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https://www.readbyqxmd.com/read/28821872/microbiota-in-the-coelomic-fluid-of-two-common-coastal-starfish-species-and-characterization-of-an-abundant-helicobacter-related-taxon
#1
Satoshi Nakagawa, Hikari Saito, Akihiro Tame, Miho Hirai, Hideyuki Yamaguchi, Takashi Sunata, Masanori Aida, Hisashi Muto, Shigeki Sawayama, Yoshihiro Takaki
Marine invertebrates associate with diverse microorganisms. Microorganisms even inhabit coelomic fluid (CF), namely, the fluid filling the main body cavity of echinoderms. The CF microbiota potentially impacts host health and disease. Here, we analysed the CF microbiota in two common coastal starfish species, Patiria pectinifera and Asterias amurensis. Although microbial community structures were highly variable among individual starfish, those of P. pectinifera were compositionally similar to those in the surrounding seawater...
August 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28821712/emergence-of-recombinant-mayaro-virus-strains-from-the-amazon-basin
#2
Carla Mavian, Brittany D Rife, James Jarad Dollar, Eleonora Cella, Massimo Ciccozzi, Mattia C F Prosperi, John Lednicky, J Glenn Morris, Ilaria Capua, Marco Salemi
Mayaro virus (MAYV), causative agent of Mayaro Fever, is an arbovirus transmitted by Haemagogus mosquitoes. Despite recent attention due to the identification of several cases in South and Central America and the Caribbean, limited information on MAYV evolution and epidemiology exists and represents a barrier to prevention of further spread. We present a thorough spatiotemporal evolutionary study of MAYV full-genome sequences collected over the last sixty years within South America and Haiti, revealing recent recombination events and adaptation to a broad host and vector range, including Aedes mosquito species...
August 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28821189/y-chromosome-markers-for-the-red-fox
#3
Halie M Rando, Jeremy T Stutchman, Estelle R Bastounes, Jennifer L Johnson, Carlos A Driscoll, Christina S Barr, Lyudmila N Trut, Benjamin N Sacks, Anna V Kukekova
The de novo assembly of the red fox (Vulpes vulpes) genome has facilitated the development of genomic tools for the species. Efforts to identify the population history of red foxes in North America have previously been limited by a lack of information about the red fox Y-chromosome sequence. However, a megabase of red fox Y-chromosome sequence was recently identified over 2 scaffolds in the reference genome. Here, these scaffolds were scanned for repeated motifs, revealing 194 likely microsatellites. Twenty-three of these loci were selected for primer development and, after testing, produced a panel of 11 novel markers that were analyzed alongside 2 markers previously developed for the red fox from dog Y-chromosome sequence...
September 1, 2017: Journal of Heredity
https://www.readbyqxmd.com/read/28821185/phylogeography-and-ecological-niche-modeling-of-the-desert-iguana-dipsosaurus-dorsalis-baird-girard-1852-in-the-baja-california-peninsula
#4
Tania Valdivia-Carrillo, Francisco J García-De León, Ma Carmen Blázquez, Carina Gutiérrez-Flores, Patricia González Zamorano
Understanding the factors that explain the patterns of genetic structure or phylogeographic breaks at an intraspecific level is key to inferring the mechanisms of population differentiation in its early stages. These topics have been well studied in the Baja California region, with vicariance and the dispersal ability of individuals being the prevailing hypothesis for phylogeographic breaks. In this study, we evaluated the phylogeographic patterns in the desert iguana (Dipsosaurus dorsalis), a species with a recent history in the region and spatial variation in life history traits...
September 1, 2017: Journal of Heredity
https://www.readbyqxmd.com/read/28820138/processes-underlying-rabies-virus-incursions-across-us-canada-border-as-revealed-by-whole-genome-phylogeography
#5
Hannah Trewby, Susan A Nadin-Davis, Leslie A Real, Roman Biek
Disease control programs aim to constrain and reduce the spread of infection. Human disease interventions such as wildlife vaccination play a major role in determining the limits of a pathogen's spatial distribution. Over the past few decades, a raccoon-specific variant of rabies virus (RRV) has invaded large areas of eastern North America. Although expansion into Canada has been largely prevented through vaccination along the US border, several outbreaks have occurred in Canada. Applying phylogeographic approaches to 289 RRV whole-genome sequences derived from isolates collected in Canada and adjacent US states, we examined the processes underlying these outbreaks...
September 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28817588/phylogeography-of-the-reticulated-python-malayopython-reticulatus-ssp-conservation-implications-for-the-worlds-most-traded-snake-species
#6
Gillian Murray-Dickson, Muhammad Ghazali, Rob Ogden, Rafe Brown, Mark Auliya
As an important economic natural resource in Southeast Asia, reticulated pythons (Malayopython reticulatus ssp.) are primarily harvested from the wild for their skins-which are prized in the luxury leather goods industry. Trade dynamics of this CITES Appendix II listed species are complex and management approaches on the country or regional level appear obscure. Little is known about the actual geographic point-of-harvest of snakes, how genetic diversity is partitioned across the species range, how current harvest levels may affect the genetic viability of populations, and whether genetic structure could (or should) be accounted for when managing harvest quotas...
2017: PloS One
https://www.readbyqxmd.com/read/28815119/extracting-geographic-locations-from-the-literature-for-virus-phylogeography-using-supervised-and-distant-supervision-methods
#7
Davy Weissenbacher, Abeed Sarker, Tasnia Tahsin, Matthew Scotch, Graciela Gonzalez
The field of phylogeography allows researchers to model the spread and evolution of viral genetic sequences. Phylogeography plays a major role in infectious disease surveillance, viral epidemiology and vaccine design. When conducting viral phylogeographic studies, researchers require the location of the infected host of the virus, which is often present in public databases such as GenBank. However, the geographic metadata in most GenBank records is not precise enough for many phylogeographic studies; therefore, researchers often need to search the articles linked to the records for more information, which can be a tedious process...
2017: AMIA Summits on Translational Science Proceedings
https://www.readbyqxmd.com/read/28813498/phylogeography-of-bivalve-meretrix-petechialis-in-the-northwestern-pacific-indicated-by-mitochondrial-and-nuclear-dna-data
#8
Xiaoxuan Wang, Lingfeng Kong, Jun Chen, Akihiko Matsukuma, Qi Li
The marine clam Meretrix petechialis is an important economic shellfish species in Northwestern Pacific, but little is known about its phylogeographical pattern. Here, we analyzed 311 samples from 22 locations along the northwestern Pacific using combined profiling of one mitochondrial gene (the first subunit of cytochrome coxidase, COI) and one nuclear DNA marker (the internal transcribed spacer region 1, ITS-1) to investigate contemporary genetic structure and reconstruct phylogenetic history of this species...
2017: PloS One
https://www.readbyqxmd.com/read/28812637/spatial-conservation-prioritization-of-biodiversity-spanning-the-evolutionary-continuum
#9
Silvia B Carvalho, Guillermo Velo-Antón, Pedro Tarroso, Ana Paula Portela, Mafalda Barata, Salvador Carranza, Craig Moritz, Hugh P Possingham
Accounting for evolutionary relationships between and within species is important for biodiversity conservation planning, but is rarely considered in practice. Here we introduce a novel framework to identify priority conservation areas accounting for phylogenetic and intraspecific diversity, integrating concepts from phylogeny, phylogeography, spatial statistics and spatial conservation prioritization. The framework allows planners to incorporate and combine different levels of evolutionary diversity and can be applied to any taxonomic group and to any region in the world...
April 28, 2017: Nature ecology & evolution
https://www.readbyqxmd.com/read/28795290/development-and-characterization-of-24-chloroplast-microsatellite-markers-for-two-species-of-eranthis-ranunculaceae
#10
Ami Oh, Byoung-Un Oh
Chloroplast microsatellites for two Korean endemic species, Eranthis byunsanensis and E. pungdoensis (Ranunculaceae), were isolated to address the questions of their distributional patterns and evolutionary relationships, using next-generation sequencing. Twenty-four polymorphic chloroplast microsatellite markers for these two species were developed, and then characterized in 65 individuals (55 individuals of E. byunsanensis and 10 individuals of E. pungdoensis). The number of alleles per locus ranged from 2 to 9; the average number of alleles across all the loci scored 4...
August 9, 2017: Molecular Biology Reports
https://www.readbyqxmd.com/read/28791206/characterization-of-microsatellite-markers-in-the-african-tropical-tree-species-guibourtia-ehie-fabaceae-detarioideae
#11
Félicien Tosso, Jean-Louis Doucet, Jérémy Migliore, Kasso Daïnou, Esra Kaymak, Franck S Monthe Kameni, Olivier J Hardy
PREMISE OF THE STUDY: Microsatellite primers (simple sequence repeats [SSRs]) were developed in Guibourtia ehie (Fabaceae, Detarioideae) to study population genetic structure and the history of African vegetation. METHODS AND RESULTS: We isolated 18 polymorphic SSRs from a nonenriched genomic library. This set of primer pairs was tested on four populations, and the results showed two to 16 alleles per locus with mean observed and expected heterozygosities of 0.27 ± 0...
July 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28753660/molecular-systematics-of-the-anchovy-genus-encrasicholina-in-the-northwest-pacific
#12
Sébastien Lavoué, Joris A M Bertrand, Hui-Yu Wang, Wei-Jen Chen, Hsuan-Ching Ho, Hiroyuki Motomura, Harutaka Hata, Tetsuya Sado, Masaki Miya
The anchovy genus Encrasicholina is an important coastal marine resource of the tropical Indo-West Pacific (IWP) region for which insufficient comparative data are available to evaluate the effects of current exploitation levels on the sustainability of its species and populations. Encrasicholina currently comprises nine valid species that are morphologically very similar. Only three, Encrasicholina punctifer, E. heteroloba, and E. pseudoheteroloba, occur in the Northwest Pacific subregion of the northeastern part of the IWP region...
2017: PloS One
https://www.readbyqxmd.com/read/28751163/leishmaniasis-in-the-major-endemic-region-of-plurinational-state-of-bolivia-species-identification-phylogeography-and-drug-susceptibility-implications
#13
Pablo Bilbao-Ramos, M Auxiliadora Dea-Ayuela, Oscar Cardenas-Alegría, Efraín Salamanca, José Antonio Santalla-Vargas, Cesar Benito, Ninoska Flores, Francisco Bolás-Fernández
The Plurinational State of Bolivia is one of the Latin American countries with the highest prevalence of leishmaniasis, highlighting the lowlands of the Department of La Paz where about 50% of the total cases were reported. The control of the disease can be seriously compromised by the intrinsic variability of the circulating species that may limit the efficacy of treatment while favoring the emergence of resistance. Fifty-five isolates of Leishmania from cutaneous and mucocutaneous lesions from patients living in different provinces of the Department of La Paz were tested...
July 24, 2017: Acta Tropica
https://www.readbyqxmd.com/read/28750851/genealogical-patterns-and-cryptic-diversity-in-an-aposematic-toad-from-nw-argentina
#14
Rute B Clemente-Carvalho, Marcos Vaira, Laura E King, Daria Koscinski, Maria I Bonansea, Stephen C Lougheed
The Yungas Redbelly Toad, Melanophryniscus rubriventris, is patchily distributed in Argentina, confined to the upland portion (1000 to 2000 meters above sea level) of the montane forests of northern and central regions of Salta, and in central-eastern and south-eastern Jujuy. This species is known for its striking aposematic color variation across its geographic distribution, and was once treated as a complex of three subspecies based on distinctive color patterns. Here we assess the geographical genetic variation within M...
July 24, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28742862/plio-pleistocene-phylogeography-of-the-southeast-asian-blue-panchax-killifish-aplocheilus-panchax
#15
Samantha V Beck, Gary R Carvalho, Axel Barlow, Lukas Rüber, Heok Hui Tan, Estu Nugroho, Daisy Wowor, Siti Azizah Mohd Nor, Fabian Herder, Zainal A Muchlisin, Mark de Bruyn
The complex climatic and geological history of Southeast Asia has shaped this region's high biodiversity. In particular, sea level fluctuations associated with repeated glacial cycles during the Pleistocene both facilitated, and limited, connectivity between populations. In this study, we used data from two mitochondrial and three anonymous nuclear markers to determine whether a fresh/brackish water killifish, Aplocheilus panchax, Hamilton, 1822, could be used to further understand how climatic oscillations and associated sea level fluctuations have shaped the distribution of biota within this region, and whether such patterns show evidence of isolation within palaeodrainage basins...
2017: PloS One
https://www.readbyqxmd.com/read/28742834/contacts-in-the-last-90-000-years-over-the-strait-of-gibraltar-evidenced-by-genetic-analysis-of-wild-boar-sus-scrofa
#16
Carmen Soria-Boix, Maria P Donat-Torres, Vicente Urios
Contacts across the Strait of Gibraltar in the Pleistocene have been studied in different research papers, which have demonstrated that this apparent barrier has been permeable to human and fauna movements in both directions. Our study, based on the genetic analysis of wild boar (Sus scrofa), suggests that there has been contact between Africa and Europe through the Strait of Gibraltar in the Late Pleistocene (at least in the last 90,000 years), as shown by the partial analysis of mitochondrial DNA. Cytochrome b and the control region from North African wild boar indicate a close relationship with European wild boar, and even some specimens belong to a common haplotype in Europe...
2017: PloS One
https://www.readbyqxmd.com/read/28733989/detecting-ancient-co-dispersals-and-host-shifts-by-double-dating-of-host-and-parasite-phylogenies-application-in-proctophyllodid-feather-mites-associated-with-passerine-birds
#17
Pavel B Klimov, Sergey V Mironov, Barry M OConnor
Inferring co-phylogeographic events requires matching the timing of these events on both host and symbiont (e.g., parasites) phylogenies because divergences of hosts and their symbionts may not temporally coincide, and host switches may occur. We investigate a large radiation of birds (Passeriformes) and their permanent symbionts, the proctophyllodid feather mites (117 species from 116 bird species; 6 genes, 11,468 nt aligned) using two time-calibration strategies for mites: fossils only and host phylogeography only...
July 22, 2017: Evolution; International Journal of Organic Evolution
https://www.readbyqxmd.com/read/28725397/genetic-diversity-and-phylogeography-of-siberian-roe-deer-caproulus-pygargus-in-central-and-peripheral-populations
#18
Yun Sun Lee, Nickolay Markov, Alexander Argunov, Inna Voloshina, Damdingiin Bayarlkhagva, Baek-Jun Kim, Mi-Sook Min, Hang Lee, Kyung Seok Kim
Current understanding of phylogeographical structure and genetic diversity of Siberian roe deer remains limited mainly due to small sample size and/or low geographical coverage in previous studies. Published data suggest at least two phylogroups: western (Ural Mountains and Western Siberia) and eastern (east from lake Baikal, including the Korean peninsula), but their phylogenetic relationship remains unclear. Combined sequences of cytochrome b (1140 bp) and the mtDNA control region (963 bp) were analyzed from 219 Siberian roe deer from 12 locations in Russia, Mongolia, and South Korea, which cover a large part of its range, to assess genetic diversity and phylogeographical status...
October 2016: Ecology and Evolution
https://www.readbyqxmd.com/read/28704536/phylogeography-in-nassarius-mud-snails-complex-patterns-in-congeneric-species
#19
Chuanliang Pu, Haitao Li, Aijia Zhu, Yiyong Chen, Yan Zhao, Aibin Zhan
One major goal for phylogeographical studies is to elucidate respective roles of multiple evolutionary and ecological forces that shape the current distribution patterns. In marine and coastal ecosystems, it has been generated a common realization that species with enormous population size and pelagic larval stages can disperse across broad geographical scales, leading to weak or even no phylogeographical structure across large geographical scales. However, the violation of such realization has been frequently reported, and it remains largely unexplored on mechanisms responsible for various phylogeographical patterns observed in different species at varied geographical scales...
2017: PloS One
https://www.readbyqxmd.com/read/28690819/molecular-genetic-analysis-of-two-native-desert-palm-genera-washingtonia-and-brahea-from-the-baja-california-peninsula-and-guadalupe-island
#20
Anastasia Klimova, Joseph I Hoffman, Jesus N Gutierrez-Rivera, Jose Leon de la Luz, Alfredo Ortega-Rubio
The complex geological and ecological processes that have generated high levels of biodiversity and endemism in the Baja California Peninsula have been the subject of intensive study. However, relatively little is known about phylogeography of the iconic endemic palm species of this region. We therefore analyzed a total of 2,294 bp of chloroplast and 738 bp of nuclear sequence data in 169 samples of five native palm species from Baja California, Sonora and Guadalupe Island. We found that Washingtonia and Brahea palms had low levels of genetic diversity and were highly structured, with the majority of species and major geographic regions being characterized by distinct haplotypes...
July 2017: Ecology and Evolution
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