A molecular phylogeny of Eragrostis (Poaceae: Chloridoideae: Eragrostideae): making lovegrass monophyletic in Australia

2020 ◽  
Author(s):  
Russell L. Barrett ◽  
Paul M. Peterson ◽  
Konstantin Romaschenko
Keyword(s):  
Molecular Markers ◽  
Molecular Phylogeny ◽  
Arid Zone ◽  
New Combinations ◽  
Rps16 Intron

We present a phylogeny based on four DNA molecular markers (rps16–trnK spacer, rps16 intron, rpl32–trnL spacer and ITS) concentrating on species of Eragrostis Wolf in Australia. Two Australian radiations are shown within Eragrostis, one being centred in the arid zone and one in the monsoon tropics. The genus is paraphyletic, with species of Cladoraphis Franch., Ectrosia R.Br., Harpachne Hochst. ex A.Rich., Heterachne Benth., Neeragrostis Bush, Planichloa B.K.Simon, Psammagrostis C.A.Gardner & C.E.Hubb. and Stiburus Stapf together forming a well supported clade mixed with Eragrostis species. The molecular results are consistent with recognition of an expanded Eragrostis and we make the following new combinations for Australian taxa: Eragrostis agrostoides (Benth.) R.L.Barrett & P.M.Peterson, E. anomala (C.E.Hubb.) R.L.Barrett & P.M.Peterson, E. appressa (S.T.Blake) R.L.Barrett & P.M.Peterson, E. baileyi (C.E.Hubb.) R.L.Barrett & P.M.Peterson, E. blakei (C.E.Hubb.) R.L.Barrett & P.M.Peterson, E. confusa (C.E.Hubb.) R.L.Barrett & P.M.Peterson, E. danesii (Domin) R.L.Barrett & P.M.Peterson, E. gulliveri (F.Muell.) R.L.Barrett & P.M.Peterson, E. leporina (R.Br.) R.L.Barrett & P.M.Peterson, E. nervilemma (B.K.Simon) R.L.Barrett & P.M.Peterson, E. ovata (Night.) R.L.Barrett & P.M.Peterson, E. scabrida (C.E.Hubb.) R.L.Barrett & P.M.Peterson, E. wiseana (C.A.Gardner & C.E.Hubb.) R.L.Barrett & P.M.Peterson and Sporobolus ramigerus (F.Muell.) P.M.Peterson, Romasch. & R.L.Barrett, and propose the following new names: E. divergens R.L.Barrett & P.M.Peterson, E. lilliputiana R.L.Barrett & P.M.Peterson and E. nightingaleae R.L.Barrett & P.M.Peterson. Lectotypes are designated for Ectrosia agrostoides Benth., E. anomala C.E.Hubb., E. appressa S.T.Blake, E. baileyi C.E.Hubb., E. blakei C.E.Hubb., E. confusa C.E.Hubb., E. gulliveri F.Muell., E laxa S.T.Blake, E. leporina R.Br, E. leporina var. longiglumis C.E.Hubb., E. schultzii Benth., E. schultzii var. annua C.E.Hubb., E. spadicea R.Br., Glyceria australasica Steud., Heterachne gulliveri Benth., Heterachne gulliveri var. major C.E.Hubb. Poa ramigera F.Muell. and Psammagrostis wiseana C.A.Gardner & C.E.Hubb.

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.

scholarly journals Overview and revision of the extant genera and subgenera of Trogidae (Coleoptera: Scarabaeoidea)

2016 ◽  
Vol 47 (1) ◽  
pp. 53-82 ◽  
Author(s):  
Werner P. Strümpher ◽  
Martin H. Villet ◽  
Catherine L. Sole ◽  
Clarke H. Scholtz
Keyword(s):  
Molecular Phylogeny ◽  
Endemic Species ◽  
Strong Support ◽  
Morphological Characters ◽  
New Combinations ◽  
Genus Level ◽  
Generic Rank ◽  
The Family ◽  
Taxonomic Changes

Extant genera and subgenera of the Trogidae (Coleoptera: Scarabaeoidea) are reviewed. Contemporary classifications of this family have been based exclusively on morphological characters. The first molecular phylogeny for the family recently provided strong support for the relationships between morphologically defined genera and subgenera. On the basis of morphological, molecular and biogeographical evidence, certain taxonomic changes to the genus-level classification of the family are now proposed. The family is confirmed as consisting of two subfamilies, Omorginae Nikolajev and Troginae MacLeay, the former with two genera,OmorgusErichson andPolynoncusBurmeister, and the latter with two genera,TroxFabricius andPhoberusMacLeaystat. rev.Phoberusis restored to generic rank to include all Afrotropical (including Madagascan endemic) species;Afromorgusis confirmed at subgeneric rank within the genusOmorgus; and the monotypic Madagascan genusMadagatroxsyn. n.is synonymised withPhoberus.The current synonymies ofPseudotroxRobinson (withTrox),ChesasBurmeister,LagopelusBurmeister andMegalotroxPreudhomme de Borre (all withOmorgus) are all accepted to avoid creating speculative synonyms before definitive phylogenetic evidence is available. New combinations resulting from restoringPhoberusto a monophyletic genus are listed in Appendix A.

Gintarasia and Xalocoa, two new genera to accommodate temperate to subtropical species in the predominantly tropical Graphidaceae (Ostropales, Ascomycota)

2013 ◽  
Vol 26 (6) ◽  
pp. 466 ◽  
Author(s):  
Ekaphan Kraichak ◽  
Sittiporn Parnmen ◽  
Robert Lücking ◽  
H. Thorsten Lumbsch
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Markers ◽  
Genetic Markers ◽  
Phylogenetic Position ◽  
New Combinations ◽  
New Genera ◽  
Phylogenetic Placement ◽  
Complex Chemistry ◽  
Subtropical Species

The phylogenetic placement of Chapsa lamellifera, C. megalophthalma and Diploschistes ocellatus was studied using a dataset of five genetic markers (mtSSU, nuLSU, RPB1, RPB2 and ITS). As extratropical species occurring in Australasia, C. lamellifera and C. megalophthalma differ from other species in that genus by having relatively large ascomata with muriform ascospores and complex chemistry of either the protocetraric or stictic acids chemosyndrome. D. ocellatus is unique within Diploschistes, in lacking lateral paraphyses and containing the norstictic acid chemosyndrome. Previous phylogenetic analysis gave inconclusive results regarding the phylogenetic position of these taxa, and hence in the present study, a larger sampling of molecular markers was employed. Our results demonstrated that the two Chapsa species and D. ocellatus are not part of their current genera. Consequently, the new genera Gintarasia Kraichak, Lücking & Lumbsch and Xalocoa Kraichak, Lücking & Lumbsch are described to accommodate these species. The new combinations Gintarasia lamellifera (Kantvilas & Vězda) Kraichak, Lücking & Lumbsch, G. lordhowensis (Mangold) Kraichak, Lücking & Lumbsch, G. megalophthalma (Müll. Arg.) Kraichak, Lücking & Lumbsch and Xalocoa ocellata (Vill.) Kraichak, Lücking & Lumbsch are also proposed.

New combinations in the fern genus Leptochilus (Polypodiaceae)

Phytotaxa ◽  
2018 ◽  
Vol 374 (2) ◽  
pp. 172
Author(s):  
LIANG ZHANG ◽  
LEI GUO ◽  
LI-BING ZHANG
Keyword(s):  
Molecular Phylogeny ◽  
New Combinations

Following the results of a molecular phylogeny we made nine new combinations in Leptochilus based on morphological, ecological, and distributional evidence. The new combinations include: Leptochilus chilangensis, L. chingii, L. dissimilialatus, L. evrardii, L. flexilobus, L. fluviatilis, L. pentaphyllus, L. poilanei, and L. saxicola.

Molecular phylogeny in Indian Tinospora species by DNA based molecular markers

2005 ◽  
Vol 256 (1-4) ◽  
pp. 75-87 ◽  
Author(s):  
S. M. Ahmed ◽  
V. Verma ◽  
P. H. Qazi ◽  
M. M. Ganaie ◽  
S. K. Bakshi ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Molecular Phylogeny

scholarly journals Molecular Phylogeny and DNA Amplification Fingerprinting of Petunia

HortScience ◽  
1995 ◽  
Vol 30 (4) ◽  
pp. 777F-778
Author(s):  
Teresa A. Cerny ◽  
Terri W. Starman
Keyword(s):  
Molecular Markers ◽  
Molecular Phylogeny ◽  
Phylogenetic Tree ◽  
Leaf Tissue ◽  
Dna Amplification ◽  
Seed Source ◽  
Polymorphic Loci ◽  
Presence And Absence ◽  
Different Sources

Seed of five species of petunia and 10 cultivars of Petunia xhybrida were obtained from several sources and plants were fingerprinted using DNA amplification fingerprinting (DAF). Within some species, variable fingerprints were generated between individual plants from the same seed source and/or different sources. Consistencies were found among DAF profiles by bulking the leaf tissue from 10 different plants, but not five plants. Each of 10 octamer primers used during the study revealed polymorphic loci between the species and cultivars. Among the 201 bands produced, 146 (73%) loci were polymorphic and these could be used to distinguish between each of the species and cultivars. Scoring for presence and absence of the amplified bands was used to generate a phylogenetic tree and to calculate the pairwise distances between each of the taxa using parsimony (PAUP) analysis. The tree generated using DAF molecular markers separated P. axillaris from P. parodii (two white-flowered species), and distinguished between the violet-flowered species, P, inflata, P. integrifolia, and P. violacea.

scholarly journals Multi-gene phylogeny and divergence estimations for Evaniidae (Hymenoptera)

2018 ◽  
Author(s):  
Barbara J Sharanowski ◽  
Leanne Peixoto ◽  
Anamaria Dal Molin ◽  
Andrew R Deans
Keyword(s):  
Molecular Markers ◽  
Early Cretaceous ◽  
Phylogenetic Reconstruction ◽  
Wide Distribution ◽  
Divergence Times ◽  
New Combinations ◽  
Nuclear Markers ◽  
Biological Phenomena ◽  
The Subject ◽  
First Time

Ensign wasps (Hymenoptera: Evaniidae) develop as predators of cockroach eggs (Blattodea), have a wide distribution and exhibit numerous interesting biological phenomena. The taxonomy of this lineage has been the subject of several recent, intensive efforts, but the lineage lacked a robust phylogeny. In this paper we present a new phylogeny, based on increased taxonomic sampling and data from six molecular markers (mitochondrial 16S and COI, and nuclear markers 28S, RPS23, CAD, and AM2), the latter used for the first time in phylogenetic reconstruction. Our intent is to provide a robust phylogeny that will stabilize and facilitate revision of the higher-level classification. We also show the continued utility of molecular motifs, especially the presence of an intron in the RPS23 fragments of certain taxa, to diagnose evaniid clades and assist with taxonomic classification. Furthermore, we estimate divergence times among evaniid lineages for the first time, using multiple fossil calibrations. Evaniidae radiated primarily in the Early Cretaceous (134.1-141.1 Mya), with and most extant genera diverging near the K-T boundary. The estimated phylogeny reveals a more robust topology than previous efforts, with the recovery of more monophyletic taxa and better higher-level resolution. The results facilitate a change in ensign wasp taxonomy, with Parevania, syn. nov., and Papatuka, syn. nov. becoming junior synonyms of Zeuxevania, and Acanthinevania, syn. nov. being designated as junior synonym of Szepligetella. We transfer 30 species to Zeuxevania, either reestablishing past combinations or as new combinations. We also transfer 20 species from Acanthinevania to Szepligetella as new combinations.

scholarly journals Multi-gene phylogeny and divergence estimations for Evaniidae (Hymenoptera)

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e6689
Author(s):  
Barbara J. Sharanowski ◽  
Leanne Peixoto ◽  
Anamaria Dal Molin ◽  
Andrew R. Deans
Keyword(s):  
Molecular Markers ◽  
Early Cretaceous ◽  
Phylogenetic Reconstruction ◽  
Wide Distribution ◽  
Divergence Times ◽  
New Combinations ◽  
Nuclear Markers ◽  
Biological Phenomena ◽  
The Subject ◽  
First Time

Ensign wasps (Hymenoptera: Evaniidae) develop as predators of cockroach eggs (Blattodea), have a wide distribution and exhibit numerous interesting biological phenomena. The taxonomy of this lineage has been the subject of several recent, intensive efforts, but the lineage lacked a robust phylogeny. In this paper we present a new phylogeny, based on increased taxonomic sampling and data from six molecular markers (mitochondrial16SandCOI, and nuclear markers28S,RPS23,CAD, andAM2), the latter used for the first time in phylogenetic reconstruction. Our intent is to provide a robust phylogeny that will stabilize and facilitate revision of the higher-level classification. We also show the continued utility of molecular motifs, especially the presence of an intron in theRPS23fragments of certain taxa, to diagnose evaniid clades and assist with taxonomic classification. Furthermore, we estimate divergence times among evaniid lineages for the first time, using multiple fossil calibrations. Evaniidae radiated primarily in the Early Cretaceous (134.1–141.1 Mya), with and most extant genera diverging near the K-T boundary. The estimated phylogeny reveals a more robust topology than previous efforts, with the recovery of more monophyletic taxa and better higher-level resolution. The results facilitate a change in ensign wasp taxonomy, withParevania, andPapatuka,syn. nov.becoming junior synonyms ofZeuxevania, andAcanthinevania,syn. nov.being designated as junior synonym ofSzepligetella. We transfer 30 species toZeuxevania, either reestablishing past combinations or as new combinations. We also transfer 20 species fromAcanthinevaniatoSzepligetellaas new combinations.

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