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https://www.readbyqxmd.com/read/28640885/phylogeography-of-a-tough-rock-survivor-in-european-dry-grasslands
#1
Daniela Listl, Peter Poschlod, Christoph Reisch
Phylogeographic analyses of plants in Europe have revealed common glacial refugia and migration routes for several trees and herbs with arctic-alpine distributions. The postglacial histories of dry grassland species in central Europe have rarely been analyzed, even though the extremely species-rich habitat is threatened. Sedum album (Crassulaceae) is a common inhabitant of rocky sites in central European dry grasslands. We inferred the phylogeographic history of S. album over its distribution range in Europe...
2017: PloS One
https://www.readbyqxmd.com/read/28637254/phylogeography-of-lionfishes-pterois-indicate-taxonomic-over-splitting-and-hybrid-origin-of-the-invasive-pterois-volitans
#2
Christie L Wilcox, Hiroyuki Motomura, Mizuki Matsunuma, Brian W Bowen
The lionfish is an iconic marine fish, and recently renowned for a disastrous introduction into the West Atlantic. Genetic surveys of the putative invaders (Pterois volitans and P. miles) in their natural Indo-Pacific range can illuminate both topics. Previous research indicated that P. volitans and P. miles are sister species that hybridize in the invasive range, but hybridization in the native range is unknown. Here we apply mtDNA COI and two nuclear introns (S7 RP1 and Gpd2) from 229 lionfish including the two invaders and two closely-related taxa (44 P...
June 16, 2017: Journal of Heredity
https://www.readbyqxmd.com/read/28633358/phylogeography-of-herbarium-specimens-of-asexually-propagated-paper-mulberry-broussonetia-papyrifera-l-l-h%C3%A3-r-ex-vent-moraceae-reveals-genetic-diversity-across-the-pacific
#3
Claudia Payacan, Ximena Moncada, Gloria Rojas, Andrew Clarke, Kuo-Fang Chung, Robin Allaby, Daniela Seelenfreund, Andrea Seelenfreund
Background and Aims: Paper mulberry or Broussonetia papyrifera (L.) L'Hér. ex Vent. (Moraceae) is a dioecious species native to continental South-east Asia and East Asia, including Taiwan, that was introduced to the Pacific by pre-historic voyagers and transported intentionally and propagated asexually across the full range of Austronesian expansion from Taiwan to East Polynesia. The aim of this study was to gain insight into the dispersal of paper mulberry into Oceania through the genetic analysis of herbaria samples which represent a more complete coverage of the historical geographical range of the species in the Pacific before later introductions and local extinctions occurred...
June 14, 2017: Annals of Botany
https://www.readbyqxmd.com/read/28628442/phylogeography-of-burkholderia-pseudomallei-isolates-western-hemisphere
#4
Jay E Gee, Christopher A Gulvik, Mindy G Elrod, Dhwani Batra, Lori A Rowe, Mili Sheth, Alex R Hoffmaster
The bacterium Burkholderia pseudomallei causes melioidosis, which is mainly associated with tropical areas. We analyzed single-nucleotide polymorphisms (SNPs) among genome sequences from isolates of B. pseudomallei that originated in the Western Hemisphere by comparing them with genome sequences of isolates that originated in the Eastern Hemisphere. Analysis indicated that isolates from the Western Hemisphere form a distinct clade, which supports the hypothesis that these isolates were derived from a constricted seeding event from Africa...
July 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28616188/life-history-predicts-past-and-present-population-connectivity-in-two-sympatric-sea-stars
#5
Jonathan B Puritz, Carson C Keever, Jason A Addison, Sergio S Barbosa, Maria Byrne, Michael W Hart, Richard K Grosberg, Robert J Toonen
Life-history traits, especially the mode and duration of larval development, are expected to strongly influence the population connectivity and phylogeography of marine species. Comparative analysis of sympatric, closely related species with differing life histories provides the opportunity to specifically investigate these mechanisms of evolution but have been equivocal in this regard. Here, we sample two sympatric sea stars across the same geographic range in temperate waters of Australia. Using a combination of mitochondrial DNA sequences, nuclear DNA sequences, and microsatellite genotypes, we show that the benthic-developing sea star, Parvulastra exigua, has lower levels of within- and among-population genetic diversity, more inferred genetic clusters, and higher levels of hierarchical and pairwise population structure than Meridiastra calcar, a species with planktonic development...
June 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28611408/phylogeography-of-petrolisthes-armatus-an-invasive-species-with-low-dispersal-ability
#6
Alexandra Hiller, Harilaos A Lessios
Theoretically, species with high population structure are likely to expand their range, because marginal populations are free to adapt to local conditions; however, meta-analyses have found a negative relation between structure and invasiveness. The crab Petrolisthes armatus has a wide native range, which has expanded in the last three decades. We sequenced 1718 bp of mitochondrial DNA from native and recently established populations to determine the population structure of the former and the origin of the latter...
June 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28602572/the-near-east-as-a-cradle-of-biodiversity-a-phylogeography-of-banded-newts-genus-ommatotriton-reveals-extensive-inter-and-intraspecific-genetic-differentiation
#7
Isolde van Riemsdijk, Jan W Arntzen, Sergé Bogaerts, Michael Franzen, Spartak N Litvinchuk, Kurtuluş Olgun, Ben Wielstra
The banded newt (genus Ommatotriton) is widely distributed in the Near East (Anatolia, Caucasus and the Levant) - an understudied region from the perspective of phylogeography. The genus is polytypic, but the number of species included and the phylogenetic relationships between them are not settled. We sequenced two mitochondrial and two nuclear DNA markers throughout the range of Ommatotriton. For mtDNA we constructed phylogenetic trees, estimated divergence times using fossil calibration, and investigated changes in effective population size with Bayesian skyline plots and mismatch analyses...
June 13, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28600759/whole-genome-enrichment-using-rna-probes-and-sequencing-of-chlamydia-trachomatis-directly-from-clinical-samples
#8
Amanda Claire Brown, Mette T Christiansen
Whole-genome sequencing is a powerful, high-resolution tool that can be used to generate accurate data on bacterial population structure, phylogeography, and mutations associated with antimicrobial resistance. The ability to sequence pathogen genomes directly from clinical specimens, without the requirement for in vitro culturing, is attractive in terms of time- and labor-saving, especially in the case of slow-growing, or obligate intracellular pathogens, such as Chlamydia trachomatis. However clinical samples typically contain too low levels of pathogen nucleic acid, plus relatively high levels of human and natural microbiota DNA/RNA, to make this a viable option...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28594840/phylogeography-on-the-rocks-the-contribution-of-current-and-historical-factors-in-shaping-the-genetic-structure-of-chthamalus-montagui-crustacea-cirripedia
#9
Federica G Pannacciulli, Ferruccio Maltagliati, Christian de Guttry, Yair Achituv
The model marine broadcast-spawner barnacle Chthamalus montagui was investigated to understand its genetic structure and quantify levels of population divergence, and to make inference on historical demography in terms of time of divergence and changes in population size. We collected specimens from rocky shores of the north-east Atlantic Ocean (4 locations), Mediterranean Sea (8) and Black Sea (1). The 312 sequences 537 bp) of the mitochondrial cytochrome c oxidase I allowed to detect 130 haplotypes. High within-location genetic variability was recorded, with haplotype diversity ranging between h = 0...
2017: PloS One
https://www.readbyqxmd.com/read/28588562/phylogeography-and-coevolution-of-bamboo-mosaic-virus-and-its-associated-satellite-rna
#10
Ing-Nang Wang, Wen-Bin Yeh, Na-Sheng Lin
Bamboo mosaic virus (BaMV), a plant potexvirus, has been found only in infected bamboo species. It is frequently associated with a large, linear single-stranded satellite RNA (satBaMV) that encodes a non-structural protein. Decades of collecting across a wide geographic area in Asia have accumulated a sizable number of BaMV and satBaMV isolates. In this study, we reconstructed the BaMV phylogeny and satBaMV phylogeny with partial coat protein gene sequences and partial genomic sequences, respectively. The evolutionary relationships allowed us to infer the phylogeography of BaMV and satBaMV on the Asian continent and its outlying islands...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28587867/spatiotemporal-dynamics-of-influenza-a-h1n1-pdm09-in-brazil-during-the-pandemic-and-post-pandemic-periods
#11
Alessandra C B Manito, Tiago Gräf, Vagner R Lunge, Nilo Ikuta
Influenza A(H1N1)pdm09 was responsible for the first global flu pandemic in 21st century affecting all the world. In Brazil, A(H1N1)pdm09 is still circulating as a seasonal virus, causing deaths every year. Nevertheless, the viral diffusion process that yearly seeds new influenza strains in the country was not investigated yet. The aim of the current study was to describe the phylodynamics and phylogeography of influenza A(H1N1)pdm09 in Brazil between 2009 and 2014. Neuraminidase sequences from Brazil and other regions of the World were retrieved and analyzed...
June 3, 2017: Virus Research
https://www.readbyqxmd.com/read/28583078/the-conquering-of-north-america-dated-phylogenetic-and-biogeographic-inference-of-migratory-behavior-in-bee-hummingbirds
#12
Yuyini Licona-Vera, Juan Francisco Ornelas
BACKGROUND: Geographical and temporal patterns of diversification in bee hummingbirds (Mellisugini) were assessed with respect to the evolution of migration, critical for colonization of North America. We generated a dated multilocus phylogeny of the Mellisugini based on a dense sampling using Bayesian inference, maximum-likelihood and maximum parsimony methods, and reconstructed the ancestral states of distributional areas in a Bayesian framework and migratory behavior using maximum parsimony, maximum-likelihood and re-rooting methods...
June 5, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28579991/population-genetic-structure-and-phylogeography-of-camellia-flavida-theaceae-based-on-chloroplast-and-nuclear-dna-sequences
#13
Su-Juan Wei, Yong-Bin Lu, Quan-Qing Ye, Shao-Qing Tang
Camellia flavida is an endangered species of yellow camellia growing in limestone mountains in southwest China. The current classification of C. flavida into two varieties, var. flavida and var. patens, is controversial. We conducted a genetic analysis of C. flavida to determine its taxonomic structure. A total of 188 individual plants from 20 populations across the entire distribution range in southwest China were analyzed using two DNA fragments: a chloroplast DNA fragment from the small single copy region and a single-copy nuclear gene called phenylalanine ammonia-lyase (PAL)...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28578154/species-limits-phylogeography-and-reproductive-mode-in-the-metarhizium-anisopliae-complex
#14
Stephen A Rehner, Ryan M Kepler
An essential first step to elucidating the ecology and life histories of Metarhizium anisopliae-group species as entomopathogens, endophytes and soil-adapted fungi is the ability to define species limits and confidently infer a species phylogeny. In a multilocus phylogeny of the core Metarhizium anisopliae species complex, the majority of isolates sampled herein group within the currently defined limits of M. pingshaense, M. anisopliae, M. robertsii and M. brunneum, designated informally as the "PARB" clade...
May 31, 2017: Journal of Invertebrate Pathology
https://www.readbyqxmd.com/read/28567240/phylogeography-genetic-diversity-and-population-structure-in-a-patagonian-endemic-plant
#15
Alicia López, Marisa G Bonasora
Phylogeographical patterns provide valuable insight into the historical processes underlying diversification, and may provide a better understanding of biodiversity, dispersal modes, diversification times, extinctions, refuge areas and other species-/population-level processes. Here, we examine the genetic structure of Oxalis laciniata, a representative of Oxalis, which is an important emerging model in evolutionary biology and phylogenetic studies. We analyse genetic correlation, haplotype diversity and genetic structure...
May 2017: AoB Plants
https://www.readbyqxmd.com/read/28542160/the-phylogeography-of-myotis-bat-associated-rabies-viruses-across-canada
#16
Susan Nadin-Davis, Noor Alnabelseya, M Kimberly Knowles
As rabies in carnivores is increasingly controlled throughout much of the Americas, bats are emerging as a significant source of rabies virus infection of humans and domestic animals. Knowledge of the bat species that maintain rabies is a crucial first step in reducing this public health problem. In North America, several bat species are known to be rabies virus reservoirs but the role of bats of the Myotis genus has been unclear due to the scarcity of laboratory confirmed cases and the challenges encountered in species identification of poorly preserved diagnostic submissions by morphological traits alone...
May 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28539631/phylogeography-of-the-tyrrhenian-red-deer-cervus-elaphus-corsicanus-resolved-using-ancient-dna-of-radiocarbon-dated-subfossils
#17
K Doan, F E Zachos, B Wilkens, J-D Vigne, N Piotrowska, A Stanković, B Jędrzejewska, K Stefaniak, M Niedziałkowska
We present ancient mitochondrial DNA analyses of 31 complete cytochrome b gene sequences from subfossil red deer remains from the Tyrrhenian islands (Corsica and Sardinia) and mainland Italy in a European-wide phylogeographic framework. Tyrrhenian and North African red deer, both going back to human introductions, were previously the only red deer to harbour the mitochondrial B lineage whose origin, however, remained unknown. Our ancient Italian samples from the central part of the peninsula that were radiocarbon-dated to an age of ca...
May 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28535779/carriers-of-mitochondrial-dna-macrohaplogroup-r-colonized-eurasia-and-australasia-from-a-southeast-asia-core-area
#18
Jose M Larruga, Patricia Marrero, Khaled K Abu-Amero, Maria V Golubenko, Vicente M Cabrera
BACKGROUND: The colonization of Eurasia and Australasia by African modern humans has been explained, nearly unanimously, as the result of a quick southern coastal dispersal route through the Arabian Peninsula, the Indian subcontinent, and the Indochinese Peninsula, to reach Australia around 50 kya. The phylogeny and phylogeography of the major mitochondrial DNA Eurasian haplogroups M and N have played the main role in giving molecular genetics support to that scenario. However, using the same molecular tools, a northern route across central Asia has been invoked as an alternative that is more conciliatory with the fossil record of East Asia...
May 23, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28533084/gene-flow-and-genetic-drift-contribute-to-high-genetic-diversity-with-low-phylogeographical-structure-in-european-hoopoes-upupa-epops
#19
Erjia Wang, Rien E Van Wijk, Markus Santhosh Braun, Michael Wink
The Hoopoe (Upupa epops epops) breeds widely in Eurasia and most populations migrate to Africa during the boreal winter. To date, data regarding its phylogeography in Europe are missing. In this study, we investigated the phylogeography and population genetics of Hoopoes by means of mitochondrial DNA (mtDNA) sequencing as well as microsatellite genotyping. Our analyses revealed 32 haplotypes in the cytochrome c oxidase subunit I (COI) (269 individuals) and 50 haplotypes in cytochrome b (cyt b) (233 individuals)...
May 19, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28529834/development-and-characterization-of-est-ssr-markers-for-begonia-luzhaiensis-begoniaceae
#20
Yu-Hsin Tseng, Han-Yau Huang, Wei-Bin Xu, Hsun-An Yang, Yan Liu, Ching-I Peng, Kuo-Fang Chung
PREMISE OF THE STUDY: Microsatellite primers were developed for Begonia luzhaiensis (Begoniaceae) to assess genetic diversity and population genetic structure. METHODS AND RESULTS: Based on the transcriptome data of B. luzhaiensis, 60 primer pairs were selected for initial validation, of which 16 yielded polymorphic microsatellite loci in 57 individuals. The number of alleles observed for these 16 loci ranged from one to nine. The observed and expected heterozygosity ranged from 0...
May 2017: Applications in Plant Sciences
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