Barcoding sequences clearly separate Chroogomphus mediterraneus (Gomphidiaceae, Boletales) from C. rutilus, and allied species

Martı́n, Marı́a P.; Siquier, J.L.; Salom, Joan Carles; Tellería, M. Teresa; Finschow, Günter

doi:10.1016/j.myc.2016.06.004

Cited by 8 publications

(22 citation statements)

References 23 publications

(19 reference statements)

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“…The genus can be found throughout the Northern Hemisphere with the exception of only one species, C. papillatus, which was reported from the Southern Hemisphere by Raithelhuber (1974). There is morphological and molecular evidence of intercontinental distribution for C. purpurascens and C. rutilus, which both occur in Europe and Asia (Miller and Aime 2001;Li et al 2009;Martín et al 2016;Scambler et al 2018). Our phylogenetic tree, obtained from ML and BI analyses (Figure 1), is in accordance with Scambler et al (2018), with the division of the genus into the subgenera Chroogomphus, Floccigomphus and Siccigomphus.…”

Section: Discussionsupporting

confidence: 72%

“…We constructed an ITS dataset of our newly generated sequences along with closely related sequences that were downloaded from GenBank (Li et al 2009;Martín et al 2016;Scambler et al 2018). We included species of Gomphidius Fr.…”

Section: Sequence Alignment and Phylogenetic Analysismentioning

confidence: 99%

“…It was Miller (1964) who elevated it to genus level. More than 33 taxa are currently recognised worldwide, including species, subspecies and varieties, but the number of accepted species in the genus is ambiguous (Miller and Aime 2001;Miller 2003;Watling 2004;Li et al 2009;Martín et al 2016;Razaq et al 2016;Scambler et al 2018). Members of the genus are characterised by ochraceous basidiomata; orange to somewhat ochraceous, decurrent lamellae; a fibrous veil; and grey to black spore deposit.…”

Section: Introductionmentioning

confidence: 99%

“…Members of the genus are characterised by ochraceous basidiomata; orange to somewhat ochraceous, decurrent lamellae; a fibrous veil; and grey to black spore deposit. Other useful characters are the pileipellis hyphae (moist to glutinous or viscid) and the stipe base (with hyphae that are amyloid in Melzer's reagent) (Miller 1964;Miller and Aime 2001;Li et al 2009;Martín et al 2016).…”

Section: Introductionmentioning

confidence: 99%

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Additions to the genus Chroogomphus (Boletales, Gomphidiaceae) from Pakistan

Kiran¹,

Sattar²,

Zamir³

et al. 2020

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With only three published reports, the genus Chroogomphus (Boletales, Gomphidiaceae) is poorly studied in Pakistan. During recent sampling events in Khyber Pakhtunkhawa province, Pakistan, several collections of Chroogomphus were made, representing undescribed taxa. Based on morphological and molecular data, two new species are described: Chroogomphus pakistanicus and C. pruinosus. We present a description and illustrations for both taxa. A molecular phylogenetic reconstruction, based on the internal transcribed spacer (ITS1–5.8S–ITS2) barcode region, shows that C. pakistanicus and C. pruinosus are placed in two different subgenera of Chroogomphus (subg. Chroogomphus and subg. Siccigomphus, respectively).

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Section: Discussionsupporting

confidence: 72%

Section: Sequence Alignment and Phylogenetic Analysismentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Additions to the genus Chroogomphus (Boletales, Gomphidiaceae) from Pakistan

Kiran¹,

Sattar²,

Zamir³

et al. 2020

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“…Similarly, Nithaniyal and Parani (2016) used rbcL, matK, internal transcribed spacer 2 (ITS2) and trnH-psbA markers for identification of Terminalia spp. Martin et al (2016) reported that DNA barcoding of ITS in the nuclear ribosomal DNA (nrDNA) region supported the separation of Chroogomphus mediterraneus from C. rutilus. In Mezzasalma et al's (2017) study, four barcode loci -rbcL, matK, trnH-psbA and ITS -were used to identify the traditional medicine species Cyperus articulatus within the natural flora of the Amazon.…”

Section: Introductionmentioning

confidence: 99%

Research Article Evaluation of the capacity of the DNA barcode ITS2 for identifying and discriminating dryland plants

Al-Juhani¹

2019

Genet. Mol. Res.

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Many of the plants that grow in arid and semi-arid regions under harsh conditions (drought, salinity and misuse) are of medical importance. Desert plants also provide other benefits; so conservation efforts should be strengthened in these areas. In this study, three DNA barcodes-chloroplast maturase-K (matK), ribulose-1,5-bisphosphate carboxylase/oxygenase (rbcL) and secondary internal transcribed spacer (ITS2)-were tested in order to determine the ability of these markers to distinguish between various species. A total of 93 fresh and dry samples belonging to 30 plant families were examined. These are native to the arid lands around Makkah in the Kingdom of Saudi Arabia. Various tools and tests were used to evaluate the efficiency of the barcode markers; these included the basic local alignment search tool (BLAST), as well as the use of inter-and intraspecific distances, barcode gap, prediction of the secondary structure of the ITS2 and phylogenetic methods. The results confirmed the efficiency and superiority of the ITS2 loci over two chloroplast genes: matK and rbcL. ITS2 had a 97% success rate with amplification and a 95% success rate with sequencing, showing 100% identification at the family level, 77% identification at the genus level and 70% species resolution. A clear barcode gap was observed between inter-and intraspecific distances. Identification was achieved even in cases of degraded samples or old herbarium ©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 18 (1): gmr18133 W.S. Al-Juhani 2 specimens. This study contributes to DNA barcode data by adding 224 DNA sequences of desert plants to the National Center for Biotechnology Information NCBI database. The results of this study are important and useful for application in each of the following fields: validation of medicinal plant identity, conservation, and taxonomic and evolutionary studies.

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Notes, outline and divergence times of Basidiomycota

et al. 2019

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The Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the Ascomycota. The present work provides an overview of all validly published, currently used basidiomycete genera to date in a single document. An outline of all genera of Basidiomycota is provided, which includes 1928 currently used genera names, with 1263 synonyms, which are distributed in 241 families, 68 orders, 18 classes and four subphyla. We provide brief notes for each accepted genus including information on classification, number of accepted species, type species, life mode, habitat, distribution, and sequence information. Furthermore, three phylogenetic analyses with combined LSU, SSU, 5.8s, rpb1, rpb2, and ef1 datasets for the subphyla Agaricomycotina, Pucciniomycotina and Ustilaginomycotina are conducted, respectively. Divergence time estimates are provided to the family level with 632 species from 62 orders, 168 families and 605 genera. Our study indicates that the divergence times of the subphyla in Basidiomycota are 406–430 Mya, classes are 211–383 Mya, and orders are 99–323 Mya, which are largely consistent with previous studies. In this study, all phylogenetically supported families were dated, with the families of Agaricomycotina diverging from 27–178 Mya, Pucciniomycotina from 85–222 Mya, and Ustilaginomycotina from 79–177 Mya. Divergence times as additional criterion in ranking provide additional evidence to resolve taxonomic problems in the Basidiomycota taxonomic system, and also provide a better understanding of their phylogeny and evolution.

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Barcoding sequences clearly separate Chroogomphus mediterraneus (Gomphidiaceae, Boletales) from C. rutilus, and allied species

Cited by 8 publications

References 23 publications

Additions to the genus Chroogomphus (Boletales, Gomphidiaceae) from Pakistan

Additions to the genus Chroogomphus (Boletales, Gomphidiaceae) from Pakistan

Research Article Evaluation of the capacity of the DNA barcode ITS2 for identifying and discriminating dryland plants

Notes, outline and divergence times of Basidiomycota

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