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https://www.readbyqxmd.com/read/28100168/effects-of-pleistocene-sea-level-fluctuations-on-mangrove-population-dynamics-a-lesson-from-sonneratia-alba
#1
Yuchen Yang, Jianfang Li, Shuhuan Yang, Xinnian Li, Lu Fang, Cairong Zhong, Norman C Duke, Renchao Zhou, Suhua Shi
BACKGROUND: A large-scale systematical investigation of the influence of Pleistocene climate oscillation on mangrove population dynamics could enrich our knowledge about the evolutionary history during times of historical climate change, which in turn may provide important information for their conservation. RESULTS: In this study, phylogeography of a mangrove tree Sonneratia alba was studied by sequencing three chloroplast fragments and seven nuclear genes. A low level of genetic diversity at the population level was detected across its range, especially at the range margins, which was mainly attributed to the steep sea-level drop and associated climate fluctuations during the Pleistocene glacial periods...
January 18, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28070758/phylogeography-of-the-asian-rice-gall-midge-orseolia-oryzae-wood-mason-diptera-cecidomyiidae-in-thailand
#2
Solene Janique, Wantana Sriratanasak, Kulchana Ketsuwan, Jirapong Jairin, Ekgachai Jeratthitikul
The Asian rice gall midge (RGM) Orseolia oryzae (Wood Mason) (Diptera: Cecidomyiidae) is a major pest of rice, leading to yield losses in Thailand and many Asian countries. Despite an increasing number of reported midge outbreaks and the presence of many susceptible rice varieties, only a few studies have focused on the genetic variation of the midges. Therefore, we analyzed the phylogeography among Thai RGM populations covering north, northeast and central Thailand. Two mitochondrial DNA genes, cytochrome C oxidase I (COI) and 12S, and a non-coding repeat region (RR) situated just before COI were amplified...
January 9, 2017: Genetica
https://www.readbyqxmd.com/read/28068340/phylogeography-of-rift-valley-fever-virus-in-africa-and-the-arabian-peninsula
#3
Abdallah M Samy, A Townsend Peterson, Matthew Hall
Rift Valley Fever is an acute zoonotic viral disease caused by Rift Valley Fever virus (RVFV) that affects ruminants and humans in Sub-Saharan Africa and the Arabian Peninsula. We used phylogenetic analyses to understand the demographic history of RVFV populations, using sequence data from the three minigenomic segments of the virus. We used phylogeographic approaches to infer RVFV historical movement patterns across its geographic range, and to reconstruct transitions among host species. Results revealed broad circulation of the virus in East Africa, with many lineages originating in Kenya...
January 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28063178/landscape-genetics-indicate-recently-increased-habitat-fragmentation-in-african-forest-associated-chafers
#4
Jonas Eberle, Dennis Rödder, Marc Beckett, Dirk Ahrens
Today, indigenous forests cover less than 0.6% of South Africa's land surface and are highly fragmented. Most forest relicts are very small and typically occur in fire-protected gorges along the eastern Great Escarpment. Yet, they hold a unique and valuable fauna with high endemism and ancient phylogenetic lineages, fostered by long term climatic stability and complex micro-climates. Despite numerous studies on southern African vegetation cover, the current state of knowledge about the natural extension of indigenous forests is rather fragmentary...
January 7, 2017: Global Change Biology
https://www.readbyqxmd.com/read/28061751/evolutionary-phylogeography-and-transmission-pattern-of-echovirus-14-an-exploration-of-spatiotemporal-dynamics-based-on-the-26-year-acute-flaccid-paralysis-surveillance-in-shandong-china
#5
Peng Chen, Yan Li, Zexin Tao, Haiyan Wang, Xiaojuan Lin, Yao Liu, Suting Wang, Nan Zhou, Pei Wang, Aiqiang Xu
BACKGROUND: Echovirus 14 (E-14) causes various clinical recognized syndromes, mostly with gastrointestinal syndrome and paralysis. The current study summarized the Shandong E-14 strains isolated from a 26-year acute flaccid paralysis (AFP) surveillance, and elucidated the characterization of phylogenetic and phylogeographic relationships of E-14 worldwide. RESULTS: As a predominant serotype circulating in AFP surveillance, phylogenetic analysis showed that E-14 exhibited both time and geographic subdivision worldwide...
January 7, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28060851/molecular-evidence-of-transmission-of-influenza-a-h1n1-2009-on-a-university-campus
#6
Ramandeep Kaur Virk, Vithiagaran Gunalan, Hong Kai Lee, Masafumi Inoue, Catherine Chua, Boon-Huan Tan, Paul Anantharajah Tambyah
BACKGROUND: In the recent years, the data on the molecular epidemiology of influenza viruses have expanded enormously because of the availability of cutting-edge sequencing technologies. However, much of the information is from the temperate regions with few studies from tropical regions such as South-east Asia. Despite the fact that influenza has been known to transmit rapidly within semi-closed communities, such as military camps and educational institutions, data are limited from these communities...
2017: PloS One
https://www.readbyqxmd.com/read/28058718/mitochondrial-dna-phylogeography-of-least-cisco-coregonus-sardinella-in-alaska
#7
V M Padula, D Causey, J A López
This study presents the first detailed analysis of the mitochondrial DNA diversity of least cisco Coregonus sardinella in Alaska using a 678 bp segment of the control region (D-loop) of the mitochondrial genome. Findings suggest that the history of C. sardinella in Alaska differs from that of other species of Coregonus present in the state and surrounding regions. The examined populations of C. sardinella are genetically diverse across Alaska. Sixty-eight distinct mitochondrial haplotypes were identified among 305 individuals sampled from nine locations...
January 5, 2017: Journal of Fish Biology
https://www.readbyqxmd.com/read/28036390/the-global-phylogeography-of-lyssaviruses-challenging-the-out-of-africa-hypothesis
#8
David T S Hayman, Anthony R Fooks, Denise A Marston, Juan C Garcia-R
Rabies virus kills tens of thousands of people globally each year, especially in resource-limited countries. Yet, there are genetically- and antigenically-related lyssaviruses, all capable of causing the disease rabies, circulating globally among bats without causing conspicuous disease outbreaks. The species richness and greater genetic diversity of African lyssaviruses, along with the lack of antibody cross-reactivity among them, has led to the hypothesis that Africa is the origin of lyssaviruses. This hypothesis was tested using a probabilistic phylogeographical approach...
December 2016: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28031167/pinus-ponderosa-a-checkered-past-obscured-four-species
#9
Ann Willyard, David S Gernandt, Kevin Potter, Valerie Hipkins, Paula Marquardt, Mary Frances Mahalovich, Stephen K Langer, Frank W Telewski, Blake Cooper, Connor Douglas, Kristen Finch, Hassani H Karemera, Julia Lefler, Payton Lea, Austin Wofford
PREMISE OF THE STUDY: Molecular genetic evidence can help delineate taxa in species complexes that lack diagnostic morphological characters. Pinus ponderosa (Pinaceae; subsection Ponderosae) is recognized as a problematic taxon: plastid phylogenies of exemplars were paraphyletic, and mitochondrial phylogeography suggested at least four subdivisions of P. ponderosa. These patterns have not been examined in the context of other Ponderosae species. We hypothesized that putative intraspecific subdivisions might each represent a separate taxon...
December 28, 2016: American Journal of Botany
https://www.readbyqxmd.com/read/28028865/endemic-species-may-have-complex-histories-within-refugium-phylogeography-of-an-endangered-iberian-vole
#10
S Barbosa, J Paupério, J S Herman, C M Ferreira, R Pita, H M Vale-Gonçalves, J A Cabral, J A Garrido-García, R C Soriguer, P Beja, A Mira, P C Alves, J B Searle
Glacial refugia protected and promoted biodiversity during the Pleistocene, not only at a broader scale, but also for many endemics that contracted and expanded their ranges within refugial areas. Understanding the evolutionary history of refugial endemics is especially important in the case of endangered species to recognise the origins of their genetic structure and thus produce better informed conservation practices. The Iberian Peninsula is an important European glacial refugium, rich in endemics of conservation concern, including small mammals, such as the Cabrera vole (Microtus cabrerae)...
December 28, 2016: Molecular Ecology
https://www.readbyqxmd.com/read/28028864/genetic-structure-in-the-european-endemic-seabird-phalacrocorax-aristotelis-was-shaped-by-a-complex-interaction-of-historical-and-contemporary-physical-and-non-physical-drivers
#11
Evanthia Thanou, Stefano Sponza, Emily J Nelson, Annika Perry, Sarah Wanless, Francis Daunt, Stephen Cavers
Geographically separated populations tend to be less connected by gene flow, as a result of physical or non-physical barriers preventing dispersal, and this can lead to genetic structure. In this context, highly mobile organisms such as seabirds are interesting because the small effect of physical barriers means non-physical ones may be relatively more important. Here we use microsatellite and mitochondrial data to explore the genetic structure and phylogeography of Atlantic and Mediterranean populations of a European endemic seabird, the European Shag, Phalacrocorax aristotelis, and identify the primary drivers of their diversification...
December 28, 2016: Molecular Ecology
https://www.readbyqxmd.com/read/28028461/an-integrative-systematic-revision-and-biogeography-of-rhynchocalamus-snakes-reptilia-colubridae-with-a-description-of-a-new-species-from-israel
#12
Karin Tamar, Jiří Šmíd, Bayram Göçmen, Shai Meiri, Salvador Carranza
BACKGROUND: The colubrid snakes of the genus Rhynchocalamus are seldom studied and knowledge of their ecology and life history is scarce. Three species of Rhynchocalamus are currently recognized, R. satunini (from Turkey eastwards to Iran), R. arabicus (Yemen and Oman), and R. melanocephalus (from the Sinai Peninsula northwards to Turkey). All are slender, secretive, mainly nocturnal and rare fossorial snakes. This comprehensive study is the first to sample all known Rhynchocalamus species in order to review the intra-generic phylogenetic relationships and historical biogeography of the genus...
2016: PeerJ
https://www.readbyqxmd.com/read/28028000/phylogeography-of-toxoplasma-gondii-points-to-a-south-american-origin
#13
Emilie Bertranpetit, Thibaut Jombart, Emmanuel Paradis, Hilda Pena, Jitender Dubey, Chunlei Su, Aurélien Mercier, Sébastien Devillard, Daniel Ajzenberg
Toxoplasma gondii, a protozoan found ubiquitously in mammals and birds, is the etiologic agent of toxoplasmosis, a disease causing substantial public health burden worldwide, including about 200,000 new cases of congenital toxoplasmosis each year. Clinical severity has been shown to vary across geographical regions, with South America exhibiting the highest burden. Unfortunately, the drivers of these heterogeneities are still poorly understood, and the geographical origin and historical spread of the pathogen worldwide are currently uncertain...
December 24, 2016: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28007567/global-phylogeography-of-oithona-similis-s-l-crustacea-copepoda-oithonidae-a-cosmopolitan-plankton-species-or-a-complex-of-cryptic-lineages
#14
Astrid Cornils, Britta Wend-Heckmann, Christoph Held
Traditionally, many small-sized copepod species are considered to be widespread, bipolar or cosmopolitan. However, these large-scale distribution patterns need to be re-examined in view of increasing evidence of cryptic and pseudo-cryptic speciation in pelagic copepods. Here, we present a phylogeographic study of Oithona similis s.l. populations from the Arctic Ocean, the Southern Ocean and its northern boundaries, the North Atlantic and the Mediterrranean Sea. O. similis s.l. is considered as one of the most abundant species in temperate to polar oceans and acts as an important link in the trophic network between the microbial loop and higher trophic levels such as fish larvae...
December 19, 2016: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/27997066/historical-processes-and-contemporary-ocean-currents-drive-genetic-structure-in-the-seagrass-thalassia-hemprichii-in-the-indo-australian-archipelago
#15
Udhi E Hernawan, Kor-Jent van Dijk, Gary A Kendrick, Ming Feng, Edward Biffin, Paul S Lavery, Kathryn McMahon
Understanding spatial patterns of gene flow and genetic structure is essential for the conservation of marine ecosystems. Contemporary ocean currents and historical isolation due to Pleistocene sea-level fluctuations have been predicted to influence the genetic structure in marine populations. In the Indo-Australian Archipelago (IAA), the world's hotspot of marine biodiversity, seagrasses are a vital component but population genetic information is very limited. Here, we reconstructed the phylogeography of the seagrass Thalassia hemprichii in the IAA based on single nucleotide polymorphisms (SNPs) and then characterised the genetic structure based on a panel of 16 microsatellite markers...
December 20, 2016: Molecular Ecology
https://www.readbyqxmd.com/read/27994175/phylogeography-genetic-diversity-and-demographic-history-of-the-iranian-kurdish-groups-based-on-mtdna-sequences
#16
Fatah Zarei, Hassan Rajabi-Maham
Throughout the history of modern humans, the current Kurdish-inhabited area has served as part of a tricontinental crossroad for major human migrations. Also, a significant body of archaeological evidence points to this area as the site of Neolithic transition. To investigate the phylogeography, origins and demographic history, mtDNA D-loop region of individuals representing four Kurdish groups from Iran were analysed. Our data indicated that most of the Kurds mtDNA lineages belong to branches of the haplogroups with the Western Eurasian origin; with small fractions of the Eastern Eurasian and sub-Saharan African lineages...
December 2016: Journal of Genetics
https://www.readbyqxmd.com/read/27992559/phylogeography-of-the-chydorus-sphaericus-group-cladocera-chydoridae-in-the-northern-palearctic
#17
Alexey A Kotov, Dmitry P Karabanov, Eugeniya I Bekker, Tatiana V Neretina, Derek J Taylor
The biodiversity and the biogeography are still poorly understood for freshwater invertebrates. The crustacean Chydorus sphaericus-brevilabris complex (Cladocera: Chydoridae) is composed of species that are important components of Holarctic freshwater food webs. Recent morphological and genetic study of the complex has indicated a substantial species diversity in the northern hemisphere. However, we know little of the geographic boundaries of these novel lineages. Moreover, a large section of the Palearctic remains unexamined at the genetic level...
2016: PloS One
https://www.readbyqxmd.com/read/27992546/between-the-balkans-and-the-baltic-phylogeography-of-a-common-vole-mitochondrial-dna-lineage-limited-to-central-europe
#18
Joanna Stojak, Allan D McDevitt, Jeremy S Herman, Boris Kryštufek, Jitka Uhlíková, Jenő J Purger, Leonid A Lavrenchenko, Jeremy B Searle, Jan M Wójcik
The common vole (Microtus arvalis) has been a model species of small mammal for studying end-glacial colonization history. In the present study we expanded the sampling from central and eastern Europe, analyzing contemporary genetic structure to identify the role of a potential 'northern glacial refugium', i.e. a refugium at a higher latitude than the traditional Mediterranean refugia. Altogether we analyzed 786 cytochrome b (cytb) sequences (representing mitochondrial DNA; mtDNA) from the whole of Europe, adding 177 new sequences from central and eastern Europe, and we conducted analyses on eight microsatellite loci for 499 individuals (representing nuclear DNA) from central and eastern Europe, adding data on 311 new specimens...
2016: PloS One
https://www.readbyqxmd.com/read/27959958/phylogeography-of-the-wheat-stem-sawfly-cephus-cinctus-norton-hymenoptera-cephidae-implications-for-pest-management
#19
Vincent Lesieur, Jean-François Martin, David K Weaver, Kim A Hoelmer, David R Smith, Wendell L Morrill, Nassera Kadiri, Frank B Peairs, Darren M Cockrell, Terri L Randolph, Debra K Waters, Marie-Claude Bon
The wheat stem sawfly, Cephus cinctus Norton (Hymenoptera: Cephidae), is a key pest of wheat in the northern Great Plains of North America, and damage resulting from this species has recently expanded southward. Current pest management practices are inadequate and uncertainty regarding geographic origin, as well as limited data on population structure and dynamics across North America impede progress towards more informed management. We examined the genetic divergence between samples collected in North America and northeastern Asia, the assumed native range of C...
2016: PloS One
https://www.readbyqxmd.com/read/27940474/phylogeography-of-the-small-indian-civet-and-origin-of-introductions-to-western-indian-ocean-islands
#20
Philippe Gaubert, Riddhi Patel, Géraldine Veron, Steven M Goodman, Maraike Willsch, Raquel Vasconcelos, André Lourenço, Marie Sigaud, Fabienne Justy, Bheem Dutt Joshi, Jörns Fickel, Andreas Wilting
The biogeographic dynamics affecting the Indian subcontinent, East and Southeast Asia during the Plio-Pleistocene has generated complex biodiversity patterns. We assessed the molecular biogeography of the small Indian civet (Viverricula indica) through mitogenome and cytochrome b + control region sequencing of 89 historical and modern samples to (i) establish a time-calibrated phylogeography across the species' native range and (ii) test introduction scenarios to western Indian Ocean islands. Bayesian phylogenetic analyses identified three geographic lineages (East Asia, sister-group to Southeast Asia and the Indian subcontinent + northern Indochina) diverging 3...
December 11, 2016: Journal of Heredity
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