Families of Diaporthales based on morphological and phylogenetic evidence

Senanayake, I.C.; Crous, P.W.; Groenewald, J.Z.; Maharachchikumbura, S.S.N.; Jeewon, R; Phillips, A.J.L.; Bhat, J.D.; Perera, R.H.; Li, Q.R.; Li, W.J.; Tangthirasunun, N.; Norphanphoun, C.; Karunarathna, S.C.; Camporesi, E; Manawasighe, I.S.; Al-Sadi, A.M.; Hyde, K.D.

doi:10.1016/j.simyco.2017.07.003

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Families of Diaporthales based on morphological and phylogenetic evidence

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Author(s): I.C. Senanayake ¹ ^, ² ^, ³ , P.W. Crous ⁴ , J.Z. Groenewald ⁴ , S.S.N. Maharachchikumbura ⁵ , R. Jeewon ⁶ , A.J.L. Phillips ⁷ , J.D. Bhat ⁸ ^, ⁹ , R.H. Perera ³ , Q.R. Li ¹⁰ , W.J. Li ¹ ^, ² ^, ³ , N. Tangthirasunun ¹¹ ^, ¹² , C. Norphanphoun ³ , S.C. Karunarathna ¹ ^, ² ^, ^∗ , E. Camporesi ¹³ ^, ¹⁴ ^, ¹⁵ , I.S. Manawasighe ¹⁶ , A.M. Al-Sadi ⁵ , K.D. Hyde ¹ ^, ² ^, ³

Publication date (Electronic): 01 August 2017

Journal: Studies in Mycology

Publisher: CBS Fungal Biodiversity Centre

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Abstract

Diaporthales is an important ascomycetous order comprising phytopathogenic, saprobic, and endophytic fungi, but interfamilial taxonomic relationships are still ambiguous. Despite its cosmopolitan distribution and high diversity with distinctive morphologies, this order has received relativelyiaceae, Macrohilaceae, Melanconidaceae, Pseudoplagiostomaceae, Schizoparmaceae, Stilbosporaceae and Sydowiellaceae. Taxonomic uncertainties among genera are also clarified and recurrent discrepancies in the taxonomic position of families within the Diaporthales are discussed. An updated outline and key to families and genera of the order is presented.

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Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea.

Hirohisa Kishino, Masami Hasegawa (1989)

A maximum likelihood method for inferring evolutionary trees from DNA sequence data was developed by Felsenstein (1981). In evaluating the extent to which the maximum likelihood tree is a significantly better representation of the true tree, it is important to estimate the variance of the difference between log likelihood of different tree topologies. Bootstrap resampling can be used for this purpose (Hasegawa et al. 1988; Hasegawa and Kishino 1989), but it imposes a great computation burden. To overcome this difficulty, we developed a new method for estimating the variance by expressing it explicitly. The method was applied to DNA sequence data from primates in order to evaluate the maximum likelihood branching order among Hominoidea. It was shown that, although the orangutan is convincingly placed as an outgroup of a human and African apes clade, the branching order among human, chimpanzee, and gorilla cannot be determined confidently from the DNA sequence data presently available when the evolutionary rate constancy is not assumed.

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Phylogenetic species recognition and species concepts in fungi.

John Taylor, David J Jacobson, Scott Kroken … (2000)

The operational species concept, i.e., the one used to recognize species, is contrasted to the theoretical species concept. A phylogenetic approach to recognize fungal species based on concordance of multiple gene genealogies is compared to those based on morphology and reproductive behavior. Examples where Phylogenetic Species Recognition has been applied to fungi are reviewed and concerns regarding Phylogenetic Species Recognition are discussed.

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Resolving the phylogenetic and taxonomic status of dark-spored teleomorph genera in the Botryosphaeriaceae

A.J.L. Phillips, A. A. Alves, S.R. Pennycook … (2008)

Species in the Botryosphaeriaceae are common plant pathogens and saprobes found on a variety of mainly woody hosts. Teleomorphs typically have hyaline, aseptate ascospores. However, some have been reported with brown ascospores and their taxonomic status is uncertain. A multi-gene approach (SSU, ITS, LSU, EF1-α and β-tubulin) was used to resolve the correct phylogenetic position of the dark-spored ‘Botryosphaeria’ teleomorphs and related asexual species. Neodeightonia and Phaeobotryon are reinstated for species with brown ascospores that are either 1-septate (Neodeightonia) or 2-septate (Phaeobotryon). Phaeobotryosphaeria is reinstated for species with brown, aseptate ascospores that bear an apiculus at either end. The status of Sphaeropsis is clarified and shown to be the anamorph of Phaeobotryosphaeria. Two new genera, namely Barriopsis for species having brown, aseptate ascospores without apiculi and Spencermartinsia for species having brown, 1-septate ascospores with an apiculus at either end are introduced. Species of Dothiorella have brown, 1-septate ascospores and differ from Spencermartinsia in the absence of apiculi. These six genera can also be distinguished from one another based on morphological characters of their anamorphs. Although previously placed in the Botryosphaeriaceae, Dothidotthia, was shown to belong in the Pleosporales, and the new family Dothidotthiaceae is introduced to accommodate it.

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S.C. Karunarathna

Journal

Journal ID (nlm-ta): Stud Mycol

Journal ID (iso-abbrev): Stud. Mycol

Title: Studies in Mycology

Publisher: CBS Fungal Biodiversity Centre

ISSN (Print): 0166-0616

ISSN (Electronic): 1872-9797

Publication date PMC-release: 01 August 2017

Publication date (Print): March 2017

Publication date (Electronic): 01 August 2017

Volume: 86

Pages: 217-296

Affiliations

[1 ]Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Science, Kunming 650201, Yunnan, China

[2 ]East and Central Asia, World Agroforestry Centre, Kunming 650201, Yunnan, China

[3 ]Center of Excellence for Fungal Research, Mae Fah Luang University, Chiang Rai, Thailand

[4 ]Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands

[5 ]Department of Crop Sciences, College of Agricultural and Marine Sciences, Sultan Qaboos University, P.O. Box 34, Al-Khod 123, Oman

[6 ]Department of Health Sciences, Faculty of Science, University of Mauritius, Reduit, 80837, Mauritius

[7 ]Faculty of Sciences, Biosystems and Integrative Sciences Institute (BioISI), University of Lisbon, Campo Grande, 1749-016 Lisbon, Portugal

[8 ]Department of Botany, Goa University, Goa 403 206, India

[9 ]No. 128/1-J, Azad Housing Society, Curca, P.O. Goa Velha 403108, India

[10 ]Engineering Research Center of Southwest Bio-Pharmaceutical Resources, Ministry of Education, Guizhou University, Guiyang, Guizhou 550025, China

[11 ]Univ Paris Diderot, Sorbonne Paris Cité, Institut des Energies de Demain (IED), Paris 75205, France

[12 ]Univ Paris Sud, Institut de Génétique et Microbiologie, UMR8621, Orsay 91405, France

[13 ]A.M.B. Gruppo Micologico Forlivese, Antonio Cicognani, Via Roma 18, Forlì, Italy

[14 ]A.M.B. Circolo Micologico, Giovanni Carini, 314 Brescia, Italy

[15 ]Società per gliStudiNaturalisticidella Romagna, 144 Bagnacavallo, RA, Italy

[16 ]Institute of Plant and Environment Protection, Beijing Academy of Agriculture and Forestry Sciences, No. 9 of ShuGuangHuaYuanZhongLu, Haidian District, Beijing 100097, China

Author notes

[∗ ] Correspondence: S.C. Karunarathna samanthakarunarathna@ 123456gmail.com

Article

Publisher ID: S0166-0616(17)30028-3

DOI: 10.1016/j.simyco.2017.07.003

PMC ID: 5603113

PubMed ID: 28947840

SO-VID: 610d6dae-3b18-4365-8a21-d69afb5c144e

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This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

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Subject: Research Paper

ScienceOpen disciplines: Plant science & Botany

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ScienceOpen disciplines: Plant science & Botany

Families of Diaporthales based on morphological and phylogenetic evidence

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Abstract

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Taxonomic intelligence

Most cited references 106

Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea.

Phylogenetic species recognition and species concepts in fungi.

Resolving the phylogenetic and taxonomic status of dark-spored teleomorph genera in the Botryosphaeriaceae

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