Molecular phylogeny of interstitial Polycopidae ostracods (Crustacea) and descriptions of a new genus and four new species

Family Polycopidae is one of the more abundant and diverse taxa occurring in marine interstitial environments. Most of the interstitial polycopids are so far known from Japan and belong to the genus Parapolycope Klie, 1936. In this paper we describe another four new species from Japan. A new genus, K liecope gen. nov. is erected to include one new species K liecope mihoensis sp. nov. and one new combination Kliecope oligohalina (Tanaka & Tsukagoshi, 2010) comb. nov. Although the morphology of K liecope is similar to Parapolycope, the new genus has the following diagnostic characters: absence of an inward bulge on the antennular second podomere, presence of two setae bearing a sucker on the antennular third podomere, and absence of a dorsal seta on the basis of mandibula. Another three Parapolycope, P arapolycope setouchiensis sp. nov. , P arapolycope subtidalis sp. nov. , and P arapolycope miurensis sp. nov. are described as well. To test the phylogenetic relationship between the new genus and Parapolycope, we performed phylogenetic analyses based on the 14 18S rDNA sequences of interstitial Polycopidae species, 12 of which were newly obtained from our material. The 18S gene proved to be suitable for phylogenetic analyses in polycopids with high intraspecific or intrageneric resolution. Here we present trees obtained with maximum likelihood, maximum parsimony, and neighbour‐joining methods, and they support the divergence between Kliecope and Parapolycope with high bootstrap values. © 2014 The Linnean Society of London     

Multigene phylogeny of Synura (Synurophyceae) and descriptions of four new species based on morphological and DNA evidence

We used phylogenetic analyses based on multiple gene sequences (partial nr SSU and LSU rDNA, partial pt LSU rDNA, psaA and rbcL) from 148 strains (including three outgroups) and scale ultrastructure to examine phylogenetic relationships among species of the colonial genera Synura and Tessellaria. The phylogenetic tree based on the combined dataset was congruent with ultrastructural characteristics of the scales. Synura was divided into three major clades, two including species in section Synura, and one representing section Peterseniae. One clade, consisting of seven strains of S. uvella (section Synura), diverged at the base of the genus. The second clade consisted of the remaining species belonging to the section Synura. The third clade, containing organisms in the section Peterseniae and characterized by scales possessing a keel, was monophyletic with strong support values. Based on our findings, S. uvella needs to be in a separate section from other spine-bearing species, and we therefore propose new sectional ranks; Synura, Peterseniae, Curtispinae (presence of body scales with slender spines, tubular scales and caudal scales). We further propose four new species based on phylogenetic analyses and unique scale characters: S. longitubularis sp. nov., S. sungminbooi sp. nov., S. soroconopea sp. nov. and S. lanceolata sp. nov. Lastly, we propose a new genus name, Neotessella, to replace the invalid use of the name Tessellaria.     

Further investigations on the PHAEOTHAMNIOPHYCEAE using a multigene phylogeny,with descriptions of five new species

We examined 12 strains representing eight species classified in the algal class Phaeothamniophyceae (Heterokontophyta). Based upon a five-gene molecular phylogeny (nuclear-encoded SSU rRNA and plastid-encoded psaA, psbA, psbC, and rbcL) and light microscopic observations, we describe five new species: Phaeoschizochlamys santosii sp. nov., Phaeoschizochlamys siveri sp. nov., Phaeothamnion wetherbeei sp. nov., Stichogloea dopii sp. nov. and Stichogloea fawleyi sp. nov. The Phaeothamniophyceae, as delimited here, form a natural group that is sister to the Aurearenophyceae. Molecular phylogenetic analyses proved more reliable than morphological characters for distinguishing species. Evolutionary trends with the SI clade of the heterokont algae are discussed.     

Unexplored Character Diversity in Onychophora (Velvet Worms): A Comparative Study of Three Peripatid Species

Low character variation among onychophoran species has been an obstacle for taxonomic and phylogenetic studies in the past, however we have identified a number of new and informative characters using morphological, molecular, and chromosomal techniques. Our analyses involved a detailed examination of Epiperipatus biolleyi from Costa Rica, Eoperipatus sp. from Thailand, and a new onychophoran species and genus from Costa Rica, Principapillatus hitoyensis gen. et sp. nov.. Scanning electron microscopy on embryos and specimens of varying age revealed novel morphological characters and character states, including the distribution of different receptor types along the antennae, the arrangement and form of papillae on the head, body and legs, the presence and shape of interpedal structures and fields of modified scales on the ventral body surface, the arrangement of lips around the mouth, the number, position and structure of crural tubercles and anal gland openings, and the presence and shape of embryonic foot projections. Karyotypic analyses revealed differences in the number and size of chromosomes among the species studied. The results of our phylogenetic analyses using mitochondrial COI and 12S rRNA gene sequences are in line with morphological and karyotype data. However, our data show a large number of unexplored, albeit informative, characters in the Peripatidae. We suggest that analysing these characters in additional species would help unravel species diversity and phylogeny in the Onychophora, and that inconsistencies among most diagnostic features used for the peripatid genera in the literature could be addressed by identifying a suite of characters common to all peripatids.     

A phylogenetic review of the genus Hexabathynella Schminke, 1972 (Crustacea, Malacostraca, Bathynellacea): with a description of four new species

The genus Hexabathynella (Crustacea, Malacostraca, Bathynellacea) is revised in the sense of the phylogenetic systematics and four new species are described from South Africa ( H. monoaethetasca sp. nov. and H. africana sp. nov. ) and America ( H. schrieveri sp. nov. and H. virginiae sp. nov. ). A comparative analysis of all observable outer structures distributed in 18 known and four new species resulted in a re-evaluation of 18 characters and character states. The phylogenetic analysis using the program PAUP yielded one most-parsimonious tree, which suggests the grouping of ( H. decora (( H. halophila  +  H. aotearoae ) + ( H. pauliani ( H. monoaethetasca  + H. africana )))) + ( H. knoepffleri ( H. nicoleiana ( H. hebrica , H. tenera , H. longiappendiculata , H. breviappendiculata , H. nestica ) +  H. virginiae (( H. minuta ( H. valdecasasi + H. otayana )) + ( H. hessleri + H. muliebris ))) +  H. paranaensis ( H. szidati + H. schrieveri )). The tree is 57 steps long and has a consistency index of 0.6140, a retention index of 0.7982 and a rescaled consistency index of 0.4901. The result does not agree with the previous analyses on the genus. In terms of sampling and coding, the characters used in the previous study are critically assessed.  © 2006 The Linnean Society of London, Zoological Journal of the Linnean Society , 2006, 147 , 71–96.     

Fragilicetus velponi: a new mysticete genus and species and its implications for the origin of Balaenopteridae (Mammalia,Cetacea, Mysticeti)

A new extinct genus, F ragilicetus gen. nov. , is described here based on a partial skull of a baleen‐bearing whale from the Early Pliocene of the North Sea. Its type species is F ragilicetus velponi sp. nov. This new whale shows a mix of morphological characters that is intermediate between those of Eschrichtiidae and those of Balaenopteridae. A phylogenetic analysis supported this view and provided insights into some of the morphological transformations that occurred in the process leading to the origin of Balaenopteridae. Balaenopterid whales show specialized feeding behaviour that allows them to catch enormous amounts of prey. This behaviour is possible because of the presence of specialized anatomical features in the supraorbital process of the frontal, temporal fossa, glenoid fossa of the squamosal, and dentary. F ragilicetus velponi gen. et sp. nov. shares the shape of the supraorbital process of the frontal and significant details of the temporal fossa with Balaenopteridae but maintains an eschrichtiid‐ and cetotheriid‐like squamosal bulge and posteriorly protruded exoccipital. The character combination exhibited by this cetacean provides important information about the assembly of the specialized morphological features responsible for the highly efficient prey capture mechanics of Balaenopteridae. © 2015 The Linnean Society of London     

On the phylogeny of Ischyroceridae (Amphipoda,Senticaudata, Corophiida), with the description of a new genus and eight new species from deep‐sea Brazilian waters

The family Ischyroceridae is analysed herein by cladistic methods based on morphological characters, using both PAUP 4.0b and TNT. The data matrix of 41 characters × 32 terminal taxa was constructed using DELTA. Based on the results, we comment on the phylogenetic relationships of certain genera and their synapomorphic characters, also discussing the phylogenetic position of M yersius gen. nov. , which appeared as the sister group of Bathyphotis. In addition, Pseudischyrocerus crenatipes is removed to Bathyphotis, for which a new diagnosis is provided. A taxonomic study with the Ischyroceridae collected on the continental slope (depth, 700–2000 m) in the Campos Basin (20.5–24°S, 40–41°W) was also performed. Samples were collected in November–December 2002 and July–August 2003 using a box core device. As a result, a new genus and eight new species are described: B onnierella campensis sp. nov. , B onnierella laurensi sp. nov. , M yersius denticaudatus gen. et sp. nov. , N otopoma lowryi sp. nov. , N otopoma teresae sp. nov. , P seudericthonius bousfieldi sp. nov. , P seudericthonius concavus sp. nov. , and P seudischyrocerus caecus sp. nov. The genus Bonnierella is recorded for the first time from Brazilian waters, and the subspecies Bonnierella linearis linearis and Bonnierella linearis californica are elevated to species rank. Keys to the genera of Ischyroceridae used in the cladistic analysis and the world species of Notopoma are given. © 2014 The Linnean Society of London     

Phylogeny of the spider genus Ixchela Huber, 2000 (Araneae: Pholcidae) based on morphological and molecular evidence (CO1 and 16S), with a hypothesized diversification in the Pleistocene

The genus Ixchela Huber is composed of 20 species distributed from north‐eastern Mexico to Central America, including the five new species described here from Mexico: I xchela azteca sp. nov. , I xchela jalisco sp. nov. , I xchela mendozai sp. nov. , I xchela purepecha sp. nov. and I xchela tlayuda sp. nov. We test the monophyly and investigate the phylogenetic relationships among species of the genus Ixchela using morphological and molecular data. Parsimony (PA) analysis of 24 taxa and 40 morphological characters with equal and implied weights supported the monophyly of Ixchela with eight morphological synapomorphies. The PA analyses with equal and implied weights, and separate Bayesian inference (BI) analyses for the CO1 gene (506 characters), concatenated gene fragments CO1 + 16S (885 characters), morphology + CO1 (546 characters) and the combined evidence data set (morphology + CO1 + 16S) (925 characters) support the monophyly of Ixchela. Our preferred topology shows two large clades; clade 1 has a natural distribution in the Mesoamerican biotic component, whereas clade 2 predominates in the Mexican Montane biotic component. The genus Ixchela diverged in the late Miocene, and the divergence between the internal clades in the genus occurred in the late Pliocene; by contrast, most of the speciation events seem to have occurred mainly during the Pleistocene, where climatic changes brought on by repeated glaciations played an important role in the diversification of the genus. © 2015 The Linnean Society of London     

Four New Members of Foliicolous Green Algae Within the Watanabea Clade (Trebouxiophyceae,Chlorophyta) from China

Members of the Watanabea clade of Trebouxiophyceae are genetically diverse and widely distributed in all kinds of habitats, especially in most terrestrial habitats. Ten new strains of terrestrial algae isolated from the tropical rainforest in China, and four published strains were investigated in this study. Morphological observation and molecular phylogenetic analyses based on the 18S, ITS, rbcL, and tufA genes were used to identify the new strains. Four previously described species were reinvestigated to supplement molecular data and autospores’ morphological photographs. The phylogenetic analyses based on 18S only, the concatenated dataset of 18S and ITS, as well as the concatenated dataset of rbcL and tufA, showed the same phylogenetic positions and relationships of these new strains. According to the phylogenetic analysis and morphological comparisons results, we described these 10 strains as four new members within the Watanabea clade, Polulichloris yunnanensis sp. nov., Polulichloris ovale sp. nov., Massjukichlorella orientale sp. nov., and Massjukichlorella minus sp. nov., and two known species, Massjukichlorella epiphytica, and Mysteriochloris nanningensis. Additionally, we provide strong evidence proving that Phyllosiphon, Mysteriochloris, Polulichloris, and Desertella all reproduce through unequal sized autospores.     

New insight into the identification and molecular phylogeny of dagger nematodes of the genus Xiphinema (Nematoda: Longidoridae) with description of two new species

The genus Xiphinema constitutes a large group of about 260 species of plant‐ectoparasitic nematodes. The group is polyphagous and distributed almost worldwide. Some of the species of this genus damage agricultural crops by direct feeding on root cells as well as by transmitting nepoviruses. Species discrimination in Xiphinema is complicated by phenotypic plasticity leading to potential misidentification. We conducted nematode surveys in cultivated and natural environments in Spain from 2009 to 2012, from which we identified 20 populations of Xiphinema species morphologically close to the virus‐vector nematode species Xiphinema diversicaudatum, three apomictic populations tentatively identified as species from the complex Xiphinema aceri‐pyrenaicum group, and one population morphologically different from all others that is characterized by a female tail elongate to conical and absence of uterine differentiation. We developed comparative multivariate analyses for these related species by using morphological and morphometrical features together with molecular data from nuclear ribosomal DNA genes [D2‐D3 expansion segments of large ribosomal subunit 28S, internal transcribed spacer 1 (ITS1), and partial small ribosomal subunit (18S)]. The results of multivariate, molecular, and phylogenetic analysis confirmed the morphological hypotheses and allowed the delimitation and discrimination of two new species in the genus described herein as Xiphinema baetica sp. nov. and Xiphinema turdetanensis sp. nov. , and ten known species: Xiphinema adenohystherum, Xiphinema belmontense, Xiphinema cohni, Xiphinema coxi europaeum, Xiphinema gersoni, Xiphinema hispidum, Xiphinema italiae, Xiphinema lupini, Xiphinema nuragicum, and Xiphinema turcicum. Multivariate analyses based on quantitative and qualitative characters and phylogenetic relationships of Xiphinema spp. based on the three molecular ribosomal markers resulted in a partial consensus of these species grouping as nematode populations were maintained for the majority of morphospecies groups (e.g. morphospecies groups 5 and 6), but not in some others (e.g. position of Xiphinema granatum), demonstrating the usefulness of these analyses for helping in the diagnosis and identification of Xiphinema spp. The clade topology of phylogenetic trees of D2‐D3 and partial 18S regions in this study were congruent in supporting the polyphyletic status of some characters, such as the female tail shape and the degree of development of the genital system in species with both genital branches equally developed. This is the most complete phylogenetic study for Xiphinema non‐americanum‐group species. Agreement between phylogenetic trees and some morphological characters (uterine spines, pseudo‐Z organ, and tail shape) was tested by reconstruction of their histories on rDNA‐based trees using parsimony and Bayesian approaches. Thus, integrative taxonomy, based on the combination of multivariate, molecular analyses with morphology, constitutes a new insight into the identification of Xiphinema species. © 2013 The Linnean Society of London     

UPDATING THE GENUS DICTYOSPHAERIUM AND DESCRIPTION OF MUCIDOSPHAERIUM GEN. NOV. (TREBOUXIOPHYCEAE) BASED ON MORPHOLOGICAL AND MOLECULAR DATA1

Recent molecular analyses of Dictyosphaerium strains revealed a polyphyletic origin of this morphotype within the Chlorellaceae. The type species Dictyosphaerium ehrenbergianum Nägeli formed an independent lineage within the Parachlorella clade, assigning the genus to this clade. Our study focused on three different Dictyosphaerium species to resolve the phylogenetic position of remaining species. We used combined analyses of morphology; molecular data based on SSU and internally transcribed spacer region (ITS) rRNA sequences; and the comparison of the secondary structure of the SSU, ITS‐1, and ITS‐2 for species and generic delineation. The phylogenetic analyses revealed two lineages without generic assignment and two distinct clades of Dictyosphaerium‐like strains within the Parachlorella clade. One clade comprises the lineages with the epitype strain of D. ehrenbergianum Nägeli and two additional lineages that are described as new species (Dictyosphaerium libertatis sp. nov. and Dictyosphaerium lacustre sp. nov.). An emendation of the genus Dictyosphaerium is proposed. The second clade comprises the species Dictyosphaerium sphagnale Hindák and Dictyosphaerium pulchellum H. C. Wood. On the basis of phylogenetic analyses, complementary base changes, and morphology, we describe Mucidosphaerium gen. nov with the four species Mucidosphaerium sphagnale comb. nov., Mucidosphaerium pulchellum comb. nov., Mucidosphaerium palustre sp. nov., and Mucidosphaerium planctonicum sp. nov.     

Saurogobio punctatus sp. nov., a new cyprinid gudgeon (Teleostei: Cypriniformes) from the Yangtze River,based on both morphological and molecular data

A new cyprinid gudgeon, Saurogobio punctatus sp. nov., is described based on specimens collected from the Yangtze River, China. The new species can be distinguished from its congeners by differences in both morphology and the cytochrome b (cytb) gene sequence. Numerous minute blackish spots are scattered on dorsal and caudal fins in S. punctatus sp. nov. v. absent in the other seven valid Saurogobio species. The new species can be further distinguished from its congeners by the following unique combination of characters: a dorsal fin with eight branched rays; absence of scales in chest area before pectoral origin; upper and lower lips thick, covered with papillae; and a papillose mental pad approximately triangular. Morphologically, the new species most resembles the Chinese lizard gudgeon Saurogobio dabryi, but the new species lays yellowish adhesive eggs v. white pelagic eggs in S. dabryi. A phylogenetic analysis of all Saurogobio species based on cytb gene sequences indicated that S. punctatus sp. nov was distinctly separated from its congeners, with mean sequence divergence ranging from 12·6 to 21·0%. Therefore, molecular data further supported the distinctiveness of the new species.     

Cetopsis varii,a new species of whale catfish (Siluriformes: Cetopsidae) from the Meta Basin,Colombia

Cetopsis varii sp. nov. Cetopsidae (Cetopsinae) is described from the Río Meta basin in eastern Colombia, at middle portions of the Río Orinoco basin. The new species differs from congeners by a combination of features: the absence of a humeral spot, presence of eye, conical teeth on vomer and dentary and rounded posterior nares, along with details of body, dorsal and caudal‐fin pigmentation. The osteology of the new species is investigated through high‐resolution X‐ray computed tomography and cleared and stained specimens. Data thus obtained are used to code the new species for character states utilized in a previous phylogenetic analysis of Cetopsidae. Analysis of the expanded matrix shows that C. varii is the sister group to C. orinoco.     

The first recent species of the unusual brachiopod Kakanuiella (Thecideidae) from New Zealand deep waters

A new thecideid brachiopod species Kakanuiella chathamensis sp. nov. is described from deep waters on the Chatham Rise, east of South Island, New Zealand. The new species bears an unusual character combination in the shell morphology of its dorsal valve, displaying a mixture of diagnostic characters of both Recent thecideid subfamilies Thecidellininae and Lacazellinae. The resultant consequences for the systematic position of the genus Kakanuiella are discussed.