Aspergillus affinis sp. nov., a novel ochratoxin A-producing Aspergillus species (section Circumdati) isolated from decomposing leaves

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 1007-1015 ◽  
Author(s):  
Domenico Davolos ◽  
Anna Maria Persiani ◽  
Biancamaria Pietrangeli ◽  
Alessandra Ricelli ◽  
Oriana Maggi
Keyword(s):  
Ochratoxin A ◽  
Dna Sequences ◽  
Sequence Data ◽  
Taxonomic Status ◽  
Internal Transcribed Spacers ◽  
Chain Gene ◽  
Protein Coding ◽  
5.8S Rdna ◽  
Rdna Gene ◽  
Molecular Phylogenetic

Two ochratoxin A (OTA)-producing Aspergillus isolates, recently collected from submerged riparian decomposing leaves in Italy, were found to have a similar morphology to Aspergillus cretensis (subgenus Circumdati, section Circumdati). However, marked differences emerged between these two novel isolates and A. cretensis as the former displayed different colony features and had larger vesicles, metulae, phialides and conidia, as well as a distinct sclerotial form and size. In order to determine the taxonomic status and to infer the evolutionary relationships of these two morphologically identical isolates, a molecular phylogenetic analysis was performed on all the officially recognized lineages in the section Circumdati. The DNA sequences and the deduced amino acid residues from the nuclear loci were analysed. Both rRNA and protein coding genes were assessed, which are widely used to differentiate taxa belonging to genus Aspergillus at various evolutionary levels. The 5.8S rDNA gene and internal transcribed spacers (ITS), the D1/D2 domains of the 28S rDNA gene, a region of the tubulin beta chain gene (benA) and part of the calmodulin gene (cmd) were amplified by PCR and then sequenced. The analysis of the rRNA regions and of the benA and cmd sequence data indicated that the two isogenic isolates belonged to a genetically distinct OTA-producing species of the genus Aspergillus. The isolates are proposed as representing a novel species, Aspergillus affinis sp. nov., with the type strain ATCC MYA-4773T ( = CBS 129190 = 417). Phylogenetically, A. affinis sp. nov. appeared to be very closely related to A. cretensis, from which it could be distinguished by means of a morphological trait analysis.

scholarly journals Penicillium simile sp. nov. revealed by morphological and phylogenetic analysis

2012 ◽  
Vol 62 (2) ◽  
pp. 451-458 ◽  
Author(s):  
Domenico Davolos ◽  
Biancamaria Pietrangeli ◽  
Anna Maria Persiani ◽  
Oriana Maggi
Keyword(s):  
Sequence Data ◽  
Taxonomic Status ◽  
Distinct Species ◽  
Rrna Genes ◽  
Chain Gene ◽  
Sequencing Analysis ◽  
Internal Transcribed Spacer Region ◽  
Protein Coding ◽  
Nuclear Loci ◽  
Dna Sequencing Analysis

The morphology of three phenetically identical Penicillium isolates, collected from the bioaerosol in a restoration laboratory in Italy, displayed macro- and microscopic characteristics that were similar though not completely ascribable to Penicillium raistrickii. For this reason, a phylogenetic approach based on DNA sequencing analysis was performed to establish both the taxonomic status and the evolutionary relationships of these three peculiar isolates in relation to previously described species of the genus Penicillium. We used four nuclear loci (both rRNA and protein coding genes) that have previously proved useful for the molecular investigation of taxa belonging to the genus Penicillium at various evolutionary levels. The internal transcribed spacer region (ITS1–5.8S–ITS2), domains D1 and D2 of the 28S rDNA, a region of the tubulin beta chain gene (benA) and part of the calmodulin gene (cmd) were amplified by PCR and sequenced. Analysis of the rRNA genes and of the benA and cmd sequence data indicates the presence of three isogenic isolates belonging to a genetically distinct species of the genus Penicillium, here described and named Penicillium simile sp. nov. (ATCC MYA-4591T  = CBS 129191T). This novel species is phylogenetically different from P. raistrickii and other related species of the genus Penicillium (e.g. Penicillium scabrosum), from which it can be distinguished on the basis of morphological trait analysis.

scholarly journals Inclusion of Kickxia abhaica D.A. Sutton in the genus Nanorrhinum (Plantaginaceae): Evidence from its nuclear ribosomal DNA sequences

2018 ◽  
Vol 25 (2) ◽  
pp. 209-214
Author(s):  
M. Ajmal Ali
Keyword(s):  
Ribosomal Dna ◽  
Dna Sequences ◽  
Molecular Phylogenetics ◽  
Taxonomic Status ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Universal Primers ◽  
Discrimination Power ◽  
Molecular Phylogenetic ◽  
Endemic Taxon

The nuclear ribosomal DNA (nrDNA) internal transcribed spacers (ITS) sequences is extensively used in the plant molecular phylogenetics for plant taxonomic identification and DNA barcoding purposes because the nrDNA ITS gene is easy to amplify by using the universal primers, its length is shorter and thus easy to sequence, and has strong discrimination power to distinguish the taxon at the species level. The present molecular phylogenetic analysis of ITS nrDNA sequences focuses to determine the taxonomic status of an unresolved endemic taxon Kickxia abhaica D.A. Sutton (Family Plantaginaceae, tribe Antirrhineae) reported from Saudi Arabia. The analysis supports the transfer of K. abhaica under the genus Nanorrhinum.

scholarly journals First Report of Leptosphaeria biglobosa (Blackleg) on Brassica oleracea (Cabbage) in Mexico

Plant Disease ◽  
2010 ◽  
Vol 94 (6) ◽  
pp. 791-791 ◽  
Author(s):  
A. Dilmaghani ◽  
M. H. Balesdent ◽  
T. Rouxel ◽  
O. Moreno-Rico
Keyword(s):  
Brassica Oleracea ◽  
Sequence Data ◽  
Leptosphaeria Maculans ◽  
The United States ◽  
Internal Transcribed Spacers ◽  
First Report ◽  
5.8S Rdna ◽  
Single Location ◽  
Leptosphaeria Biglobosa ◽  
Β Tubulin

Broccoli (Brassica oleracea var. italica), cauliflower (B. oleracea var. botrytis), and cabbage (B. oleracea var. capitata) have been grown in central Mexico since 1970, with 21,000 ha cropped in 2001. In contrast, areas grown with oilseed rape (B. napus) are very limited in Mexico (<8,000 ha). Blackleg, a destructive disease of B. napus in most parts of the world, was first observed in Mexico in Zacatecas and Aguascalientes in 1988 on B. oleracea, causing as much as 70% yield loss. A species complex of two closely related Dothideomycete species, Leptosphaeria maculans and L. biglobosa, is associated with this disease of crucifers (1), but leaf symptoms on susceptible plants are different, with L. maculans typically causing >15-mm pale gray lesions with numerous pycnidia, whereas L. biglobosa causes dark and smaller lesions only containing a few pycnidia. Having a similar epidemiology, both species can be present on the same plants at the same time, and symptom confusion can occur as a function of the physiological condition of the plant or expression of plant resistance responses. A total of 209 isolates from symptomatic B. oleracea leaves were collected from three fields in central states of Mexico (58 to 71 isolates per location). All leaves showed similar symptoms, including a 10- to 15-mm tissue collapse with an occasional dark margin. Cotyledons of seven B. napus differentials were inoculated with conidia of all the isolates as described by Dilmaghani et al. (1). Two hundred isolates caused tissue collapse typical of L. maculans. However, nine obtained from white cabbage in a single location in Aguascalientes caused <5-mm dark lesions. When inoculated onto cotyledons of three B. oleracea genotypes commonly grown in Mexico (cvs. Domador, Monaco, and Iron Man), the nine isolates caused a range of symptoms characterized by tissue collapse (maximum 10 to 15 mm), showing the presence of patches of black necrotic spots within the collapse. The occasional presence of a few pycnidia allowed us to reisolate the fungus for molecular identification. ITS1-5.8S-ITS2, (internal transcribed spacers and 5.8S rDNA), actin, and β-tubulin sequences were obtained as described previously (4). Multiple gene genealogies based on these sequence data showed two subclades of L. biglobosa: L. biglobosa ‘occiaustralensis’ (one isolate; ITS [AM410082], actin [AM410084], and β-tubulin [AM410083]) and L. biglobosa ‘canadensis’ (eight isolates; ITS [AJ550868], actin [AY748956], and β-tubulin [AY749004]) (3,4), which were previously described on B. napus in the United States, Canada, and Chile. To our knowledge, this is the first report of L. biglobosa in Mexico. Previously, this species has only been reported once on B. oleracea without discrimination into subclades (2). In the Aguascalientes sampling, 24% of the isolates were L. biglobosa, similar to Canadian locations where this species is still common as compared with L. maculans (1). The large proportion of sampled L. biglobosa ‘canadensis’, highlights the prevalence of this subclade throughout the American continent (1). References: (1) A. Dilmaghani et al. Plant Pathol. 58:1044, 2009. (2) E. Koch et al. Mol. Plant-Microbe Interact. 4:341, 1991. (3) E. Mendes-Pereira et al. Mycol Res. 107:1287, 2003. (4) L. Vincenot et al. Phytopathology 98:321, 2008.

Molecular phylogeny of the Fusarium solani species complex (FSSC) isolated from soils in Iran

Botany ◽  
2014 ◽  
Vol 92 (11) ◽  
pp. 815-820 ◽  
Author(s):  
Khosrow Chehri
Keyword(s):  
Dna Sequences ◽  
Fusarium Solani ◽  
Species Complex ◽  
Agricultural Soils ◽  
Sequence Data ◽  
Morphological Characteristics ◽  
Taxonomic Status ◽  
Its Region ◽  
Phylogenetic Study ◽  
Fusarium Solani Species Complex

Members of Fusarium solani species complex (FSSC) are frequently isolated from soils, food, feeds, trees, and to some extent from humans and other animals. The taxonomic status of these fungi is being revised but no attempt has been made to identify those isolated in Iran, a mountainous country with a high biodiversity. The objective of the present research was to study the phylogenetic diversity of FSSC strains recovered from soils in Iran by analyzing morphological characteristics and DNA sequences. A total of 65 strains belonging to the FSSC were recovered from agricultural soils in western Iran. Based on differences in their morphological characters, 25 strains were selected for phylogenetic analysis employing translation elongation factor-1α (tef1) and internal transcribed spacer (ITS) region sequences. Comparisons of DNA sequence data revealed that all isolates belonged to Fusarium falciforme, Fusarium keratoplasticum, Fusarium petroliphilum, the unnamed species FSSC 5, and unknown species of Fusarium, which represents a new lineage within members of Clade 3. Based on morphological features and phylogenetic study, F. keratoplasticum and F. petroliphilum were reported for the first time in Iran.

scholarly journals The molecular phylogenetic status of <i>Elphidium williamsoni</i> (Haynes, 1973) as inferred from partial 18S-rDNA sequences

2001 ◽  
Vol 20 (2) ◽  
pp. 183-183 ◽  
Author(s):  
Martin R. Langer
Keyword(s):  
North Sea ◽  
Sequence Data ◽  
Taxonomic Status ◽  
Molecular Data ◽  
Small Subunit ◽  
The North ◽  
Rdna Sequences ◽  
Molecular Phylogenetic ◽  
The North Sea ◽  
Muddy Sediments

Abstract. Comparative studies on DNA nucleotide sequences have revolutionized our understanding of the phylogenetic relationships of many organisms and have become an important tool in evolutionary, ecological and palaeobiological inquiry. We have analysed partial small-subunit 18S sequences (srDNA) of Elphidium williamsoni (Haynes, 1973), a common intertidal benthic foraminiferid from the North Sea. The molecular phylogenetic analysis of the ribosomal rDNA sequence data indicate that E. williamsoni constitutes a well-defined genetic entity that is closely related to Elphidium aculeatum.Elphidium williamsoni is a prominent and frequently encountered foraminiferid in the North Sea and other tidal flats. It was originally described by Williamson (1858) as Polystomella umbilicata and subsequently renamed by Haynes (1973). Because of its phenotypic similarities with other elphidiids, this species has been frequently confused with, for example E. excavatum or Cribrononion alvarezianum (see Haynes for discussion). The molecular data provided here, and their direct comparison to other benthic foraminifera including one elphidiid, may therefore provide additional insight into the taxonomic status and the validity of this species.Individuals of the foraminiferid Elphidium williamsoni were collected in October 1997 from the intertidal mud flats of the Crildumersiel at the outer Jade Bay near Wilhelmshaven, North Sea (see Langer et al., 1989 for details). The mud flats are characterized by fine-grained, muddy sediments containing high contents of organic material. In the laboratory, specimens were transferred into petri dishes, examined and cleaned under a stereo microscope. Living specimens of E. williamsoni were picked out separately and placed into clean glass dishes containing filtered. . .

scholarly journals Two new asexual genera and six new asexual species in the family Microthyriaceae (Dothideomycetes, Ascomycota) from China

MycoKeys ◽  
2021 ◽  
Vol 85 ◽  
pp. 1-30
Author(s):  
Min Qiao ◽  
Hua Zheng ◽  
Ji-Shu Guo ◽  
Rafael F. Castañeda-Ruiz ◽  
Jian-Ping Xu ◽  
...  
Keyword(s):  
New Taxa ◽  
Dna Sequences ◽  
Sequence Data ◽  
Southern China ◽  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Aquatic Hyphomycetes ◽  
Internal Transcribed Spacers ◽  
The Family

The family Microthyriaceae is represented by relatively few mycelial cultures and DNA sequences; as a result, the taxonomy and classification of this group of organisms remain poorly understood. During the investigation of the diversity of aquatic hyphomycetes from southern China, several isolates were collected. These isolates were cultured and sequenced and a BLAST search of its LSU sequences against data in GenBank revealed that the closest related taxa are in the genus Microthyrium. Phylogenetic analyses, based on the combined sequence data from the internal transcribed spacers (ITS) and the large subunit (LSU), revealed that these isolates represent eight new taxa in Microthyriaceae, including two new genera, Antidactylariagen. nov. and Isthmomycesgen. nov. and six new species, Antidactylaria minifimbriatasp. nov., Isthmomyces oxysporussp. nov., I. dissimilissp. nov., I. macrosporussp. nov., Triscelophorus anisopterioideussp. nov. and T. sinensissp. nov. These new taxa are described, illustrated for their morphologies and compared with similar taxa. In addition, two new combinations are proposed in this family.

scholarly journals Toward a Natural Classification of Botryosphaeriaceae: A Study of the Type Specimens of Botryosphaeria sensu lato

2021 ◽  
Vol 12 ◽  
Author(s):  
Ying Zhang ◽  
Yupei Zhou ◽  
Wei Sun ◽  
Lili Zhao ◽  
D. Pavlic-Zupanc ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Dna Sequences ◽  
Sequence Data ◽  
Morphological Characteristics ◽  
Taxonomic Status ◽  
Morphological Characters ◽  
Phylogenetic Position ◽  
Type Specimens ◽  
Natural Classification ◽  
Dna Sequence Data

The genus Botryosphaeria includes more than 200 epithets, but only the type species, Botryosphaeria dothidea and a dozen or more other species have been identified based on DNA sequence data. The taxonomic status of the other species remains unconfirmed because they lack either morphological information or DNA sequence data. In this study, types or authentic specimens of 16 “Botryosphaeria” species are reassessed to clarify their identity and phylogenetic position. nuDNA sequences of four regions, ITS, LSU, tef1-α and tub2, are analyzed and considered in combination with morphological characteristics. Based on the multigene phylogeny and morphological characters, Botryosphaeria cruenta and Botryosphaeria hamamelidis are transferred to Neofusicoccum. The generic status of Botryosphaeria aterrima and Botryosphaeria mirabile is confirmed in Botryosphaeria. Botryosphaeria berengeriana var. weigeliae and B. berengeriana var. acerina are treated synonyms of B. dothidea. Botryosphaeria mucosa is transferred to Neodeightonia as Neodeightonia mucosa, and Botryosphaeria ferruginea to Nothophoma as Nothophoma ferruginea. Botryosphaeria foliicola is reduced to synonymy with Phyllachorella micheliae. Botryosphaeria abuensis, Botryosphaeria aesculi, Botryosphaeria dasylirii, and Botryosphaeria wisteriae are tentatively kept in Botryosphaeria sensu stricto until further phylogenetic analysis is carried out on verified specimens. The ordinal status of Botryosphaeria apocyni, Botryosphaeria gaubae, and Botryosphaeria smilacinina cannot be determined, and tentatively accommodate these species in Dothideomycetes incertae sedis. The study demonstrates the significance of a polyphasic approach in characterizing type specimens, including the importance of using of DNA sequence data.

Molecular phylogenetic relationships among Anatolian-Hyrcanian brown frog taxa (Ranidae: Rana)

2017 ◽  
Vol 38 (3) ◽  
pp. 339-350 ◽  
Author(s):  
Masoumeh Najibzadeh ◽  
Michael Veith ◽  
Ahmad Gharzi ◽  
Nasrullah Rastegar-Pouyani ◽  
Eskandar Rastegar-Pouyani ◽  
...  
Keyword(s):  
Phylogenetic Relationship ◽  
Dna Sequences ◽  
Taxonomic Status ◽  
Early Miocene ◽  
Restricted Gene Flow ◽  
Iranian Plateau ◽  
Western Palearctic ◽  
Phylogenetic Status ◽  
Molecular Phylogenetic ◽  
Relationship Of

Although the phylogenetic relationship of Western Palearctic brown frogs has been repeatedly studied, the taxonomic status and phylogenetic relationship of Anatolian-Hyrcanian brown frogs is still not fully resolved. Here, we assess the phylogenetic status of these species among Western Palearctic brown frogs with special emphasize on Iranian populations based on two partial mitochondrial DNA sequences (16S rRNA and cytochrome b genes) and the application of a molecular clock. Our results clearly show that Western Palearctic brown frogs underwent a basal radiation in to two main monophyletic clades, the European brown frogs plus the Asian R. asiatica and the Anatolian-Hyrcanian brown frogs, during Early Miocene ca. 20.2 mya. The Hyrcanian (R. pseudodalmatina) and the Anatolian lineage diverged approximately 16.6 mya. The further diverged into two subclades, R. tavasensis and R. macrocnemis, during the Middle Miocene, 14.5 mya. Our results suggest that diversification within these lineages may be closely linked to the formation of Neotethys and Paratethys and the subsequent uplift of the Turkish-Iranian plateau during the Early Miocene which led to restricted gene flow among brown frogs in these regions. Contrary to previous studies, we conclude that the Plio-Pleistocene epoch seems to be not associated to further significant speciation events within Anatolian-Hyrcanian brown frogs.

Molecular phylogeny of the genus Hordeum using three chloroplast DNA sequences

Genome ◽  
2002 ◽  
Vol 45 (6) ◽  
pp. 1157-1166 ◽  
Author(s):  
Tomotaro Nishikawa ◽  
Björn Salomon ◽  
Takao Komatsuda ◽  
Roland von Bothmer ◽  
Koh-ichi Kadowaki
Keyword(s):  
Chloroplast Dna ◽  
Dna Sequences ◽  
Sequence Data ◽  
Genetic Relationships ◽  
Closely Related Species ◽  
Dna Phylogeny ◽  
Molecular Phylogenetic ◽  
Hordeum Jubatum ◽  
Chloroplast Dna Sequences ◽  
Chloroplast Dna Regions

The genus Hordeum consists of three cytotypes (2x, 4x, and 6x). Its reproductive isolation has been incomplete between closely related species and hence the genetic relationship is reticulate and complex. We used 32 taxa of Hordeum and three chloroplast DNA sequences, matK, atpB–rbcL, and trnL–trnF, in the current study. Molecular phylogenetic analysis based on sequence data of the three chloroplast DNA regions clearly demonstrated genetic relationships among taxa and origin of polypoids. The formation of H. secalinum likely involved hybridization between Hordeum marinum subsp. marinum and a Eurasian diploid possessing the H genome. The formation of hexaploid Hordeum brachyantherum involved hybridization between tetraploid H. brachyantherum and diploid H. marinum subsp. gussoneanum. The formation of three tetraploids, H. brachyantherum, Hordeum jubatum, and Hordeum guatemalense, probably involved hybridization between H. brachyantherum subsp. californicum and an altered H genome diploid. The formation of Hordeum arizonicum involved the two taxa Hordeum pusillum and H. jubatum.Key words: chloroplast DNA, phylogeny, Hordeum, barley.

Sign in / Sign up

Export Citation Format

Share Document