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Ferdi L Hellweger, Erik van Sebille, Benjamin C Calfee, Jeremy W Chandler, Erik R Zinser, Brandon K Swan, Neil D Fredrick
Biogeography studies that correlate the observed distribution of organisms to environmental variables are typically based on local conditions. However, in cases with substantial translocation, like planktonic organisms carried by ocean currents, selection may happen upstream and local environmental factors may not be representative of those that shaped the local population. Here we use an individual-based model of microbes in the global surface ocean to explore this effect for temperature. We simulate up to 25 million individual cells belonging to up to 50 species with different temperature optima...
2016: PloS One
Ilias Kappas, Spiros Vittas, Chrysoula N Pantzartzi, Elena Drosopoulou, Zacharias G Scouras
A very significant part of the world's freshwater ichthyofauna is represented by ancient, exceptionally diverse and cosmopolitan ray-finned teleosts of the order Siluriformes. Over the years, catfish have been established as an exemplary model for probing historical biogeography at various scales. Yet, several tantalizing gaps still exist in their phylogenetic history, timeline and mode of diversification. Here, we re-examine the phylogeny of catfish by assembling and analyzing almost all publicly available mitogenome data...
2016: PloS One
Clarisse Brígido, Bernard R Glick, Solange Oliveira
Rhizobia may possess other plant growth-promoting mechanisms besides nitrogen fixation. These mechanisms and the tolerance to different environmental factors, such as metals, may contribute to the use of rhizobia inocula to establish a successful legume-rhizobia symbiosis. Our goal was to characterize a collection of native Portuguese chickpea Mesorhizobium isolates in terms of plant growth-promoting (PGP) traits and tolerance to different metals as well as to investigate whether these characteristics are related to the biogeography of the isolates...
December 1, 2016: Microbial Ecology
Holly M Bik, Julia M Maritz, Albert Luong, Hakdong Shin, Maria Gloria Dominguez-Bello, Jane M Carlton
In densely populated urban environments, the distribution of microbes and the drivers of microbial community assemblages are not well understood. In sprawling metropolitan habitats, the "urban microbiome" may represent a mix of human-associated and environmental taxa. Here we carried out a baseline study of automated teller machine (ATM) keypads in New York City (NYC). Our goal was to describe the biodiversity and biogeography of both prokaryotic and eukaryotic microbes in an urban setting while assessing the potential source of microbial assemblages on ATM keypads...
November 2016: MSphere
Jorge L Ramirez, José L O Birindelli, Pedro M Galetti
A new genus of Anostomidae (Characiformes) is described to include ten valid extant species previously classified in Leporinus or Hypomasticus and distributed throughout most major river basins in South America: L. brinco, L. conirostris, L. elongatus, H. garmani, L. macrocephalus, L. muyscorum, L. obtusidens, L. piavussu, L. reinhardti, and L. trifasciatus. The monophyly of Megaleporinus is well-supported in a phylogenetic analysis based on two mitochondrial and three nuclear genes, as well as its sister group relationship to Abramites...
November 25, 2016: Molecular Phylogenetics and Evolution
Shankar G Shanmugam, Zenaida V Magbanua, Mark A Williams, Kamlesh Jangid, William B Whitman, Daniel G Peterson, William L Kingery
Microbial diversity patterns have been surveyed in many different soils and ecosystems, but we are unaware of studies comparing similar soils developing from similar parent materials in contrasting climates. In 2008, developmental chronosequences with ages ranging from 105 to 500,000 years across Georgia (GA) and Michigan (MI) were studied to investigate how bacterial community composition and diversity change as a result of local environmental gradients that develop during pedogenesis. Geographic factors were studied between and within locations spanning two scales: (1) regionally between 0...
November 26, 2016: Microbial Ecology
Kimberly M Carlson-Banning, Vanessa Sperandio
: The biogeography of the gut is diverse in its longitudinal axis, as well as within specific microenvironments. Differential oxygenation and nutrient composition drive the membership of microbial communities in these habitats. Moreover, enteric pathogens can orchestrate further modifications to gain a competitive advantage toward host colonization. These pathogens are versatile and adept when exploiting the human colon. They expertly navigate complex environmental cues and interkingdom signaling to colonize and infect their hosts...
November 22, 2016: MBio
Jian Yang, Hongchen Jiang, Geng Wu, Wen Liu, Guojing Zhang
Little is known about the relative importance of spatial and environmental factors to structuring aquatic and sedimentary microbial biogeography in lakes. Here, we investigated the microbial community composition (MCC) of the water (n = 35) and sediment (n = 35) samples from 16 lakes in western China (salinity: freshwater to salt saturation; pairwise geographical distance: 9-2027 km) using high-throughput sequencing and evaluated the relative importance of spatial and environmental factors to microbial (including total, abundant, and rare) distributions...
2016: Frontiers in Microbiology
Lin-Lin You, You Wu, Bing Xu, Jun Ding, Lin-Quan Ge, Guo-Qin Yang, Qi-Sheng Song, David Stanley, Jin-Cai Wu
The brown planthopper (BPH) is a devastating pest of rice throughout Asia. In this paper we document the BPH biogeographic range expansion in China over the 20-year period, 1992 to 2012. We posed the hypothesis that the range expansion is due to a syndrome of adaptations to the continuous presence of agricultural chemicals (insecticides and a fungicide) over the last 40 years. With respect to biogeography, BPH ranges have expanded by 13% from 1992 to 1997 and by another 3% from 1997 to 2012. In our view, such expansions may follow primarily from the enhancing effects of JGM, among other agricultural chemicals, and from global warming...
November 23, 2016: Scientific Reports
K Engemann, B Sandel, B Boyle, B J Enquist, P M Jørgensen, J Kattge, B J McGill, N Morueta-Holme, R K Peet, N J Spencer, C Violle, S K Wiser, J-C Svenning
This dataset provides growth form classifications for 67,413 vascular plant species from North, Central, and South America. The data used to determine growth form were compiled from five major integrated sources and two original publications: the Botanical Information and Ecology Network (BIEN), the Plant Trait Database (TRY), the SALVIAS database, the USDA PLANTS database, Missouri Botanical Garden's Tropicos database, Wright (2010), and Boyle (1996). We defined nine plant growth forms based on woodiness (woody or non-woody), shoot structure (self-supporting or not self-supporting), and root traits (rooted in soil, not rooted in soil, parasitic or aquatic): Epiphyte, Liana, Vine, Herb, Shrub, Tree, Parasite, or Aquatic...
November 2016: Ecology
Young-Jun Choi, Rahul Tyagi, Samantha N McNulty, Bruce A Rosa, Philip Ozersky, John Martin, Kymberlie Hallsworth-Pepin, Thomas R Unnasch, Carmelle T Norice, Thomas B Nutman, Gary J Weil, Peter U Fischer, Makedonka Mitreva
Ongoing elimination efforts have altered the global distribution of Onchocerca volvulus, the agent of river blindness, and further population restructuring is expected as efforts continue. Therefore, a better understanding of population genetic processes and their effect on biogeography is needed to support elimination goals. We describe O. volvulus genome variation in 27 isolates from the early 1990s (before widespread mass treatment) from four distinct locales: Ecuador, Uganda, the West African forest and the West African savanna...
November 21, 2016: Nature Microbiology
Matthew R Borths, Patricia A Holroyd, Erik R Seiffert
Hyaenodonta is a diverse, extinct group of carnivorous mammals that included weasel- to rhinoceros-sized species. The oldest-known hyaenodont fossils are from the middle Paleocene of North Africa and the antiquity of the group in Afro-Arabia led to the hypothesis that it originated there and dispersed to Asia, Europe, and North America. Here we describe two new hyaenodont species based on the oldest hyaenodont cranial specimens known from Afro-Arabia. The material was collected from the latest Eocene Locality 41 (L-41, ∼34 Ma) in the Fayum Depression, Egypt...
2016: PeerJ
Mariette El Khoury, Hugo Campbell-Sills, Franck Salin, Erwan Guichoux, Olivier Claisse, Patrick M Lucas
: Understanding the mechanisms behind the typicity of regional wines inevitably brings attention to microorganisms associated to its production. Oenococcus oeni is the main bacterial species involved in wine and cider making. It develops after the yeast-driven alcoholic fermentation and performs the malolactic fermentation, which improves the taste and aromatic complexity of most wines. Here we have evaluated the diversity and specificity of O. oeni strains in six regions. 235 wines and ciders were collected during spontaneous malolactic fermentations and used to isolate 3,212 bacterial colonies...
November 18, 2016: Applied and Environmental Microbiology
Jill K Olofsson, Matheus Bianconi, Guillaume Besnard, Luke T Dunning, Marjorie R Lundgren, Helene Holota, Maria S Vorontsova, Oriane Hidalgo, Ilia J Leitch, Patrik Nosil, Colin P Osborne, Pascal-Antoine Christin
Physiological novelties are often studied at macro-evolutionary scales such that their micro-evolutionary origins remain poorly understood. Here, we test the hypothesis that key components of a complex trait can evolve in isolation and later be combined by gene flow. We use C4 photosynthesis as a study system, a derived physiology that increases plant productivity in warm, dry conditions. The grass Alloteropsis semialata includes C4 and non-C4 genotypes, with some populations using laterally acquired C4 -adaptive loci, providing an outstanding system to track the spread of novel adaptive mutations...
November 14, 2016: Molecular Ecology
Philip D McLoughlin, Kenton Lysak, Lucie Debeffe, Thomas Perry, Keith A Hobson
Sea-to-land nutrient transfers can connect marine food webs to those on land, creating a dependence on marine webs by opportunistic species. We show how nitrogen, imported by gray seals, Halichoerus grypus, and traced through stable isotope (δ(15) N) measurements in marram grass, Ammophila breviligulata, significantly alters foraging behavior of a free-roaming megaherbivore (feral horses, Equus ferus caballus) on Sable Island, Canada. Values of δ(15) N correlated with protein content of marram and strongly related to pupping-seal densities, and positively influenced selective foraging by horses...
August 2016: Ecology
Yong Chen, Xiang-Kai Li, Jing Si, Guang-Jian Wu, Li-De Tian, Shu-Rong Xiang
In this study, six bacterial community structures were analyzed from the Dunde ice core (9.5-m-long) using 16S rRNA gene cloning library technology. Compared to the Muztagata mountain ice core (37-m-long), the Dunde ice core has different dominant community structures, with five genus-related groups Blastococcus sp./Propionibacterium, Cryobacterium-related., Flavobacterium sp., Pedobacter sp., and Polaromas sp. that are frequently found in the six tested ice layers from 1990 to 2000. Live and total microbial density patterns were examined and related to the dynamics of physical-chemical parameters, mineral particle concentrations, and stable isotopic ratios in the precipitations collected from both Muztagata and Dunde ice cores...
2016: Frontiers in Microbiology
Thomas M Cullen, David C Evans
BACKGROUND: The Belly River Group of southern Alberta is one of the best-sampled Late Cretaceous terrestrial faunal assemblages in the world. This system provides a high-resolution biostratigraphic record of terrestrial vertebrate diversity and faunal turnover, and it has considerable potential to be a model system for testing hypotheses of dinosaur palaeoecological dynamics, including important aspects of palaeoecommunity structure, trophic interactions, and responses to environmental change...
November 15, 2016: BMC Ecology
Marta Kolanowska, Aleksandra M Naczk, Radomir Jaskuła
BACKGROUND: Psilochilus is a poorly studied orchid genus distributed from southern Mexico to south-eastern Brazil. A taxonomic revision of this Neotropical endemic based on morphological data is presented. MATERIAL AND METHODS: Over 170 dried herbarium specimens and flowers preserved in liquid of Psilochilus were analyzed. Morphological variation among examined taxa was described based on multivariate analysis. To evaluate the similarity between niches occupied by various Psilochilus species ecological niche modeling (ENM) was applied...
2016: PeerJ
Christopher J Borkent, Jessica P Gillung, Shaun L Winterton
The spider fly genus Eulonchus Gerstaecker is found throughout the Nearctic Region. Six species are recognized and intraspecific morphological variation is documented in several species. A phylogeny of Eulonchus based on DNA sequence data of three molecular markers (COI, CAD, and 16S) is presented and relationships of species are discussed in the light of biogeography and host usage. All six species of Eulonchus are redescribed using natural language descriptions exported from a character matrix, and a key to species is presented...
2016: ZooKeys
Mitchell J Syberg-Olsen, Nicholas A T Irwin, Claudia Vannini, Fabrizio Erra, Graziano Di Giuseppe, Vittorio Boscaro, Patrick J Keeling
Ciliates comprise a diverse and ecologically important phylum of unicellular protists. One of the most specious and best-defined genera is Euplotes, which constitutes more than 70 morphospecies, many of which have never been molecularly tested. The increasing number of described Euplotes taxa emphasizes the importance for detailed characterizations of new ones, requiring standardized morphological observations, sequencing of molecular markers and careful comparison with previous literature. Here we describe Euplotes curdsi sp...
2016: PloS One
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