Molecular Phylogenetic Evidence Research Articles

Villoboletus persicinus, gen. et sp. nov. (Boletaceae), a bolete with flocculent-covered stipe from northern China

ABSTRACT Some collections from northern China are proposed as the new genus and species Villoboletus persicinus based on morphological assessments and molecular phylogenetic evidence. It is circumscribed by the pink pileus, white context turning pale blue to bule when exposed, yellow hymenophore surface turning blue when bruised, stipe covered with plenty of flocculent hairs, ellipsoid-fusiform to subfusiform smooth basidiospores, and the presence of hymenial cystidia. Phylogenetic analyses inferred from four gene fragments (28S, tef1, rpb1, and rpb2) revealed a distinct position of this new genus in Boletaceae, but no place to accommodate it at subfamily rank.

Asplenium delinghaense, a new species from western part of Qilian Mountains in Qinghai-Xizang Plateau

A new species of the genus Asplenium L. from northern Qinghai, A. delinghaense S. Q. Liang et X. C. Zhang, is described and illustrated here. This new species resembles A. iskardense Viane et Reichst., A. daghestanicum Christ, and A. neovarians Ching but differs in frond and perispore morphology. Molecular phylogenetic evidence supported the close relationship of A. delinghaense with members of the A. varians complex and the A. pekinense complex and indicated an allotetraploid origin of it.

Selaginella subeffusa, a new spikemoss from Southeast Yunnan, China

Based on extensive herbarium research of the Selaginella monospora group (incl. S. effusa, S. microclada, S. monospora, S. subdiaphana, and S. submonospora) and on molecular phylogenetic evidence, an additional new species to this group was discovered. It was collected from Dawei Mountain in southeast Yunnan, and here named as Selaginella subeffusa. The new species distinctly differs from similar species by its coriaceous and densely imbricate ventral leaves on main stems and branches, 2.2–3.1 mm long and 1.1–1.5 mm wide, with enlarged acroscopic base, and strongly overlapping stem and branches, and with denticulate margins; microspores verrucate and perforate. Phylogenetic analyses of three plastid regions (rbcL, atpI, psbA) showed that S. subeffusa clustered with S. submonospora and nested between the “S. microclada – S. effusa” clade and the “S. monospora” clade.

Lukea gen. nov. (Monodoreae-Annonaceae) with two new threatened species of shrub from the forests of the Udzungwas, Tanzania and Kaya Ribe, Kenya

SummaryA new genus, Lukea Cheek & Gosline (Annonaceae), is erected for two new species to science, Lukea quentinii Cheek & Gosline from Kaya Ribe, SE Kenya, and Lukea triciae Cheek & Gosline from the Udzungwa Mts, Tanzania. Lukea is characterised by a flattened circular bowl-shaped receptacle-calyx with a corolla of three free petals that give the buds and flowers a unique appearance in African Annonaceae. Both species are extremely rare shrubs of small surviving areas of lowland evergreen forest under threat of habitat degradation and destruction and are provisionally assessed as Critically Endangered and Endangered respectively using the IUCN 2012 standard. Both species are illustrated and mapped. Material of the two species had formerly been considered to be possibly Uvariopsis Engl. & Diels, and the genus Lukea is placed in the Uvariopsis clade of the Monodoreae (consisting of the African genera Uvariodendron (Engl. & Diels) R.E.Fries, Uvariopsis, Mischogyne Exell, Dennettia Baker f., and Monocyclanthus Keay). The clade is characterised by often conspicuous, finely reticulate quaternary nervation, incomplete or absent connective shields (in Annonaceae the connective shield is usually complete) and free petals (except in some Uvariopsis). Morphologically Lukea is distinct for its broad, turbinate, fleshy pedicel, a potential synapomorphy within Monodoreae. It appears closest morphologically to the West African monotypic Monocyclanthus, since it shares a trait unusual in the Annonaceae: the calyx in both genera forms a shallow bowl (calyx lobes are absent or vestigial), barely enclosing the base of the petals at anthesis, which persists, living and green, in the mature fruit. However, on recent molecular phylogenetic evidence, Lukea is sister to Mischogyne and the two split c. 20 million years BP, while Monocyclanthus is sister to Dennettia. The placement of Lukea within the Uvariopsis clade is discussed.

The Divergence of Chromosome Structures and 45S Ribosomal DNA Organization in Cucumis debilis Inferred by Comparative Molecular Cytogenetic Mapping.

Cucumis debilis W.J.de Wilde & Duyfjes is an annual and monoecious plant. This species is endemic to Southeast Asia, particularly Vietnam. However, C. debilis is rarely studied, and no detailed information is available regarding its basic chromosome number, 45S ribosomal DNA (rDNA) status, and divergence among other Cucumis species. In this study, we characterized the morphological characters and determined and investigated the basic chromosome number and chromosomal distribution of 45S rDNA of C. debilis using the fluorescent in situ hybridization (FISH) technique. A maximum likelihood tree was constructed by combining the chloroplast and internal transcribed spacer of 45S rDNAs to infer its relationship within Cucumis. C. debilis had an oval fruit shape, green fruit peel, and protrusion-like white spots during the immature fruit stage. FISH analysis using 45S rDNA probe showed three pairs of 45S rDNA loci located at the terminal region in C. debilis, similar to C. hystrix. Meanwhile, two, two, and five pairs of 45S rDNA loci were observed for C. melo, C. metuliferus, and C. sativus, respectively. One melon (P90) and cucumber accessions exhibited different chromosomal localizations compared with other members of Cucumis. The majority of Cucumis species showed the terminal location of 45S rDNA, but melon P90 and cucumber exhibited terminal–interstitial and all interstitial orientations of 45S rDNA loci. Based on molecular cytogenetics and phylogenetic evidence, C. debilis is more closely related to cucumber than melon. Therefore, C. debilis may serve as a potential parental accession for genetic improvement of cucumber through interspecific hybridization.

Thesiummuasyae (Santalaceae), a new species from the limestone fynbos of the Overberg, South Africa.

Thesiummuasyae, a new species of the family Santalaceae, is described and illustrated. This species has unique morphological and ecological characters, differentiating it from other closely related species of the genus, such as T.karooicum. These characters include plants forming compact shrubs to about 30 cm tall with glabrous surfaces; leaves recurved, to about 4 cm long, terete to triangular, apiculate; flowers placed in lax spikes or borne solitary; and style up to about 2.5 mm long. Ecologically, T.muasyae is endemic to the limestone fynbos in the Overberg, Bredasdorp District, South Africa. Molecular phylogenetic evidence places this species in Subgenus FriseaSectionBarbata, as closest sister to T.hispidulum + T.karooicum. A preliminary conservation Red List assessment suggests that T.muasyae is Critically Endangered, based on its population size, area of occupancy and extent of occurrence.

Artemisia lanaticapitula (Asteraceae: Tribe Anthemideae), a New Species from Zhejiang, East China

Abstract— Artemisia lanaticapitula (Asteraceae: Anthemideae), a new species from Zhejiang in East China, is described and illustrated, based on the analyses of morphological observations and molecular phylogenetic evidence. This new species is similar to Artemisia anomala in having simple and undivided leaves, but differs by having phyllaries, corolla limbs, and abaxial leaf surfaces densely white-lanate, an involucre that is semiglobose, 3.5‐6 mm in diameter, and capitulate pedunculate at the base. It grows along streams under forests or on roadsides at forest margins; the species is narrowly distributed in Eastern and Southern Zhejiang.

Gomphocantharellus, a new genus of Gomphales

ABSTRACT The genus Gomphocantharellus and species Gomphocantharellus cylindrosporus are proposed as new based on morphological assessments and molecular phylogenetic evidence inferred from nucleotide sequences of mitochondrial (mt) adenosine triphosphate (ATPase) subunit 6 (atp6) and mt small subunit rDNA (mtSSU). Basidiomes of G. cylindrosporus are characterized by the peach to pinkish orange color, cantharelloid habit with a gill-like hymenophore with obtuse edges, smooth and cylindrical to allantoid basidiospores, and cylindrical to narrowly clavate flexuous pleurocystidia. The species resembles a species of Cantharellus but differs from the latter by the cylindrical basidiospores. Phylogenetic analyses confirm the placement of Gomphocantharellus as an independent lineage within the order Gomphales.

Two New Species and One New Genus of Glass Sponges (Hexactinellida: Euplectellidae and Euretidae), From a Transect on a Seamount in the Northwestern Pacific Ocean

Hexactinellid sponges often form structural habitats for other organisms and thus support high biodiversity. Two representative morphotypes of hexactinellid sponges were sampled by a remotely operated vehicle along a transect (depths of 2377–2758 m) on the Ko-Hakucho Guyot in the northwestern Pacific Ocean, both new to science. One new species,Flavovirens hemiglobusgen. et sp. nov., which is pedunculate and bears the main choanosomal spicules of diactins, is clearly attributed to the euplectellid subfamily Bolosominae. Its set of microscleres present (namely, predominating oxyhexasters and discasters, and rare discohexasters and staurodiscs) characterizes it as a new genus. The other new species,Chonelasma tyloscopulatumsp. nov., which is funnel in form without dichotomous branching tubes or lateral oscula and has firm body walls supported by a three-layered dictyonal framework, is clearly attributed to the euretid genusChonelasma(subfamily Chonelasmatinae). Its presence of surface pentactins, two types of scopules, and both oxy- and disco-tipped hexasters or hemihexasters as common microscleres, characterizes it as a new species. The placements are also supported by molecular phylogenetic evidence from nuclear 18S rDNA and 28S rDNA, and mitochondrial 16S rDNA and cytochrome c oxidase subunit I (COI) gene. More sampling efforts should be conducted to improve the understanding of the biodiversity of deep-sea seamount sponges.

Revision of the African cichlid fish genus Ctenochromis (Teleostei, Cichliformes), including a description of the new genus Shuja from Lake Tanganyika and the new species Ctenochromis scatebra from northern Tanzania

Molecular phylogenetic evidence clearly resolves the African cichlid fish genus Ctenochromis, as defined by Greenwood (1979), as paraphyletic. Here, we redefine the genus Ctenochromis and assign Ctenochromis horei, a member of the Tropheini from Lake Tanganyika, to a new genus Shuja gen. nov. We restrict Ctenochromis to Ctenochromis pectoralis and Ctenochromis scatebra sp. nov., both of which are endemic to the Pangani River catchment in northern Tanzania, and are resolved as sister taxa in a phylogenetic analysis using genome-wide data. Ctenochromis pectoralis is the type species of the genus and described from specimens collected near Korogwe, Tanzania. The species was declared extinct in a 2016 IUCN Red List Assessment. We confirm the continued presence of a population of C. pectoralis within the Ruvu tributary linking Lake Jipe to Nyumba ya Mungu Reservoir. The new taxon Ctenochromis scatebra sp. nov. is described from Chemka Springs, and recognised on the basis of differences from C. pectoralis in tooth and jaw morphology.

Chimonobambusasangzhiensis (Poaceae, Bambusoideae), a new combination supported by morphological and molecular evidence.

This study elucidates the taxonomic position of Indosasasangzhiensis in considering whether it belongs to Indosasa or Chimonobambusa. Based on morphological and molecular phylogenetic evidence, our results explicitly indicated that I.sangzhiensis should be a member of Chimonobambusa, rather than Indosasa, and is a distinct species closely related to C.communis, C.opienensis and C.puberula. Thus, the new combination Chimonobambusasangzhiensis (B.M.Yang) N.H.Xia & Z.Y.Niu is made. A detailed description as well as two color plates of this species are also provided.

Description of a New Species of Bacciger (Digenea: Gymnophalloidea) Infecting the American Gizzard Shad, Dorosoma cepedianum (Lesueur, 1818), and Molecular Characterization of Cercaria rangiae Wardle, 1983, with Molecular Phylogeny of Related Digenea

A new species of Bacciger Nicoll, 1914, is described from the digestive tract of the American gizzard shad, Dorosoma cepedianum (Lesueur), in some inland waterways of Mississippi, and in Mobile Bay, Alabama, U.S.A. This now represents the only nominal species in the genus from the northwest Atlantic Ocean or inland tributaries of eastern North America north of Mexico. Two potentially close relatives that range in the northwest Atlantic Ocean are Baccigeroides ovatus (Price, 1934) Cutmore, Bray and Cribb, 2018, and Pseudobacciger manteri Nahhas and Cable, 1964. The new species differs from Bo. ovatus mainly by having the genital pore opening immediately anteriad from the ventral sucker rather than far anteriad from it at the pharynx level, and from P. manteri mainly by having a distinct cirrus sac rather than having the terminal genitalia free in the parenchyma. The 3 genera are currently classified in the Faustulidae Poche, 1926. Although life cycles are unknown for the American species, evidence from life history of the related species Bacciger bacciger (Rudolphi, 1819) Nicoll, 1914, and Pseudobacciger harengulae (Yamaguti, 1938) Nahhas and Cable, 1964, combined with molecular phylogenetic evidence, indicate that the studied digeneans likely have a nonoculate trichocercous cercaria. We discovered sporocysts containing nonoculate trichocercous cercariae we identified as Cercaria rangiae Wardle, 1983, infecting the viscera of the Gulf wedge clam, Rangia cuneata (G. B. Sowerby I), in the Pascagoula River, Mississippi, U.S.A. We generated the internal transcribed spacer 2 (ITS2) region and a portion of the 28S rDNA gene from the new species and C. rangiae. Dissimilarity at both sequences demonstrated that the stages were not conspecific. Bayesian inference analyses applied separately to the ITS2 region, and the partial 28S rDNA gene, resulted in trees with similar topology, both depicting the new species and C. rangiae as sister taxa. The possible identity of C. rangiae and the phylogenetic relationships among species of Bacciger and related genera are discussed. We consider Bacciger lesteri Bray, 1982, and Bacciger sprenti Bray, 1982, incertae sedis in the Microphalloidea Ward, 1901. All other species of Bacciger, and species belonging in Pseudobacciger Nahhas and Cable, 1964, and Baccigeroides Dutta, 1995, are transferred from the Faustulidae to the Gymnophalloidea Odhner, 1905, where their familial affinities remain incertae sedis.

Tiankengomelania guangxiense, gen. et sp. nov., a dark septate endophytic fungus, promotes the growth of the medicinal orchid Dendrobium officinale

Dendrobium officinale (Orchidaceae) is a traditional Chinese medicinal plant. Its growth is slow, however many dark septate endophytic fungi (DSEs) are considered useful to plant growth and as biocontrol agents against plant pathogens. The goals of this study were to identify a new DSE and evaluate its plant-growth promotion characteristics. Based on morphological and molecular phylogenetic evidence, a DSE fungal strain TK815 isolated from Dashiwei Tiankengs in Leye county Guangxi Province, China, was classified as a novel genus in the order Cheatothyriales, namely Tiankengomelania gen. nov. typified with T. guangxiense sp. nov. Tiankengomelania guangxiense TK815 can significantly promote the growth of D. officinale in stem length (11.25%), seedling height (16.97%), root length (10.34%), and dry weight (41.05%). This study discovered, described, and illustrated a new DSE fungus, and evaluated its biological function in contributing to the growth and production of the Chinese medicinal plant D. officinale.

Phylogeny and biogeography of the northern temperate genus Dracocephalum s.l. (Lamiaceae).

The northern temperate genus Dracocephalum consists of approximately 70 species mainly distributed in the steppe-desert biomes of Central and West Asia and the alpine region of the Qinghai-Tibetan Plateau (QTP). Previous work has shown that Dracocephalum is not monophyletic and might include Hyssopus and Lallemantia. This study attempts to clarify the phylogenetic relationships, diversification patterns, and the biogeographical history of the three genera (defined as Dracocephalum s.l.). Based on a sampling of 66 taxa comprising more than 80% from extant species of Dracocephalum s.l., morphological, phylogenetic (maximum parsimony, likelihood, and Bayesian inference based on nuclear ITS and ETS, plastid rpl32-trnL, trnL-trnF, ycf1, and ycf1-rps15, and two low-copy nuclear markers AT3G09060 and AT1G09680), molecular dating, diversification, and ancestral range estimation analyses were carried out. Our results demonstrate that both Hyssopus and Lallemantia are embedded within Dracocephalum and nine well-supported clades can be recognized within Dracocephalum s.l. Analyses of divergence times suggest that the genus experienced an early rapid radiation during the middle to late Miocene with major lineages diversifying within a relatively narrow timescale. Ancestral area reconstruction analyses indicate that Dracocephalum s.l. originated in Central and West Asia and southern Siberia, and dispersed from Central and West Asia into the QTP and adjacent areas twice independently during the Pliocene. The aridification of the Asian interior possibly promoted the rapid radiation of Dracocephalum within this region, and the uplift of the QTP appears to have triggered the dispersal and recent rapid diversification of the genus in the QTP and adjacent regions. Combining molecular phylogenetic and morphological evidence, a revised infrageneric classification of Dracocephalum s.l. is proposed, which recognizes nine sections within the genus.

Two new species of Tricholoma sect. Genuina (Agaricales) from China based on molecular phylogenetic and morphological evidence

Two new species of Tricholoma sect. Genuina (Agaricales) from China based on molecular phylogenetic and morphological evidence

Paraphlomis nana (Lamiaceae), a new species from Chongqing, China

Most species of Paraphlomis are distributed in the south of the Yangtze River in China. In this study, a new species, P. nana, from northeast Chongqing in the north of the Yangtze River is described and illustrated. Bayesian inference and maximum likelihood analyses based on two nuclear ribosomal DNA regions (ITS and ETS) and three plastid DNA markers (rpl32-trnL, rps16, and trnL-trnF) were carried out to explore the phylogenetic position of the new species within Paraphlomis. Though the nuclear and plastid trees reveal incongruent placements of P. nana in Paraphlomis, which may be caused by chloroplast capture, a close relationship between the new species and P. albiflora is supported by molecular phylogenetic, morphological, and geographic evidence. However, the two species can be clearly distinguished from each other by the plant height and lamina and calyx morphology.

Dive into the sea: first molecular phylogenetic evidence of host expansion from terrestrial/freshwater to marine organisms in Mermithidae (Nematoda: Mermithida).

We report the first mermithid nematode found to be parasitic in a marine tanaidacean crustacean. Ten host tanaidaceans were collected from a depth of 52 m in Otsuchi Bay, Iwate, Japan, north-western Pacific, and identified as a species in the tanaidid genus Zeuxo Templeton, 1840. Nematodes occurred in the host's body cavity; in one case, at least two individuals inhabited a single host. We provide a brief description and illustrations of the morphology of the nematode. In a phylogenetic reconstruction based on the 18S ribosomal RNA gene, the nematode nested in a clade otherwise containing mermithids from terrestrial or freshwater hosts, showing an expansion in host utilization in Mermithidae Braun, 1883 from terrestrial/freshwater hosts to a marine organism.

Leucostegia amplissima, the Third Species of the Genus (Hypodematiaceae)

Abstract— Leucostegia has been long recognized as a small fern genus with only two species, L. immersa and L. pallida. Here we elevate a variety of L. immersa to species level and make the new combination Leucostegia amplissima based on morphological and molecular phylogenetic evidence. Morphologically, Leucostegia amplissima differs from L. immersa by having larger evergreen fronds, smaller indusia, and glandular hairs on the basal stipes. The study of Taiwanese populations further suggested an ecological divergence between L. immersa and L. amplissima.

Origin and significance of two pairs of head tentacles in the radiation of euthyneuran sea slugs and land snails

The gastropod infraclass Euthyneura comprises at least 30,000 species of snails and slugs, including nudibranch sea slugs, sea hares and garden snails, that flourish in various environments on earth. A unique morphological feature of Euthyneura is the presence of two pairs of sensory head tentacles with different shapes and functions: the anterior labial tentacles and the posterior rhinophores or eyestalks. Here we combine molecular phylogenetic and microanatomical evidence that suggests the two pairs of head tentacles have originated by splitting of the original single tentacle pair (with two parallel nerve cords in each tentacle) as seen in many other gastropods. Minute deep-sea snails of Tjaernoeia and Parvaplustrum, which in our phylogeny belonged to the euthyneurans’ sister group (new infraclass Mesoneura), have tentacles that are split along much of their lengths but associated nerves and epidermal sense organs are not as specialized as in Euthyneura. We suggest that further elaboration of cephalic sense organs in Euthyneura closely coincided with their ecological radiation and drastic modification of body plans. The monotypic family Parvaplustridae nov., superfamily Tjaernoeioidea nov. (Tjaernoeiidae + Parvaplustridae), and new major clade Tetratentaculata nov. (Mesoneura nov. + Euthyneura) are also proposed based on their phylogenetic relationships and shared morphological traits.

A new species of Gymnopus sect. Androsacei (Omphalotaceae, Agaricales) from China

A new species of Gymnopus sect. Androsacei, namely, G. pallipes is described and illustrated based on morphological and molecular phylogenetic evidence. It is characterized by marasmioid basidiomata, a dark brown to reddish brown pileus becoming dull white to yellowish grey with age, whitish to pale yellow stipe and presence of rhizomorphs. Phylogenetic analyses support it as a new species within Gymnopus sect. Androsacei. The detailed morphological description, colour photos of basidiomata, and line drawings of microcharacters are presented and delimitation characters from similar species are discussed. A key to the known species of Gymnopus s. str. from China is also provided.