Research Article |
Corresponding author: H. Thorsten Lumbsch ( tlumbsch@fieldmuseum.org ) Academic editor: Pradeep Divakar
© 2022 Phimpisa Phraphuchamnong, Matthew P. Nelsen, Isabel Distefano, Joel A. Mercado-Diaz, Sittiporn Parnmen, Achariya Rangsiruji, Kawinnat Buaruang, Robert Lücking, H. Thorsten Lumbsch.
This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Citation:
Phraphuchamnong P, Nelsen MP, Distefano I, Mercado-Diaz JA, Parnmen S, Rangsiruji A, Buaruang K, Lücking R, Lumbsch HT (2022) A new species of Megalaria (Ramalinaceae, Ascomycota) from Thailand, and recognition of subgenus Catillochroma. MycoKeys 93: 149-163. https://doi.org/10.3897/mycokeys.93.90962
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Tropical regions harbor a substantial diversity of lichenized fungi, but face numerous threats to their persistence, often even before previously unknown species have been described and their evolutionary relationships have been elucidated. Megalaria (Ramalinaceae) is a lichen-forming genus of fungi that produces crustose thalli, and includes a number of lineages occupying tropical rain forests; however, taxonomic and phylogenetic work on this clade is limited. Here we leverage both morphological and sequence data to describe a new species from the tropics, M. pachaylenophila. This taxon forms a crustose thallus, lacks secondary metabolites, and occurs in mangrove forests of Thailand. We supplemented molecular data from this species with data from other species, including two genera related to and occasionally included in Megalaria, namely Catillochroma and Lopezaria. Our analyses revealed Catillochroma species form a monophyletic group embedded within Megalaria, and we therefore recognize this clade at the subgeneric level. Since we only included the type species of Lopezaria in this study, we refrain from proposing a taxonomic conclusion for that clade at the moment. Several taxonomic combinations are made to reflect phylogenetic evidence supporting the inclusion of these species in Megalaria.
Asia, lichens, mangroves, new taxa, tropical diversity
Tropical habitats harbor a rich diversity of lichenized fungi, including numerous undescribed or unrecorded taxa (
Megalaria was initially circumscribed as a monospecific genus of lichen-forming fungi characterized by the formation of a crustose thallus with biatorine ascomata, a proper exciple and a pigmented epithecium, including only M. grossa (Pers. ex Nyl.) Hafellner at the time of its description (
Another genus, Catillochroma Kalb & Hafellner, was later described for a group of species previously placed in Lecidea Ach., Lecanora Ach., Catinaria, and Megalaria, and was distinguished from Megalaria on the basis of its bi-layered excipular anatomy, which included an inner layer formed of textura intricata with large intercellular spaces usually filled with crystals, and a uniform prosoplectenchymatous outer layer (
In addition to excipular anatomy, Catillochroma was also distinguished from Megalaria through the presence of zeorin in the thallus; thus all zeorin-producing Megalaria species were transferred to Catillochroma (
Lopezaria was described as a monospecific genus for the tropical and corticolous species Lopezaria versicolor (Flot.) Kalb & Hafellner, distinguished mostly by its large ascospores occurring in numbers of two per ascus (
Given the challenges of retaining these three genera as distinct, and in the absence of molecular evidence, all species of Catillochroma and Lopezaria were transferred to Megalaria (
Some authors have continued to recognize Catillochroma as a distinct genus within Ramalinaceae, instead of adopting a broadly circumscribed Megalaria (
Here we describe a new species of lichen-forming fungi from mangroves in eastern Thailand, and place it in Megalaria on the basis of morphological and DNA sequence data, including new sequences for an additional nine species. While we were unable to obtain sequence data from the type species of Catillochroma, our work still permits an evaluation of the phylogenetic relationships of species previously included in the genus Catillochroma (
We sequenced fungal DNA from representatives of the new species, several taxa representing part of Catillochroma, as well as additional taxa potentially placed in the broadly circumscribed Megalaria. These data were supplemented with publicly-available sequences from additional Megalaria taxa (
DNA was extracted using the Sigma REDExtract-N-Amp Plant PCR Kit (St. Louis, Missouri, U.S.A.) (
The 12.5 µL PCR reactions consisted of 5 µM of each PCR primer, 0.5 µl diluted DNA, 6.25 µl REDExtract-n-Amp PCR Ready Mix (Sigma-Aldrich, St. Louis, Missouri, U.S.A.), and 0.5–1.5 µL MgCl2. The PCR cycling conditions were as follows: 95 °C for 5 min, followed by 35 cycles of 95 °C for 1 min, 53 °C (mtSSU), 60 °C (nuLSU) for 1 min, and 72 °C for 1 min, followed by a single 72 °C final extension for 5–10 min. Samples were visualized on a 1% ethidium bromide-stained agarose gel under UV light and cleaned with ExoSAP-IT Express (Affymetrix Inc, Santa Clara, California, U.S.A.). The 10 µl cycle sequencing reactions consisted of 0.5 µl of Big Dye version 3.1 (Applied Biosystems, Foster City, California, U.S.A.), 3.5 µl of Big Dye buffer, 1–6 µM primer, 1.5 µl of cleaned PCR product and water. Samples were sequenced with PCR primers. The cycle sequencing conditions were as follows: 96 °C for 1 minute, followed by 24 cycles of 96 °C for 10 seconds, 50 °C for 5 seconds and 60 °C for 4 minutes. Samples were precipitated and sequenced in an Applied Biosystems 3730 DNA Analyzer (Foster City, California, U.S.A.). Sequences were assembled in Geneious Prime 2019.2.1 (https://www.geneious.com/), and submitted to GenBank (Table
Species included in the present study, collection numbers for newly sequenced specimens, GenBank accession numbers for the three loci, and internal DNA numbers for newly sequenced specimens.
Taxon | Collection (Herbarium) | Locality | ITS | mtSSU | nuLSU |
---|---|---|---|---|---|
Catillaria superflua | Kalb & Elix 35269 (K. Kalb) | Australia, New South Wales | – | OP689726 | – |
Catillochroma alleniae | KX660734 | KX660733 | – | ||
Catillochroma danfordianum | Kalb & Mertens 39720 (K. Kalb) | Australia, Queensland | – | OP689730 | – |
Catillochroma mareebaense | Kalb & Mertens 39753 (K. Kalb) | Australia, Queensland | – | OP689728 | – |
Catillochroma mareebaense | K. & D. Kalb 40554 (K. & J. Kalb) | Australia, Queensland | – | OP689733 | OP689723 |
Catillochroma phayapipakianum | J. & K. Kalb 41927 (K. & J. Kalb) | Thailand, Chiang Mai | OP698025 | OP689731 | – |
Catillochroma phayapipakianum | J. & K. Kalb 41762 (K. & J. Kalb) | Thailand, Chiang Rai | OP698026 | OP689732 | OP689722 |
Catillochroma phayapipakianum | J. & K. Kalb 41877 (K. & J. Kalb) | Thailand, Chiang Mai | – | OP689734 | OP689724 |
Catillochroma pulvereum | KX660735 | – | – | ||
Catillochroma yunnanense | MK348528 | – | – | ||
Cliomegalaria symmictoides | MW622003 | MW622006 | MW621867 | ||
Lopezaria versicolor | – | AY584622 | – | ||
Lopezaria versicolor | Mercado-Diaz 1077 (F) | Puerto Rico, Jayuya | – | OP689735 | OP689719 |
Lopezaria versicolor | Soto 2174 (F) | Puerto Rico, Jayuya | – | OP689736 | OP689721 |
Megalaria bengalensis | Kalb 37938 (K. Kalb) | Brazil, Sergipe, | – | OP689729 | – |
Megalaria columbiana | – | MN508319 | – | ||
Megalaria grossa | AF282074 | MG925883 | – | ||
Megalaria grossa | Kalb & Jonitz 41079 (K. Kalb) | Ecuador, Azuay | OP698024 | OP689727 | OP689720 |
Megalaria laureri | AF282075 | MG925884 | – | ||
Megalaria pachaylenophila | Phraphuchamnong (RAMK032107) |
Thailand, Chumphon province | OP698023 | OP689725 |
OP689718
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Megalaria pachaylenophila | Chum 2024 (RAMK) | Thailand, Chumphon province | OP698020 | – | OP689715 |
Megalaria pachaylenophila | Chum 2028 (RAMK) | Thailand, Chumphon province | OP698021 | – | OP689716 |
Megalaria pachaylenophila | Chum 2072 (RAMK) | Thailand, Chumphon province | OP698022 | – | OP689717 |
Megalaria sp. | Kalb 38739 (hb. Kalb) | China, Yunnan | OP698027 | – | – |
Biatora vernalis | AF282070 | DQ838753 | DQ838752 | ||
Niebla homalea | MG925987 | MG925888 | MG926085 | ||
Ramalina sinensis | MG926018 | MG925921 | MG926110 | ||
Tylothallia biformigera | AF282077 | MG925946 | MG926129 |
Sequences for individual loci were aligned using the G-INS-i algorithm in MAFFT 7.475 (
The final alignment consisted of 1727 characters (ITS: 468; mtSSU: 427; nuLSU: 832). The resulting topology (Fig.
The ITS+mtSSU+nuLSU ML phylogeny with bootstrap values ≥ 70 shown. Newly sequenced specimens include collection info following the species name, while those derived from GenBank are indicated in parentheses. The novel species described here is highlighted in gray. Character states for selected characters are shown at the tips of the phylogeny. Ap = apothecia; Ex = exciple; As = asci; Sp = ascospores; Ch = chemistry.
Within the Catillochroma clade, C. pulvereum (Borr.) Kalb and C. yunnanense (C.X. Want & L. Hu) Kalb, two fumarprotocetraric acid-containing species, formed a strongly supported, monophyletic group; however, their relationship to C. danfordianum Kalb and C. phayapipakianum Kalb – two additional fumarprotocetraric acid-producing species––remains unresolved. Zeorin producing species, which includes the entire Catillochroma clade, here represented by C. yunnanense, C. pulvereum, and C. alleniae (Lendemer and McMullin) Kalb, C. danfordianum, C. mareebaense Kalb and M. phayapipakianum, also formed a strongly supported monophyletic group. Species producing atranorin only were paraphyletic including M. laureri (Th. Fr.) Hafellner, L. versicolor, and M. bengalensis Jagadeesh Ram, Aptroot, G.P. Sinha & K.P. Singh. The new species described here lacks substances entirely, and was embedded in a clade that includes atranorin producing species. Other sampled taxa deficient in secondary metabolites included Catillaria superflua (Müller Arg.) Zahlbruckner, Megalaria columbiana (G. Merr.) S. Ekman and M. grossa.
All species included were corticolous; thus it was not possible to evaluate relationships among corticolous and non-corticolous taxa. While representation was slightly skewed towards the Northern Hemisphere, species included from the Southern Hemisphere (Catillaria superflua [Müller Arg.] Zahlbruckner, Catillochroma danfordianum, C. mareebaense, M. bengalensis and M. grossa) did not form a monophyletic group.
Our study provides the first, albeit limited, insight into the molecular phylogeny of Megalaria s. lat. and confirms that species of genera previously recognized as distinct from, or part of, Megalaria indeed form a monophyletic group. Sampled Catillochroma species were monophyletic, but nested within Megalaria s. lat. Hence, recognition of this zeorin-producing clade at the generic level would leave Megalaria paraphyletic. The resurrection of Lopezaria (and inclusion of the new species) and separation from Megalaria would still keep Megalaria paraphyletic, and its segregation from Lopezaria on the basis of morphological and chemical characters would remain challenging. Hence, we argue for the previously suggested retention of a broadly-defined Megalaria that includes both Catillochroma and Lopezaria (
Thailand. Chumphon province: Pathio District; Tambon Pak Klong, 10°53.255'N, 99°28.649'E, 5 m elev., mangrove forest, on bark of Rhizophora mucronata, 28 March 2019; Kawinnat Buaruang et al., Chum 2771 (RAMK 034555-holotype, F-isotype).
Similar to Megalaria bengalensis, but differs in an ochre to brownish apothecial disc (black in M. bengalensis) and in lacking isidia and secondary products (atranorin in M. bengalensis).
The specific epithet refers to the English translation (Pāchāylen) of the Thai name for mangrove (ป่าชายเลน), and philos (greek) = friend, referring to the ecological preference of the new species.
Thallus crustose, corticolous, gray to olive-gray or greenish gray, up to 10 cm in diameter, smooth, cracked, without soredia or isidia. Apothecia biatorine, plain and flat, becoming slightly convex with age, circular in outline or becoming deformed, sessile, 0.3–0.8 mm in diameter; margins black, shining, contrasting strongly with the coloration of the discs; discs beige to brownish, epruinose. Epihymenium 2–5 μm thick, not pigmented or light beige, K–, N–. Hymenium 75–100 μm thick, hyaline, not inspersed. Subhymenium 10–20 μm thick, hyaline. Central hypothecium 50–80 μm thick, pigmented red-brown, K+ wine-red, N–; lateral hypothecium blue to blue-black, K–, N+ purple. Excipulum 15–25 μm thick, comprised of thick, gelatinized hyaline to blue hyphae, not inspersed with crystals, K–, N+ purple. Asci cylindrical to clavate, eight-spored; ascospores narrowly ellipsoid, hyaline, one-septate (rarely simple), thin walled, not halonate, (9–)11–15 × 4–5 μm. Pycnidia not seen.
Secondary metabolites. Thallus K–, C–, and KC–, UV–, no lichen substances found using TLC.
The new species was found in the south-eastern province of Chumphon where it was growing in old mangrove forests on the bark of Excoecaria agallocha, Hibiscus tiliaceus, Rhizophora apiculata, and Rhizophora mucronata.
In the phylogenetic tree, Megalaria pachaylenophila and M. bengalensis cluster together, and indeed, their apothecial anatomy is very similar. However, they can easily be separated by the isidiate thallus in the latter. No other species in Megalaria sens. lat. is known to form a beige or brownish apothecial disk. Interestingly, this can be found in some species of Megalaria (Lopezaria) versicolor which is the sister clade to Megalaria pachaylenophila and M. bengalensis. Additional superficially similar species include the North American M. beechingii, which differs in having purple-black to jet black apothecia, a margin that is concolorous with disc, and broadly ellipsoid ascospores, that are often kidney bean-shaped (
Thailand. Chumphon province: Pathio District; Chum Kho sub-district, mangrove forest, on bark of Rhizophora apiculata, 15 Feb 2018; K. Buaruang et al., Chum 2024 (RAMK), 2028 (RAMK), 2072 (RAMK).
Below we propose new combinations to reflect the broad recognition of Megalaria and the recognition of the Catillochroma clade at subgeneric level:
Catillochroma Kalb, Bibl. Lichenol. 95: 298 (2007). Type species: Catillochroma endochromum (Fée) Kalb.
Catillochroma bicoloratum (Vain.) Kalb., Archive for Lichenology 30: 12 (2022). – Catillaria bicolorata Vain. Annales Botanici Societatis Zoologicae-Botanicae Fennnicae ‘Vanamo’ 1: 48 (1921).
Catillochroma danfordianum Kalb., Archive for Lichenology 30: 4–6 (2022).
Catillochroma mareebaense Kalb., Archive for Lichenology 30: 6–8 (2022).
Catillochroma phayapipakianum Kalb., Archive for Lichenology 30: 8–10 (2022).
Catillaria superflua (Müller Arg.) Zahlbruckner., Catalogus Lichenum Universalis 4: 75 (1926). – Patellaria superflua Müll. Arg., Flora (Regensburg) 70: 336 (1887).
We are very grateful to Dr. Klaus Kalb for providing fresh material for DNA isolation, helpful discussions, and for sharing his insight into the taxonomy of this species complex. The Pritzker Lab for DNA Research and the Grainger Bioinformatics Center are kindly acknowledged for resources facilitating this study. Funding was provided by The Field Museum and the National Research Council of Thailand.