Find research datasets worth reusing

FIG. 4 in Molecular phylogeny and morphology reveal a new species of genus Rhodocybe sensu stricto Maire (Entolomataceae; Agaricales) from Pakistan

FIG. 4. — Microscopic characters of Rhodocybe pakistanica sp. nov. (LAH37947): A, basidiospores; B, basidia; C, D, cheilo- pleurocystidia; E, gloeoplerous hyphae in hymenial and pileal trama; F, stipitipellis. Scale bars: A, 8 μm; B, C, 10 μm; D, 16 μm; E, 20 μm; F, 25 μm.

FIG. 3 in Molecular phylogeny and morphology reveal a new species of genus Rhodocybe sensu stricto Maire (Entolomataceae; Agaricales) from Pakistan

FIG. 3. — Basidiomata of Rhodocybe pakistanica sp. nov.: A-C, LAH37948; D-F, LAH37947. Scale bars: 15 mm.

FIG. 2 in Molecular phylogeny and morphology reveal a new species of genus Rhodocybe sensu stricto Maire (Entolomataceae; Agaricales) from Pakistan

FIG. 2. — Maximum likelihood phylogenetic tree of sequences of Entolomataceae Kotl. & Pouzar, resulting from the analysis of combined nrITS-28S sequences; maximum likelihood bootstrap BT support values greater than 50% are written above the nodes; new species Rhodocybe pakistanica sp. nov. is indicated in bold font.

FIG. 5 in Molecular phylogeny and morphology reveal a new species of genus Rhodocybe sensu stricto Maire (Entolomataceae; Agaricales) from Pakistan

FIG. 5. — Line drawings of Rhodocybe pakistanica sp. nov. (LAH37947): A, basidiospores; B, basidia; C, cheilo- pleurocystidia;D, gloeoplerous hyphae in hymenial and pileal trama; E, pileipellis; F, stipitipellis. Scale bars: A, 6 μm; B, C, 10 μm; D, 20 μm; E, 12 μm; F, 25 μm.

FIG. 1 in Molecular phylogeny and morphology reveal a new species of genus Rhodocybe sensu stricto Maire (Entolomataceae; Agaricales) from Pakistan

FIG. 1. — Maximum likelihood phylogenetic tree of sequences of Entolomataceae Kotl. & Pouzar, resulting from the analysis of nrITS sequences; maximum likelihood bootstrap BT support values greater than 50% are written above the nodes; new species Rhodocybe pakistanica sp. nov. is indicated in bold font.

opencc-by-4.0Oct 2024View details →

TABLE 1 in Molecular phylogeny and morphology reveal a new species of genus Rhodocybe sensu stricto Maire (Entolomataceae; Agaricales) from Pakistan

TABLE 1. — Voucher/strain/isolate, country, GenBank/UNITE accession number, and reference for the specimens included in nrITS and combined ITS-28S phylogenetic analysis. The sequences produced during this study are shown in bold font.<table><tbody><tr><th></th><th>GenBank/UNITE</th><th></th><th></th></tr></tbody><tbody><tr><th></th><td>accession no.</td><td></td><td></td></tr><tr><th>Taxon name Voucher/strain/isolate</th><td>nrITS</td><td>28S</td><td>Country</td><td>Reference</td></tr><tr><th>Calocybe carnea (outgroup) CBS552.50</th><td>AF357028</td><td>AF223178</td><td>–</td><td>Hofstetter et al. 2002</td></tr><tr><th>Clitocella fallax CBS605.79</th><td>AF357018</td><td>AF223165</td><td>–</td><td>Hofstetter et al. 2002</td></tr><tr><th>Clitocella fallax CBS129.63</th><td>AF357017</td><td>AF223166</td><td>–</td><td>Hofstetter et al. 2002</td></tr><tr><th>Clitocella mundula TJB7599</th><td>DQ494694</td><td>AY700182</td><td>–</td><td>Matheny et al. 2006</td></tr><tr><th>Clitocella mundula HMJAU 7275</th><td>MN061331</td><td>MN065723</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>Clitocella orientalis KUN-HKAS 75664 (Liu53)</th><td>MN061332</td><td>MN065726</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>Clitocella orientalis KUN-HKAS 75548 (Cai794)</th><td>MN061333</td><td>MN065727</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>Clitopilopsis albida KUN-HKAS 104519 (JSP224)</th><td>MN061335</td><td>MN065730</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>Clitopilopsis albida KUN-HKAS 104520 (JSP225)</th><td>MN061336</td><td>MN065731</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>Clitopilopsis hirneola MEN 199956</th><td>KC710132</td><td>GQ289211</td><td>–</td><td>Morgado et al. 2013</td></tr><tr><th>Clitopilopsis hirneola CBS 126.46</th><td>MH856141</td><td>AF223163</td><td>France</td><td>Vu et al. 2019</td></tr><tr><th>Clitopilus passeckerianus CBS 299.35</th><td>MH855682</td><td>MH867198</td><td>Austria</td><td>Vu et al. 2019</td></tr><tr><th>Clitopilus scyphoides KRAM5</th><td>MN744420</td><td>MN744422</td><td>India</td><td>-</td></tr><tr><th>Clitopilus scyphoides CBS 127.47</th><td>MH856181</td><td>MH867707</td><td>France</td><td>Vu et al. 2019</td></tr><tr><th>Clitopilus sinoapalus KUN-HKAS 77037 (Wu865)</th><td>MN061321</td><td>MN065713</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>Clitopilus sinoapalus KUN-HKAS 101191</th><td>MN061322</td><td>MN065711</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>(Yang6002)</th><td></td><td></td><td></td><td></td></tr><tr><th>Clitopilus umbilicatus KUN-HKAS 80310 (Han79)</th><td>MN061324</td><td>MN065716</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>Clitopilus umbilicatus KUN-HKAS 104509</th><td>MN061327</td><td>MN065719</td><td>China</td><td>Jian et al. 2020</td></tr><tr><th>(Wu2506)</th><td></td><td></td><td></td><td></td></tr><tr><th>Entoloma caccabus MEN 200324</th><td>KC710063</td><td>GQ289155</td><td>–</td><td>Morgado et al. 2013</td></tr><tr><th>Entoloma conferendum MEN 200330</th><td>KC710055</td><td>KC710133</td><td>Slovakia</td><td>Morgado et al. 2013</td></tr><tr><th>Entoloma serrulatum LE254361</th><td>KC898447</td><td>KC898501</td><td>Russia</td><td>Morozova et al. 2014</td></tr><tr><th>Entoloma sp. Sulzbacher 433/1-D-1</th><td>LT594987</td><td>–</td><td>Brazil</td><td>-</td></tr><tr><th>Entoloma tjallingiorum LE254318</th><td>KC898411</td><td>KC898510</td><td>Russia</td><td>Morozova et al. 2014</td></tr><tr><th>Lyophyllum decastes (outgroup) JM87/16(T1)</th><td>AF357059</td><td>AF042583</td><td>–</td><td>Hofstetter et al. 2002</td></tr><tr><th>Rhodocybe asanii KATO:Fungi:3657</th><td>KX834265</td><td>–</td><td>Türkiye</td><td>Sesli & Vizzini 2017</td></tr><tr><th>Rhodocybe asanii KATO:Fungi:3659</th><td>NR_154442</td><td>NG060176</td><td>Türkiye</td><td>Sesli & Vizzini 2017</td></tr><tr><th>Rhodocybe asyae KATO:Fungi:3653</th><td>KX834268</td><td>–</td><td>Türkiye</td><td>Sesli & Vizzini 2017</td></tr><tr><th>Rhodocybe asyae KATO:Fungi:3640</th><td>NR_154443</td><td>NG060177</td><td>Türkiye</td><td>Sesli & Vizzini 2017</td></tr><tr><th>Rhodocybe brunneoaurantiaca CUH AM720</th><td>MW023201</td><td>MW023223</td><td>India: West Bengal</td><td>Dutta et al. 2021</td></tr><tr><th>Rhodocybe brunneoaurantiaca CAL 1825</th><td>MW031906</td><td>MW031916</td><td>India: West Bengal</td><td>Dutta et al. 2021</td></tr><tr><th>Rhodocybe caelata JVG 1070904-2</th><td>KU862855</td><td>–</td><td>Spain</td><td>Vizzini et al. 2016</td></tr><tr><th>Rhodocybe formosa Herb. B. Picillo 12/208</th><td>KU862858</td><td>–</td><td>Italy</td><td>Vizzini et al. 2016</td></tr><tr><th>Rhodocybe formosa LIP JVG 1061015</th><td>KU862856</td><td>–</td><td>Spain</td><td>Vizzini et al. 2016</td></tr><tr><th>Rhodocybe fumanellii MCVE:29550</th><td>NR_166243</td><td>NG068264</td><td>Italy</td><td>Vizzini et al. 2018</td></tr><tr><th>Rhodocybe fusipes DLK 587</th><td>MN306210</td><td>–</td><td>Brazil</td><td>Silva-Filho et al. 2020</td></tr><tr><th>Rhodocybe fusipes DLK 298</th><td>MN306209</td><td>–</td><td>Brazil</td><td>Silva-Filho et al. 2020</td></tr><tr><th>Rhodocybe incarnata REH5369</th><td>MT254071</td><td>–</td><td>Venezuela</td><td>Silva-Filho et al. 2020</td></tr><tr><th>Rhodocybe luteobrunnea CAL:1322</th><td>NR_154434</td><td>NG060167</td><td>India</td><td>–</td></tr><tr><th>Rhodocybe matesina MCVE:29261</th><td>KY629962</td><td>KY629964</td><td>Italy</td><td>–</td></tr><tr><th>Rhodocybe matesina MCVE:29262</th><td>NR_154455</td><td>NG060184</td><td>Italy</td><td>–</td></tr><tr><th>Rhodocybe mellea JBSD127402</th><td>MN784993</td><td>–</td><td>Dominican Republic</td><td>Baroni et al. 2020</td></tr><tr><th>Rhodocybe mellea CORT013885</th><td>MN784992</td><td>–</td><td>Dominican Republic</td><td>Baroni et al. 2020</td></tr><tr><th>Rhodocybe mellea NYBG815044</th><td>MN784995</td><td>–</td><td>Costa Rica</td><td>Baroni et al. 2020</td></tr><tr><th>Rhodocybe mellea CORT014470</th><td>MN784994</td><td>–</td><td>Belize</td><td>Baroni et al. 2020</td></tr><tr><th>Rhodocybe mellea var. depressa F. Wartchow 08-2019</th><td>MT408926</td><td>OL687341</td><td>Brazil</td><td>Xavier et al. 2022</td></tr><tr><th>Rhodocybe minutispora LIP JVG 1071101</th><td>KU862860</td><td>–</td><td>Spain</td><td>Vizzini et al. 2016</td></tr><tr><th>Rhodocybe pakistanica sp. nov. LAH37948</th><td>OR606544</td><td>OR606542</td><td>Pakistan</td><td>This study</td></tr><tr><th>Rhodocybe pakistanica sp. nov. LAH37949</th><td>OR606545</td><td>–</td><td>Pakistan</td><td>This study</td></tr><tr><th>Rhodocybe pakistanica sp. nov. LAH37947</th><td>OR606543</td><td>OR606541</td><td>Pakistan</td><td>This study</td></tr><tr><th>(holotype)</th></tr><tr><th>Rhodocybe pallidogrisea CORT 013944</th><td>KX271752</td><td>–</td><td>Australia</td><td>–</td></tr><tr><th>Rhodocybe roseiavellanea PBM4056 (TENN)</th><td>MF686525</td><td>–</td><td>United States</td><td>–</td></tr><tr><th>Rhodocybe rubrobrunnea CAL 1387</th><td>KX951452</td><td>–</td><td>India</td><td>–</td></tr><tr><th>Rhodocybe sp. Sulzbacher 340</th><td>LT594979</td><td>–</td><td>Brazil</td><td>Sulzbacher et al. 2017</td></tr><tr><th>(UFRN-fungos 2557)</th><td></td><td></td><td></td><td></td></tr><tr><th>Rhodocybe sp. Sulzbacher 413</th><td>LT594984</td><td>–</td><td>Brazil</td><td>Sulzbacher et al. 2017</td></tr><tr><th>(UFRN-fungos 2062)</th><td></td><td></td><td></td><td></td></tr><tr><th>Rhodocybe truncata CBS482/50</th><td>EF421110</td><td>AF223167</td><td>–</td><td>–</td></tr><tr><th>Rhodocybe tugrulii IMG-7316</th><td>MG050105</td><td>MG050111</td><td>United States</td><td>–</td></tr><tr><th>Rhodocybe tugrulii KATO:Fungi:3340</th><td>NR_154436</td><td>NG060175</td><td>Türkiye</td><td>–</td></tr><tr><th>Rhodophana griseobrunnea LUG 19799</th><td>MT580804</td><td>MT580803</td><td>France</td><td>–</td></tr><tr><th>Rhodophana nitellina TU106939</th><td>UDB015654</td><td>–</td><td>Estonia</td><td>–</td></tr><tr><th>Rhodophana nitellina TU106585</th><td>UDB011813</td><td>–</td><td>Estonia</td><td>–</td></tr><tr><th>Rhodophana squamulosa CAL:1262</th><td>KT180329</td><td>NG060152</td><td>India</td><td>Raj et al. 2016</td></tr></tbody></table>

FIGURE 6 in Fine-scale diversity in Rhodocybe mellea (Entolomataceae, Basidiomycota), with a description of a new variety and notes on sclerotia formation in Rhodocybe

FIGURE 6. Genetic transitive graph based on a dataset of nrITS sequences from R. mellea complex using the Hamming distance (cutoff point = 100). Each point is labelled with the specimen voucher and its location, while the lines are numbered with Hamming distance values.

FIGURE 4 in Fine-scale diversity in Rhodocybe mellea (Entolomataceae, Basidiomycota), with a description of a new variety and notes on sclerotia formation in Rhodocybe

FIGURE 4. Rhodocybe mellea var. depressa microscopic features (holotype UFRN-Fungos 3386). a Basidiospores. b Basidia and sclerobasidia. c Pseudocystidia. d Pileipellis: suprapellis structure and terminal hyphae. Scale bars: 5 μm. Drawings by A.G.S. Silva-Filho.

FIGURE 5 in Fine-scale diversity in Rhodocybe mellea (Entolomataceae, Basidiomycota), with a description of a new variety and notes on sclerotia formation in Rhodocybe

FIGURE 5. Comparison of pairwise genetic distances within R. mellea complex (n = 5) and between other Rhodocybe s. str. species based on nrITS sequences (n = 7). In the first graph, sequences from the R. mellea complex are represented by the abbreviation of the name of its country of origin: Dom Rep = Dominican Republic, CR = Costa Rica, BR = Brazil, BLZ = Belize.

FIGURE 3 in Fine-scale diversity in Rhodocybe mellea (Entolomataceae, Basidiomycota), with a description of a new variety and notes on sclerotia formation in Rhodocybe

FIGURE 3. Rhodocybe mellea var. depressa microscopic features (holotype UFRN-Fungos 3386). a From L–R: Sclerobasidia, basidia and pseudocystidia. b Basidiospores. c Sclerobasidia. d Pileipellis. a, b and d: in KOH 5%; c: stained in Congo Red. Scale bars: 5 μm. Photos by M.D. Xavier.

FIGURE 2 in Fine-scale diversity in Rhodocybe mellea (Entolomataceae, Basidiomycota), with a description of a new variety and notes on sclerotia formation in Rhodocybe

FIGURE 2. Photographs of the habitat and fresh basidiomata of Rhodocybe mellea var. depressa (holotype UFRN-Fungos 3386). a Basidiomata. b Coastal Tableland, Savanna vegetation. Scale bars: 10 mm. Photos by J.O. Sousa and F. Wartchow.

FIGURE 1 in Fine-scale diversity in Rhodocybe mellea (Entolomataceae, Basidiomycota), with a description of a new variety and notes on sclerotia formation in Rhodocybe

FIGURE 1. ML phylogeny based on combined nrITS and nrLSU sequences of Entolomataceae. Rhodocybe mellea var. depressa is indicated in blue. The names in red are sequences from Central and South America. For each sequence the current name and specimen voucher are provided. Thickened branches indicate those with maximum ML bootstrap values and Bayesian posterior probability (100 % BS / 1.0 BPM). Bootstrap values and posterior probabilities are indicated only if they exceed 80 % BS / 0.95 BPM. The scale bar represents the expected number of nucleotide changes per site.

FIGURE 1 in Rhodocybe tugrulii (Agaricales, Entolomataceae), a new species from Turkey and Estonia based on morphological and molecular data, and a new combination in Clitocella (Entolomataceae)

FIGURE 1. Bayesian phylogenetic analysis based on the ITS sequences of Entolomataceae, with Calocybe carnea and Lyophyllum leucophaeatum as outgroup taxa. BPP values (in bold) ≥ 0.70 and MLB values ≥ 50% are shown on the branches. Thickened branches indicate Bayesian posterior probability ≥0.95 and ML bootstrap support ≥70%. For each sequence taxon name and Genbank/UNITE accession number are given. Newly sequenced collections are in bold.

FIGURE 4. R in Rhodocybe tugrulii (Agaricales, Entolomataceae), a new species from Turkey and Estonia based on morphological and molecular data, and a new combination in Clitocella (Entolomataceae)

FIGURE 4. R. tugrulii: a–b. basidia and basidioles (in ammoniacal Congo Red, from Sesli 3340 holotype). Scale bars: a= 20 μm, b= 10 μm. Photos by E. Sesli.

FIGURE 3. R in Rhodocybe tugrulii (Agaricales, Entolomataceae), a new species from Turkey and Estonia based on morphological and molecular data, and a new combination in Clitocella (Entolomataceae)

FIGURE 3. R. tugrulii: a–d. basidiomes (b–d in situ. a–c = Sesli 3340 holotype, d = TU101325 paratype). Scale bars: a–b= 10 mm, c= 20 mm. Photos: a–c by E. Sesli, d by Vello Liiv (UNITE: https://unite.ut.ee/bl_forw.php?nimi=UDB011605).

FIGURE 6. R in Rhodocybe tugrulii (Agaricales, Entolomataceae), a new species from Turkey and Estonia based on morphological and molecular data, and a new combination in Clitocella (Entolomataceae)

FIGURE 6. R. tugrulii: a. hyphae of lamellae, b. elements of pileipellis (in ammoniacal Congo Red, from Sesli 3340 holotype). Scale bars: a–b= 20 μm. Photos by E. Sesli.

FIGURE 2 in Rhodocybe tugrulii (Agaricales, Entolomataceae), a new species from Turkey and Estonia based on morphological and molecular data, and a new combination in Clitocella (Entolomataceae)

FIGURE 2. Bayesian phylogenetic analysis based on the LSU sequences of Rhodocybe s.s, with Calocybe carnea and Lyophyllum leucophaeatum as outgroup taxa. BPP values (in bold) ≥ 0.70 and MLB values ≥ 50% are shown on the branches. Thickened branches indicate Bayesian posterior probability ≥0.95 and ML bootstrap support ≥70%. For each sequence taxon name and Genbank accession number are given. The newly sequenced collection is in bold.

FIGURE 5. R in Rhodocybe tugrulii (Agaricales, Entolomataceae), a new species from Turkey and Estonia based on morphological and molecular data, and a new combination in Clitocella (Entolomataceae)

FIGURE 5. R. tugrulii: a–d. basidiospores (a and c= SEM, b and d= LM, b. in Melzer's reagent, d. in 3% KOH, all from Sesli 3340 holotype). Scale bars: a and c= 1 μm, b and d= 5 μm. Photos: a, c and d by T.J. Baroni, b by E. Sesli.