scholarly journals Genetic diversity and biogeography in Chaetomorpha melagonium (Ulvophyceae, Cladophorales) based on internal transcribed spacer (ITS rDNA) sequences

2020 ◽  
Author(s):  
C Boedeker ◽  
F Leliaert ◽  
Giuseppe Zuccarello
Keyword(s):  
Genetic Diversity ◽  
Dna Sequences ◽  
Base Pair ◽  
Internal Transcribed Spacer ◽  
Large Subunit ◽  
Point Mutations ◽  
Its Sequences ◽  
The Arctic ◽  
Lsu Rdna ◽  
The North

© 2017 Walter de Gruyter GmbH, Berlin/Boston. Chaetomorpha melagonium is a morphologically distinct species of green algae that occurs throughout the North Atlantic, the North Pacific and the Arctic Ocean. In this study, we analyzed the intraspecific genetic diversity among 14 samples of C. melagonium from across the distribution range based on nuclear large subunit ribosomal DNA (LSU rDNA) and rDNA internal transcribed spacer (ITS) DNA sequences. All samples had identical LSU sequences. The ITS sequences had very few mutations that nevertheless divided the specimens into two groups: one included samples from Iceland, Svalbard, Massachusetts and Alaska with identical ITS sequences; members of this group differed in samples from Europe (France, Germany, Scotland, Sweden, and Wales) by three mutations (two point mutations and one five base pair indel). The European specimens had identical ITS sequences with the exception of a single sample from Brittany that differed by one base pair. The maximum ITS sequence divergence within the samples of C. melagonium was less than 0.5%. This low intraspecific variation in the frequently used highly variable ITS region is discussed in the context of past geological and climatic scenarios.

scholarly journals Genetic diversity and biogeography in Chaetomorpha melagonium (Ulvophyceae, Cladophorales) based on internal transcribed spacer (ITS rDNA) sequences

2020 ◽  
Author(s):  
C Boedeker ◽  
F Leliaert ◽  
Giuseppe Zuccarello
Keyword(s):  
Genetic Diversity ◽  
Dna Sequences ◽  
Base Pair ◽  
Internal Transcribed Spacer ◽  
Large Subunit ◽  
Point Mutations ◽  
Its Sequences ◽  
The Arctic ◽  
Lsu Rdna ◽  
The North

© 2017 Walter de Gruyter GmbH, Berlin/Boston. Chaetomorpha melagonium is a morphologically distinct species of green algae that occurs throughout the North Atlantic, the North Pacific and the Arctic Ocean. In this study, we analyzed the intraspecific genetic diversity among 14 samples of C. melagonium from across the distribution range based on nuclear large subunit ribosomal DNA (LSU rDNA) and rDNA internal transcribed spacer (ITS) DNA sequences. All samples had identical LSU sequences. The ITS sequences had very few mutations that nevertheless divided the specimens into two groups: one included samples from Iceland, Svalbard, Massachusetts and Alaska with identical ITS sequences; members of this group differed in samples from Europe (France, Germany, Scotland, Sweden, and Wales) by three mutations (two point mutations and one five base pair indel). The European specimens had identical ITS sequences with the exception of a single sample from Brittany that differed by one base pair. The maximum ITS sequence divergence within the samples of C. melagonium was less than 0.5%. This low intraspecific variation in the frequently used highly variable ITS region is discussed in the context of past geological and climatic scenarios.

scholarly journals Genetic diversity and biogeography in Chaetomorpha melagonium (Ulvophyceae, Cladophorales) based on internal transcribed spacer (ITS rDNA) sequences

2017 ◽  
Vol 60 (3) ◽  
Author(s):  
Christian Boedeker ◽  
Frederik Leliaert ◽  
Giuseppe C. Zuccarello
Keyword(s):  
Genetic Diversity ◽  
North Atlantic ◽  
North Pacific ◽  
Internal Transcribed Spacer ◽  
Distinct Species ◽  
The Arctic ◽  
The North ◽  
Rdna Sequences ◽  
The North Atlantic ◽  
The North Pacific

Abstractis a morphologically distinct species of green algae that occurs throughout the North Atlantic, the North Pacific and the Arctic Ocean. In this study, we analyzed the intraspecific genetic diversity among 14 samples of

Evolutionary relationships in Oxytropis species, as estimated from the nuclear ribosomal internal transcribed spacer (ITS) sequences point to multiple expansions into the Arctic

Botany ◽  
2012 ◽  
Vol 90 (8) ◽  
pp. 770-779 ◽  
Author(s):  
Annie Archambault ◽  
Martina V. Strömvik
Keyword(s):  
North American ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Trees ◽  
Its Region ◽  
Its Sequences ◽  
The Arctic ◽  
Evolutionary Relationships ◽  
Data Set ◽  
The North ◽  
North American Arctic

Species of the genus Oxytropis are distributed in the northern hemisphere, especially in alpine and arctic areas. Although comprehensive taxonomic treatments exist for local floras, an understanding of the evolutionary relationships is lacking for the genus as a whole. To determine if different ancestral Oxytropis species colonized the North American Arctic separately, as suggested by taxonomy, we sequenced the nuclear ribosomal internal transcribed spacer (ITS) region from 16 Oxytropis specimens, including four species that were used in a previous transcriptome study. In addition, 81 other Oxytropis ITS sequences were retrieved from public sequence databases and included in the analysis. The whole data set was analyzed using phylogenetic trees and statistical parsimony networks. Results show that all Oxytropis ITS sequences are very similar. Furthermore, at least six lineages evolved from different temperate ancestors to colonize the North American Arctic. This pattern is believed to be typical of the arctic flora. Additionally, the sequence relationship analyses confirm that the subgenus Phacoxytropis may be ancestral in Oxytropis.

Pseudopyricularia hedjaroudii sp. nov. (Pyriculariaceae, Magnaporthales): a novel species from Iran

Phytotaxa ◽  
2021 ◽  
Vol 479 (1) ◽  
pp. 95-104
Author(s):  
GOLZAR GHORBANI ◽  
ADEL PORDEL ◽  
MOHAMMAD JAVAN-NIKKHAH
Keyword(s):  
Rna Polymerase Ii ◽  
Ribosomal Rna ◽  
Dna Sequences ◽  
Internal Transcribed Spacer ◽  
Novel Species ◽  
Large Subunit ◽  
The North ◽  
Phylogeny Analysis ◽  
Morphological Criteria ◽  
North Of Iran

In a survey of pyricularia-like fungi on different plants, especially on sedges in the north of Iran, we identified two typical isolates characteristics of the genus Pseudopyricularia. Phylogeny analysis based on DNA sequences of internal transcribed spacer regions (ITS-rDNA), the largest subunit of the RNA polymerase II (RPB1), calmodulin (CAL), and large subunit of the ribosomal RNA (LSU) gene regions, and morphological criteria confirmed the new species of Pseudopyricularia. Pseudopyricularia hedjaroudii sp. nov., isolated from the leaves of Cyperus sp., is described and illustrated. Conidia of the Ps. hedjaroudii are obclavate, obpyriform, and 1-septate distinct from other allied species in size and shape.

Tc, an unusual promoter element required for constitutive transcription of the yeast HIS3 gene

1990 ◽  
Vol 10 (9) ◽  
pp. 4447-4455
Author(s):  
S Mahadevan ◽  
K Struhl
Keyword(s):  
Transcription Factor ◽  
Dna Sequences ◽  
Base Pair ◽  
Point Mutations ◽  
Proximal Promoter ◽  
Promoter Element ◽  
Tata Element ◽  
Typical Sequence ◽  
His3 Gene ◽  
Transcriptional Stimulation

Tc is the proximal promoter element required for constitutive his3 transcription that occurs in the absence of the canonical TATA element (TR) and is initiated from the +1 site. The TC element, unlike TR, does not respond to transcriptional stimulation by the GCN4 or GAL4 activator protein. Analysis of deletion, substitution, and point mutations indicates that Tc mapped between nucleotides -54 and -83 and is a sequence-dependent element because it could not be functionally replaced by other DNA sequences. However, in contrast to the behavior of typical promoter elements, it was surprisingly difficult to eliminate Tc function by base pair substitutions. Of 15 derivatives averaging four substitutions in the Tc region and representing 40% of all possible single changes, only 1 inactivated the Tc element. Moreover, the phenotypes of mutant and hybrid elements indicated that inactivation of Tc required multiple changes. The spacing between Tc and the initiation region could be varied over a 30-base-pair range without significantly affecting the level of transcription from the +1 site. From these results, we consider it possible that Tc may not interact with TFIID or some other typical sequence-specific transcription factor, but instead might influence transcription, either directly or indirectly, by its DNA structure.

scholarly journals Metataxonomic comparison between internal transcribed spacer and 26S ribosomal large subunit (LSU) rDNA gene

2019 ◽  
Vol 290 ◽  
pp. 132-140 ◽  
Author(s):  
Jatziri Mota-Gutierrez ◽  
Ilario Ferrocino ◽  
Kalliopi Rantsiou ◽  
Luca Cocolin
Keyword(s):  
Internal Transcribed Spacer ◽  
Large Subunit ◽  
Lsu Rdna ◽  
Rdna Gene

A new species of Chlorociboria (Helotiales, Ascomycota) on herbaceous stems from China

Phytotaxa ◽  
2017 ◽  
Vol 312 (1) ◽  
pp. 111
Author(s):  
HUAN-DI ZHENG ◽  
WEN-YING ZHUANG
Keyword(s):  
New Species ◽  
Dna Sequences ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Central China ◽  
Nuclear Ribosomal Dna ◽  
Light Blue ◽  
Ectal Excipulum ◽  
A New Species

A new species, namely Chlorociboria herbicola, is discovered on herbaceous stems in central China. Morphologically, the new fungus is distinctive by the combination of light blue-green apothecia, rectangular cells in ectal excipulum, and elongate-ellipsoidal ascospores with rounded ends. Phylogenetic analyses of the internal transcribed spacer and large subunit of nuclear ribosomal DNA sequences confirm its ascription in Chlorociboria and distinction from the known species of the genus.

scholarly journals Commensal Rodents in 19th Century Australasia: Diversity, Invasion Routes and the China Connection

2021 ◽  
Author(s):  
Andrew James Veale ◽  
Carolyn King ◽  
Wayne Johnson ◽  
Lara Shepherd
Keyword(s):  
Genetic Diversity ◽  
New Zealand ◽  
Dna Sequences ◽  
Archaeological Site ◽  
House Mice ◽  
Mus Musculus Domesticus ◽  
The South ◽  
The North ◽  
Founding Population ◽  
Norway Rats

Abstract The present genetic diversity of commensal rodent populations is often used to inform the invasion histories of these species, and as a proxy for historical events relating to the movement of people and goods. These studies assume that modern genetic diversity generally reflects early colonising events. We investigate this idea by sequencing the mitochondrial DNA of rodent bones found in a 19th-century archaeological site in The Rocks area of Sydney, Australia, the location of the first historical European port. We identified 19th-century bones from two species, Rattus norvegicus and Mus musculus domesticus. We found six genetic haplotypes in the 39 Norway rats, showing either multiple early introductions or a diverse initial founding population. One of them was identical with Norhap01 common in the North Island of New Zealand, but none was like the haplotype Norhap02 found throughout the South Island. We found three haplotypes in seven house mice, all belonging to the dominant subspecies established in Australia, M.m. domesticus. There was no evidence for M. m. castaneus or M. m. musculus having established there. We had few modern R. norvegicus and M. musculus DNA sequences from Sydney, but those we had did tentatively support the hypotheses that (1) modern samples can represent at least a preliminary estimate of historical diversities and origins, and (2) Asian haplotypes of both Norway rats and of house mice reached the South Island of New Zealand early in colonial times direct from China rather than through Port Jackson.

Kamalia indica, a new genus and species belonging to Diaporthales (Ascomycota, Fungi) described based on morphology and molecular phylogeny

Phytotaxa ◽  
2019 ◽  
Vol 425 (4) ◽  
pp. 233-243
Author(s):  
SHIWALI RANA ◽  
SANJAY KUMAR SINGH
Keyword(s):  
Dna Sequences ◽  
Internal Transcribed Spacer ◽  
New Genus ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Type Specimen ◽  
Morphological Description ◽  
Fungal Culture ◽  
Internal Transcribed Spacer Region

A fungal taxa isolated from leaf spots of Mallotus philippensis from Kangra district of North-Western Himalayan region of India is established as a new genus based on morphological characters of asexual-morphs, cultural characteristics and phylogenetic analyses of the partial nuclear ribosomal 28S large subunit (LSU) and internal transcribed spacer (ITS) rDNA sequence data. The generic placement of the genus has been determined based on DNA sequences from authenticated isolates. The present taxon has turned out to be distinct, showing nearly 90% identity with other known genera in Diaporthales based on nrDNA internal transcribed spacer region. The morphological description is provided for the new taxa and compared with the similar taxa belonging to the order Diaporthales. The culture was found to show heavy sporulation in all kind of media. The type specimen and ex type culture have been deposited in the Ajrekar Mycological Herbarium (AMH) and National Fungal Culture Collection of India (NFCCI-WDCM 932), respectively.

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