Phylogenetic Analysis within Genera Morchella (Ascomycota, Pezizales) and Macrolepiota (Basidiomycota, Agaricales) Inferred from rDNA ITS and EF-1a Sequences

Abstract Twelve hyper-β carotene-producing strains of algae assigned to the genus Dunaliella salina have been isolated from various hypersaline environments in Israel, South Africa, Namibia and Spain. Intron-sizing of the SSU rDNA and phylogenetic analysis of these isolates were undertaken using four commonly employed markers for genotyping, LSU rDNA, ITS, rbcL and tufA and their application to the study of Dunaliella evaluated. Novel isolates have been identified and phylogenetic analyses have shown the need for clarification on the taxonomy of Dunaliella salina. We propose the division of D. salina into four sub-clades as defined by a robust phylogeny based on the concatenation of four genes. This study further demonstrates the considerable genetic diversity within D. salina and the potential of genetic analyses for aiding in the selection of prospective economically important strains.

Download Full-text

A phylogenetic analysis ofPanax (Araliaceae): Integrating cpDNA restriction site and nuclear rDNA ITS sequence data

Plant Systematics and Evolution ◽

10.1007/bf00985269 ◽

2000 ◽

Vol 224 (1-2) ◽

pp. 109-120 ◽

Cited By ~ 36

Author(s):

Hong-Keun Choi ◽

Jun Wen

Keyword(s):

Phylogenetic Analysis ◽

Restriction Site ◽

Sequence Data ◽

Its Sequence ◽

Nuclear Rdna ◽

Rdna Its

Download Full-text

Phylogenetic Analysis and Molecular Diversity of Capsicum Based on rDNA-ITS Region

Horticulturae ◽

10.3390/horticulturae6040087 ◽

2020 ◽

Vol 6 (4) ◽

pp. 87

Author(s):

Kumpei Shiragaki ◽

Shuji Yokoi ◽

Takahiro Tezuka

Keyword(s):

Genetic Diversity ◽

Phylogenetic Analysis ◽

Wild Species ◽

Morphological Characteristics ◽

Its Region ◽

Internal Transcribed Spacers ◽

Nuclear Ribosomal Dna ◽

Rdna Its ◽

Rdna Its Region ◽

Genus Capsicum

The genus Capsicum is comprised of 5 domesticated and more than 30 wild species. The region of nuclear ribosomal DNA internal transcribed spacers (rDNA-ITS) has widely been used for species identification, but has rarely been used in Capsicum. In this study, the evaluation of genetic diversity and a phylogenetic analysis were conducted using rDNA-ITS of 28 Capsicum accessions, including five domesticated and two wild species. We surveyed six conventional keys of domesticated species and another five traits in Capsicum accessions. Specific morphological characteristics were found in C. annuum, C. baccatum, and C.pubescens. Three subclones of each accession were sequenced, and rDNA-ITS polymorphisms were detected in all accessions excluding C. annuum, suggesting that incomplete concerted evolution occurred in rDNA-ITS of Capsicum. The genetic diversity was evaluated using nucleotide polymorphism and diversity. C. annuum had the lowest genetic diversity of all species in this study. The phylogenetic tree formed a species-specific clade for C. annuum, C. baccatum, and C. pubescens. The C. chinense clade existed in the C. frutescens clade, implying that it was a cultivated variant of C. frutescens. C. chacoense likely belonged to the C. baccatum complex according to its morphologic and genetic features. This study indicated that the rDNA-ITS region can be used for simple identification of domesticated Capsicum species.

Download Full-text

Molecular identification and phylogenetic analysis of important medicinal plant species in genus Paeonia based on rDNA-ITS, matK, and rbcL DNA barcode sequences

Genetics and Molecular Research ◽

10.4238/gmr.15038472 ◽

2016 ◽

Vol 15 (3) ◽

Cited By ~ 8

Author(s):

W.J. Kim ◽

Y. Ji ◽

G. Choi ◽

Y.M. Kang ◽

S. Yang ◽

...

Keyword(s):

Phylogenetic Analysis ◽

Medicinal Plant ◽

Plant Species ◽

Molecular Identification ◽

Dna Barcode ◽

Medicinal Plant Species ◽

Rdna Its ◽

Important Medicinal Plant

Download Full-text

Phylogenetic analysis of Hordeum (Poaceae) as inferred by nuclear rDNA ITS sequences

Molecular Phylogenetics and Evolution ◽

10.1016/j.ympev.2004.05.012 ◽

2004 ◽

Vol 33 (2) ◽

pp. 289-299 ◽

Cited By ~ 91

Author(s):

Frank R. Blattner

Keyword(s):

Phylogenetic Analysis ◽

Its Sequences ◽

Nuclear Rdna ◽

Rdna Its ◽

Rdna Its Sequences

Download Full-text

A new and threatened species of Trichaptum (Basidiomycota, Hymenochaetales) from urban mangroves of Santa Catarina Island, Southern Brazil

Phytotaxa ◽

10.11646/phytotaxa.482.2.8 ◽

2021 ◽

Vol 482 (2) ◽

pp. 197-207

Author(s):

THIAGO KOSSMANN ◽

DIOGO HENRIQUE COSTA-REZENDE ◽

ARISTÓTELES GÓES-NETO ◽

ELISANDRO RICARDO DRECHSLER-SANTOS

Keyword(s):

Phylogenetic Analysis ◽

Threatened Species ◽

Mangrove Forests ◽

Southern Brazil ◽

Santa Catarina ◽

Rdna Its ◽

Worldwide Distribution ◽

Variable Morphology ◽

Iucn Criteria

Trichaptum comprises around 36 polypore species, with variable morphology and worldwide distribution. During polypore surveys in Santa Catarina Island (Southern Brazil), specimens of a remarkable species, with large, mostly resupinate basidiomata, large (6–11µm long) spores and two kinds of cystidia, were collected in mangrove forests and their vicinities. Morphological and phylogenetic analysis (rDNA ITS) revealed it as new, and is described herein as T. fissile sp. nov. Moreover, the species is proposed as Vulnerable according to the IUCN criteria. The taxonomic placement and delimitation of Trichaptum are also discussed.

Download Full-text

Geopora ramila sp. nov. (Pezizales, Pyronemataceae) evidenced by morphological characters and phylogenetic analyses in Iran

Phytotaxa ◽

10.11646/phytotaxa.475.1.3 ◽

2020 ◽

Vol 475 (1) ◽

pp. 29-42

Author(s):

MASOUD SHEIBANI ◽

SAMAD JAMALI

Keyword(s):

Phylogenetic Analysis ◽

Phylogenetic Analyses ◽

Morphological Characters ◽

Its Sequence ◽

Fars Province ◽

Annual Plant ◽

Blast Search ◽

Rdna Its ◽

Internally Transcribed Spacer ◽

Close Relatives

A new Geopora species (Pyronemataceae), Geopora ramila was described and illustrated from the soil, under or in the vicinity of Helianthemum ledifolium var. ledifolium annual plant in Fars province, Iran. Morphologically, G. ramila is similar to G. pinyonensis and G. arenicola but distinguished from both by a combination of morphological characters including, color and size of ascocarps, size and shape of ascospores, habit and associated host. The ribosomal DNA internally transcribed spacer (rDNA ITS) sequence of the new species (Acc. No. MT108930 to MT108934) showed 87.82% identity with G. pinyonensis in the BLAST search in GenBank. ITS-based phylogenetic analysis clearly supports G. ramila is a new and distinctive species lacking close relatives among described species of Geopora.

Download Full-text