Reassessment of the Systematic Status of Miamira Bergh, 1875 and Orodoris Bergh, 1875 (Nudibranchia: Chromodorididae) in Light of Phylogenetic Analysis

The external morphology and anatomy of the opisthobranch gastropodsMiamira sinuata (van Hasselt, 1824) and Orodoris miamiranaBergh, 1875, the type species of the genera Miamira Bergh, 1875and Orodoris Bergh, 1875, and their phylogenetic relationshipsare studied. The phylogeny obtained supports the placement ofM. sinuata and O. miamirana in the genus Ceratosoma J. E. Gray, 1850.Therefore, Miamira and Orodoris become synonyms of the seniorvalid name Ceratosoma. In addition, the family name MiamiridaeBergh, 1891, based on Miamira, is newly recognized as a synonymof Chromodorididae Bergh, 1891. Ceratosoma sinuata and C. miamirana are more closely relatedto the highly derived Ceratosoma alleni than to other membersof the genus. C. miamirana appears to present reversal to theplesiomorphic state in the body shape and has secondarily lostits mantle glands. (Received 5 January 1998; accepted 23 April 1998)     

The genus Rostanga Bergh, 1879 (Nudibranchia: Dorididae) in the Indo-West Pacific

The genus Rostanga Bergh, 1879 is reviewed and ten species, seven of them new, are recognized from the Indo-West Pacific. They are compared with the three species of the genus known from elsewhere in the world. Most species are red or orange-red and the mantle is characterized by a dense covering of spiculate caryophyllidia. Species are characterized on aspects of the buccal armature, rhinophore club, egg-ring, developmental biology and food preferences. Each species has a specialized diet, most species restricted to one or a few sponges of the family Microcionidae.     

Systematic revision and phylogenetic analysis of the South American genus Chlorus (Orthoptera, Acridoidea, Melanoplinae)

The South American grasshopper genus Chlorus (Melanoplinae, Dichroplini) from Bolivia, southern Brazil and Paraguay is revised. Cladistic analysis of morphological characters indicates that Chlorus constitutes a monophyletic group whose generic relationships remain unsolved. If the external morphology is considered, Chlorus showed to be related to Dichromatos , while characters from the male genitalia support the relationship between Chlorus and Eurotettix. Seven species are recognised for Chlorus with three of them described as new: Chlorus spatulus, Ch. chiquitensis and Ch. attenuatus . Keys to the species of the genus and a review of the morphological characters defining the taxa are provided.     

Die Gattung Bathydoris Bergh, 1884 (Gnathodoridacea) im phylogenetischen System der Nudibranchia (Opisthobranchia, Gastropoda)

The genus Bathydoris Bergh, 1884 (Gnathodoridacea) in the phylogenetic system of the Nudibranchia (Opisthobranchiu, Gastropoda) The position of the genus Bathydoris Bergh, 1884 in the phylogenetic system of the Nudibranchia is discussed. Doridoxa Bergh, 1900, a genus which is assigned to the taxon Gnathodoridacea together with the genus Bathydoris, is taken out from this taxon, lacking snapomorphies. Doridoxa is considered to be a sister grou of the Euctenidiacea, with the transrormation of the right digestive gland into a caecum as the only synaomorphy with the latter. The Gnathodoridacea with the one enus Bathydoris is removed from the taxon Doridacea and considered to be the sister group or the latter. Gnathodoridacea and Doridacea form the taxon Euctenidiacea with the synapomorphy “dorsomedial position of anus and nephroproct”.     

Taxonomic revision and phylogenetic analysis of the flightless Mancallinae (Aves, Pan-Alcidae)

Although flightless alcids from the Miocene and Pliocene of the eastern Pacific Ocean have been known for over 100 years, there is no detailed evaluation of diversity and systematic placement of these taxa. This is the first combined analysis of morphological and molecular data to include all extant alcids, the recently extinct Great Auk Pinguinus impennis, the mancalline auks, and a large outgroup sampling of 29 additional non-alcid charadriiforms. Based on the systematic placement of Mancallinae outside of crown clade Alcidae, the clade name Pan-Alcidae is proposed to include all known alcids. An extensive review of the Mancallinae fossil record resulted in taxonomic revision of the clade, and identification of three new species. In addition to positing the first hypothesis of inter-relationships between Mancallinae species, phylogenetic results support placement of Mancallinae as the sister taxon to all other Alcidae, indicating that flightlessness evolved at least twice in the alcid lineage. Convergent osteological characteristics of Mancallinae, the flightless Great Auk, and Spheniscidae are summarized, and implications of Mancallinae diversity, radiation, and extinction in the context of paleoclimatic changes are discussed.     

Advantages of naming species under the PhyloCode: An example of how a new species of Discodorididae (Mollusca, Gastropoda, Euthyneura, Nudibranchia, Doridina) may be named

A new species of Discodorididae is described from the Pacific coasts of Mexico and Panama. It is named using a modified version of the epithet-based nomenclature proposed by Url Lanham 40 years ago. The species described here can be placed confidently in the clade Discodorididae, but not in any of its subclades (traditionally taxa of genus rank). The unique, epithet-based name of the species is “aliciae Dayrat, 2005”. The combination Discodorididae aliciae may also be used, once the unique, epithet-based name has been cited. Discodorididae aliciae is an example of how a new species of Discodorididae could be named in the context of phylogenetic nomenclature. I argue that epithet-based species names and their combinations with clade addresses should be very appealing to people who think phylogenetically. I also discuss two advantages of such combinations: first, they should be more stable than Linnaean binomials, which often change for arbitrary (e.g. non-phylogenetic) reasons; second, they should help taxonomists avoid creating multiple names for the same species.     

Molecular and morphological phylogenetic analysis of Brachiaria and Urochloa (Poaceae)

The taxonomic relationships of Brachiaria and Urochloa have been questioned based on previous morphological studies. In this paper, we reconsider the phylogenetic relationships of these genera using 22 species of Brachiaria and Urochloa and six species of Paniceae as out-groups. The ITS1, 5.8S, and ITS2 region (internal transcribed spacer) of nuclear ribosomal DNA and eight morphological characters of the inflorescence were compiled into a data matrix. The cladistic analyses suggest that Urochloa-Brachiaria as a complex is paraphyletic with Eriochloa and Melinis. Species of all these genera share molecular synapomorphies and belong to the same monophyletic groups. The results confirm the continuous gradation between those genera previously found in several morphological studies. Therefore, the following eight new combinations are made: Urochloa bovonei (Chiov.) A.M. Torres & C.M. Morton, Urochloa dura (Stapf) A.M. Torres & C.M. Morton, Urochloa dura var. dura (Stapf) A.M. Torres & C.M. Morton, Urochloa dura var. pilosa (J.G. Anderson) A.M. Torres & C.M. Morton, Urochloa lachnantha (Hochst.) A.M. Torres & C.M. Morton, Urochloa leersioides (Hochst.) A.M. Torres & C.M. Morton, Urochloa nigropedata (Munro ex Ficalho & Hiern) A.M. Torres & C.M. Morton, and Urochloa subulifolia (Mez) A.M. Torres & C.M. Morton.     

A revision of Platybothrium Linton, 1890 (Tetraphyllidea: Onchobothriidae), with a phylogenetic analysis and comments on host-parasite associations

A revision of Platybothrium Linton, 1890 is presented, based on available type and voucher material, as well as extensive new collections from elasmobranchs belonging to the Carcharhinidae (requiem sharks) and Sphyrnidae (hammerhead sharks). All 10 nominal Platybothrium species are treated or redescribed herein. Four of these 10 nominal species, in addition to one former member of Dicranobothrium Euzet, 1953, are considered valid members of Platybothrium. Five new Platybothrium species are described: P. angelbahiense n. sp. ex Carcharhinus leucas, P. coshtaprum n. sp. ex C. plumbeus, P. jondoeorum n. sp. ex Negaprion acutidens and C. melanopterus, P. kirstenae n. sp. ex C. obscurus, and P. tantulum n. sp. ex Sphyrna lewini and S. zygaena. Sixty-three morphological characters were employed in cladistic analyses of nine Platybothrium species and five outgroup species. Coding and analysis strategies were varied to assess the effects of coding inapplicable characters as missing or as a separate character state, and of excluding characters for which data are missing in more than 10% of the taxa. The analysis in which inapplicable characters were coded as a separate character state and no characters were excluded produced the best-supported and most conservative estimate of the interrelationships of Platybothrium spp. Platybothrium appears to be a monophyletic assemblage, with the most basal species being P. spinulifera Southwell, 1912. The group of species possessing an accessory piece between the hooks forms a clade within the genus. Species lacking an accessory piece, which had previously been placed in Dicranobothrium Euzet, 1953, do not appear to be each other's closest relatives; thus, Dicranobothrium is considered a synonym of Platybothrium. An examination of host associations indicated that Platybothrium species are broadly distributed among, and entirely restricted to, carcharhinid and sphyrnid shark species. Most Platybothrium species exhibit oioxenous host-specificity, with all but two species each parasitising only a single host species. In several host species, multiple Platybothrium congeners parasitise the same host individual, a phenomenon not previously reported for Platybothrium.     

Beyond a morphological paradox: complicated phylogenetic relationships of the parrotbills (Paradoxornithidae, Aves)

The parrotbills (Paradoxornithidae, meaning "birds of paradox," Aves) are a group of Old World passerines with perplexing taxonomic histories due to substantial morphological and ecological variation at various levels. In this study, phylogenetic relationships of the parrotbills were reconstructed based on sequences of two mitochondrial segments and three nuclear coding regions. Three major clades with characteristic body size and plumage coloration were found in both mtDNA and nuclear gene trees. However, mtDNA phylogeny suggested that the Paradoxornithidae is paraphyletic and relationships among three major parrotbill clades were poorly resolved. On the contrary, apparent and well-supported monophyletic relationships among the three major clades of Paradoxornithidae were revealed by concatenated nuclear dataset. Since paraphyly based on mtDNA data has commonly been found within avian taxa, the conflicting phylogenetic signal between mtDNA and nuclear loci revealed in this study indicates that results obtained from mtDNA dataset alone need to be evaluated with caution. Taxonomic implications of our phylogenetic findings are discussed. These phylogenies also point out areas for future investigation regarding the rapid diversification, morphological evolution and environmental adaptation of various parrotbill species or species complexes.     

A phylogenetic analysis of the Neotropical riodinid butterfly genera Juditha, Lemonias, Thisbe and Uraneis, with a revision of Juditha (Lepidoptera: Riodinidae: Nymphidiini)

Abstract. A cladistic analysis is presented for all twenty-four species in the Neotropical riodinid butterfly genera Juditha Hemming, Lemonias Hübner, Thisbe Hübner and Uraneis Bates based on sixty-nine characters of male and female morphology and external facies, and utilizing Audre domina Bates as the outgroup. All characters are illustrated. The analysis confirms the monophyly of Juditha and Uraneis , but indicates that Lemonias is polyphyletic and Thisbe is paraphyletic with respect to Uraneis , leading us to synonymize Uraneis with Thisbe (syn.n.). Juditha is found to be the sister clade to true Lemonias + ( Thisbe + Uraneis ). A revision of Juditha is presented which includes discussions on the taxonomy, biology and distribution of its species, and illustrations of the adults and male and female genitalia of all taxa and the early stages of an exemplar, J. caucana . Eight species are recognized in Juditha , including two, J. naza and J. inambari , which are described as new. The following new generic combinations are made: rubigo Bates is transferred from Juditha to Pachythone Bates; agave Godman & Salvin and leucogonia Stichel are transferred from Lemonias to Pseudonymphidia Callaghan; ochracea Mengel, theodora Godman and albofasciata Godman are transferred from Audre Hemming to Lemonias; fenestrella Lathy is transferred from Thisbe to Synargis Hübner; hyalina Butler, ucubis Hewitson and incubus Hall, Lamas & Willmott are transferred from Uraneis to Thisbe; and odites Cramer (= phylleus Auctt.) is transferred from Synargis to Juditha (comb.n.).     

Systematic revision ofErodium (Geraniaceae) in Egypt

A key is provided for the 14Erodium species of the Egyptian flora. The important differential chracters of leaf, inflorescence, flower, and fruit are discussed and illustrated.Systematic Revision ofGeraniaceae in Egypt, I.     

Systematic revision of the genus Aglyptodactylus Boulenger, 1919 (Amphibia: Ranidae), and analysis of its phylogenetic relationships to other Madagascan ranid genera (Tomopterna, Boophis, Mantidactylus, and Mantella)

Recent field studies revealed two new species of the genus Aglyptodactylus (Amphibia: Anura: Ranidae), which was hitherto considered as monotypic and confined to humid eastern Madagascar. Both new species, Aglyptodactylus laticeps sp. n. and Aglyptodactylus securifer sp. n. , occur syntopically in the deciduous dry forest of Kirindy in western Madagascar. In comparison to Aglyptodactylus madagascariensis from eastern rainforests, the new species A. laticeps shows a remarkable morphological divergence, which may be partly due to adaptations to burrowing habits in dry environments. Despite of the morphological differentiation, advertisement calls and osteology indicate that all three species of Aglyptodactylus are closely related. A phylogenetic analysis of the Madagascan ranid genera Aglyptodactylus, Mantella, Mantidactylus, Boophis , and Tomopterna (the latter including species from Madagascar, Africa, and Asia) strongly supports a sister group relationship of Aglyptodactylus with the ranine genus Tomopterna . We therefore transfer Aglyptodactylus from the Rhacophorinae to the Raninae and discuss implications of this rearrangement for ranoid systematics. The existence of the endemic genus Aglyptodactylus in Madagascar as well as its close phylogenetic relationships to Tomopterna confirm that the Raninae were already present on the Madagascan plate before its separation from Africa. The Madagascan Tomopterna labrosa shows several important differences both to Asian and to African species of the genus, and is therefore transferred from the subgenus Sphaerotheca (now restricted to Asia) to a new subgenus Laliostoma subgen. n .     

The revision of species-rich genera: a phylogenetic framework for the strategic revision of Pilea (Urticaceae) based on cpDNA, nrDNA, and morphology

The revision of species-rich genera underpins research and supports the sustainable use and monitoring of biological diversity. One fifth to one quarter of the diversity of all seed plant species occurs in such genera, but difficulties with the revision of species-rich genera has resulted in many of them being ignored since the late 1800s. Pilea, with 600-715 species is in need of revision. The only realistic approach is in manageable subunits, which requires confirmation of monophyly and identification of monophyletic subdivisions. Parsimony analyses of trnL-F, ITS, and morphology data were used to test the monophyly of, and explore intrageneric relationships within, Pilea. Analysis of trnL-F data confirms and recovers two morphologically diagnosable monophyletic clades that include all of the taxa within Pilea. Overlaying geographic distribution on a most parsimonious tree indicates a strong association between geography and phylogenetic relatedness. It is suggested that a strategic revision within the framework of morphologically and geographically diagnosable units might enable the revision of the group using an iterative approach. Analysis of the outgroup taxa supports the inclusion of Poikilospermum within the Urticaceae and suggests that the Urticaceae tribes could be placed into two clades that are supported by floral morphology.     

A phylogenetic analysis of the Gruiformes (Aves) based on morphological characters,with an emphasis on the rails (Rallidae)

The order Gruiformes, for which even familial composition remains controversial, is perhaps the least well understood avian order from a phylogenetic perspective. The history of the systematics of the order is presented, and the ecological and biogeographic characteristics of its members are summarized. Using cladistic techniques, phylogenetic relationships among fossil and modern genera of the Gruiformes were estimated based on 381 primarily osteological characters; relationships among modern species of Grues (Psophiidae, Aramidae, Gruidae, Heliornithidae and Rallidae) were assessed based on these characters augmented by 189 characters of the definitive integument. A strict consensus tree for 20,000 shortest trees compiled for the matrix of gruiform genera (length = 967, CI = 0.517) revealed a number of nodes common to the solution set, many of which were robust to bootstrapping and had substantial support (Bremer) indices. Robust nodes included those supporting: a sister relationship between the Pedionomidae and Turnicidae; monophyly of the Gruiformes exclusive of the Pedionomidae and Turnicidae; a sister relationship between the Cariamidae and Phorusrhacoidea; a sister relationship between a clade comprising Eurypyga and Messelornis and one comprising Rhynochetos and Aptornis; monophyly of the Grues (Psophiidae, Aramidae, Gruidae, Heliornithidae and Rallidae); monophyly of a clade (Gruoidea) comprising (in order of increasingly close relationship) Psophia, Aramus, Balearica and other Gruidae, with monophyly of each member in this series confirmed; a sister relationship between the Heliornithidae and Rallidae; and monophyly of the Rallidae exclusive of Himantornis. Autapomorphic divergence was comparatively high for Pedionomus, Eurypyga, Psophia, Himantornis and Fulica; extreme autapomorphy, much of which is unique for the order, characterized the extinct, flightless Aptornis. In the species-level analysis of modern Grues, special efforts were made to limit the analytical impacts of homoplasy related to flightlessness in a number of rallid lineages. A strict consensus tree of 20,000 shortest trees compiled (length = 1232, CI = 0.463) confirmed the interfamilial relationships resolved in the ordinal analysis and established a number of other, variably supported groups within the Rallidae. Groupings within the Rallidae included: monophyly of Rallidae exclusive of Himantornis and a clade comprising Porphyrio (including Notornis) and Porphyrula; a poorly resolved, basal group of genera including Gymnocrex, Habroptila, Eulabeornis, Aramides, Canirallus and Mentocrex; an intermediate grade comprising Anurolimnas, Amaurolimnas, and Rougetius; monophyly of two major subdivisions of remaining rallids, one comprising Rallina (paraphyletic), Rallicula, and Sarothrura, and the other comprising the apparently paraphyletic ''long-billed'' rails (e.g. Pardirallus, Cyanolimnas, Rallus, Gallirallus and Cabalus and a variably resolved clade comprising ''crakes'' (e.g. Atlantisia, Laterallus and Porzana, waterhens (Amaurornis), moorhens (Gallinula and allied genera) and coots (Fulica). Relationships among ''crakes'' remain poorly resolved; Laterallus may be paraphyletic, and Porzana is evidently polyphyletic and poses substantial challenges for reconciliation with current taxonomy. Relationships among the species of waterhens, moorhens and coots, however, were comparatively well resolved, and exhaustive, fine-scale analyses of several genera (Grus, Porphyrio, Aramides, Rallus, Laterallus and Fulica) and species complexes (Porphyrio porphyrio -group,Gallirallus philippensis -group and Fulica americana -group) revealed additional topological likelihoods. Many nodes shared by a majority of the shortest trees under equal weighting were common to all shortest trees found following one or two iterations of successive weighting of characters. Provisional placements of selected subfossil rallids (e.g. Diaphorapteryx, Aphanapteryx and Capellirallus ) were based on separate heuristic searches using the strict consensus tree for modern rallids as a backbone constraint. These analyses were considered with respect to assessments of robustness, homoplasy related to flightlessness, challenges and importance of fossils in cladistic analysis, previously published studies and biogeography, and an annotated phylogenetic classification of the Gruiformes is proposed.     

A statistical morphological analysis and taxonomic revision of the genus Xiphophora (Fucaceae)

RICE, E. L., 1989. A statistical morphological analysis and taxonomic revision of the genus Xiphophora (Fucaceae). Xiphophora is a brown seaweed endemic to the cool temperature rocky shores of Australia and New Zealand. The two species, X. chondrophylla and X. gladiata have previously been separated by morphological criteria. However, the differences betweeen them in these characters were largely size-related, resulting in taxonomic confusion. In particular, the presence of X. gladiata in New Zealand has been disputed. In this study, a series of discriminant function analyses were performed, based on a suite of morphological characters collected from each species throughout a major portion of their geographic ranges. The results show conclusively that the present taxonomy of Xiphophora is untenable. This genus is composed of two species, but these are distributed latitudinally (either side of the 40^oS parallel). Each species contains two allopatric subspecies; one in Australia and the other in New Zealand. A formal taxonomic revision of the genus is presented.     

First phylogenetic analysis of the tribe Oligaphorurini (Collembola: Onychiuridae) inferred from morphological data,with implications for generic classification

Oligaphorurini represent tribe of the subfamily Onychiurinae, which currently comprises 5 genera and 53 species. The present study evaluated the monophyly of Oligaphorurini genera. We investigated phylogenetic relationships among 39 species, representing all extant genera of Oligaphorurini. Both equal- and implied-weighting parsimony analyses were used in phylogenetic reconstruction. The cladistic analyses were based on comprehensive survey of adults’ morphological characters because specimens suitable for molecular studies were not available for the majority taxa. The phylogenetic analysis resulted in the recognition of a monophyletic Chribellphorura, and strongly supported non-monophyly of the previously recognized genera Archaphorura, Dimorphaphorura, Micraphorura, and Oligaphorura. The following new synonymy is recognized: Oligaphorura = Dimorphaphorura syn. nov., = Micraphorura syn. nov., = Archaphorura syn. nov. The general classification of Oligaphorurini is followed by the diagnoses of genera and key to the all known species.     

Systematic revision of Myristicaceae (Magnoliales) in Madagascar, with four new species of Mauloutchia

The systematics of Malagasy Myristicaceae is revised to take into account new collections made since the work by Capuron in the 1970s, as well as improved knowledge from fieldwork and two scanning electron microscopy studies by the author. Four new species are described: Mauloutchia annickiae Sauquet, M. capuronii Sauquet, M. echinocarpa Capuron ex Sauquet, and M. sambiranensis (Capuron) Sauquet. In addition, basic information is given for each remaining Malagasy species of the family (synonymy, type specimen, updated distribution and main distinctive features). According to this treatment, Malagasy Myristicaceae now consist of four endemic genera and 15 species: Brochoneura Warb. (three species), Doyleanthus Sauquet (one species), Haematodendron Capuron (one species) and Mauloutchia (Baill.) Warb. (ten species). Two identification keys to these species are provided: one based primarily on fruit characters and one based primarily on male flower and inflorescence characters. Putative phylogenetic relationships among these species are also indicated, based on a previous combined morphological and molecular study by the author.  © 2004 The Linnean Society of London, Botanical Journal of the Linnean Society , 2004, 146 , 351–368.     

Polyphyly across oceans: a molecular phylogeny of the Chromodorididae (Mollusca, Nudibranchia)

The Chromodorididae is a large and colourful family of nudibranch sea slugs distributed across the world's oceans. Most diversity is centred in the Indo-Pacific, but several genera are present in multiple ocean basins, or across regions separated by biogeographical barriers. The monophyly of these widespread genera had not been tested previously. We used 18S rDNA, 16S rDNA and COI sequence data to generate a molecular phylogeny for this group. We recovered evidence of paraphyly or polyphyly in all of the widespread genera examined ( Hypselodoris , Mexichromis , Chromodoris and Glossodoris ). East Atlantic Hypselodoris and west Atlantic + east Pacific Mexichromis species were more closely related to each other than they were to their Indo-Pacific congeners. The addition of Southern Ocean species of Digidentis demonstrated an interesting alternative to this relationship, becoming the sister group for the east Atlantic Hypselodoris on the basis of 16S and 18S data, but not COI data. Sister group relationships were recovered for most monotypic or enigmatic genera. Ardeadoris is linked to Glossodoris , as is Diversidoris ; Pectenodoris is sister to the Indo-Pacific Mexichromis clade, and Verconia is the sister to Noumea haliclona . Controversy surrounding the placement of the three most basal genera was only partially resolved. Using Actinocyclus to root the mitochondrial trees, Cadlinella was the unsupported sister to the Chromodorididae (excluding Cadlina ), and Tyrinna occupied a relatively basal position, although this also did not receive significant statistical support. Adding nuclear 18S data gave support for Cadlina as the sister group to the rest of the Chromodorididae s.s. Otherwise, like previous molecular studies, mitochondrial genes supported an alternative position for Cadlina (with other dorid genera).