Can older fungal sequence data be useful?

2021 ◽  
pp. 69-82
Author(s):  
Paul Bridge
Keyword(s):  
New Species ◽  
Sequence Data ◽  
Nucleotide Sequences ◽  
Species Complexes ◽  
As Species ◽  
Fungal Sequence

Abstract This chapter focuses primarily on the use and evaluation of fungal nucleotide sequences to obtain information that can be used to elucidate relationships between strains and specimens. The importance of the reexamination and evaluation of older material in order to identify new species derived from existing taxa that had previously been considered under wider concepts or acknowledged as species complexes is also discussed.

scholarly journals New species of Phallus from a subtropical forest in Xishuangbanna, China

Phytotaxa ◽  
2014 ◽  
Vol 163 (2) ◽  
pp. 91 ◽  
Author(s):  
HUILI LI ◽  
ETER E. MORTIMER ◽  
SAMANTHA C. KARUNARATHNA ◽  
JIANCHU XU ◽  
KEVIN D. HYDE
Keyword(s):  
New Species ◽  
Yunnan Province ◽  
Sequence Data ◽  
Subtropical Forest ◽  
Similar Species ◽  
Wet Season ◽  
Line Drawings ◽  
As Species ◽  
Nrits Sequence ◽  
Made In

Seven collections of Phallus species were made in surveys of a subtropical forest in Xishuangbanna in Yunnan Province, China, during the wet season of 2012. Macro and micro characters, together with nrITS sequence data, were used to separate the collections into three species. Phallus mengsongensis and P. serrata are introduced as species new to science, while a further Phallus species is described, but not formally introduced, due to paucity of material. Macro and micro descriptions, colour photographs, line drawings and nrITS phylogenetic data for all three species are provided, which are discussed in relation to similar species in these genera.

Orthopodomyia pulcripalpis (Diptera: Culicidae), a genus and species new to the Iranian mosquito fauna, with a review of bionomical information*

Zootaxa ◽  
2017 ◽  
Vol 4299 (1) ◽  
pp. 141 ◽  
Author(s):  
SHAHYAD AZARI-HAMIDIAN ◽  
BEHZAD NOROUZI ◽  
AYOOB NOORALLAHI
Keyword(s):  
New Species ◽  
Aedes Albopictus ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its2 Sequence ◽  
Internal Transcribed Spacer 2 ◽  
As Species ◽  
Southwestern Iran ◽  
A New Species

The most recent checklist of Iranian mosquitoes (Diptera: Culicidae) includes 64 species representing seven genera (Azari-Hamidian, 2007; Azari-Hamidian & Harbach, 2009). Subsequently, Oshaghi et al. (2008) found that Anopheles superpictus Grassi is two species in Iran based on the Internal Transcribed Spacer 2 (ITS2) sequences of rDNA, which were later listed as species A and B by Harbach (2013), and Djadid et al. (2009) recognized a new species of the Anopheles hyrcanus group (An. hyrcanus spIR) from southwestern Iran, also based on ITS2 sequence data. More recently, Doosti et al. (2016) reported the occurrence of Aedes albopictus (Skuse) in southeastern Iran. 

Free-living bryozoans (Cheilostomatida, Cupuladriidae) from northeastern and northern Brazil

Zootaxa ◽  
2021 ◽  
Vol 4933 (1) ◽  
pp. 39-62
Author(s):  
ANA C.S. ALMEIDA ◽  
FACELUCIA B.C. SOUZA ◽  
LEANDRO M. VIEIRA
Keyword(s):  
New Species ◽  
Sedimentation Rate ◽  
Central Area ◽  
Free Living ◽  
Species Complexes ◽  
As Species ◽  
The Family ◽  
Northern Brazil ◽  
Species Being ◽  
A New Species

Free-living bryozoans, unlike most cheilostomes, live unattached from the substratum on or within soft sedimentary bottoms. Bryozoans of the family Cupuladriidae Lagaaij, 1952 are probably the best-studied free-living representatives. In Brazil, eight species of cupuladriids have been reported to date, including some regarded as species complexes. This paper documents cupuladriid taxa from northeastern and northern Brazil based on the examination of 1236 colonies. Three species previously reported from Brazil are described: Cupuladria monotrema (Busk, 1884), Discoporella gemmulifera Winston & Vieira, 2013 and Discoporella salvadorensis Winston, Vieira & Woollacott, 2014. A new species, Cupuladria minuta n. sp., is erected; it differs from its congeners in having small, flat discoid colonies, with the central area up to the fifth astogenetic generation composed of vicarious avicularia with an auriform opesia, and quadrangular to rectangular basal sectors with 1–6 small openings per sector. Our results suggest that four species previously recorded from Brazil are doubtful—Cupuladria canariensis (Busk, 1859), Cupuladria biporosa Canu & Bassler, 1923, Discoporella umbellata (Defrance, 1923) and Discoporella depressa (Conrad, 1841). Some Brazilian specimens previously assigned to Discoporella umbellata var. conica are re-assigned to D. salvadorensis. The species studied here frequently co-occur on mainly sandy and muddy bottoms at 8–130 m depth, as it is typical of most living populations of cupuladriids. The sedimentation rate, and thus the bottom composition, likely influence the distribution of cupuladriids in Brazil, with Cupuladria species being more common in stabler and coarser sea bottoms than Discoporella species, which tend to be more broadly distributed. 

A systematic revision of the genus Archocentrus (Perciformes: Cichlidae), with the description of two new genera and six new species

Zootaxa ◽  
2007 ◽  
Vol 1603 (1) ◽  
pp. 1-78 ◽  
Author(s):  
JUAN J. SCHMITTER-SOTO
Keyword(s):  
New Species ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Nominal Species ◽  
New Genera ◽  
Systematic Revision ◽  
Widespread Species ◽  
Species Complexes ◽  
As Species ◽  
To Receive

The cichlid genus Archocentrus has been considered one of the most promising (i.e., possibly natural) genera resurrected to receive some of the species formerly included in Cichlasoma. Evidence is presented to justify generic recognition of Archocentrus, as well as eight other closely related genera (Caquetaia, Hypsophrys, Parachromis, Amphilophus, Archocentrus, Cryptoheros, Amatitlania, and Rocio). Of these, Amatitlania (type species, A. nigrofasciata) and Rocio (type species, R. octofasciata) are described as new. The present revision treats all nominal species ever assigned to Archocentrus, as well as species that have been included in or near the same clade as Archocentrus centrarchus (type species of the genus) in available phylogenetic analyses. Geographical variation in morphology of the more widespread species was examined, which has resulted in the description of six new species (Cryptoheros chetumalensis, Amatitlania coatepeque, A. kanna, A. siquia, Rocio gemmata, and R. ocotal) with a seventh resurrected from synonymy (Cryptoheros cutteri). Archocentrus includes the type species (Ar. centrarchus), plus Ar. spinosissimus and Ar. multispinosus. Cryptoheros is restricted to the species complexes of Cr. spilurus (= subgenus Cryptoheros, including also Cr. chetumalensis and Cr. cutteri) and Cr. septemfasciatus (= Bussingius n. subgen., including also Cryptoheros altoflavus, Cr. nanoluteus, Cr. myrnae, and Cr. sajica); Cryptoheros panamensis is placed in Panamius n. subgen. Herotilapia is synonymized with Archocentrus, and Neetroplus is synonymized with Hypsophrys, which now includes the type species H. nicaraguensis and H. nematopus. Lectotypes are designated for Amatitlania nigrofasciata, Archocentrus spinosissimus, Cryptoheros septemfasciatus, Cr. spilurus, and Rocio octofasciata. Cichlasoma immaculatum is considered to be a synonym of Archocentrus spilurus, not of Ar. spinosissimus.

scholarly journals The Evolution of Life Modes in Stictidaceae, with Three Novel Taxa

2021 ◽  
Vol 7 (2) ◽  
pp. 105
Author(s):  
Vinodhini Thiyagaraja ◽  
Robert Lücking ◽  
Damien Ertz ◽  
Samantha C. Karunarathna ◽  
Dhanushka N. Wanasinghe ◽  
...  
Keyword(s):  
New Species ◽  
Large Scale ◽  
Sequence Data ◽  
Large Subunit ◽  
Monte Carlo Sampling ◽  
Small Subunit ◽  
Sensu Stricto ◽  
Internal Transcribed Spacers ◽  
Character State ◽  
Phenotypic Data

Ostropales sensu lato is a large group comprising both lichenized and non-lichenized fungi, with several lineages expressing optional lichenization where individuals of the same fungal species exhibit either saprotrophic or lichenized lifestyles depending on the substrate (bark or wood). Greatly variable phenotypic characteristics and large-scale phylogenies have led to frequent changes in the taxonomic circumscription of this order. Ostropales sensu lato is currently split into Graphidales, Gyalectales, Odontotrematales, Ostropales sensu stricto, and Thelenellales. Ostropales sensu stricto is now confined to the family Stictidaceae, which includes a large number of species that are poorly known, since they usually have small fruiting bodies that are rarely collected, and thus, their taxonomy remains partly unresolved. Here, we introduce a new genus Ostropomyces to accommodate a novel lineage related to Ostropa, which is composed of two new species, as well as a new species of Sphaeropezia, S. shangrilaensis. Maximum likelihood and Bayesian inference analyses of mitochondrial small subunit spacers (mtSSU), large subunit nuclear rDNA (LSU), and internal transcribed spacers (ITS) sequence data, together with phenotypic data documented by detailed morphological and anatomical analyses, support the taxonomic affinity of the new taxa in Stictidaceae. Ancestral character state analysis did not resolve the ancestral nutritional status of Stictidaceae with confidence using Bayes traits, but a saprotrophic ancestor was indicated as most likely in a Bayesian binary Markov Chain Monte Carlo sampling (MCMC) approach. Frequent switching in nutritional modes between lineages suggests that lifestyle transition played an important role in the evolution of this family.

Integrative taxonomy of giant crested Eusirus in the Southern Ocean, including the description of a new species (Crustacea: Amphipoda: Eusiridae)

2020 ◽  
Author(s):  
Marie L Verheye ◽  
Cédric D’Udekem D’Acoz
Keyword(s):  
New Species ◽  
Species Diversity ◽  
Morphological Analysis ◽  
Integrative Taxonomy ◽  
Putative Species ◽  
Species Complexes ◽  
Statistical Parsimony ◽  
Bayesian Implementation ◽  
A New Species ◽  
Giant Species

Abstract Among Antarctic amphipods of the genus Eusirus, a highly distinctive clade of giant species is characterized by a dorsal, blade-shaped tooth on pereionites 5–7 and pleonites 1–3. This lineage, herein named ‘crested Eusirus’, includes two potential species complexes, the Eusirus perdentatus and Eusirus giganteus complexes, in addition to the more distinctive Eusirus propeperdentatus. Molecular phylogenies and statistical parsimony networks (COI, CytB and ITS2) of crested Eusirus are herein reconstructed. This study aims to formally revise species diversity within crested Eusirus by applying several species delimitation methods (Bayesian implementation of the Poisson tree processes model, general mixed Yule coalescent, multi-rate Poisson tree processes and automatic barcode gap discovery) on the resulting phylogenies. In addition, results from the DNA-based methods are benchmarked against a detailed morphological analysis of all available specimens of the E. perdentatus complex. Our results indicate that species diversity of crested Eusirus is underestimated. Overall, DNA-based methods suggest that the E. perdentatus complex is composed of three putative species and that the E. giganteus complex includes four or five putative species. The morphological analysis of available specimens from the E. perdentatus complex corroborates molecular results by identifying two differentiable species, the genuine E. perdentatus and a new species, herein described as Eusirus pontomedon sp. nov.

Two new species of Sabellariidae (Annelida, Polychaeta) from the abyss of eastern Australia

Zootaxa ◽  
2020 ◽  
Vol 4821 (3) ◽  
pp. 487-510
Author(s):  
JINGHUAI ZHANG ◽  
PAT HUTCHINGS ◽  
INGO BURGHARDT ◽  
ELENA KUPRIYANOVA
Keyword(s):  
New Species ◽  
Sequence Data ◽  
Benthic Communities ◽  
First Record ◽  
Thoracic Segment ◽  
Distal Margin ◽  
Planktonic Larva ◽  
Eastern Australia ◽  
Two New Species ◽  
Buccal Flap

In May–June 2017 an expedition on board RV ‘Investigator’ sampled benthic communities along the lower slope and abyss of eastern Australia from off Tasmania to the Coral Sea. Over 200 sabellariid specimens of the genera Phalacrostemma and Gesaia were collected during the voyage and deposited in the Australian Museum. Here we describe two new species Gesaia csiro n. sp. (4414–4436 m) and Phalacrostemma timoharai n. sp. (1013–1093 m). We did not formally describe another species of Phalacrostemma due to poor condition of the single specimen. Gesaia csiro n. sp. is the first record of the genus from Australian waters (only a planktonic larva attributed to the genus has previously been recorded), and it can be distinguished from other congeners by the smooth surface of inner paleae, distal thecae of outer paleae with long, irregular and expanded distal fringe and circled distal margin. Phalacrostemma timoharai n. sp. differs from congeners by the following combination of characters: presence of the buccal flap, absence of tentacular filament, 18–22 pairs of outer paleae, two pairs of neuropodial cirri on first thoracic segment, and only one pair of lateral lobes on second thoracic segment. Morphological descriptions are accompanied by mitochondrial cytochrome c oxidase subunit 1 (COI) and ribosomal (16S, 18S and 28S) sequence data. A key to all Australian species of sabellariids is given.

A new Liopeltis Fitzinger, 1843 (Squamata: Colubridae) from Pulau Tioman, Peninsular Malaysia

Zootaxa ◽  
2020 ◽  
Vol 4766 (3) ◽  
pp. 472-484
Author(s):  
HANNAH E. SOM ◽  
L. LEE GRISMER ◽  
PERRY L. JR. WOOD ◽  
EVAN S. H. QUAH ◽  
RAFE M. BROWN ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
New Species ◽  
Dna Sequence ◽  
Rare Species ◽  
Sequence Data ◽  
Peninsular Malaysia ◽  
Tropical Asia ◽  
Dna Sequence Data ◽  
A New Species ◽  
Lines Of Evidence

Liopeltis is a genus of poorly known, infrequently sampled species of colubrid snakes in tropical Asia. We collected a specimen of Liopeltis from Pulau Tioman, Peninsular Malaysia, that superficially resembled L. philippina, a rare species that is endemic to the Palawan Pleistocene Aggregate Island Complex, western Philippines. We analyzed morphological and mitochondrial DNA sequence data from the Pulau Tioman specimen and found distinct differences to L. philippina and all other congeners. On the basis of these corroborated lines of evidence, the Pulau Tioman specimen is described as a new species, L. tiomanica sp. nov. The new species occurs in sympatry with L. tricolor on Pulau Tioman, and our description of L. tiomanica sp. nov. brings the number of endemic amphibians and reptiles on Pulau Tioman to 12. 

Notes on the known species of Trichomyia Haliday of Mexico, with the establishment of a synonymy and the description of a new species (Diptera: Psychodidae)

Zootaxa ◽  
2004 ◽  
Vol 523 (1) ◽  
pp. 1 ◽  
Author(s):  
SERGIO IBÁÑEZ-BERNAL
Keyword(s):  
New Species ◽  
The State ◽  
Female Specimen ◽  
Male And Female ◽  
First Report ◽  
As Species ◽  
Species Inquirenda ◽  
A New Species

Only three species of Trichomyia Haliday have been recorded in Mexico. Trichomyia cirrata Coquillett, 1902, is recognized by its female characteristics, T. fairchildi Vargas and D az-N jera, 1953, was described based only on the wing and must be considered as species inquirenda, and T. maldonadoi (Vargas, 1953), which was described based on one female specimen. Specimens of Trichomyia collected in the states of Campeche, Yucatan, and Oaxaca, Mexico, allowed this female to be associated with the male of T. brevitarsa (Rapp, 1945), thus providing a first report of this species in Mexico. Consequently, T. maldonadoi is proposed as a synonym of T. brevitarsa. Additionally, a new species of Trichomyia from the state of Veracruz, Mexico, is described and illustrated based on the male and female characteristics.

Two new species in the Ficinia indica complex (Cyperaceae, tribe Cypereae) from South Africa

Phytotaxa ◽  
2017 ◽  
Vol 295 (1) ◽  
pp. 49
Author(s):  
ALUWANI A. TSHIILA ◽  
SAMSON B.M. CHIMPHANGO ◽  
JAN-ADRIAAN VILJOEN ◽  
A. MUTHAMA MUASYA
Keyword(s):  
New Species ◽  
Region Growing ◽  
Distinct Species ◽  
Cape Floristic Region ◽  
Morphological Data ◽  
Similar Species ◽  
Ecological Features ◽  
Dichotomous Key ◽  
As Species ◽  
Two New Species

Unclear boundaries between species hinder identification in the field and in herbaria, especially in species groups that can only be distinguished on the basis of subtle morphological and ecological features. One such taxon is Ficinia indica, widespread in the Greater Cape Floristic Region, growing on deep sandy soils between sea level and 1000 m elevation. Within its range, several phylogenetically related and morphologically similar species co-occur or occupy distinct habitats. Studies in herbaria show species in the Ficinia indica complex to be largely misidentified based on the use of qualitative information. Here, we investigate whether the six taxa recognized, based on one or a few characters, are supported as distinct species based on multivariate analysis of macro-morphological data. Two of the taxa were mostly separated whereas the other four taxa overlapped in multivariate space, but all the taxa could be distinguished using a single or a combination of morphological and ecological characters. We uphold the four previously recognized taxa (Ficinia argyropus, F. elatior, F. indica, F. laevis) as species, describe two new species (F. arnoldii and F. montana), and provide a dichotomous key for their identification.

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