Phylogeny and Species Diversity of the Genus with Emphasis on Eighteen New Species from China

Overview

Journal Fungal Syst Evol

Specialty Biology

Date 2024 Mar 27

PMID 38533478

Authors

N Mao

Y Y Xu

Y X Zhang

H Zhou

X B Huang

C L Hou

L Fan

Affiliations

Soon will be listed here.

Abstract

is a widespread, frequently encountered fungal group appearing in forests, but the species diversity and molecular phylogeny of in China remains incompletely understood. In this work, we performed comprehensive phylogenetic analyses using multilocus sequence data. Six datasets were employed, including a five-locus concatenated dataset (ITS, nrLSU, , a two-locus concatenated dataset (ITS, nrLSU), and four single-locus datasets (ITS) that were divided based on the four different phylogenetic clades of recognized in this study. A total of I 946 sequences were used, of which 713 were newly generated, including 170 sequences of ITS, 174 sequences of nrLSU, 131 sequences of , 107 sequences of and 131 sequences of The phylogeny based on the five-locus concatenated dataset revealed that . is monophyletic and four phylogenetic clades are clearly recognized, clade, clade, clade, and clade. A total of 24 lineages or subclades were recognized, II of which were new, the remaining 13 corresponding with previous studies. Chinese species are distributed in 22 lineages across four clades. Phylogenetic analyses based on the two-locus concatenated dataset and four single-locus datasets confirmed the presence of at least 93 phylogenetic species in China. Among them, 58 are identified as known species, including a species with a newly designated lectotype and epitype, 18 are newly described in this paper, and the remaining 17 taxa are putatively new to science but remain unnamed due to the paucity or absence of ascomatal materials. In addition, the species previously recorded in China are discussed. A list of 76 confirmed species, including newly proposed species, is provided. The occurrence of and are not confirmed although both are commonly recorded in China. Mao N, Xu YY, Zhang YX, Zhou H, Huang XB, Hou CL, Fan L (2023). Phylogeny and species diversity of the genus with emphasis on eighteen new species from China. : 111-152. doi: 10.3114/fuse.2023.12.08.

Citing Articles

Taxonomic Revision of Korean Saddle Fungi (, Helvellaceae).

Park S, Sohee K, Eunjin K, Eo J, Lee H Mycobiology. 2025; 53(1):79-112.

PMID: 39980701 PMC: 11841176. DOI: 10.1080/12298093.2024.2440172.

References

Hansen K, Pfister D . Systematics of the Pezizomycetes--the operculate discomycetes. Mycologia. 2007; 98(6):1029-40. DOI: 10.3852/mycologia.98.6.1029. View

Skrede I, Gonzalvo L, Mathiesen C, Schumacher T . The genera and (: ) in Europe - Notes on species from Spain. Fungal Syst Evol. 2020; 6:65-93. PMC: 7452155. DOI: 10.3114/fuse.2020.06.05. View

Alfaro M, Zoller S, Lutzoni F . Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence. Mol Biol Evol. 2003; 20(2):255-66. DOI: 10.1093/molbev/msg028. View

Gardes M, Bruns T . ITS primers with enhanced specificity for basidiomycetes--application to the identification of mycorrhizae and rusts. Mol Ecol. 1993; 2(2):113-8. DOI: 10.1111/j.1365-294x.1993.tb00005.x. View

Tedersoo L, Hansen K, Perry B, Kjoller R . Molecular and morphological diversity of pezizalean ectomycorrhiza. New Phytol. 2006; 170(3):581-96. DOI: 10.1111/j.1469-8137.2006.01678.x. View

Laessoe T, Hansen K . Truffle trouble: what happened to the Tuberales?. Mycol Res. 2007; 111(Pt 9):1075-99. DOI: 10.1016/j.mycres.2007.08.004. View

Vaidya G, Lohman D, Meier R . SequenceMatrix: concatenation software for the fast assembly of multi-gene datasets with character set and codon information. Cladistics. 2021; 27(2):171-180. DOI: 10.1111/j.1096-0031.2010.00329.x. View

Ronquist F, Huelsenbeck J . MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics. 2003; 19(12):1572-4. DOI: 10.1093/bioinformatics/btg180. View

Wang X, Liu T, Chen S, Li Y, Zhuang W . A four-locus phylogeny of rib-stiped cupulate species of (Helvellaceae, Pezizales) with discovery of three new species. MycoKeys. 2019; 60:45-67. PMC: 6838221. DOI: 10.3897/mycokeys.60.38186. View

10.

Yu F, Lei L, Luangharn T, Zhao Q, Zhu Y . Four new additions to (Helvellaceae, Pezizales) from Northern Thailand. Front Microbiol. 2023; 14:1182025. PMC: 10557484. DOI: 10.3389/fmicb.2023.1182025. View

11.

Loken S, Skrede I, Schumacher T . The species aggregate in Nordic countries - phylogeny and species delimitation. Fungal Syst Evol. 2020; 5:169-186. PMC: 7250015. DOI: 10.3114/fuse.2020.05.11. View

12.

Liu Y, Whelen S, Hall B . Phylogenetic relationships among ascomycetes: evidence from an RNA polymerse II subunit. Mol Biol Evol. 1999; 16(12):1799-808. DOI: 10.1093/oxfordjournals.molbev.a026092. View

13.

Rambaut A . Estimating the rate of molecular evolution: incorporating non-contemporaneous sequences into maximum likelihood phylogenies. Bioinformatics. 2000; 16(4):395-9. DOI: 10.1093/bioinformatics/16.4.395. View

14.

Hansen K, Schumacher T, Skrede I, Huhtinen S, Wang X . revisited - evolution and generic limits in . Persoonia. 2019; 42:186-204. PMC: 6712539. DOI: 10.3767/persoonia.2019.42.07. View

15.

Vilgalys R, Hester M . Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species. J Bacteriol. 1990; 172(8):4238-46. PMC: 213247. DOI: 10.1128/jb.172.8.4238-4246.1990. View

16.

Stamatakis A . RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics. 2014; 30(9):1312-3. PMC: 3998144. DOI: 10.1093/bioinformatics/btu033. View

17.

Rehner S, Buckley E . A Beauveria phylogeny inferred from nuclear ITS and EF1-alpha sequences: evidence for cryptic diversification and links to Cordyceps teleomorphs. Mycologia. 2006; 97(1):84-98. DOI: 10.3852/mycologia.97.1.84. View

18.

Katoh K, Frith M . Adding unaligned sequences into an existing alignment using MAFFT and LAST. Bioinformatics. 2012; 28(23):3144-6. PMC: 3516148. DOI: 10.1093/bioinformatics/bts578. View

19.

Wang X, Zhuang W, Zhao R . Species Diversity of Clade (Pezizales, Ascomycota) in China and Description of Sixteen New Species. J Fungi (Basel). 2023; 9(7). PMC: 10381826. DOI: 10.3390/jof9070697. View

20.

Schoch C, Seifert K, Huhndorf S, Robert V, Spouge J, Levesque C . Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proc Natl Acad Sci U S A. 2012; 109(16):6241-6. PMC: 3341068. DOI: 10.1073/pnas.1117018109. View