scholarly journals Phylogenetic position of foraminifera inferred from LSU rRNA gene sequences.

1994 ◽  
Keyword(s):  
Phylogenetic Position ◽  
Rrna Gene ◽  
Gene Sequences ◽  
Lsu Rrna Gene ◽  
Lsu Rrna

scholarly journals Phylogeny, evidence for a cryptic plastid, and distribution of Chytriodinium parasites (Dinophyceae) infecting copepods

2018 ◽  
Author(s):  
Jürgen F. H. Strassert ◽  
Elisabeth Hehenberger ◽  
Javier del Campo ◽  
Noriko Okamoto ◽  
Martin Kolisko ◽  
...  
Keyword(s):  
Phylogenetic Position ◽  
Rrna Gene ◽  
Ancestral State ◽  
Ssu Rrna ◽  
Gene Sequences ◽  
Free Living ◽  
Surface Ocean ◽  
Lsu Rrna Gene ◽  
Important Host ◽  
Copepod Eggs

ABSTRACTSpores of the dinoflagellate Chytriodinium are known to infest copepod eggs causing their lethality. Despite the potential to control the population of such an ecologically important host, knowledge about Chytriodinium parasites is limited: we know little about phylogeny, parasitism, abundance, or geographical distribution. We carried out genome sequence surveys on four manually isolated sporocytes from the same sporangium to analyse the phylogenetic position of Chytriodinium based on SSU and concatenated SSU/LSU rRNA gene sequences, and also characterize two genes related to the plastidial heme pathway, hemL and hemY. The results suggest the presence of a cryptic plastid in Chytriodinium and a photosynthetic ancestral state of the parasitic Chytriodinium/Dissodinium clade. Finally, by mapping Tara Oceans V9 SSU amplicon data to the recovered SSU rRNA gene sequences from the sporocytes, we show that globally, Chytriodinium parasites are most abundant within the pico/nano- and mesoplankton of the surface ocean and almost absent within microplankton, a distribution indicating that they generally exist either as free-living spores or host-associated sporangia.

Molecular and morphological studies on the subantarctic genus Orceolina (Agyriaceae)

2001 ◽  
Vol 33 (4) ◽  
pp. 323-329 ◽  
Author(s):  
R.S. Poulsen ◽  
I. Schmitt ◽  
U. Søchting ◽  
H. T. Lumbsch
Keyword(s):  
Maximum Parsimony ◽  
Nucleotide Sequences ◽  
Rrna Gene ◽  
Gene Sequences ◽  
Morphological Studies ◽  
The Family ◽  
Lsu Rrna Gene ◽  
High Bootstrap ◽  
Lsu Rrna

AbstractThe subantarctic genus Orceolina is revised and two species are accepted, i.e. Orceolina antarctica Mull. Arg. R. S. Poulsen Søchting comb. nov. and Orceolina kerguelensis (Tuck.) Hertel. Descriptions of the species are provided. In addition the phylogeny of the genus Orceolina and allied taxa was investigated using nucleotide sequences of the LSU rRNA gene. Sequences from these regions of nine agyrialean fungi were aligned to those of four representatives of Pertusariales used as outgroup. The alignment was analysed cladistically using maximum parsimony. The two Orceolina clustered together within the Agyriaceae. The placement in the family is supported by high bootstrap values and the Kishino-Hasegawa test.

scholarly journals Kluyveromyces osmophilus is not a synonym of Zygosaccharomyces mellis; reinstatement as Zygosaccharomyces osmophilus comb. nov.

2020 ◽  
Vol 70 (5) ◽  
pp. 3374-3378 ◽  
Author(s):  
Thelma T. S. Matos ◽  
Juliana F. Teixeira ◽  
Laura G. Macías ◽  
Ana Raquel O. Santos ◽  
Sung-Oui Suh ◽  
...  
Keyword(s):  
Type Strain ◽  
Stingless Bees ◽  
Rrna Gene ◽  
Gene Sequences ◽  
Orthologous Genes ◽  
Single Strain ◽  
Lsu Rrna Gene ◽  
Tetragonisca Angustula ◽  
Lsu Rrna ◽  
Phylogenomic Analyses

Kluyveromyces osmophilus, a single-strain species isolated from Mozambique sugar, has been treated a synonym of Zygosaccharomyces mellis. Analyses of D1/D2 LSU rRNA gene sequences confirmed that the species belongs to the genus Zygosaccharomyces but showed it to be distinct from strains of Z. mellis. During studies of yeasts associated with stingless bees in Brazil, nine additional isolates of the species were obtained from unripe and ripe honey and pollen of Scaptotrigona cfr. bipunctata, as well as ripe honey of Tetragonisca angustula. The D1/D2 sequences of the Brazilian isolates were identical to those of the type strain of K. osmophilus CBS 5499 (=ATCC 22027), indicating that they represent the same species. Phylogenomic analyses using 4038 orthologous genes support the reinstatement of K. osmophilus as a member of the genus Zygosaccharomyces. We, therefore, propose the name Zygosaccharomyces osmophilus comb. nov. (lectotype ATCC 22027; MycoBank no. MB 833739).

scholarly journals Ogataea pignaliae sp. nov., the teleomorph of Candida pignaliae

2010 ◽  
Vol 60 (10) ◽  
pp. 2496-2500 ◽  
Author(s):  
Gábor Péter ◽  
Judit Tornai-Lehoczki ◽  
Dénes Dlauchy
Keyword(s):  
Tannic Acid ◽  
Type Strain ◽  
Physiological Characteristics ◽  
Rrna Gene ◽  
Gene Sequences ◽  
Plant Parts ◽  
Lsu Rrna Gene ◽  
The Common ◽  
Lsu Rrna

Six ascosporulating Candida pignaliae strains were isolated from epigeal plant parts in Hungary. They share identical D1/D2 LSU rRNA gene sequences with the type strain of C. pignaliae, and the physiological characteristics investigated are also very similar to that of the type strain. The only substantial difference compared to the type strain of C. pignaliae is their ability to assimilate β-glucosides (cellobiose, salicin and arbutin). The majority of the isolation sources of the strains reported in this study have the common feature of containing tannic acid, while the type strain of C. pignaliae was recovered from tanning fluid. We were able to induce ascosporulation also in the type strain of C. pignaliae. Therefore, Ogataea pignaliae Péter, Tornai-Lehoczki & Dlauchy sp. nov. is proposed as the teleomorph of C. pignaliae (F. H. Jacob) S. A. Meyer & Yarrow. The type strain is CBS 6071T.

Molecular Data Suggest that the Lichen Genus Pertusaria is not Monophyletic

2001 ◽  
Vol 33 (2) ◽  
pp. 161-170 ◽  
Author(s):  
H. Thorsten Lumbsch ◽  
Imke Schmitt
Keyword(s):  
Maximum Parsimony ◽  
Molecular Data ◽  
Spore Wall ◽  
Nucleotide Sequences ◽  
Rrna Gene ◽  
Gene Sequences ◽  
The Family ◽  
Lsu Rrna Gene ◽  
Lsu Rrna

AbstractThe phylogeny of the genus Pertusaria and allied taxa was investigated using nucleotide sequences of the LSU rRNA gene. Sequences from these regions of 15 pertusarialean fungi were aligned to those of three representatives of Agyriales used as outgroup. The alignment was analysed cladistically using maximum parsimony. The Pertusariaceae appear paraphyletic bearing the monophyletic Coccotremataceae on a clade including Ochrolechia and Pertusaria subg. Monomuratae, but monophyly of the family cannot be rejected. The genus Pertusaria is polyphyletic, with the subgenus Monomuratae more closely related to the Coccotremataceae and Ochrolechia than to taxa of the subgenera Pertusaria and Pionospora. Monophyly of the genus Pertusaria is rejected. The monophyly of the subgenera Pertusaria and Pionospora is also rejected. The distribution of selected characters in the Pertusariales is investigated and it is shown that apothecial form and spore wall number have changed in parallel within Pertusaria. The Pertusaria-type ascus is plesiomorphic within the Pertusariaceae and thus cannot be used to circumscribe Pertusaria. The presence of chlorinated xanthones is restricted to Pertusaria s. str

scholarly journals Savitreea pentosicarens gen. nov., sp. nov., a yeast species in the family Saccharomycetaceae isolated from a grease trap

2020 ◽  
Vol 70 (11) ◽  
pp. 5665-5670
Author(s):  
Varunya Sakpuntoon ◽  
Jirameth Angchuan ◽  
Chanita Boonmak ◽  
Pannida Khunnamwong ◽  
Noémie Jacques ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Yeast Species ◽  
Sequence Divergence ◽  
Its Region ◽  
Rrna Gene ◽  
Nucleotide Substitutions ◽  
D2 Domain ◽  
The Family ◽  
Lsu Rrna Gene ◽  
Lsu Rrna

Two strains (DMKU-GTCP10-8 and CLIB 1740) representing a novel anamorphic yeast species were isolated from a grease sample collected from a grease trap in Thailand and from an unidentified fungus collected in French Guiana, respectively. On the basis of phylogenetic analysis based on the combined D1/D2 domain of the large subunit (LSU) rRNA gene and the internal transcribed spacer (ITS) region, Lachancea fermentati CBS 707T was the closely related species with 12.8 % sequence divergence (70 nucleotide substitutions and three gaps in 571 nucleotides) and 28.1 % sequence divergence (93 nucleotide substitutions and 90 gaps in 651 nucleotides) in the D1/D2 domain of the LSU rRNA gene and the ITS region, respectively. Phylogenetic analysis based on the concatenated sequences of the five genes including the small subunit rRNA gene, the D1/D2 domain of the LSU rRNA gene, the ITS region, translation elongation factor-1 alpha (TEF1) and RNA polymerase II subunit 2 (RPB2) genes confirmed that the two strains (DMKU-GTCP10-8 and CLIB 1740) were well-separated from other described yeast genera in Saccharomycetaceae. Hence, Savitreea pentosicarens gen. nov., sp. nov. is proposed to accommodate these two strains as members of the family Saccharomycetaceae. The holotype is S. pentosicarens DMKU-GTCP10-8T (ex-type strain TBRC 12159=PYCC 8490; MycoBank number 835044).

scholarly journals Asgard archaea are diverse, ubiquitous, and transcriptionally active microbes

2018 ◽  
Author(s):  
Mingwei Cai ◽  
Yang Liu ◽  
Zhichao Zhou ◽  
Yuchun Yang ◽  
Jie Pan ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Genomic Analysis ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Group D ◽  
Origin Of Eukaryotes

AbstractAsgard is a newly proposed archaeal superphylum. Phylogenetic position of Asgard archaea and its relationships to the origin of eukaryotes is attracting increasingly research interest. However, in-depth knowledge of their diversity, distribution, and activity of Asgard archaea remains limited. Here, we used phylogenetic analysis to cluster the publicly available Asgard archaeal 16S rRNA gene sequences into 13 subgroups, including five previously unknown subgroups. These lineages were widely distributed in anaerobic environments, with the majority of 16S rRNA gene sequences (92%) originating from sediment habitats. Co-occurrence analysis revealed potential relationships between Asgard, Bathyarchaeota, and Marine Benthic Group D archaea. Genomic analysis suggested that Asgard archaea are potentially mixotrophic microbes with divergent metabolic capabilities. Importantly, metatranscriptomics confirmed the versatile lifestyles of Lokiarchaeota and Thorarchaeota, which can fix CO2using the tetrahydromethanopterin Wood-Ljungdahl pathway, perform acetogenesis, and degrade organic matters. Overall, this study broadens the understandings of Asgard archaea ecology, and also provides the first evidence to support a transcriptionally active mixotrophic lifestyle of Asgard archaea, shedding light on the potential roles of these microorganisms in the global biogeochemical cycling.

Coleopuccinia in China and its relationship to Gymnosporangium

Phytotaxa ◽  
2018 ◽  
Vol 347 (3) ◽  
pp. 235 ◽  
Author(s):  
BIN CAO ◽  
SIQI TAO ◽  
CHENGMING TIAN ◽  
YINGMEI LIANG
Keyword(s):  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Rust Fungi ◽  
Internal Transcribed Spacers ◽  
Western China ◽  
Rrna Gene ◽  
Morphological Examination ◽  
Separate Genus ◽  
Lsu Rrna Gene ◽  
Lsu Rrna

The rust species Coleopuccinia sinensis was collected during an investigation of rust fungi in Tibet, a region in south-western China. Through morphological examination, we clarified that C. kunmingensis is a synonym of C. sinensis. Phylogenetic analyses using the combined loci of the internal transcribed spacers (ITS) and the partial large subunit (LSU) rRNA gene revealed that Coleopuccinia should be treated as a separate genus from Gymnosporangium.

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