Cyanophyceae, Cyanophyta) in Korea
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Detection and Community-Level Identification of Microbial Mats in the Mcmurdo Dry Valleys Using Drone-Based Hyperspectral Reflec
Antarctic Science page 1 of 15 (2020) © Antarctic Science Ltd 2020 doi:10.1017/S0954102020000243 Detection and community-level identification of microbial mats in the McMurdo Dry Valleys using drone-based hyperspectral reflectance imaging JOSEPH LEVY 1, S. CRAIG CARY 2, KURT JOY 2 and CHARLES K. LEE 2 1Colgate University, Department of Geology, Hamilton, NY 13346, USA 2International Centre for Terrestrial Antarctic Research, University of Waikato, Hamilton 3240, New Zealand [email protected] Abstract: The reflectance spectroscopic characteristics of cyanobacteria-dominated microbial mats in the McMurdo Dry Valleys (MDVs) were measured using a hyperspectral point spectrometer aboard an unmanned aerial system (remotely piloted aircraft system, unmanned aerial vehicle or drone) to determine whether mat presence, type and activity could be mapped at a spatial scale sufficient to characterize inter-annual change. Mats near Howard Glacier and Canada Glacier (ASPA 131) were mapped and mat samples were collected for DNA-based microbiome analysis. Although a broadband spectral parameter (a partial normalized difference vegetation index) identified mats, it missed mats in comparatively deep (> 10 cm) water or on bouldery surfaces where mats occupied fringing moats. A hyperspectral parameter (B6) did not have these shortcomings and recorded a larger dynamic range at both sites. When linked with colour orthomosaic data, B6 band strength is shown to be capable of characterizing the presence, type and activity of cyanobacteria-dominated mats in and around MDV streams. 16S rRNA gene polymerase chain reaction amplicon sequencing analysis of the mat samples revealed that dominant cyanobacterial taxa differed between spectrally distinguishable mats, indicating that spectral differences reflect underlying biological distinctiveness. -
(Cyanobacterial Genera) 2014, Using a Polyphasic Approach
Preslia 86: 295–335, 2014 295 Taxonomic classification of cyanoprokaryotes (cyanobacterial genera) 2014, using a polyphasic approach Taxonomické hodnocení cyanoprokaryot (cyanobakteriální rody) v roce 2014 podle polyfázického přístupu Jiří K o m á r e k1,2,JanKaštovský2, Jan M a r e š1,2 & Jeffrey R. J o h a n s e n2,3 1Institute of Botany, Academy of Sciences of the Czech Republic, Dukelská 135, CZ-37982 Třeboň, Czech Republic, e-mail: [email protected]; 2Department of Botany, Faculty of Science, University of South Bohemia, Branišovská 31, CZ-370 05 České Budějovice, Czech Republic; 3Department of Biology, John Carroll University, University Heights, Cleveland, OH 44118, USA Komárek J., Kaštovský J., Mareš J. & Johansen J. R. (2014): Taxonomic classification of cyanoprokaryotes (cyanobacterial genera) 2014, using a polyphasic approach. – Preslia 86: 295–335. The whole classification of cyanobacteria (species, genera, families, orders) has undergone exten- sive restructuring and revision in recent years with the advent of phylogenetic analyses based on molecular sequence data. Several recent revisionary and monographic works initiated a revision and it is anticipated there will be further changes in the future. However, with the completion of the monographic series on the Cyanobacteria in Süsswasserflora von Mitteleuropa, and the recent flurry of taxonomic papers describing new genera, it seems expedient that a summary of the modern taxonomic system for cyanobacteria should be published. In this review, we present the status of all currently used families of cyanobacteria, review the results of molecular taxonomic studies, descriptions and characteristics of new orders and new families and the elevation of a few subfamilies to family level. -
Phylogenetic Position of Geitleribactron Purpureum
104 Fottea, Olomouc, 16(1): 104–111, 2016 DOI: 10.5507/fot.2016.002 Phylogenetic position of Geitleribactron purpureum (Synechococcales, Cyanobacteria / Cyanophyceae) and its implications for the taxonomy of Chamaesiphonaceae and Leptolyngbyaceae Jan Mareš1,2,3* & Marco CANTONATI4 1Biology Centre of the CAS, v.v.i., Institute of Hydrobiology, Na Sádkách 7, CZ–37005 České Budějovice, Czech Republic 2Institute of Botany of the CAS, v.v.i., Centre for Phycology, Dukelská 135, CZ–37982 Třeboň, Czech Republic 3Faculty of Science, University of South Bohemia, Department of Botany, Branišovská 1760, CZ–37005 České Budějovice, Czech Republic; *Corresponding author e–mail: [email protected] 4Museo delle Scienze – MUSE, Limnology and Phycology Section, Corso del Lavoro e della Scienza 3, I–38123 Trento, Italy Abstract: Over the last decades, the taxonomy of cyanobacteria has been considerably improved and restructured due to the increase in data output from molecular phylogeny. Recently, a new protocol was developed that enables reliable sequencing of 16S rRNA genes in cultivation–resistant cyanobacteria using analysis of single cells, filaments, or colonies. In the current study, we examined a sample of a heteropolar unicellular cyanobacterium, Geitleribactron purpureum, from the holotype material (deep epilithon of Lake Tovel, Western Dolomites, Italy). We isolated and purified single colonies of G. purpureum, and subjected them to direct PCR and 16S rRNA gene sequencing. We obtained a congruent set of sequences that formed a unique, isolated cyanobacterial lineage, showing phylogenetic clustering among simple filamentous genera of the family Leptolyngbyaceae. We provide evidence for deep polyphyly in Chamaesiphonaceae, and suggest that Geitleribactron should be re–classified in the Leptolyngbyaceae. -
Cyanobacteria) Through Recognition of Four Families Including Oculatellaceae Fam
John Carroll University Carroll Collected Masters Theses Theses, Essays, and Senior Honors Projects Winter 2016 REVISION OF THE SYNECHOCOCCALES (CYANOBACTERIA) THROUGH RECOGNITION OF FOUR FAMILIES INCLUDING OCULATELLACEAE FAM. NOV. AND TRICHOCOLEACEAE FAM NOV. AND SEVEN NEW GENERA ONTC AINING 14 SPECIES Truc Mai John Carroll University, [email protected] Follow this and additional works at: http://collected.jcu.edu/masterstheses Part of the Biology Commons Recommended Citation Mai, Truc, "REVISION OF THE SYNECHOCOCCALES (CYANOBACTERIA) THROUGH RECOGNITION OF FOUR FAMILIES INCLUDING OCULATELLACEAE FAM. NOV. AND TRICHOCOLEACEAE FAM NOV. AND SEVEN NEW GENERA ONC TAINING 14 SPECIES" (2016). Masters Theses. 23. http://collected.jcu.edu/masterstheses/23 This Thesis is brought to you for free and open access by the Theses, Essays, and Senior Honors Projects at Carroll Collected. It has been accepted for inclusion in Masters Theses by an authorized administrator of Carroll Collected. For more information, please contact [email protected]. REVISION OF THE SYNECHOCOCCALES (CYANOBACTERIA) THROUGH RECOGNITION OF FOUR FAMILIES INCLUDING OCULATELLACEAE FAM. NOV. AND TRICHOCOLEACEAE FAM NOV. AND SEVEN NEW GENERA CONTAINING 14 SPECIES A Thesis Submitted to The Graduate School of John Carroll University in Partial Fulfillment of the Requirements for the Degree of Master of Science By Truc T. Mai 2016 ACKNOWLEDGEMENTS My appreciation would go first and foremost to Dr. Jeffrey R. Johansen and Dr. Nicole Pietrasiak for providing such wonderful care and guidance both in research and in life, so much as I look to them and their families as my own. My special gratitude also goes to Dr. Chris Sheil and Dr. Michael P. -
Bchh D Bacteria P Cyanobacteria C Cyanobacteriia O Cyanobacteriales F Chamaesiphonaceae G Merismopedia S Merismopedia Glauca WGS ID PVWJ01 1/1-853
Tree scale: 0.1 bchH Prosthecochloris aestuarii DSM271 1/1-856 1.00 bchH GCA 000020545.1 ASM2054v1 protein ACE05112.1 magnesium chelatase H subunit Chlorobium phaeobacteroides BS1 /1-857 1.00 bchH d Bacteria p Bacteroidota c Chlorobia o Chlorobiales f Chlorobiaceae g Chlorobium A s Chlorobium A sp003182595 WGS ID PDNZ01 1/1-848 bchH GCA 000020505.1 ASM2050v1 protein ACF10687.1 magnesium chelatase H subunit Chlorobaculum parvum NCIB 8327 /1-858 1.00 1.00 bchH Chlorobaculum limnaeum 1/1-857 0.80 bchH GCA 000006985.1 ASM698v1 protein AAM73176.1 magnesium-protoporphyrin methyltransferase Chlorobium tepidum TLS /1-858 0.87 0.80 bchH d Bacteria p Bacteroidota c Chlorobia o Chlorobiales f Chlorobiaceae g Chlorobaculum s Chlorobaculum sp001602925 WGS ID LUZT01 1/1-851 bchH GCA 000020465.1 ASM2046v1 protein ACD91180.1 magnesium chelatase H subunit Chlorobium limicola DSM 245 /1-855 0.96 bchH Pelodictyon luteolum 1/1-855 0.85 bchH GCA 000020645.1 ASM2064v1 protein ACF44745.1 magnesium chelatase H subunit Pelodictyon phaeoclathratiforme BU-1 /1-858 1.00 bchH d Bacteria p Bacteroidota c Chlorobia o Chlorobiales f Chlorobiaceae g Chlorobium s Chlorobium ferrooxidans WGS ID MPJE01 1/1-847 1.00 bchH GCA 000168715.1 ASM16871v1 protein EAT58664.1 Magnesium-chelatase subunit H Chlorobium ferrooxidans DSM 13031 /1-858 1.00 bchH Oscillochloris 1/1-860 1.00 bchH Chloroploca asiatica B79 1/1-859 1.00 bchH Viridilinea mediosalina Kir153F 1/1-859 0.95 bchH chloroflexus aggregans 1/1-860 bchH d Bacteria p Chloroflexota c Chloroflexia o Chloroflexales f Chloroflexaceae g Chloroflexus s Chloroflexus islandicus WGS ID LWQS01 1/1-845 1.00 1.00bchH Chloroflexus islandicus isl2 1/1-858 0.74 bchH Chloroflexus sp Y396 1/1-858 0.69 bchH GCA 000022185.1 ASM2218v1 protein ACM54780.1 magnesium chelatase H subunit Chloroflexus sp. -
Diazotrophy and Diversity of Benthic Cyanobacteria in Tropical Coastal Zones
Diazotrophy and diversity of benthic cyanobacteria in tropical coastal zones Karolina Bauer Stockholm University © Karolina Bauer, Stockholm 2007 ISBN 91-7155-367-3 pp. 1-48 Printed in Sweden by Universitetsservice, US-AB, Stockholm 2007 Distributor: Stockholm University library Till mamma och pappa Abstract Discoveries in recent years have disclosed the importance of marine cyano- bacteria in the context of primary production and global nitrogen cycling. It is hypothesized here that microbial mats in tropical coastal habitats harbour a rich diversity of previously uncharacterized cyanobacteria and that benthic marine nitrogen fixation in coastal zones is substantial. A polyphasic approach was used to investigate cyanobacterial diversity in three tropical benthic marine habitats of different characters; an intertidal sand flat and a mangrove forest floor in the Indian Ocean, and a beach rock in the Pacific Ocean. In addition, nitrogenase activity was measured over diel cycles at all sites. The results revealed high cyanobacterial diversity, both morphologically and genetically. Substantial nitrogenase activity was observed, with highest rates at daytime where heterocystous species were present. However, the three habitats were dominated by non-heterocystous and unicellular genera such as Microcoleus, Lyngbya, Cyanothece and a large group of thin filamentous species, identified as members of the Pseu- danabaenaceae family. In these consortia nocturnal nitrogenase activities were highest and nifH sequencing also revealed presence of non- cyanobacterial potential diazotrophs. A conclusive phylogenetic analysis of partial nifH sequences from the three sites and sequences from geographi- cally distant microbial mats revealed new clusters of benthic potentially ni- trogen-fixing cyanobacteria. Further, the non-heterocystous cyanobacterium Lyngbya majuscula was subjected to a physiological characterization to gain insights into regulatory aspects of its nitrogen fixation. -
Community Structures of Bacteria, Archaea, and Eukaryotic Microbes in the Freshwater Glacier Lake Yukidori-Ike in Langhovde, East Antarctica
diversity Article Community Structures of Bacteria, Archaea, and Eukaryotic Microbes in the Freshwater Glacier Lake Yukidori-Ike in Langhovde, East Antarctica Aoi Chaya 1, Norio Kurosawa 1,*, Akinori Kawamata 2, Makiko Kosugi 3 and Satoshi Imura 4,5 1 Department of Science and Engineering for Sustainable Innovation, Faculty of Science and Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo 192-8577, Japan 2 Ehime Prefectural Science Museum, 2133-2 Ojoin, Niihama, Ehime 792-0060, Japan 3 Astrobiology Center, National Institutes of Natural Science, 2-21-1 Mitaka, Tokyo 181-8588, Japan 4 National Institute of Polar Research, 10-3 Midori-cho, Tachikawa, Tokyo 190-8518, Japan 5 SOKENDAI (The Graduate University for Advanced Studies), 10–3 Midori–cho, Tachikawa, Tokyo 190-8518, Japan * Correspondence: [email protected] Received: 3 June 2019; Accepted: 4 July 2019; Published: 6 July 2019 Abstract: Since most studies about community structures of microorganisms in Antarctic terrestrial lakes using molecular biological tools are mainly focused on bacteria, limited information is available about archaeal and eukaryotic microbial diversity. In this study, the biodiversity of microorganisms belonging to all three domains in a typical Antarctic freshwater glacier lake (Yukidori-Ike) was revealed using small subunit ribosomal RNA (SSU rRNA) clone library analysis. The bacterial clones were grouped into 102 operational taxonomic units (OTUs) and showed significant biodiversity. Betaproteobacteria were most frequently detected, followed by Cyanobacteria, Bacteroidetes, and Firmicutes as major lineages. In contrast to the bacterial diversity, much lower archaeal diversity, consisting of only two OTUs of methanogens, was observed. In the eukaryotic microbial community consisting of 20 OTUs, Tardigradal DNA was remarkably frequently detected.