitochondrial genome of the white-browed laughing thrush Garrulax sannio was assembled using next-generation sequencing (NGS) technology. The double-stranded circular genome is 17 848 bp in length, including 22 transfer RNAs (tRNAs), 13 protein-coding genes (PCGs), two ribosomal RNAs (rRNAs), and 2 putative control region. All PCGs are initiated with the ATG codon except for COX1 with GTG as its start codon. Five distinct types of stop codons are present, i.e., AGA (ND5), AGG (COX1 and ND1), TAA (ATP6, ATP8, COX2, CYTB, and ND4L), TAG (ND6), and the incomplete codon T/TA (COX3, ND2, ND3, and ND4). The nucleotide composition is moderately asymmetric (28.94% A, 32.82% C, 15.00% G, and 23.24% T) with an overall GC content of 47.82% ("light strand"). Phylogenetic analysis indicated a close genetic relationship between this species and its congeners G. perspicillatus, G. cineraceus, and G. canorus. PMID: 26679731 [PubMed - as supplied by publisher] 


7. Mitochondrial DNA. 2015 Dec 18:1-2. [Epub ahead of print] 

The assembly and annotation of the complete Rufous-bellied thrush mitochondrial genome. 
Gomes de Sá P(1), Veras A(1), Fontana CS(2), Aleixo A(3), Burlamaqui T(1), Mello CV(4), de Vasconcelos AT(5), Prosdocimi F(6), Ramos R(1), Schneider M(1), Silva A(1). Author information: (1)a Institute of Biological Sciences, Federal University of Pará , Belem, Pará , Brazil ; (2)b PUCRS - Museu De Ciências E Tecnologia (MCT), Graduate Program in Zoology Pontifícia Universidade Católica Do Rio Grande Do Sul (PUCRS) , Porto Alegre , Rio Grande Do Sul , Brazil ; (3)c Museu Paraense Emílio Goeldi , Belém , Pará , Brazil ; (4)d Department of Behavioral Neuroscience , Oregon Health and Science University , Portland , OR , USA ; (5)e Bioinformatics Laboratory , National Laboratory of Scientific Computation (LNCC/MCTI) , Petrópolis , Rio De Janeiro , Brazil ; (6)f Genomics and Biodiversity Laboratory , Medical Biochemical Institute Leopoldo De Meis, Federal University of Rio De Janeiro , Rio De Janeiro , Brazil. 

Abstract
Among known bird species, oscines are one of the few groups that produce complex vocalizations due to vocal learning. One of the most conspicuous oscine passerines in southeastern South America is the Rufous-bellied Thrush, Turdus rufiventris. The complete mitochondrial genome of this species was sequenced with the Illumina HiSeq platform (Illumina Inc., San Diego, CA), assembled using MITObim software and annotated by MITOS web server and Artemis software. This mitogenome contained 16 669 bases, organized as 13 protein-coding genes, 22 transfer RNAs, two ribosomal RNAs, and a control region (d-loop). The sequencing of the Rufous-bellied Thrush mitochondrial genome is of particular interest for better understanding of population genetics and phylogeography of the Turdidae family. PMID: 26679427 [PubMed - as supplied by publisher] 


8. Mol Ecol. 2015 Dec 17. doi: 10.1111/mec.13519. [Epub ahead of print] 

Evidence from Pyrosequencing Indicates that Natural Variation in Animal Personality is Associated with DRD4 DNA Methylation. 
Verhulst EC(1,)(2), Mateman CA(1), Zwier MV(3), Caro SP(1), Verhoeven KJ(2), van Oers K(1). Author information: (1)Department of Animal Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands. (2)Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands. (3)Center for Liver, Department of Pediatrics, University Medical Center Groningen, University of Groningen, Digestive and Metabolic Diseases, Groningen, The Netherlands. 

Abstract
Personality traits are heritable and respond to natural selection, but are at the same time influenced by the ontogenetic environment. Epigenetic effects, such as DNA methylation, have been proposed as a key mechanism to control personality variation. However, to date little is known about the contribution of epigenetic effects to natural variation in behaviour. Here we show that great tit (Parus major) lines artificially selected for divergent exploratory behaviour for four generations differ in their DNA methylation levels at the Dopamine Receptor D4 (DRD4) gene. This D4 receptor is statistically associated with personality traits in both humans and non-human animals, including the great tit. Previous work in this songbird failed to detect functional genetic polymorphisms within DRD4 that could account for the gene-trait association. However, our observation supports the idea that DRD4 is functionally involved in exploratory behaviour but that its effects are mediated by DNA methylation. While the exact mechanism underlying the transgenerational consistency of DRD4 methylation remains to be elucidated, this study shows that epigenetic mechanisms are involved in shaping natural variation in personality traits. We outline how this first finding provides a basis for investigating the epigenetic contribution to personality traits in natural systems and its subsequent role for understanding the ecology and evolution of behavioural consistency. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved. PMID: 26678756 [PubMed - as supplied by publisher] 


9. Mitochondrial DNA. 2015 Dec 18:1-2. [Epub ahead of print] 

Complete mitochondrial genome and phylogenetic relationship analysis of Garrulax affinis (Passeriformes, Timaliidae). 
Huang R(1), Zhou Y(2), Yao Y(2), Zhao B(2), Zhang Y(2), Xu HL(1). Author information: (1)a College of Life Science, Sichuan Agricultural University , Ya'an , China and. (2)b College of Animal Science and Technology, Sichuan Agricultural University , Chengdu , China. 

Abstract
Garrulax affinis was a medium-sized bird of Timaliidae, and we got its complete mitochondrial genome by the polymerase chain reaction method (PCR). The genome (17 856 in length), it contained 13 protein-coding genes, 2 rRNA (12S and 16S) genes, 2 tRNA genes, 2 control regions (D-loop). All protein-coding, rRNA, and tRNA genes were similar to other Passeriformes in gene arrangement and composition. In 13 PCGs, 12 were initiated with ATG, only COI was GTG, and stopped by five types of stop codons. We constructed a phylogenetic tree based on 13 PCGs of G. affinis and other nine Timaliidae species, found that the species belong to the same Passeriformes all cluster together. PMID: 26678550 [PubMed - as supplied by publisher] 


10. Parasitol Res. 2015 Dec 17. [Epub ahead of print] 

Hemosporidian parasites of free-living birds in the São Paulo Zoo, Brazil. 
Chagas CR(1), Guimarães LO(2), Monteiro EF(2), Valkiūnas G(3), Katayama MV(4), Santos SV(5), Guida FJ(1), Simões RF(2), Kirchgatter K(6). Author information: (1)São Paulo Zoological Park Foundation, Av. Miguel Estéfano 4241, São Paulo, SP, 04301-905, Brazil. (2)Malaria Research Center, Superintendence for Endemic Disease Control, São Paulo Institute of Tropical Medicine, University of São Paulo, Av. Dr. Enéas de Carvalho Aguiar 470, São Paulo, SP, 05403-000, Brazil. (3)Nature Research Centre, Akademijos 2, Vilnius, 08412, Lithuania. (4)Post-Graduate Program of Ecology and Natural Resources, Department of Ecology and Evolutionary Biology, Federal University of São Carlos, Rodovia Washington Luis km 235, São Carlos, SP, 13565-905, Brazil. (5)Post-Graduate Program of Infectology, Federal University of São Paulo, Rua Sena Madureira 1500, São Paulo, SP, 04021-001, Brazil. (6)Malaria Research Center, Superintendence for Endemic Disease Control, São Paulo Institute of Tropical Medicine, University of São Paulo, Av. Dr. Enéas de Carvalho Aguiar 470, São Paulo, SP, 05403-000, Brazil. karink@usp.br. 

Abstract
Numerous studies addressed the diversity of bird Plasmodium and Haemoproteus parasites. However, a few have been carried out in continental avian hotspot regions such as Brazil, a country with markedly different biomes, including Amazon, Brazilian Savanna, Atlantic Forest, Caatinga, Pantanal, and Pampas. We present the first study on hemosporidian (Haemosporida) parasites in free-living birds from an Atlantic Forest fragment where more than 80 avian species have been reported. Within this area, the São Paulo Zoo locates, and it is the fourth largest zoo in the world and the largest in Latin America. A total of 133 free-living bird samples representing 12 species were collected in the zoo, with the overall hemosporidian prevalence of 18 % by PCR-based diagnostics. Twenty-four positive PCR signals were reported from four different bird species, including migratory ones. Columba livia, an urban species, considered nowadays a pest in big cities, showed 100 % prevalence of Haemoproteus spp., mainly Haemoproteus columbae. We discuss the epidemiological importance of new parasites introduced by migratory birds in the São Paulo Zoo area and the risk it poses to the captive species, which are natives or exotics. We also warn about the influence these parasites can have on the biodiversity and the structure of host populations by altering the competitive interaction between the free-living and the captive birds. PMID: 26677094 [PubMed - as supplied by publisher] 


11. Environ Monit Assess. 2016 Jan;188(1):34. doi: 10.1007/s10661-015-5017-1. Epub 2015 Dec 16. 

Sediment contaminant surveillance in Milford Haven Waterway. 
Little DI(1), Bullimore B(2), Galperin Y(3), Langston WJ(4). Author information: (1)Environmental Consultancy, Swavesey, Cambridge, CB24 4RL, UK. david.i.little@btinternet.com. (2)Deep Green Seas, Marine Environmental Consultancy, Tiers Cross, Haverfordwest, SA62 3DG, UK. (3)Environmental Geochemistry Consulting, Moorpark, CA, 93021, USA. (4)Marine Biological Association, Citadel Hill, Plymouth, PL1 2PB, UK. 

Abstract
Sediment contaminants were monitored in Milford Haven Waterway (MHW) since 1978 (hydrocarbons) and 1982 (metals), with the aim of providing surveillance of environmental quality in one of the UK's busiest oil and gas ports. This aim is particularly important during and after large-scale investment in liquefied natural gas (LNG) facilities. However, the methods inevitably have changed over the years, compounding the difficulties of coordinating sampling and analytical programmes. After a review by the MHW Environmental Surveillance Group (MHWESG), sediment hydrocarbon chemistry was investigated in detail in 2010. Natural Resources Wales (NRW) contributed their MHW data for 2007 and 2012, collected to assess the condition of the Special Area of Conservation (SAC) designated under the European Union Habitats Directive. Datasets during 2007-2012 have thus been more comparable. The results showed conclusively that a MHW-wide peak in concentrations of sediment polycyclic aromatic hydrocarbons (PAHs), metals and other contaminants occurred in late 2007. This was corroborated by independent annual monitoring at one centrally located station with peaks in early 2008 and 2011. The spatial and temporal patterns of recovery from the 2007 peak, shown by MHW-wide surveys in 2010 and 2012, indicate several probable causes of contaminant trends, as follows: atmospheric deposition, catchment runoff, sediment resuspension from dredging, and construction of two LNG terminals and a power station. Adverse biological effects predictable in 2007 using international sediment quality guidelines were independently tested by data from monitoring schemes of more than a decade duration in MHW (starfish, limpets) and in the wider SAC (grey seals). Although not proving cause and effect, many of these potential biological receptors showed a simultaneous negative response to the elevated 2007 contamination following intense dredging activity in 2006. Wetland bird counts were typically at a peak in the winter of 2005-2006 previous to peak dredging. In the following winter 2006-2007, shelduck in the Pembroke River showed their lowest winter count, and spring 2007 was the largest ever drop in numbers of shelduck broods across MHW between successive breeding seasons. Wigeon counts in the Pembroke River were low in 2006-2007 and in late 2012 after further dredging nearby. These results are strongly supported by PAH data reported previously from invertebrate bioaccumulation studies in MHW 2007-2010, themselves closely reflecting sediment trends for PAHs in the Pembroke River and Angle Bay. PMID: 26676410 [PubMed - in process] 


12. Braz J Biol. 2015 Nov;75(4):1008-17. doi: 10.1590/1519-6984.05714. Epub 2015 Nov 10. 

The impact of anthropogenic food supply on fruit consumption by dusky-legged guan (Penelope obscura Temminck, 1815): potential effects on seed dispersal in an Atlantic forest area. 
Vasconcellos-Neto J(1), Ramos RR(1), Pinto LP(1). Author information: (1)Instituto de Biologia, Universidade Estadual de Campinas, Campinas, SP, Brazil. 

Abstract
Frugivorous birds are important seed dispersers and influence the recruitment of many plant species in the rainforest. The efficiency of this dispersal generally depends on environment quality, bird species, richness and diversity of resources, and low levels of anthropogenic disturbance. In this study, we compared the sighting number of dusky-legged guans (Penelope obscura) by km and their movement in two areas of Serra do Japi, one around the administrative base (Base) where birds received anthropogenic food and a pristine area (DAE) with no anthropogenic resource. We also compared the richness of native seeds in feces of birds living in these two areas. Although the abundance of P. obscura was higher in the Base, these individuals moved less, dispersed 80% fewer species of plants and consumed 30% fewer seeds than individuals from DAE. The rarefaction indicated a low richness in the frugivorous diet of birds from the Base when compared to the populations from DAE. We conclude that human food supply can interfere in the behavior of these birds and in the richness of native seeds dispersed. PMID: 26675919 [PubMed - in process] 


13. Braz J Biol. 2015 Nov;75(4):953-62. doi: 10.1590/1519-6984.03414. Epub 2015 Nov 10. 

Hematological, morphological and morphometric characteristics of blood cells from rhea, Rhea Americana (Struthioniformes: Rheidae): a standard for Brazilian birds. 
Gallo SS(1), Ederli NB(2), Bôa-Morte MO(1), Oliveira FC(1). Author information: (1)Laboratório de Sanidade Animal, Universidade Estadual do Norte Fluminense, Campos dos Goytacazes, RJ, Brazil. (2)Universidade Federal do Pará, Marajó-Breves, PA, Brazil. 

Abstract
Blood exams are an indispensable tool in bird medicine. This study aimed at describing values and aspects of rheas' hematology, Rhea americana, as well as analyzing the morphology and morphometry of all blood cells. Fifty eight adult rheas of both sexes from two farms, one in Cachoeiro de Itapemirim, Espírito Santo State and the other in São Carlos, São Paulo State, were selected. Blood samples were taken and RBC count, PCV and Hb levels measured and used in hematimetric indexes calculations. The total and differentiated leukocyte counts, as well as the TPP and fibrinogen were determined. Erythrocytes, leukocytes and thrombocytes were identified and characterized morphologically. The values for the red series and hematimetric indexes were: RBC (2.81±0.15×106/μL), PCV (44.20±2.86%), Hb (12.12±0.74 g/dL), MCV (15.75±0.89 fL), MCH (43.18±1.82 pg), MCHC (27.44±0.80 g/dL); the values of white series were: WBC (12.072±4116/μL), heterophils (64.10±9.90%), eosinophils (2.05±2.06%), monocytes (6.40±2.99%), lymphocytes (26.93±9.62%), basophils (0.52±1.27%). One may conclude that on average, rheas' blood cells are larger than those of other birds, but these cells in smears cannot be differentiated only by their size. Besides rheas' leukocytes have different components and coloring as in other bird species, however, there are no components or staining aspects unique to the species. PMID: 26675913 [PubMed - in process] 


14. Braz J Biol. 2015 Nov;75(4):932-5. doi: 10.1590/1519-6984.02914. Epub 2015 Nov 10. 

Trace elements concentrations in Buff-breasted Sandpiper sampled in Lagoa do Peixe National Park, Southern Brazil. 
Scherer JF(1), Scherer AL(1), Barbieri E(2), Petry MV(1), Valiati VH(1). Author information: (1)Centro de Ciências da Saúde, Universidade do Vale do Rio dos Sinos, São Leopoldo, RS, Brazil. (2)Instituto de Pesca, Cananéia, SP, Brazil. 

Abstract
Cadmium, cobalt, chromium, copper, manganese, nickel, zinc and lead concentrations were detected in feathers of Buff-breasted Sandpipers (Calidris subruficollis) captured during the non-breeding season and analyzed with relationship to body mass. Of these metals tested for, only copper levels (2.28 µg/g) were positively correlated with bird body mass. Zinc levels showed higher concentration (67.97 µg/g) than the other metals, and cadmium levels showed the lowest concentration (0.14 µg/g). Trace element concentrations were below toxicity levels for all tested chemicals and we suggest that this probably reflects that essential elements are maintained there by normal homeostatic mechanism and that no excessive environmental exposure to these elements during migration or on the wintering area is suggested by these results. PMID: 26675909 [PubMed - in process] 


15. PLoS One. 2015 Dec 15;10(12):e0144949. doi: 10.1371/journal.pone.0144949. eCollection 2015. 

Asymmetric Response of Costa Rican White-Breasted Wood-Wrens (Henicorhina leucosticta) to Vocalizations from Allopatric Populations. 
Pegan TM(1), Rumelt RB(1), Dzielski SA(1), Ferraro MM(1), Flesher LE(1), Young N(1), Class Freeman A(2), Freeman BG(1,)(2). Author information: (1)Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY, United States of America. (2)Cornell Laboratory of Ornithology, Ithaca, NY, United States of America. 

Abstract
Divergence in song between allopatric populations can contribute to premating reproductive isolation in territorial birds. Song divergence is typically measured by quantifying divergence in vocal traits using audio recordings, but field playback experiments provide a more direct way to behaviorally measure song divergence between allopatric populations. The White-breasted Wood-Wren (Henicorhina leucosticta; hereafter "WBWW") is an abundant Neotropical species with four mitochondrial clades (in Central America, the Darién, the Chocó and the Amazon) that are deeply divergent (~5-16% sequence divergence). We assessed the possibility that the WBWW as currently defined may represent multiple biological species by conducting both statistical analysis of vocal characters and field playback experiments within three clades (Central America, Chocó and Amazon). Our analysis of vocal traits revealed that Central American songs overlapped in acoustic space with Chocó songs, indicating vocal similarity between these two populations, but that Central American songs were largely divergent from Amazonian songs. Playback experiments in the Caribbean lowlands of Costa Rica revealed that Central American WBWWs typically responded aggressively to songs from the Chocó population but did not respond to playback of songs from the Amazonian population, echoing the results of the vocal trait analysis. This marked difference in behavioral response demonstrates that the songs of Central American and Amazonian WBWWs (but not Central American and Chocó WBWWs) have diverged sufficiently that Central American WBWWs no longer recognize song from Amazonian WBWWs as a signal to elicit territorial defense. This suggests that significant premating reproductive isolation has evolved between these two populations, at least from the perspective of the Central American population, and is consistent with the possibility that Central American and Amazonian populations represent distinct biological species. We conclude by advocating for the further use of field playback experiments to assess premating reproductive isolation (and species limits) between allopatric songbird populations, a situation where behavioral systematics can answer questions that phylogenetic systematics cannot. PMID: 26671001 [PubMed - in process] 


16. Br Poult Sci. 2015 Dec 15. [Epub ahead of print] 

Predicted optimum ambient temperatures for broiler chickens to dissipate metabolic heat do not affect performance or improve breast muscle quality. 
Zahoor I(1,)(2), Mitchell MA(3), Hall S(3), Beard PM(1), Gous RM(4), de Koning DJ(1,)(5), Hocking PM(1). Author information: (1)a Roslin Institute and R(D)SVS , University of Edinburgh , Easter Bush, Midlothian , EH25 9RG , UK . (2)b University of Veterinary and Animal Sciences , Lahore , Pakistan . (3)c SRUC , Easter Bush, Midlothian , EH25 9RG , UK . (4)d University of KwaZulu-Natal , Private Bag X01, Scottsville 3209 , South Africa. (5)e Department of Animal Breeding and Genetics , Swedish University of Agricultural Sciences , 750 07 Uppsala , Sweden. 

Abstract
1. An experiment was conducted to test the hypothesis that muscle damage in fast growing broiler chickens is associated with an ambient temperature that does not permit the birds to lose metabolic heat resulting in physiological heat stress and a reduction in meat quality. 2. The experiment was performed in 4 climate chambers and was repeated in two trials using a total of 200 male broiler chickens. Two treatments compared the recommended temperature profile and a cool regimen. The cool regimen was defined by a theoretical model that determined the environmental temperature that would enable heat generated by the bird to be lost to the environment. 3. There were no differences in growth rate or feed intake between the two treatments. Breast muscles from birds on the recommended temperature regimen were lighter, less red and more yellow than those from the cool temperature regimen. There were no differences in moisture loss or shear strength but stiffness was greater in breast muscle from birds housed in the cool compared to the recommended regimen. 4. Histopathological changes in the breast muscle were similar in both treatments and were characterised by mild to severe myofibre degeneration and necrosis with regeneration, fibrosis and adipocyte infiltration. There was no difference in plasma creatine kinase activity, a measure of muscle cell damage, between the two treatments consistent with the absence of differences in muscle pathology. 5. It was concluded that breast muscle damage in fast growing broiler chickens was not the result of an inability to lose metabolic heat at recommended ambient temperatures. The results suggest that muscle cell damage and breast meat quality concerns in modern broiler chickens are related to genetic selection for muscle yields and that genetic selection to address breast muscle integrity in a balanced breeding programme is imperative. PMID: 26670305 [PubMed - as supplied by publisher] 


17. Epidemiol Infect. 2015 Dec 16:1-7. [Epub ahead of print] 

Managing a cluster outbreak of psittacosis in Belgium linked to a pet shop visit in The Netherlands. 
DE Boeck C(1), Dehollogne C(2), Dumont A(1), Spierenburg M(3), Heijne M(4), Gyssens I(5), VAN DER Hilst J(5), Vanrompay D(1). Author information: (1)Laboratory for Immunology and Animal Biotechnology,Faculty of Bioscience Engineering,Ghent University,Ghent,Belgium. (2)Flemish Agency for Care and Health,Hasselt,Belgium. (3)Netherlands Food and Consumer Product Safety Authority,Utrecht,The Netherlands. (4)Central Veterinary Institute of Wageningen University and Research Centre,Lelystad,The Nederlands. (5)Department of Infectious Diseases and Immunity,Jessa Hospital,Hasselt,Belgium;Hasselt University,Hasselt,Belgium. 

Abstract
In July 2013, a Belgian couple were admitted to hospital because of pneumonia. Medical history revealed contact with birds. Eleven days earlier, they had purchased a lovebird in a pet shop in The Netherlands. The bird became ill, with respiratory symptoms. The couple's daughter who accompanied them to the pet shop, reported similar symptoms, but was travelling abroad. On the suspicion of psittacosis, pharyngeal swabs from the couple were taken and sent to the Belgian reference laboratory for psittacosis. Culture and nested polymerase chain reaction (PCR) tests were positive for the presence of Chlamydia psittaci, and ompA genotyping indicated genotype A in both patients. The patients were treated with doxycycline and the daughter started quinolone therapy; all three recovered promptly. Psittacosis is a notifiable disease in Belgium and therefore local healthcare authorities were informed. They contacted their Dutch colleagues, who visited the pet shop. Seven pooled faecal samples were taken and analysed using PCR by the Dutch national reference laboratory for notifiable animal diseases for the presence of Chlamydia psittaci. Four (57%) samples tested positive, genotyping revealed genotype A. Enquiring about exposure to pet birds is essential when patients present with pneumonia. Reporting to health authorities, even across borders, is warranted to prevent further spread. PMID: 26669637 [PubMed - as supplied by publisher] 


18. Ecol Evol. 2015 Oct 5;5(20):4696-705. doi: 10.1002/ece3.1743. eCollection 2015. 

Bioacoustics for species management: two case studies with a Hawaiian forest bird. 
Sebastián-González E(1), Pang-Ching J(1), Barbosa JM(2), Hart P(1). Author information: (1)Department of Biology University of Hawai'i at Hilo 96720 Hilo Hawai'i. (2)Department of Global Ecology Carnegie Institution for Science 94305 Stanford California. 

Abstract
The management of animal endangered species requires detailed information on their distribution and abundance, which is often hard to obtain. When animals communicate using sounds, one option is to use automatic sound recorders to gather information on the species for long periods of time with low effort. One drawback of this method is that processing all the information manually requires large amounts of time and effort. Our objective was to create a relatively "user-friendly" (i.e., that does not require big programming skills) automatic detection algorithm to improve our ability to get basic data from sound-emitting animal species. We illustrate our algorithm by showing two possible applications with the Hawai'i 'Amakihi, Hemignathus virens virens, a forest bird from the island of Hawai'i. We first characterized the 'Amakihi song using recordings from areas where the species is present in high densities. We used this information to train a classification algorithm, the support vector machine (SVM), in order to identify 'Amakihi songs from a series of potential songs. We then used our algorithm to detect the species in areas where its presence had not been previously confirmed. We also used the algorithm to compare the relative abundance of the species in different areas where management actions may be applied. The SVM had an accuracy of 86.5% in identifying 'Amakihi. We confirmed the presence of the 'Amakihi at the study area using the algorithm. We also found that the relative abundance of 'Amakihi changes among study areas, and this information can be used to assess where management strategies for the species should be better implemented. Our automatic song detection algorithm is effective, "user-friendly" and can be very useful for optimizing the management and conservation of those endangered animal species that communicate acoustically. PMCID: PMC4670053 PMID: 26668733 [PubMed] 



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