Molecular systematics of the genus Astragalus L. (Fabaceae): Phylogenetic analyses of nuclear ribosomal DNA internal transcribed spacers and chloroplast gene ndh F sequences

2003 ◽  
Vol 242 (1-4) ◽  
pp. 1-32 ◽  
Author(s):  
S. Kazempour Osaloo ◽  
A. A. Maassoumi ◽  
N. Murakami
Keyword(s):  
Molecular Systematics ◽  
Ribosomal Dna ◽  
Phylogenetic Analyses ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Chloroplast Gene

Molecular Systematics of the Asteriscus Alliance (Asteraceae: Inuleae) I: Evidence from the Internal Transcribed Spacers of Nuclear Ribosomal DNA

1999 ◽  
Vol 24 (2) ◽  
pp. 249 ◽  
Author(s):  
Javier Francisco-Ortega ◽  
Leslie R. Goertzen ◽  
Arnoldo Santos-Guerra ◽  
Abdelmalek Benabid ◽  
Robert K. Jansen
Keyword(s):  
Molecular Systematics ◽  
Ribosomal Dna ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna

scholarly journals Application of internal transcribed spacer of nuclear ribosomal DNA for identification of Echinops mandavillei Kit Tan

2014 ◽  
Vol 21 (1) ◽  
pp. 33-42 ◽  
Author(s):  
Fahad M.A. Al-Hemaid ◽  
M. Ajmal Ali ◽  
Joongku Lee ◽  
Gábor Gyulai ◽  
Arun K. Pandey
Keyword(s):  
Ribosomal Dna ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Local Alignment ◽  
The Novel ◽  
Search Tool ◽  
Plant Taxon ◽  
High Level

The present study explored the use of internal transcribed spacers (ITS) sequences (ITS1-5.8S-ITS2) of nuclear ribosomal DNA (nrDNA) for identification of Echinops mandavillei Kit Tan, an endemic species to Saudi Arabia. The sequence similarity search using Basic Local Alignment Search Tool (BLAST) and phylogenetic analyses of the ITS sequence of E. mandavillei Kit Tan showed high level of sequence similarity (98%) with E. glaberrimus DC. (section Ritropsis). The novel primary sequence and the secondary structure of ITS2 of E. mandavillei could have a potential use for molecular genotyping.DOI: http://dx.doi.org/10.3329/bjpt.v21i1.19256Bangladesh J. Plant Taxon. 21(1): 33-42, 2014 (June)

Xanthagaricus thailandensis sp. nov. (Agaricales, Basidiomycota), from northern Thailand

Phytotaxa ◽  
2018 ◽  
Vol 348 (2) ◽  
pp. 109 ◽  
Author(s):  
JATURONG KUMLA ◽  
NAKARIN SUWANNARACH ◽  
KRIANGSAK SRI-NGERNYUANG ◽  
SAISAMORN LUMYONG
Keyword(s):  
New Species ◽  
Ribosomal Dna ◽  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Full Description ◽  
Northern Thailand ◽  
Molecular Phylogenetic ◽  
A New Species

A new species of agaricomycetes, Xanthagaricus thailandensis, is described based on collections from northern Thailand. This species is characterized by its medium-sized basidiomata, pale orange pileus, a pseudoparenchymatous structure of the squamules on the pileal surface, subcylindrical to clavate caulocystidia and brownish yellow basidiospores. It is clearly distinguished from the previously described Xanthagaricus species by narrow caulocystidia. Molecular phylogenetic analyses, based on a combination of the internal transcribed spacers (ITS) and the large subunit (LSU) of the nuclear ribosomal DNA, also support the finding that X. thailandensis is distinct from other known species within the genus Xanthagaricus. A full description, color photographs, illustrations and a phylogenetic tree showing the position of X. thailandensis are provided.

Spegazzinia camelliae sp. nov. (Didymosphaeriaceae, Pleosprales), a new endophytic fungus from northern Thailand

Phytotaxa ◽  
2021 ◽  
Vol 483 (2) ◽  
pp. 117-128
Author(s):  
NAKARIN SUWANNARACH ◽  
JATURONG KUMLA ◽  
SAISAMORN LUMYONG
Keyword(s):  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Elongation Factor ◽  
Small Subunit ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Full Description ◽  
Translation Elongation ◽  
Spine Length ◽  
Elongation Factor 1 Alpha

A new endophytic ascomycete, described herein as Spegazzinia camelliae, was isolated from leaves of Camellia sinensis var. assamica collected from Nan Province, Thailand. This species is characterized by basauxic conidiophores and dark brown to blackish brown α and β conidia. It can be distinguished from previously described Spegazzinia species by the spine length of the α conidia and the size of the β conidia. Multi-gene phylogenetic analyses of the small subunit (SSU), large subunit (LSU) and internal transcribed spacers (ITS) of the nuclear ribosomal DNA (rDNA) and the translation elongation factor 1-alpha (tef1) genes also support S. camelliae is a distinct new species within Spegazzinia. A full description, color photographs, illustrations and a phylogenetic tree showing the position of S. camelliae are provided.

Additions to Ochroconis from India

Phytotaxa ◽  
2019 ◽  
Vol 427 (3) ◽  
pp. 186-199
Author(s):  
ARCHANA SINGH ◽  
NIKHIL KUMAR SINGH ◽  
PARAS NATH SINGH ◽  
RAGHVENDRA SINGH ◽  
NAWAL KISHORE DUBEY
Keyword(s):  
New Species ◽  
Medicinal Plant ◽  
Ribosomal Dna ◽  
Leaf Surface ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Nuclear Ribosomal Dna ◽  
Monophyletic Clade ◽  
Protein Coding

Ochroconis helicteris, a novel species of the oligotrophic genus Ochroconis (Sympoventuriaceae, Venturiales), has been described and illustrated. Morphologically, this species has characters similar to allied species in the genus Ochroconis, but differs in conidial dimensions and shape. Phylogenetic analyses using nuclear ribosomal DNA gene ITS and protein coding gene BT2 revealed it clustering as monophyletic clade which was separated from known Ochroconis species. New species was isolated from leaf surface of medicinal plant Helicteris isora L.

scholarly journals Phylogenetics of Taxus Using the Internal Transcribed Spacers of Nuclear Ribosomal DNA and Plastid trnL-F Regions

Horticulturae ◽  
2020 ◽  
Vol 6 (1) ◽  
pp. 19
Author(s):  
Patricia Coughlan ◽  
James C. Carolan ◽  
Ingrid L. I. Hook ◽  
Lisa Kilmartin ◽  
Trevor R. Hodkinson
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Analyses ◽  
Intergenic Spacer ◽  
Its Region ◽  
Single Species ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Trnl Intron ◽  
Group Status ◽  
Haplotype Networks

Taxus is a genus of trees and shrubs with high value in horticulture and medicine as a source of the anticancer drug paclitaxel. The taxonomy of the group is complex due to the lack of diagnostic morphological characters and the high degree of similarity among species. Taxus has a wide global geographic distribution and some taxonomists recognize only a single species with geographically defined subgroups, whereas others have described several species. To address these differences in taxonomic circumscription, phylogenetic analyses were conducted on DNA sequences using Maximum Likelihood, Bayesian Inference and TCS haplotype networks on single and combined gene regions obtained for the nuclear ribosomal ITS region and the plastid trnL intron and trnL-F intergenic spacer. Evidence is presented for the sister group status of Pseudotaxus to Taxus and the inclusion of Amentotaxus, Austrotaxus, Cephalotaxus and Torreya within Taxaceae. Results are consistent with the taxonomic recognition of nine species: T. baccata, T. brevifolia, T. canadensis, T. cuspidata, T. floridana, T. fuana, T. globosa, T. sumatrana and T. wallichiana, but evidence is found for less species distinction and considerable reticulation within the T. baccata, T. canadensis and T. cuspidata group. We compare the results to known taxonomy, biogeography, present new leaf anatomical data and discuss the origins of the hybrids T. ×media and T. ×hunnewelliana.

Characterization of Trichuris trichiura from humans and T. suis from pigs in China using internal transcribed spacers of nuclear ribosomal DNA

2012 ◽  
Vol 88 (1) ◽  
pp. 64-68 ◽  
Author(s):  
G.H. Liu ◽  
W. Zhou ◽  
A.J. Nisbet ◽  
M.J. Xu ◽  
D.H. Zhou ◽  
...  
Keyword(s):  
Ribosomal Dna ◽  
Sequence Variation ◽  
Animal Health ◽  
Trichuris Trichiura ◽  
Its Rdna ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Economic Losses ◽  
Molecular Characteristics ◽  
Rdna Sequences

AbstractTrichuris trichiura and Trichuris suis parasitize (at the adult stage) the caeca of humans and pigs, respectively, causing trichuriasis. Despite these parasites being of human and animal health significance, causing considerable socio-economic losses globally, little is known of the molecular characteristics of T. trichiura and T. suis from China. In the present study, the entire first and second internal transcribed spacer (ITS-1 and ITS-2) regions of nuclear ribosomal DNA (rDNA) of T. trichiura and T. suis from China were amplified by polymerase chain reaction (PCR), the representative amplicons were cloned and sequenced, and sequence variation in the ITS rDNA was examined. The ITS rDNA sequences for the T. trichiura and T. suis samples were 1222–1267 bp and 1339–1353 bp in length, respectively. Sequence analysis revealed that the ITS-1, 5.8S and ITS-2 rDNAs of both whipworms were 600–627 bp and 655–661 bp, 154 bp, and 468–486 bp and 530–538 bp in size, respectively. Sequence variation in ITS rDNA within and among T. trichiura and T. suis was examined. Excluding nucleotide variations in the simple sequence repeats, the intra-species sequence variation in the ITS-1 was 0.2–1.7% within T. trichiura, and 0–1.5% within T. suis. For ITS-2 rDNA, the intra-species sequence variation was 0–1.3% within T. trichiura and 0.2–1.7% within T. suis. The inter-species sequence differences between the two whipworms were 60.7–65.3% for ITS-1 and 59.3–61.5% for ITS-2. These results demonstrated that the ITS rDNA sequences provide additional genetic markers for the characterization and differentiation of the two whipworms. These data should be useful for studying the epidemiology and population genetics of T. trichiura and T. suis, as well as for the diagnosis of trichuriasis in humans and pigs.

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