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- Author:
- Goto, Ryutaro
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 247-260
- ISSN:
- 1055-7903
- Subject:
- Annelida; color; genes; habitats; males; mitochondria; phylogeny; proboscis; sediments; sexual dimorphism; topology
- Abstract:
- ... Echiurans (spoon worms) are derived annelids that have secondarily lost segmentation. Recently, two molecular phylogenetic studies were performed to resolve the interfamily relationship of echiurans. However, the tree topologies were incongruent and taxon sampling was limited in both the studies. Thus, the phylogenetic relationships within echiurans remain contentious. In this study, I reevaluated ...
- DOI:
- 10.1016/j.ympev.2016.03.003
-
https://dx.doi.org/10.1016/j.ympev.2016.03.003
- Author:
- Couto, Diogo R.; Bouchet, Philippe; Kantor, Yuri I.; Simone, Luiz R.L.; Giribet, Gonzalo
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 309-322
- ISSN:
- 1055-7903
- Subject:
- Neogastropoda; Tulipa; cytochrome-c oxidase; data collection; fossils; genes; genetic markers; histones; mitochondria; monophyly; ribosomal RNA; taxonomic revisions
- Abstract:
- ... The neogastropod family Fasciolariidae Gray, 1853 – tulips, horse-conchs, spindles, etc., comprises important representatives of tropical and subtropical molluscan assemblages, with over 500 species in the subfamilies Fasciolariinae Gray, 1853, Fusininae Wrigley, 1927 and Peristerniinae Tryon, 1880. Fasciolariids have had a rather complicated taxonomical history, with several genus names for a lon ...
- DOI:
- 10.1016/j.ympev.2016.03.025
-
https://dx.doi.org/10.1016/j.ympev.2016.03.025
- Author:
- Cardinal-McTeague, Warren M.; Sytsma, Kenneth J.; Hall, Jocelyn C.
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 204-224
- ISSN:
- 1055-7903
- Subject:
- Arabidopsis thaliana; Capparaceae; Cleomaceae; Forchhammeria; age determination; biogeography; evolution; fossils; genes; mitochondria; Australia; Europe; North America; Northern Africa
- Abstract:
- ... Brassicales is a diverse order perhaps most famous because it houses Brassicaceae and, its premier member, Arabidopsis thaliana. This widely distributed and species-rich lineage has been overlooked as a promising system to investigate patterns of disjunct distributions and diversification rates. We analyzed plastid and mitochondrial sequence data from five gene regions (>8000bp) across 151 taxa to ...
- DOI:
- 10.1016/j.ympev.2016.02.021
-
https://dx.doi.org/10.1016/j.ympev.2016.02.021
- Author:
- Bilgin, Raşit; Gürün, Kanat; Rebelo, Hugo; Puechmaille, Sebastien J.; Maracı, Öncü; Presetnik, Primoz; Benda, Petr; Hulva, Pavel; Ibáñez, Carlos; Hamidovic, Daniela; Fressel, Norma; Horáček, Ivan; Karataş, Ayşegül; Karataş, Ahmet; Allegrini, Benjamin; Georgiakakis, Panagiotis; Gazaryan, Suren; Nagy, Zoltan L.; Abi-Said, Mounir; Lučan, Radek K.; Bartonička, Tomáš; Nicolaou, Haris; Scaravelli, Dino; Karapandža, Branko; Uhrin, Marcel; Paunović, Milan; Juste, Javier
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 323-336
- ISSN:
- 1055-7903
- Subject:
- Chiroptera; basins; coasts; evolution; fossils; genetic variation; models; phylogeography; Egypt; Iberian Peninsula; Israel; Lebanon; Middle East; Syria; Turkey (country)
- Abstract:
- ... The isolation of populations in the Iberian, Italian and Balkan peninsulas during the ice ages define four main paradigms that explain much of the known distribution of intraspecific genetic diversity in Europe. In this study we investigated the phylogeography of a wide-spread bat species, the bent-winged bat, Miniopterus schreibersii around the Mediterranean basin and in the Caucasus. Environment ...
- DOI:
- 10.1016/j.ympev.2016.03.024
-
https://dx.doi.org/10.1016/j.ympev.2016.03.024
- Author:
- Leavitt, Steven D.; Kraichak, Ekaphan; Vondrak, Jan; Nelsen, Matthew P.; Sohrabi, Mohammad; Perez-Ortega, Sergio; St Clair, Larry L.; Lumbsch, H. Thorsten
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 261-274
- ISSN:
- 1055-7903
- Subject:
- Parmeliaceae; Trebouxia; ecological zones; ecosystems; lichens; microhabitats; models; species diversity; symbionts; symbiosis
- Abstract:
- ... Identifying factors that influence species interactions is central to research in symbiotic systems. While lichens represent iconic models of symbiosis and play important roles in understanding the biology of symbiotic interactions, patterns of interactions in lichen symbionts and mechanisms governing these relationships are not well characterized. This is due, in part to the fact that current tax ...
- DOI:
- 10.1016/j.ympev.2016.03.030
- Chorus Open Access:
- 10.1016/j.ympev.2016.03.030
-
https://dx.doi.org/10.1016/j.ympev.2016.03.030
- Author:
- Huntley, Jerry W.; Voelker, Gary
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 297-308
- ISSN:
- 1055-7903
- Subject:
- DNA; allopatric speciation; biogeography; birds; genes; genetic variation; habitat fragmentation; haplotypes; loci; lowland forests; mitochondria; monophyly; montane forests; phenotypic variation; researchers; secondary contact; Central Africa; Western Africa
- Abstract:
- ... Recent investigations of distributional patterns of Afro-tropical lowland forest species have demonstrated to some degree our overall lack of understanding involving historical diversification patterns. Traditionally, researchers have relied upon two hypotheses, each of which views the lowland forest of Africa in differing roles. The Pleistocene Forest Refuge Hypothesis (PFRH) posits that biogeogr ...
- DOI:
- 10.1016/j.ympev.2016.04.002
-
https://dx.doi.org/10.1016/j.ympev.2016.04.002
- Author:
- Lutz, Holly L.; Patterson, Bruce D.; Kerbis Peterhans, Julian C.; Stanley, William T.; Webala, Paul W.; Gnoske, Thomas P.; Hackett, Shannon J.; Stanhope, Michael J.
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 7-15
- ISSN:
- 1055-7903
- Subject:
- Chiroptera; Plasmodium; Primates; birds; disease outbreaks; hosts; malaria; monophyly; parasites; rodents
- Abstract:
- ... Phylogenies of parasites provide hypotheses on the history of their movements between hosts, leading to important insights regarding the processes of host switching that underlie modern-day epidemics. Haemosporidian (malaria) parasites lack a well resolved phylogeny, which has impeded the study of evolutionary processes associated with host-switching in this group. Here we present a novel phylogen ...
- DOI:
- 10.1016/j.ympev.2016.03.004
-
https://dx.doi.org/10.1016/j.ympev.2016.03.004
- Author:
- Larson, Thornton R.; Castro, Delilah; Behangana, Mathias; Greenbaum, Eli
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 168-181
- ISSN:
- 1055-7903
- Subject:
- Anura; frogs; genes; global cooling; highlands; lentic systems; monophyly; new species; phylogeography; rivers; Burundi; Democratic Republic of the Congo; Southern Africa; Uganda
- Abstract:
- ... The African river frog genus Amietia is found near rivers and other lentic water sources throughout central, eastern, and southern Africa. Because the genus includes multiple morphologically conservative species, taxonomic studies of river frogs have been relatively limited. We sampled 79 individuals of Amietia from multiple localities in and near the Albertine Rift (AR) of Burundi, Democratic Rep ...
- DOI:
- 10.1016/j.ympev.2016.03.017
- PubMed:
- 27026115
- PubMed Central:
- PMC4898062
-
https://dx.doi.org/10.1016/j.ympev.2016.03.017
- Author:
- Cavalier-Smith, Thomas; Chao, Ema E.; Lewis, Rhodri
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 275-296
- ISSN:
- 1055-7903
- Subject:
- Acanthamoeba; Centramoebida; Himatismenida; Thecamoebida; Tubulinea; branching; cytoskeleton; endosymbionts; monophyly; new genus; paraphyly; ribosomal DNA; transcriptome
- Abstract:
- ... Monophyly of protozoan phylum Amoebozoa, and subdivision into subphyla Conosa and Lobosa each with different cytoskeletons, are well established. However early diversification of non-ciliate lobose amoebae (Lobosa) is poorly understood. To clarify it we used recently available transcriptomes to construct a 187-gene amoebozoan tree for 30 species, the most comprehensive yet. This robustly places ne ...
- DOI:
- 10.1016/j.ympev.2016.03.023
-
https://dx.doi.org/10.1016/j.ympev.2016.03.023
- Author:
- Maldonado-Sánchez, Denisse; Gutiérrez-Rodríguez, Carla; Ornelas, Juan Francisco
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 76-88
- ISSN:
- 1055-7903
- Subject:
- Emberizidae; climatic factors; gene flow; genetic variation; microsatellite repeats; mitochondria; mitochondrial DNA; models; mountains; niches; phylogeography; population growth; tropical montane cloud forests; Mexico
- Abstract:
- ... By integrating mitochondrial DNA (mtDNA), microsatellites and ecological niche modelling (ENM), we investigated the phylogeography of Mexican populations of the common bush-tanager Chlorospingus ophthalmicus to examine the relative role of geographical and ecological features, as well as Pleistocene climatic oscillations in driving the diversification. We sequenced mtDNA of individuals collected t ...
- DOI:
- 10.1016/j.ympev.2016.03.014
-
https://dx.doi.org/10.1016/j.ympev.2016.03.014
- Author:
- Andújar, Carmelo; Faille, Arnaud; Pérez-González, Sergio; Zaballos, Juan P.; Vogler, Alfried P.; Ribera, Ignacio
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 235-246
- ISSN:
- 1055-7903
- Subject:
- Carabidae; eyes; fossils; genes; indigenous species; islands; mitochondria; monophyly; tectonics; wings; Arctic region; New Caledonia; New Zealand
- Abstract:
- ... Anillini are a tribe of minute, euedaphic ground beetles (Carabidae) characterized by the loss of eyes, loss of wings and high levels of local endemism. Despite their presumed low dispersal, they have a nearly cosmopolitan distribution, including isolated islands such as New Zealand and New Caledonia. We used a time calibrated molecular phylogeny to test, first, if the tribe as currently understoo ...
- DOI:
- 10.1016/j.ympev.2016.03.013
-
https://dx.doi.org/10.1016/j.ympev.2016.03.013
- Author:
- Mokrousov, Igor; Vyazovaya, Anna; Iwamoto, Tomotada; Skiba, Yuriy; Pole, Ilva; Zhdanova, Svetlana; Arikawa, Kentaro; Sinkov, Viacheslav; Umpeleva, Tatiana; Valcheva, Violeta; Alvarez Figueroa, Maria; Ranka, Renate; Jansone, Inta; Ogarkov, Oleg; Zhuravlev, Viacheslav; Narvskaya, Olga
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 133-143
- ISSN:
- 1055-7903
- Subject:
- Mycobacterium tuberculosis; demographic statistics; drug resistance; humans; loci; minisatellite repeats; pathogens; phylogeny; phylogeography; Brazil; Eurasia; Japan; Mediterranean region; North America; South Africa
- Abstract:
- ... Currently, Mycobacterium tuberculosis isolates of Latin-American Mediterranean (LAM) family may be detected far beyond the geographic areas that coined its name 15years ago. Here, we established the framework phylogeny of this geographically intriguing and pathobiologically important mycobacterial lineage and hypothesized how human demographics and migration influenced its phylogeography. Phylogen ...
- DOI:
- 10.1016/j.ympev.2016.03.020
-
https://dx.doi.org/10.1016/j.ympev.2016.03.020
- Author:
- Panero, Jose L.; Crozier, Bonnie S.
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 116-132
- ISSN:
- 1055-7903
- Subject:
- Asteraceae; Calyceraceae; Goodeniaceae; genome; geographical distribution; temporal variation; Africa; South America
- Abstract:
- ... Spatial and temporal differences in ecological opportunity can result in disparity of net species diversification rates and consequently uneven distribution of taxon richness across the tree of life. The largest eudicotyledonous plant family Asteraceae has a global distribution and at least 460 times more species than its South American endemic sister family Calyceraceae. In this study, diversific ...
- DOI:
- 10.1016/j.ympev.2016.03.007
-
https://dx.doi.org/10.1016/j.ympev.2016.03.007
- Author:
- Welker, Cassiano A.D.; Souza-Chies, Tatiana T.; Longhi-Wagner, Hilda M.; Peichoto, Myriam Carolina; McKain, Michael R.; Kellogg, Elizabeth A.
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 155-167
- ISSN:
- 1055-7903
- Subject:
- sequence analysis; grasses; hybrids; biodiversity; tetraploidy; Eulalia; Bayesian theory; genes; monophyly; molecular cloning; interspecific hybridization; Angiospermae; polyphyly
- Abstract:
- ... Species delimitation is a vital issue concerning evolutionary biology and conservation of biodiversity. However, it is a challenging task for several reasons, including the low interspecies variability of markers currently used in phylogenetic reconstructions and the occurrence of reticulate evolution and polyploidy in many lineages of flowering plants. The first phylogeny of the grass genus Erioc ...
- DOI:
- 10.1016/j.ympev.2016.02.022
-
https://dx.doi.org/10.1016/j.ympev.2016.02.022
- Author:
- Lagares, Antonio; Roux, Indra; Valverde, Claudio
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 182-193
- ISSN:
- 1055-7903
- Subject:
- Ensifer meliloti; Northern blotting; RNA; Rhizobium etli; Rhizobium leguminosarum; Rickettsiales; Sinorhizobium fredii; bacteria; covariance; genes; models; new family; open reading frames; phylogeny; polyhydroxybutyrate
- Abstract:
- ... It has become clear that sRNAs play relevant regulatory functions in bacteria. However, a comprehensive understanding of their biological roles considering evolutionary aspects has not been achieved for most of them. Thus, we have characterized the evolutionary and phylogenetic aspects of the Sinorhizobium meliloti mmgR gene encoding the small RNA MmgR, which has been recently reported to be invol ...
- DOI:
- 10.1016/j.ympev.2016.03.026
-
https://dx.doi.org/10.1016/j.ympev.2016.03.026
- Author:
- Tekle, Yonas I.; Anderson, O. Roger; Katz, Laura A.; Maurer-Alcalá, Xyrus X.; Romero, Mario Alberto Cerón; Molestina, Robert
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 144-154
- ISSN:
- 1055-7903
- Subject:
- Dactylopodida; Himatismenida; Thecamoebida; genes; monophyly; morphs; sequence analysis; taxonomy
- Abstract:
- ... The majority of amoeboid lineages with flattened body forms are placed under a taxonomic hypothetical class ‘Discosea’ sensu Smirnov et al. (2011), which encompasses some of the most diverse morphs within Amoebozoa. However, its taxonomy and phylogeny is poorly understood. This is partly due to lack of support in studies that are based on limited gene sampling. In this study we use a phylogenomic ...
- DOI:
- 10.1016/j.ympev.2016.03.029
-
https://dx.doi.org/10.1016/j.ympev.2016.03.029
- Author:
- Santini, Francesco; Sorenson, Laurie; Alfaro, Michael E.
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 1-6
- ISSN:
- 1055-7903
- Subject:
- Bodianus; Semicossyphus; basins; biogeography; phylogeny; Indian Ocean
- Abstract:
- ... Bodianus wrasses comprise one of the most diverse genera of labrids. Also known as hogfishes due to the presence of a large pig-like snout, Bodianus species are found in warm waters across the Pacific, Atlantic and Indian Oceans. To this date no densely sampled molecular phylogeny is available for this group, and a single morphological study did not include two genera (Clepticus and Semicossyphus) ...
- DOI:
- 10.1016/j.ympev.2016.02.011
-
https://dx.doi.org/10.1016/j.ympev.2016.02.011
- Author:
- Torres-Carvajal, Omar; Lobos, Simón E.; Venegas, Pablo J.; Chávez, Germán; Aguirre-Peñafiel, Vanessa; Zurita, Daniel; Echevarría, Lourdes Y.
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 63-75
- ISSN:
- 1055-7903
- Subject:
- Squamata; biogeography; genes; lizards; mitochondria; monophyly; paraphyly; taxonomy; tropics; Andes region; Ecuador; Peru
- Abstract:
- ... Nearly 50% of the diversity of the speciose Neotropical lizard clade Gymnophthalmidae is nested within the subclade Cercosaurinae. The taxonomy of Cercosaurinae lizards has been historically confusing because many diagnostic characters of those clades traditionally ranked as genera do not represent true diagnostic apomorphies. Even though molecular phylogenies of several ‘genera’ have been present ...
- DOI:
- 10.1016/j.ympev.2016.03.006
-
https://dx.doi.org/10.1016/j.ympev.2016.03.006
- Author:
- Ramos, Raül; Song, Gang; Navarro, Joan; Zhang, Ruiying; Symes, Craig T.; Forero, Manuela G.; Lei, Fumin
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 194-203
- ISSN:
- 1055-7903
- Subject:
- Apoidea; Merops; Nosema; apiculture; biodiversity; breeding; breeding sites; flocks; genes; genetic variation; global change; microsatellite repeats; migratory birds; mitochondria; mixing; morphometry; parasites
- Abstract:
- ... Long-distance dispersal events and their derivable increases of genetic diversity have been highlighted as important ecological and evolutionary determinants that improve performances of range-expanding species. In the context of global environmental change, specific dispersal strategies have to be understood and foreseen if we like to prevent general biodiversity impoverishment or the spread of a ...
- DOI:
- 10.1016/j.ympev.2016.03.015
-
https://dx.doi.org/10.1016/j.ympev.2016.03.015
- Author:
- Takahashi, Hiroshi; Møller, Peter R.; Shedko, Sergei V.; Ramatulla, Temirbekov; Joen, Sang-Rin; Zhang, Chun-Guang; Sideleva, Valentina G.; Takata, Keisuke; Sakai, Harumi; Goto, Akira; Nishida, Mutsumi
- Source:
- Molecular phylogenetics and evolution 2016 v.99 pp. 44-52
- ISSN:
- 1055-7903
- Subject:
- Platygaster; Pungitius; allopatry; amplified fragment length polymorphism; brackish water; freshwater; gene flow; indigenous species; introgression; loci; mitochondrial DNA; monophyly; species diversity; sympatry; taxonomy; Japan
- Abstract:
- ... Pungitius is a highly diversified genus of sticklebacks (Gasterosteidae) occurring widely in northern parts of the Northern Hemisphere. Several ecologically and genetically divergent types that are largely isolated reproductively but occasionally hybridize in sympatry have been discovered in Northeast Asia, although the taxonomy and evolutionary relationships among them remain unclear. We used amp ...
- DOI:
- 10.1016/j.ympev.2016.03.022
-
https://dx.doi.org/10.1016/j.ympev.2016.03.022