Browsing by Subject "FLORA"

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  • Korkonen, Sanna; Weckström, Jan; Korhola, Atte (2020)
    The occurrence of various chrysophyte cyst morphotypes is unknown in Finland, with the exception of a few isolated lake studies. We set out to chart which cyst types are found in Finland and what their ecological preferences are, focusing on cyst-air temperature relationships that could be further utilized in reconstructing past winter/spring air temperatures and ice-free periods from sedimentary cyst assemblages. Surface sediment samples from lakes across Finland were analysed for their chrysophyte stomatocyst assemblages. Multivariate ecological techniques (e.g. canonical correspondence analysis, principal component analysis) were used to identify the environmental variables that most strongly affected the distribution of the cysts. This survey expanded the known geographical range for several cyst types. Lake water pH and ice-free periods (surrogate for air temperature) explained the statistically significant distribution and composition of the cyst assemblages studied. The results broaden our knowledge of cyst biogeography and strengthen the findings of previous studies of the environmental factors contributing to the occurrence of cysts. Highly variable and rich chrysophyte cyst assemblages in Finland are clearly associated with temperature, pH, electrical conductivity and total phosphorus, with good potential in contemporary and retrospective environmental assessment.
  • Von Raab-Straube, Eckhard; Raus, Thomas; Bazos, I.; Cornec, J. P.; De Belair, G.; Dimitrakopoulos, P. G.; El Mokni, R.; Fateryga, A. V.; Fateryga, V. V.; Fridlender, A.; Gil, J.; Grigorenko, V. N.; Hand, R.; Kovalchuk, A.; Mastrogianni, A.; Otto, R.; Raetzel, S.; Raus, Th.; Ristow, M.; Salas Pascual, M.; Strid, A.; Svirin, S. A.; Tsiripidis, I.; Uhlich, H.; Vela, E.; Verloove, F.; Vidakis, K.; Yena, A. V.; Yevseyenkov, P. E.; Zeddam, A. (2019)
    This is the eleventh of a series of miscellaneous contributions, by various authors, where hitherto unpublished data relevant to both the Med-Checklist and the Euro+Med (or Sisyphus) projects are presented. This instalment deals with the families Anacardiaceae, Asparagaceae (incl. Hyacinthaceae), Bignoniaceae, Cactaceae, Compositae, Cruciferae, Cyperaceae, Ericaceae, Gramineae, Labiatae, Leguminosae, Orobanchaceae, Polygonaceae, Rosaceae, Solanaceae and Staphyleaceae. It includes new country and area records and taxonomic and distributional considerations for taxa in Bidens, Campsis, Centaurea, Cyperus, Drymocallis, Engem, Hoffmannseggia, Hypopitys, Lavandula, Lithraea, Melilotus, Nicotiana, Olimarabidopsis, Opuntia, Orobanche, Phelipanche, Phragmites, Rumex, Salvia, Schinus, Staphylea, and a new combination in Drimia.
  • Top, Janetta; Sinnige, Jan C.; Brouwer, Ellen C.; Werner, Guido; Corander, Jukka; Severin, Juliette A.; Jansen, Rogier; Bathoorn, E.; Bonten, Marc J. M.; Rossen, John W. A.; Willems, Rob J. L. (2018)
    Genomic comparison of the first six Dutch vanD-type vancomycin-resistant Enterococcus faecium (VRE) isolates with four vanD gene clusters from other enterococcal species and anaerobic gut commensals revealed that the vanD gene cluster was located on a genomic island of variable size. Phylogenetic inferences revealed that the Dutch VRE isolates were genetically not closely related and that genetic variation of the vanD-containing genomic island was not species specific, suggesting that this island is transferred horizontally between enterococci and anaerobic gut commensals.
  • Ritari, Jarmo; Salojärvi, Jarkko; Lahti, Leo; de Vos, Willem M. (2015)
    Background: Current sequencing technology enables taxonomic profiling of microbial ecosystems at high resolution and depth by using the 16S rRNA gene as a phylogenetic marker. Taxonomic assignation of newly acquired data is based on sequence comparisons with comprehensive reference databases to find consensus taxonomy for representative sequences. Nevertheless, even with well-characterised ecosystems like the human intestinal microbiota it is challenging to assign genus and species level taxonomy to 16S rRNA amplicon reads. A part of the explanation may lie in the sheer size of the search space where competition from a multitude of highly similar sequences may not allow reliable assignation at low taxonomic levels. However, when studying a particular environment such as the human intestine, it can be argued that a reference database comprising only sequences that are native to the environment would be sufficient, effectively reducing the search space. Results: We constructed a 16S rRNA gene database based on high-quality sequences specific for human intestinal microbiota, resulting in curated data set consisting of 2473 unique prokaryotic species-like groups and their taxonomic lineages, and compared its performance against the Greengenes and Silva databases. The results showed that regardless of used assignment algorithm, our database improved taxonomic assignation of 16S rRNA sequencing data by enabling significantly higher species and genus level assignation rate while preserving taxonomic diversity and demanding less computational resources. Conclusion: The curated human intestinal 16S rRNA gene taxonomic database of about 2500 species-like groups described here provides a practical solution for significantly improved taxonomic assignment for phylogenetic studies of the human intestinal microbiota.
  • Küpper, Frithjof C.; Tsiamis, Konstantinos; Johansson, Niko Rainer; Peters, Akira F.; Salomidi, Maria; Manousakis, Leonidas; Kallergis, Manolis; Graham, Michael H.; Kinlan, Brian; Mystikou, Alexandra; Zuljevic, Ante; Nikolic, Vedran; Gerakaris, Vasilis; Katsaros, Christos; Panayotidis, Panayotis (2019)
    Parts of the macroalgal flora of the eastern Mediterranean remain incompletely known. This applies in particular to the circalittoral communities. This study, based upon 2 cruises in the Ionian and Aegean Seas, surveyed benthic communities from 40 to 150 m depth by remotely-operated vehicle (ROV) with a special focus on detecting communities of the Mediterranean deep-water kelp Laminaria rodriguezii. These were complemented by shallow-water surveys on adjacent coastlines by snorkelling and scuba diving. While no kelp could be detected at any of the sites surveyed, ROV surveys of northern Euboia Island revealed the first east Mediterranean record of Sebdenia monnardiana (Sebdeniales, Rhodophyta). Snorkelling surveys on the coast of southeast Kefalonia yielded the first record of the alien alga Dictyota cyanoloma in Greece. This paper reports rbcL and SSU sequences for Sebdenia monnardiana, and COI for Dictyota cyanoloma.
  • Adamo, Martino; Chialva, Matteo; Calevo, Jacopo; Bertoni, Filippo; Dixon, Kingsley; Mammola, Stefano (2021)
    Despite the perception that plant science focuses on strictly scientific criteria, this analysis finds that there is an aesthetic bias in regards to which plants, based on certain traits, receive more research attention. Scientists' research interests are often skewed toward charismatic organisms, but quantifying research biases is challenging. By combining bibliometric data with trait-based approaches and using a well-studied alpine flora as a case study, we demonstrate that morphological and colour traits, as well as range size, have significantly more impact on species choice for wild flowering plants than traits related to ecology and rarity. These biases should be taken into account to inform more objective plant conservation efforts.
  • Weber, Lilith Marie; Printzen, Christian; Bässler, Claus; Kantelinen, Annina (2021)
    We report new records of 19, predominantly rare, Micarea species, mostly from dead wood in mixed montane forests characterized mainly by Norway spruce, European beech and silver fir in the Bavarian Forest National Park on the German-Czech border. Their ecology and key morphological features are discussed. Micarea contexta, M. fallax. M. melanobola, M. pseudomicrococca, M. pusilla, M. soralifera and M. tomentosa are reported for the first time from Germany. Micarea anterior, M. byssacea, M. elachista, M. laeta, M. rnicrococca and M. nowakii, in addition to the aforementioned, are reported as new for the Bavarian Forest National Park.
  • Maliniemi, Tuija; Happonen, Konsta; Virtanen, Risto (2019)
    Experimental evidence shows that site fertility is a key modulator underlying plant community changes under climate change. Communities on fertile sites, with species having fast dynamics, have been found to react more strongly to climate change than communities on infertile sites with slow dynamics. However, it is still unclear whether this generally applies to high-latitude plant communities in natural environments at broad spatial scales. We tested a hypothesis that vegetation of fertile sites experiences greater changes over several decades and thus would be more responsive under contemporary climate change compared to infertile sites that are expected to show more resistance. We resurveyed understorey communities (vascular plants, bryophytes, and lichens) of four infertile and four fertile forest sites along a latitudinal bioclimatic gradient. Sites had remained outside direct human disturbance. We analyzed the magnitude of temporal community turnover, changes in the abundances of plant morphological groups and strategy classes, and changes in species diversity. In agreement with our hypothesis, temporal turnover of communities was consistently greater on fertile sites compared to infertile sites. However, our results suggest that the larger turnover of fertile communities is not primarily related to the direct effects of climatic warming. Furthermore, community changes in both fertile and infertile sites showed remarkable variation in terms of shares of plant functional groups and strategy classes and measures of species diversity. This further emphasizes the essential role of baseline environmental conditions and nonclimatic drivers underlying vegetation changes. Our results show that site fertility is a key determinant of the overall rate of high-latitude vegetation changes but the composition of plant communities in different ecological contexts is variously impacted by nonclimatic drivers over time.
  • Usmonov, Mansur; Tojibaev, Komiljon; Jang, Chang-Gee; Sennikov, Alexander N. (2021)
    Background Cousinia knorringiae Bornm. (Asteraceae) belongs to C. sect. Subappendiculatae Tscherneva, a group of the species-rich and taxonomically difficult genus Cousinia Cass. This species is narrowly distributed in the Western Tian-Shan and has been known as endemic to Kyrgyzstan. It inhabits bare rocks and screes at elevations of 1200-1500 m above sea level. This species is of conservation interest because of its small population size and limited distribution. New information Cousinia knorringiae is reported for the first time from eastern Uzbekistan on the basis of specimens collected on Ungur-Tepa Mt., a south-western outlier of the Bozbu-Too Mts. (Western Tian-Shan). The conservation status of the species is assessed as Endangered (EN), based on criterion D (estimated population size 200-250 mature individuals), according to the IUCN Red List Categories and Criteria (version 3.1). A new distribution map and a line drawing for C. knorringiae are provided and its type locality is clarified. The new knowledge suggests that the species is endemic to the East Fergana botanical hotspot, which includes a transborder territory shared between Kyrgyzstan and Uzbekistan and should, therefore, be subjected to international conservation measures. The southern extension of Ungur-Tepa Mt. harbours important plant species, which cannot be found elsewhere in Uzbekistan and may, therefore, be proposed for legal protection.
  • Velagapudi, Vidya R.; Hezaveh, Rahil; Reigstad, Christopher S.; Gopalacharyulu, Peddinti; Yetukuri, Laxman; Islam, Sama; Felin, Jenny; Perkins, Rosie; Boren, Jan; Oresic, Matej; Backhed, Fredrik (2010)
  • Dickinson, Amy; Kankaanpää, Hanna; Silen, Suvi; Meri, Seppo; Haapaniemi, Aaro; Ylikoski, Jukka; Mäkitie, Antti (2020)
    Objectives/Hypothesis We aimed to determine whether there was a difference between core and surface bacteriology of Finnish adults with recurrent or chronic tonsillitis to understand whether a surface swab is worthwhile and which bacteria are involved. Study Design Case series. Methods Uninflamed tonsillar surface swabs and core biopsies were taken prior to and during surgery, respectively, in 103 patients aged 16 to 66 years undergoing tonsillectomy for recurrent or chronic tonsillitis. The McNemar test was used to determine differences between the surface and core in the most prevalent bacterial species. Results Twenty-seven bacterial species were isolated in addition to normal flora and were more commonly found in the core (1.11 surface and 4.75 core bacteria isolated per patient). Viridans group streptococci were the most commonly detected bacteria, found in 88% of the patients, mainly in the core. The bacteria in general were mainly isolated from the core. Of the 10 most prevalent bacteria, only group C beta-hemolytic streptococci showed no difference between detection from core and surface swabs. Other bacteria found mainly in the core include Prevotella melaninogenica, Staphylococcus aureus, and fusobacteria. Conclusions There is discord between the surface and core bacteria. A different population of bacteria exists in the core, especially anaerobic bacteria, suggesting that a core sample may be useful in evaluating recurrent and chronic tonsillitis. Level of Evidence 4 Laryngoscope, 2019