A molecular phylogeny of the lichen genus Biatora including some morphologically similar species

2014 ◽  
Vol 46 (3) ◽  
pp. 441-453 ◽  
Author(s):  
Christian PRINTZEN
Keyword(s):  
New Species ◽  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Tree Bark ◽  
Similar Species ◽  
New Combinations ◽  
Distributional Range ◽  
Species Groups ◽  
Crustose Lichens

AbstractThe lichen genus Biatora comprises inconspicuous crustose lichens that are typically found on organic substrata such as tree bark, bryophytes and detritus. During the last 20 years many new species have been added to the genus making its delimitation more and more difficult. The infrageneric relationships of the 42 species have never been investigated thoroughly. Using DNA sequences from three gene loci (ITS, RPB2, mrSSU) and 59 OTUs, an attempt was made to reconstruct the phylogenetic relationships of Biatora and its infrageneric groups. Cliostomum appears to be the closest relative of Biatora. The position of Mycobilimbia in the Lecania-clade is confirmed. Phylogenetic relationships within Biatora are poorly supported, but six different species groups that are also phenotypically distinguished are more or less well supported: the vernalis-, meiocarpa-, hertelii-, ocelliformis-, beckhausii- and rufidula- groups. The analysis also confirms the presence of several undescribed taxa. Biatora subduplex as currently circumscribed appears to be heterogeneous, as does B. helvola. Based on the phylogeny, the distributional range of B. alaskana is extended to Japan. The new combinations Biatora ementiens (Nyl.) Printzen and Biatora hemipolia (Nyl.) S. Ekman & Printzen are made and both names are typified.

Revision of the genus Elaphropeza Macquart (Diptera: Hybotidae)  from the Oriental Region, with a special attention to the fauna of Singapore

Zootaxa ◽  
2007 ◽  
Vol 1488 (1) ◽  
pp. 1-164 ◽  
Author(s):  
IGOR V. SHAMSHEV ◽  
PATRICK GROOTAERT
Keyword(s):  
New Species ◽  
Phylogenetic Relationships ◽  
Indian Subcontinent ◽  
Chinese Mainland ◽  
New Combinations ◽  
Check List ◽  
Oriental Region ◽  
The Chinese Mainland ◽  
Species Groups ◽  
A New Species

The genus Elaphropeza Macquart from the Oriental region is revised. In addition to the 79 known species (including seven new combinations of species previously placed within Drapetis Meigen) 51 new species are described and illustrated. The study is mainly based on freshly collected material in Singapore (544 samples, year cycle in eight stations and numerous hand captures). Smaller samples were available from Malaysia, Thailand and Cambodia. Of the 51 new species only 43 have been given a name: E. acantha sp. nov., E. asexa sp. nov., E. asiophila sp. nov., E. belumut sp. nov., E. benitotani sp. nov., E. bezzii sp. nov., E. bulohensis sp. nov., E. chekjawa sp. nov., E. combinata sp. nov., E. crassicercus sp. nov., E. darrenyeoi sp. nov., E. demeijerei sp. nov., E. equalis sp. nov., E. feminata sp. nov., E. flavicaput sp. nov., E. furca sp. nov., E. limosa sp. nov., E. luanae sp. nov., E. luteoides sp. nov., E. malayensis sp. nov., E. meieri sp. nov., E. melanderi sp. nov., E. modesta sp. nov., E. monacantha sp. nov., E. monospina sp. nov., E. murphyi sp. nov., E. neesoonensis sp. nov., E. ngi sp. nov., E. pauper sp. nov., E. pluriacantha sp. nov., E. riatanae sp. nov., E. sime sp. nov.,E. singaporensis sp. nov., E. singulata sp. nov., E. sivasothii sp. nov., E. spicata sp. nov., E. spiralis sp. nov., E. sylvicola sp. nov., E. temasek sp. nov., E. tiomanensis sp. nov., E. ubinensis sp. nov., E. yangi sp. nov., E. yeoi sp. nov. Eight species known only as females are briefly diagnosed but not named. Species (including type materials in most cases) described by C.R. Osten-Sacken, M. Bezzi, J.C.H. de Meijere, R. Senior-White, A.L. Melander and K.G.V. Smith were examined and re-described. Neotypes have been designated for E. calcarifera Bezzi, E. melanura Bezzi, E. formosae Bezzi and E. scutellaris Bezzi. Elaphropeza exul Osten-Sacken, 1882 is transferred as Crossopalpus exul (Osten-Sacken) comb. nov. Elaphropeza formosae Bezzi sensu Quate, 1960 re-described by L.W. Quate from Micronesia, is considered a new species and a new name is given: E. quatei sp. nov. All species of Elaphropeza are divided into two main species groups: E. biuncinata group and E. ephippiata group. Phylogenetic relationships within Elaphropeza are provisionally outlined. Some interesting morphological features and phenology of the species are discussed. Fourteen species have been found exclusively in mangroves. A key is given to the species of the Oriental Region (Indian subcontinent, Southeast Asia, Philippines and Taiwan, but excluding certain species of the Chinese mainland that proved to be different from the rest of the Oriental Region). A check list of the Oriental species is provided.

scholarly journals A new species of Tropidophis (Squamata: Tropidophiidae) and molecular phylogeny of the Cuban radiation of the genus

2020 ◽  
pp. 1-19
Author(s):  
Luis M. Díaz ◽  
Antonio Cádiz
Keyword(s):  
New Species ◽  
Molecular Phylogeny ◽  
Phylogenetic Relationships ◽  
Molecular Data ◽  
Tree Topology ◽  
Eastern Region ◽  
Number Of Species ◽  
Species Groups ◽  
A New Species

Cuba has the highest diversity of snakes in the genus Tropidophis, representing 53 % of all the known species. Tropidophis steinleini sp. nov. is described from the eastern region of Cuba, raising the number of species to 17 in this archipelago. The new species is most closely related to T. wrighti, T. spiritus and T. morenoi. We discuss the phylogenetic relationships of this new species and other species of the genus in Cuba, based on molecular data, and classified them within three species groups according to the obtained tree topology.

Two new genera of Oriental xyleborine ambrosia beetles (Coleoptera, Curculionidae: Scolytinae)

Zootaxa ◽  
2020 ◽  
Vol 4722 (6) ◽  
pp. 540-554 ◽  
Author(s):  
ANTHONY I. COGNATO ◽  
SARAH M. SMITH ◽  
ROGER A. BEAVER
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Dna Sequences ◽  
Distinct Species ◽  
Sequence Difference ◽  
New Combinations ◽  
New Genera ◽  
Diagnostic Characters ◽  
Species Groups ◽  
Three New Species

As part of an ongoing revision of the Southeast Asian fauna two distinct species groups were identified and hypothesized as new genera. These species groups were monophyletic as evidenced by a Bayesian analysis of DNA sequences from four genes for 181 xyleborine taxa augmented by 18 species newly included in this phylogenetic analysis. The species groups and newly discovered species demonstrated unique combinations of diagnostic characters and levels of DNA sequence difference commensurable to other xyleborine taxa. Hence, two new genera and three new species were described: Fraudatrix gen. n., Tricosa gen. n., Tricosa cattienensis sp. n., T. indochinensis sp. n., T. jacula sp. n.. The following new combinations are proposed: Fraudatrix cuneiformis (Schedl, 1958) (Xyleborus) comb. n., Fraudatrix melas (Eggers, 1927) comb. n., F. pileatula (Schedl, 1975) (Xyleborus) comb. n., F. simplex (Browne, 1949), (Cryptoxyleborus) comb. n., Tricosa mangoensis (Schedl, 1942) (Xyleborus) comb. n., T. metacuneola (Eggers, 1940) (Xyleborus) comb. n. Keys to the females of the species included in the new genera are presented. Diagnostic characters are given for the genera and species, and the distribution and biology of each taxon is discussed. The addition of these new genera increases the number of recognized genera of Xyleborini to 41. 

scholarly journals Benchmarking DNA barcodes: an assessment using available primate sequences

Genome ◽  
2006 ◽  
Vol 49 (7) ◽  
pp. 851-854 ◽  
Author(s):  
Mehrdad Hajibabaei ◽  
Gregory AC Singer ◽  
Donal A Hickey
Keyword(s):  
New Species ◽  
Cryptic Species ◽  
Dna Barcoding ◽  
Species Identification ◽  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Primate Species ◽  
Dna Barcodes ◽  
Global Biodiversity ◽  
Efficient Sequence

DNA barcoding has been recently promoted as a method for both assigning specimens to known species and for discovering new and cryptic species. Here we test both the potential and the limitations of DNA barcodes by analysing a group of well-studied organisms—the primates. Our results show that DNA barcodes provide enough information to efficiently identify and delineate primate species, but that they cannot reliably uncover many of the deeper phylogenetic relationships. Our conclusion is that these short DNA sequences do not contain enough information to build reliable molecular phylogenies or define new species, but that they can provide efficient sequence tags for assigning unknown specimens to known species. As such, DNA barcoding provides enormous potential for use in global biodiversity studies.Key words: DNA barcoding, species identification, primate, biodiversity.

Contributions to Molecular Phylogeny of Lichen-Forming Fungi 2. Review of Current Monophyletic Branches of the Family Physciaceae

2021 ◽  
Vol 63 (3-4) ◽  
pp. 351-390
Author(s):  
S. Y. Kondratyuk ◽  
L. Lőkös ◽  
I. Kärnefelt ◽  
A. Thell ◽  
M.-H. Jeong ◽  
...  
Keyword(s):  
Costa Rica ◽  
Molecular Phylogeny ◽  
Type Species ◽  
Lichen Species ◽  
New Combinations ◽  
Phylogeny Analysis ◽  
The Family ◽  
Crustose Lichens ◽  
First Time ◽  
Combined Matrix

Seven genera new to science, i.e.: Helmutiopsis, Huriopsis, Johnsheardia, Klauskalbia, Kudratovia, Kurokawia and Poeltonia of the Physciaceae are proposed for the ‘Rinodina’ atrocinerea, the ‘Rinodina’ xanthophaea, the ‘Rinodina’ cinnamomea, the ‘Heterodermia’ obscurata, the ‘Rinodina’ straussii, the ‘Anaptychia’ isidiata and the ‘Physconia’ grisea groups consequently that all form strongly supported monophyletic branches in a phylogeny analysis based on a combined matrix of nrITS and mtSSU sequences. Phylogenetic positions of species belonging to the genera Kashiwadia s. l., Leucodermia, Mischoblastia,Oxnerella, Phaeorrhiza s. l., Polyblastidium and Rinodinella s. l. are discussed. Oxnerella afghanica which for the first time recorded as parasitic lichen species from both epiphytic and saxicolous crustose lichens is designated as type species for the genus Oxnerella. Sequences of the recently described Physcia orientostellaris as well as Huriopsis xanthophaea and additional sequences of Kashiwadia aff. orientalis and Mischoblastia aff. oxydata are submitted to the GenBank. The positions of Polyblastidium casaterrinum from Costa Rica, ‘Rinodina’ efflorescens from Białowieża, Poland, and ‘Mischoblastia’ confragosula from Cambodia in the Physciaceae are confirmed in a phylogeny analysis based on the nrITS sequences. The presence of ‘extraneous mycobiont DNA’ in lichen associations is exemplified with earlier incorrect identifications of Heterodermia, Kashiwadia, Kurokawia,Oxnerella and Poeltonia specimens. Fifty-six new combinations are presented: Helmutiopsis alba (for Rinodina alba Metzler ex Arn.), Helmutiopsis aspersa (for Lecanora aspersa Borrer), Helmutiopsis atrocinerea (for Parmelia atrocinerea Fr.), Huriopsis chrysidiata (for Rinodina chrysidiata Sheard), Huriopsis chrysomelaena (for Rinodina chrysomelaena Tuck.), Huriopsis lepida (for Lecanora lepida Nyl.), Huriopsis luteonigra (for Rinodina luteonigra Zahlbr.), Huriopsis plana (for Rinodina plana H. Magn.), Huriopsis thiomela (for Lecanora thiomela Nyl.), Huriopsis xanthomelana (for Rinodina xanthomelana Müll. Arg.), Huriopsis xanthophaea (for Lecanora xanthophaea Nyl.), Johnsheardia cinnamomea (for Rinodina mniaroea var. cinnamomea Th. Fr.), Johnsheardia herteliana (for Rinodina herteliana Kaschik), Johnsheardia jamesii (for Rinodina jamesii H. Mayrhofer), Johnsheardia reagens (for Rinodina reagens Matzer et H. Mayrhofer), Johnsheardia zwackhiana (for Lecanora zwackhiana Kremp.), Kashiwadia austrostellaris (for Physcia austrostellaris Elix), Kashiwadia jackii (for Physcia jackii Moberg), Kashiwadia littoralis for Physcia littoralis Elix), Kashiwadia nubila (for Physcia nubila Moberg), and Kashiwadia tropica (for Physcia tropica Elix), Klauskalbia crocea (for Heterodermia crocea R. C. Harris), Klauskalbia flabellata (for Parmelia flabellata Fée), Klauskalbia obscurata (for Physcia speciosa (Wulfen) Nyl. *obscurata Nyl.), Klauskalbia paradoxa (for Heterodermia paradoxa Schumm et Schäfer-Verwimp), Kudratovia bohlinii (for Rinodina bohlinii H. Magn.), Kudratovia candidogrisea (for Rinodina candidogrisea Hafellner, Muggia et Obermayer), Kudratovia luridata (for Buellia luridata Körb.), Kudratovia metaboliza (for Rinodina metaboliza Vain.), Kudratovia pycnocarpa (for Rinodina pycnocarpa H. Magn.), Kudratovia roscida (for Lecanora roscida Sommerf.), Kudratovia straussii (for Rinodina straussii J. Steiner), Kudratovia terrestris (for Rinodina terrestris Tomin), Kurokawia bryorum (for Anaptychia bryorum Poelt), Kurokawia isidiata (for Anaptychia isidiata Tomin), Kurokawia mereschkowskii (for Physcia mereschkowskii Tomin), Kurokawia palmulata (for Psoroma palmulatum Michx.), Kurokawia runcinata (for Lichen runcinatus With.), Kurokawia stippea (for Parmelia aquila var. stippea Ach.), Lecania safavidiorum (for Oxnerella safavidiorum S. Y. Kondr., Zarei-Darki, Lőkös et Hur), Leucodermia erinacea (for Lichen erinaceus Ach.), Mischoblastia confragosula (for Lecanora confragosula Nyl.), Mischoblastia destituta (for Lecidea destituta Nyl.), Mischoblastia moziana (for Lecanora moziana Nyl.), Mischoblastia moziana subsp. parasitica (comb. et stat. nova for Rinodina moziana var. parasitica Kaschik et H. Mayrhofer), Mischoblastia ramboldii (for Rinodina ramboldii Kaschik), Mischoblastia vezdae (for Rinodina vezdae H. Mayrhofer), Oxnerella afghanica (for Rinodina afghanica M. Steiner et Poelt), Oxnerella castanomelodes (for Rinodina castanomelodes H. Mayrhofer et Poelt), Physciella nigricans (for Lecanora nigricans Flörke), Poeltonia elegantula (for Physconia elegantula Essl.), Poeltonia grisea (for Lichen griseus Lam.), Poeltonia isidiomuscigena (for Physconia isidiomuscigena Essl.), Poeltonia perisidiosa (for Physcia perisidiosa Erichsen), Poeltonia venusta (for Parmelia venusta Ach.), and Polyblastidium albicans (for Parmelia albicans Pers.) are proposed.

Cortinarius khinganensis (Agaricales), a new species of section Illumini from Northeast China

Phytotaxa ◽  
2021 ◽  
Vol 500 (1) ◽  
pp. 1-10
Author(s):  
MENG-LE XIE ◽  
TIE-ZHENG WEI ◽  
BÁLINT DIMA ◽  
YONG-PING FU ◽  
RUI-QING JI ◽  
...  
Keyword(s):  
New Species ◽  
Phylogenetic Relationships ◽  
Northeast China ◽  
Phylogenetic Analyses ◽  
Morphological Characteristics ◽  
Sensu Stricto ◽  
Similar Species ◽  
Molecular Phylogenetic ◽  
A New Species

This study presents one telamonioid species new to science based on morphological characteristics and molecular phylogenetic analyses. Cortinarius khinganensis was collected from the Greater Khingan Mountains, Northeast China and it is characterized by hygrophanous, vivid brownish red and striate pileus, white universal veil, and subglobose spores. According to phylogenetic analyses results, C. khinganensis belongs to the section Illumini, which is a lineage distantly related from subgenus Telamonia sensu stricto. Detailed descriptions of the new species and the comparisons with morphologically similar species are provided. The phylogenetic relationships within the section Illumini are also discussed.

Leptolejeunea nigra (Lejeuneaceae), a new species with brownish black ocelli based upon morphology and DNA sequences

Phytotaxa ◽  
2019 ◽  
Vol 427 (1) ◽  
pp. 31-42
Author(s):  
LEI SHU ◽  
RUI-LIANG ZHU
Keyword(s):  
New Species ◽  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Phylogenetic Analyses ◽  
Morphological Characters ◽  
Time Span ◽  
Molecular Dating ◽  
Molecular Phylogenetic ◽  
Brownish Black ◽  
A New Species

Based on molecular phylogenetic analyses and morphological characters, a new species from Bangladesh, northern Vietnam, and southwestern China, Leptolejeunea nigra, is described. It is mostly similar to L. balansae but remarkable for having brownish black ocelli in its leaf lobes. In the molecular phylogeny, the samples of L. nigra are not nested within any clade and form an independent lineage. In particular, the molecular dating suggested that the divergence of L. nigra happened in time span of the formation of the Himalayas.

Morphological and molecular evidence of some Minuartia species (Caryophyllaceae) from Turkey, with a desciption of a new species

Phytotaxa ◽  
2019 ◽  
Vol 391 (2) ◽  
pp. 122 ◽  
Author(s):  
MURAT KOÇ ◽  
ERGIN HAMZAOĞLU ◽  
AHMET AKSOY
Keyword(s):  
New Species ◽  
Dna Sequences ◽  
Related Species ◽  
Phylogenetic Relationships ◽  
Morphological Data ◽  
Molecular Evidence ◽  
A New Species

The genus Minuartia is represented in Turkey by 34 taxa. Some interesting specimens were collected from Antalya province, and examined. These specimens resemble Minuartia meyeri, and M. multinervis from which differ by characters (macro-, and micromorphological) of inflorescence, alar pedicels, petals, sepals, capsules and seeds. Moreover, by using the DNA sequences of the ITS genes, phylogenetic relationships between this collected species, and the related species were investigated. As a result of the evaluation of molecular, and morphological data, we proposed to described the population from Antalya as a new species for the science. A description, pictures, distribution, habitat, and IUCN category are given.

Nine new species of the subgenus Stegana (Steganina) from China, with DNA barcoding information (Diptera: Drosophilidae)

Zootaxa ◽  
2019 ◽  
Vol 4576 (1) ◽  
pp. 81
Author(s):  
BINGXUE LI ◽  
YUAN ZHANG ◽  
HONGWEI CHEN
Keyword(s):  
New Species ◽  
Cytochrome C ◽  
Dna Barcoding ◽  
Cytochrome C Oxidase ◽  
Molecular Analysis ◽  
Dna Sequences ◽  
Mitochondrial Cytochrome ◽  
Neighbor Joining ◽  
Species Groups ◽  
Mtcoi Gene

Eleven (two known and nine new) species of the subgenus Stegana (Steganina) from China are described or redescribed: S. (S.) longifibula Takada, 1968, S. (S.) toyaensis Okada & Sidorenko, 1992, S. (S.) biflava sp. nov., S. (S.) flavivittata sp. nov., S. (S.) hirtifoliacea sp. nov., S. (S.) latitabula sp. nov., S. (S.) panda sp. nov., S. (S.) pinguifoliacea sp. nov., S. (S.) spatulata sp. nov., S. (S.) stachydifolia sp. nov. and S. (S.) unguiculata sp. nov.; they are assigned into the coleoptrata, ornatipes and undulata species groups, respectively. A total of 130 DNA sequences of partial mitochondrial cytochrome c oxidase subunit I (mtCOI) gene of 38 species (including the 11 species) of above-mentioned three groups are newly obtained in this study. These sequences and other available barcoding sequences of the three groups are involved in a molecular analysis using neighbor-joining (NJ) method, in order to assess the availability of DNA barcoding for delimiting the Steganina species. The result indicates that all the sampled Steganina morphospecies within the three groups are monophyletic.  

New World direct-developing frogs (Anura: Terrarana): Molecular phylogeny, classification, biogeography, and conservation

Zootaxa ◽  
2008 ◽  
Vol 1737 (1) ◽  
pp. 1 ◽  
Author(s):  
S. BLAIR HEDGES ◽  
WILLIAM E. DUELLMAN ◽  
MATTHEW P. HEINICKE
Keyword(s):  
Molecular Phylogeny ◽  
Dna Sequences ◽  
New World ◽  
Distinct Species ◽  
Species Level ◽  
Southeastern Brazil ◽  
Caribbean Region ◽  
New Taxon ◽  
Distribution Maps ◽  
Species Groups

New World frogs recently placed in a single, enormous family (Brachycephalidae) have direct development and reproduce on land, often far away from water. DNA sequences from mitochondrial and nuclear genes of 344 species were analyzed to estimate their relationships. The molecular phylogeny in turn was used as the basis for a revised classification of the group. The 882 described species are placed in a new taxon, Terrarana, and allocated to four families, four subfamilies, 24 genera, 11 subgenera, 33 species series, 56 species groups, and 11 species subgroups. Systematic accounts are provided for all taxa above the species level. Two families (Craugastoridae and Strabomantidae), three subfamilies (Holoadeninae, Phyzelaphryninae, and Strabomantinae), six genera (Bryophryne, Diasporus, Haddadus, Isodactylus, Lynchius, and Psychrophrynella), and two subgenera (Campbellius and Schwartzius) are proposed and named as new taxa, 13 subspecies are considered to be distinct species, and 613 new combinations are formed. Most of the 100 informal groups (species series, species groups, and species subgroups) are new or newly defined. Brachycephalus and Ischnocnema are placed in Brachycephalidae, a relatively small clade restricted primarily to southeastern Brazil. Eleutherodactylidae includes two subfamilies, four genera, and five subgenera and is centered in the Caribbean region. Craugastoridae contains two genera and three subgenera and is distributed mainly in Middle America. Strabomantidae is distributed primarily in the Andes of northwestern South America and includes two subfamilies, 16 genera, and three subgenera. Images and distribution maps are presented for taxa above the species level and a complete list of species is provided. Aspects of the evolution, biogeography, and conservation of Terrarana are discussed.

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