Dissulfurispira thermophila gen. nov., sp. nov., a thermophilic chemolithoautotroph growing by sulfur disproportionation, and proposal of novel taxa in the phylum Nitrospirota to reclassify the genus Thermodesulfovibrio

2021 ◽  
Vol 44 (2) ◽  
pp. 126184
Author(s):  
Kazuhiro Umezawa ◽  
Hisaya Kojima ◽  
Yukako Kato ◽  
Manabu Fukui
Keyword(s):  
Sulfur Disproportionation ◽  
Novel Taxa

scholarly journals New species and records of Trichoderma isolated as mycoparasites and endophytes from cultivated and wild coffee in Africa

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
María del Carmen H. Rodríguez ◽  
Harry C. Evans ◽  
Lucas M. de Abreu ◽  
Davi M. de Macedo ◽  
Miraine K. Ndacnou ◽  
...  
Keyword(s):  
New Species ◽  
Cloud Forest ◽  
Elongation Factor ◽  
Classical Biological Control ◽  
Hemileia Vastatrix ◽  
Translation Elongation ◽  
Coffee Leaf Rust ◽  
Novel Taxa ◽  
Coffee Plants ◽  
Wild Coffee

AbstractA survey for species of the genus Trichoderma occurring as endophytes of Coffea, and as mycoparasites of coffee rusts (Hemileia), was undertaken in Africa; concentrating on Cameroon and Ethiopia. Ninety-four isolates of Trichoderma were obtained during this study: 76 as endophytes of healthy leaves, stems and berries and, 18 directly from colonized rust pustules. A phylogenetic analysis of all isolates used a combination of three genes: translation elongation factor-1α (tef1), rpb2 and cal for selected isolates. GCPSR criteria were used for the recognition of species; supported by morphological and cultural characters. The results reveal a previously unrecorded diversity of Trichoderma species endophytic in both wild and cultivated Coffea, and mycoparasitic on Hemileia rusts. Sixteen species were delimited, including four novel taxa which are described herein: T. botryosum, T. caeruloviride, T. lentissimum and T. pseudopyramidale. Two of these new species, T. botryosum and T. pseudopyramidale, constituted over 60% of the total isolations, predominantly from wild C. arabica in Ethiopian cloud forest. In sharp contrast, not a single isolate of Trichoderma was obtained using the same isolation protocol during a survey of coffee in four Brazilian states, suggesting the existence of a ‘Trichoderma void’ in the endophyte mycobiota of coffee outside of Africa. The potential use of these African Trichoderma isolates in classical biological control, either as endophytic bodyguards—to protect coffee plants from Hemileia vastatrix, the fungus causing coffee leaf rust (CLR)—or to reduce its impact through mycoparasitism, is discussed, with reference to the on-going CLR crisis in Central America.

scholarly journals Numerous uncharacterized and highly divergent microbes which colonize humans are revealed by circulating cell-free DNA

2017 ◽  
Vol 114 (36) ◽  
pp. 9623-9628 ◽  
Author(s):  
Mark Kowarsky ◽  
Joan Camunas-Soler ◽  
Michael Kertesz ◽  
Iwijn De Vlaminck ◽  
Winston Koh ◽  
...  
Keyword(s):  
Human Body ◽  
Sequence Data ◽  
Human Microbiome ◽  
Pcr Amplification ◽  
The Body ◽  
Direct Pcr ◽  
Cell Free Dna ◽  
Free Dna ◽  
Novel Taxa ◽  
Circulating Cell Free Dna

Blood circulates throughout the human body and contains molecules drawn from virtually every tissue, including the microbes and viruses which colonize the body. Through massive shotgun sequencing of circulating cell-free DNA from the blood, we identified hundreds of new bacteria and viruses which represent previously unidentified members of the human microbiome. Analyzing cumulative sequence data from 1,351 blood samples collected from 188 patients enabled us to assemble 7,190 contiguous regions (contigs) larger than 1 kbp, of which 3,761 are novel with little or no sequence homology in any existing databases. The vast majority of these novel contigs possess coding sequences, and we have validated their existence both by finding their presence in independent experiments and by performing direct PCR amplification. When their nearest neighbors are located in the tree of life, many of the organisms represent entirely novel taxa, showing that microbial diversity within the human body is substantially broader than previously appreciated.

scholarly journals The role of climatic and geological events in generating diversity in Ethiopian grass frogs (genus Ptychadena )

2017 ◽  
Vol 4 (8) ◽  
pp. 170021 ◽  
Author(s):  
Megan L. Smith ◽  
Brice P. Noonan ◽  
Timothy J. Colston
Keyword(s):  
Habitat Complexity ◽  
Molecular Data ◽  
Cryptic Diversity ◽  
Horn Of Africa ◽  
Climatic Fluctuations ◽  
Divergence Dating ◽  
Evolutionary Radiation ◽  
Novel Taxa ◽  
Climatic History

Ethiopia is a world biodiversity hotspot and harbours levels of biotic endemism unmatched in the Horn of Africa, largely due to topographic—and thus habitat—complexity, which results from a very active geological and climatic history. Among Ethiopian vertebrate fauna, amphibians harbour the highest levels of endemism, making amphibians a compelling system for the exploration of the impacts of Ethiopia's complex abiotic history on biotic diversification. Grass frogs of the genus Ptychadena are notably diverse in Ethiopia, where they have undergone an evolutionary radiation. We used molecular data and expanded taxon sampling to test for cryptic diversity and to explore diversification patterns in both the highland radiation and two widespread lowland Ptychadena . Species delimitation results support the presence of nine highland species and four lowland species in our dataset, and divergence dating suggests that both geologic events and climatic fluctuations played a complex and confounded role in the diversification of Ptychadena in Ethiopia. We rectify the taxonomy of the endemic P. neumanni species complex, elevating one formally synonymized name and describing three novel taxa. Finally, we describe two novel lowland Ptychadena species that occur in Ethiopia and may be more broadly distributed.

scholarly journals An Update on the Novel Genera and Species and Revised Taxonomic Status of Bacterial Organisms Described in 2016 and 2017

2018 ◽  
Vol 57 (2) ◽  
Author(s):  
Erik Munson ◽  
Karen C. Carroll
Keyword(s):  
Clinical Microbiology ◽  
Human Microbiome ◽  
Taxonomic Status ◽  
Mycolic Acid ◽  
Clinical Microbiology Laboratory ◽  
The Novel ◽  
Bacterial Taxonomy ◽  
Disease Epidemiology ◽  
The Family ◽  
Novel Taxa

ABSTRACTRecognition and acknowledgment of novel bacterial taxonomy and nomenclature revisions can impact clinical practice, disease epidemiology, and routine clinical microbiology laboratory operations. TheJournal of Clinical Microbiology(JCM) herein presents its biannual report summarizing such changes published in the years 2016 and 2017, as published and added by theInternational Journal of Systematic and Evolutionary Microbiology. Noteworthy discussion centers around descriptions of novelCorynebacteriaceaeand an anaerobic mycolic acid-producing bacterium in the suborderCorynebacterineae; revisions within thePropionibacterium,Clostridium,Borrelia, andEnterobactergenera; and a major reorganization of the familyEnterobacteriaceae. JCMintends to sustain this series of reports as advancements in molecular genetics, whole-genome sequencing, and studies of the human microbiome continue to produce novel taxa and clearer understandings of bacterial relatedness.

The genus Gyalideopsis (lichenized Ascomycota: Gomphillaceae) in Brazil: updated checklist, key to species, and two novel taxa with unique hyphophores

2018 ◽  
Vol 121 (1) ◽  
pp. 32-40
Author(s):  
Amanda Barreto Xavier-Leite ◽  
Marcela E. da Silva Cáceres ◽  
Bruno Tomio Goto ◽  
Robert Lücking
Keyword(s):  
Key To Species ◽  
Novel Taxa

scholarly journals Groundwater cable bacteria conserve energy by sulfur disproportionation

2019 ◽  
Vol 14 (2) ◽  
pp. 623-634 ◽  
Author(s):  
Hubert Müller ◽  
Sviatlana Marozava ◽  
Alexander J. Probst ◽  
Rainer U. Meckenstock
Keyword(s):  
16S Rrna ◽  
Electron Donor ◽  
Nitrate Reduction ◽  
Elemental Sulfur ◽  
Single Cells ◽  
Sulfur Oxidation ◽  
Metabolic Reconstruction ◽  
Rrna Gene ◽  
Long Distance ◽  
Sulfur Disproportionation

AbstractCable bacteria of the family Desulfobulbaceae couple spatially separated sulfur oxidation and oxygen or nitrate reduction by long-distance electron transfer, which can constitute the dominant sulfur oxidation process in shallow sediments. However, it remains unknown how cells in the anoxic part of the centimeter-long filaments conserve energy. We found 16S rRNA gene sequences similar to groundwater cable bacteria in a 1-methylnaphthalene-degrading culture (1MN). Cultivation with elemental sulfur and thiosulfate with ferrihydrite or nitrate as electron acceptors resulted in a first cable bacteria enrichment culture dominated >90% by 16S rRNA sequences belonging to the Desulfobulbaceae. Desulfobulbaceae-specific fluorescence in situ hybridization (FISH) unveiled single cells and filaments of up to several hundred micrometers length to belong to the same species. The Desulfobulbaceae filaments also showed the distinctive cable bacteria morphology with their continuous ridge pattern as revealed by atomic force microscopy. The cable bacteria grew with nitrate as electron acceptor and elemental sulfur and thiosulfate as electron donor, but also by sulfur disproportionation when Fe(Cl)2 or Fe(OH)3 were present as sulfide scavengers. Metabolic reconstruction based on the first nearly complete genome of groundwater cable bacteria revealed the potential for sulfur disproportionation and a chemo-litho-autotrophic metabolism. The presence of different types of hydrogenases in the genome suggests that they can utilize hydrogen as alternative electron donor. Our results imply that cable bacteria not only use sulfide oxidation coupled to oxygen or nitrate reduction by LDET for energy conservation, but sulfur disproportionation might constitute the energy metabolism for cells in large parts of the cable bacterial filaments.

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