Systematics of the Peripatopsis clavigera species complex (Onychophora : Peripatopsidae) reveals cryptic cladogenic patterning, with the description of five new species

2020 ◽  
Author(s):  
Aaron Barnes ◽  
Till Reiss ◽  
Savel R. Daniels
Keyword(s):  
Dna Sequence ◽  
Species Complex ◽  
Sequence Data ◽  
Divergence Time ◽  
Haplotype Network ◽  
Climatic Conditions ◽  
Morphological Data ◽  
Forest Belt ◽  
Mitochondrial Coi ◽  
Velvet Worms

During the present study, DNA sequence data, gross morphology and scanning electron microscopy (SEM) were used to examine cryptic species boundaries in the velvet worm, Peripatopsis clavigera species complex, from the southern Cape Afrotemperate forest belt in South Africa. Sequence data were generated for the mitochondrial COI and the nuclear 18S rRNA loci and phylogenetically analysed using both a Bayesian inference and a maximum-likelihood approach. Both the COI data and the combined DNA sequence topology (COI+18S) revealed the presence of five clades within the Peripatopsis clavigera species complex, and revealed that specimens from Tulbagh were distantly related and represented a sixth clade. The evolutionary distinction of the five clades was corroborated to varying degrees by the four species-delimitation methods (ABGD, PTP, GMYC and STACEY); however, both the gross morphological data and the SEM provided limited diagnostic differences between the five clades. Furthermore, the COI haplotype network and phylogeographic analyses provided evidence of genetic isolation between lineages that are currently syntopic. The distribution of genealogically exclusive and widespread maternal lineages was atypical among velvet worms and did not reflect the general trend of genetic and geographical isolation. Instead, lineages exhibited admixture among localities, a result most likely due to fluctuations in climatic conditions affecting the southern Cape Afrotemperate forest during the Pliocene–Pleistocene period as evident from our divergence time estimations. Four novel, narrow-range endemic species – P. ferox, sp. nov., P. mellaria, sp. nov., P. edenensis, sp. nov. and P. mira, sp. nov. – are described within the P. clavigera species complex, whereas the Tulbagh specimens are described as P. tulbaghensis, sp. nov. Collectively, these results demonstrate that Peripatopsis likely contains several undescribed species.

scholarly journals Molecular evidence for cryptic species in the common slug eating snake Duberria lutrix lutrix (Squamata, Lamprophiidae) from South Africa

ZooKeys ◽  
2019 ◽  
Vol 838 ◽  
pp. 133-154 ◽  
Author(s):  
Kyle Kullenkampff ◽  
Francois Van Zyl ◽  
Sebastian Klaus ◽  
Savel R. Daniels
Keyword(s):  
South Africa ◽  
Dna Sequence ◽  
Species Complex ◽  
Sequence Data ◽  
Divergence Time ◽  
Total Evidence ◽  
Phylogeographic Structure ◽  
Climatic Fluctuations ◽  
Dna Sequence Data ◽  
The Common

We examined the impact of climatic fluctuations on the phylogeographic structure of the common slug eating snake (Duberrialutrixlutrix) throughout its distribution in South Africa. The evolutionary history within the taxon was examined using partial DNA sequence data for two mitochondrial genes (ND4 + cytb) in combination with a nuclear locus (SPTBN1). Phylogenetic relationships were investigated for both the combined mtDNA and total evidence DNA sequence data. In addition, population and demographic analyses together with divergence time estimations were conducted on the combined mtDNA data. Topologies derived from the combined mtDNA analyses and the total evidence analyses were congruent and retrieved five statistically well-supported clades, suggesting thatDuberrial.lutrixrepresents a species complex. The five clades were generally allopatric, separated by altitudinal barriers and characterised by the absence of shared mtDNA haplotypes suggesting long term isolation. Divergence time estimations indicate that the diversification within theD.l.lutrixspecies complex occurred during the Plio/Pleistocene as a result of climatic fluctuations and habitat shifts for the species. A taxonomic revision of theD.l.lutrixspecies complex may be required to delineate possible species boundaries.

scholarly journals A new species of the blind cave gudgeon Milyeringa (Pisces: Gobioidei, Eleotridae) from Barrow Island, Western Australia, with a redescription of M. veritas Whitley

Zootaxa ◽  
2013 ◽  
Vol 3616 (2) ◽  
pp. 135-150 ◽  
Author(s):  
HELEN K. LARSON ◽  
RALPH FOSTER ◽  
WILLIAM F. HUMPHREYS ◽  
MARK I. STEVENS
Keyword(s):  
New Species ◽  
Dna Sequence ◽  
Western Australia ◽  
Sequence Data ◽  
Morphological Data ◽  
Unique Form ◽  
Dna Sequence Data ◽  
The Third ◽  
Blind Cave ◽  
A New Species

A new species of the eyeless eleotrid genus Milyeringa is described from wells sunk on Barrow Island, Western Australia. Milyeringa justitia n. sp. is the third species of the genus to be named. Morphological data and cytochrome c oxidase subunit I (COI) DNA sequence data from a wide sample of localities at which the genus occurs was used to evaluate relationships and species limits. Milyeringa veritas is redescribed, and M. brooksi is synonymised with M. veritas. The unique form and ecology of these fishes, plus the threats to their survival, warrants immediate and continuing attention in management.

Taxonomy and phylogeny of Pluteus glaucotinctus sensu lato (Agaricales, Basidiomycota), a multicontinental species complex

Phytotaxa ◽  
2014 ◽  
Vol 188 (2) ◽  
pp. 78 ◽  
Author(s):  
Nelson Menolli Jr. ◽  
ALFREDO JUSTO ◽  
PEDRO ARRILLAGA ◽  
C. K. PRADEEP ◽  
ANDREW M. MINNIS ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Species Delimitation ◽  
Species Complex ◽  
Democratic Republic ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Sensu Stricto ◽  
Type Collection ◽  
Data Support ◽  
Republic Of The Congo

In order to better understand species delimitation in the Pluteus glaucotinctus species complex, we present a detailed study based on morphological and DNA sequence (nrITS + tef1) data. Pluteus glaucotinctus sensu stricto is known only from the type collection (Democratic Republic of the Congo), which is re-examined here. Four other species are recognized in this complex and described herein as new: P. izurun from Spain, P. meridionalis from Brazil, P. padanilus from India and P. thoenii from Africa. Phylogenetic analyses based on nrITS + tef1 sequence data support the recognition of all species in this complex.

scholarly journals Veterinary Fusarioses within the United States

2016 ◽  
Vol 54 (11) ◽  
pp. 2813-2819 ◽  
Author(s):  
Kerry O'Donnell ◽  
Deanna A. Sutton ◽  
Nathan Wiederhold ◽  
Vincent A. R. G. Robert ◽  
Pedro W. Crous ◽  
...  
Keyword(s):  
United States ◽  
Dna Sequence ◽  
Species Complex ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Distinct Species ◽  
The United States ◽  
Content Type ◽  
Dna Sequence Data ◽  
Species Complexes

Multilocus DNA sequence data were used to assess the genetic diversity and evolutionary relationships of 67Fusariumstrains from veterinary sources, most of which were from the United States. Molecular phylogenetic analyses revealed that the strains comprised 23 phylogenetically distinct species, all but two of which were previously known to infect humans, distributed among eight species complexes. The majority of the veterinary isolates (47/67 = 70.1%) were nested within theFusarium solanispecies complex (FSSC), and these included 8 phylospecies and 33 unique 3-locus sequence types (STs). Three of the FSSC species (Fusarium falciforme,Fusarium keratoplasticum, andFusariumsp. FSSC 12) accounted for four-fifths of the veterinary strains (38/47) and STs (27/33) within this clade. Most of theF. falciformestrains (12/15) were recovered from equine keratitis infections; however, strains ofF. keratoplasticumandFusariumsp. FSSC 12 were mostly (25/27) isolated from marine vertebrates and invertebrates. Our sampling suggests that theFusarium incarnatum-equisetispecies complex (FIESC), with eight mycoses-associated species, may represent the second most important clade of veterinary relevance withinFusarium. Six of the multilocus STs within the FSSC (3+4-eee, 1-b, 12-a, 12-b, 12-f, and 12-h) and one each within the FIESC (1-a) and theFusarium oxysporumspecies complex (ST-33) were widespread geographically, including three STs with transoceanic disjunctions. In conclusion, fusaria associated with veterinary mycoses are phylogenetically diverse and typically can only be identified to the species level using DNA sequence data from portions of one or more informative genes.

Is Ronnbergia (Bromeliaceae, Bromelioideae) a geographically disjunct genus? Evidence from morphology and chloroplast DNA sequence data

Phytotaxa ◽  
2015 ◽  
Vol 219 (3) ◽  
pp. 261 ◽  
Author(s):  
Julian Aguirre-Santoro ◽  
Julio Betancur ◽  
Gregory K. Brown ◽  
Timothy M. Evans ◽  
Fabiano Salgueiro ◽  
...  
Keyword(s):  
Chloroplast Dna ◽  
Dna Sequence ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Phylogenetic Reconstruction ◽  
Morphological Data ◽  
Phylogenetic Study ◽  
Geographic Ranges ◽  
Dna Sequence Data ◽  
Disjunct Genus

A phylogenetic study testing the monophyly of the geographically disjunct genus Ronnbergia (Bromeliaceae, Bromelioideae) is presented. The phylogenetic analyses were based on taxon sampling that included all but one species of Ronnbergia, and representative lineages across the subfamily Bromelioideae. Three chloroplast DNA sequence markers (matK, psbA-trnH, and trnL-trnF) and morphological data were used for the phylogenetic reconstruction. Both the molecular and morphological datasets supported the polyphyly of Ronnbergia, either independently or in combination. These findings suggest that the geographic disjunction of this genus is most likely a product of taxonomic misinterpretation. The results also indicate that the species currently circumscribed in Ronnbergia are closely related to species in the genus Aechmea with similar geographic ranges. The datasets do not have enough resolution power to reconstruct a deep phylogenetic history that involves all the species of Ronnbergia. Nevertheless, this study provides clues for future approaches that should focus on a larger species sampling and the use of multi-locus DNA sequence data.

Refugial isolation and divergence in the Narrowheaded Gartersnake species complex (Thamnophis rufipunctatus) as revealed by multilocus DNA sequence data

2011 ◽  
Vol 20 (18) ◽  
pp. 3856-3878 ◽  
Author(s):  
DUSTIN A. WOOD ◽  
A. G. VANDERGAST ◽  
J. A. LEMOS ESPINAL ◽  
R. N. FISHER ◽  
A. T. HOLYCROSS
Keyword(s):  
Dna Sequence ◽  
Species Complex ◽  
Sequence Data ◽  
Dna Sequence Data

scholarly journals First records of the fanged frogs Limnonectes bannaensis Ye, Fei & Jiang, 2007 and L. utara Matsui, Belabut & Ahmad, 2014 (Amphibia: Anura: Dicroglossidae) in Thailand

2021 ◽  
Vol 9 ◽  
Author(s):  
Chatmongkon Suwannapoom ◽  
Ke Jiang ◽  
Yun-He Wu ◽  
Parinya Pawangkhanant ◽  
Sengvilay Lorphengsy ◽  
...  
Keyword(s):  
Cryptic Species ◽  
Species Complex ◽  
Sequence Data ◽  
Taxonomic Status ◽  
Morphological Data ◽  
Integrative Approach ◽  
Species Identity ◽  
Dna Sequence Data ◽  
Species Complexes ◽  
Cryptic Species Complex

The taxonomic status of the Thai populations belonging to the Limnonectes kuhlii species complex is controversial, due to phenotypic similarity in the cryptic species complex. Recently, some studies on this group in Thailand have discovered four new species: L. taylori, L. megastomias, L. jarujini and L. isanensis. Even so, the diversity of this group is still incomplete. Based on an integrative approach encompassing genetic and morphological analyses, we conclude that the Limnonectes populations from Nan Province (northern) and Yala Province (southern) of Thailand are conspecific with L. bannaensis Ye, Fei & Jiang, 2007 and L. utara Matsui, Belabut & Ahmad, 2014, respectively. These are the first records of these species in Thailand. Our study highlights the importance of using DNA sequence data in combination with morphological data to accurately document species identity and diversity. This is especially important for morphologically cryptic species complexes and sympatrically occurring congeners.

scholarly journals Problems related to the taxonomic placement of incompletely preserved amber fossils: transfer of the Paleogene liverwort <i>Cylindrocolea dimorpha</i> (Cephaloziellaceae) to the extant <i>Odontoschisma</i> sect. <i>Iwatsukia</i> (Cephaloziaceae)

Fossil Record ◽  
2017 ◽  
Vol 20 (2) ◽  
pp. 147-157 ◽  
Author(s):  
Kathrin Feldberg ◽  
Jiří Váňa ◽  
Alfons Schäfer-Verwimp ◽  
Michael Krings ◽  
Carsten Gröhn ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Sequence Data ◽  
Divergence Time ◽  
New Combination ◽  
Crown Group ◽  
Fossil Species ◽  
Dna Sequence Data ◽  
Divergence Time Estimates ◽  
Time Estimates ◽  
The Baltic

Abstract. A revision of the Baltic and Bitterfeld amber fossils assigned to Cylindrocolea dimorpha (Cephaloziellaceae) has yielded evidence of the presence of multicellular, bifid underleaves, which have not previously been reported for this species and conflict with the current circumscription of the family. We transfer the fossil species to Odontoschisma (sect. Iwatsukia) and propose the new combination O. dimorpha of the Cephaloziaceae. Characteristics of the fossil include an overall small size of the plant, entire-margined, bifid leaves and underleaves, more or less equally thickened leaf cell walls, ventral branching that includes stoloniform branches with reduced leaves, and the lack of a stem hyalodermis and gemmae. Placement of the fossil in Cephaloziaceae profoundly affects divergence time estimates for liverworts based on DNA sequence variation with integrated information from the fossil record. Our reclassification concurs with hypotheses on the divergence times of Cephaloziaceae derived from DNA sequence data that provide evidence of a late Early Cretaceous to early Eocene age of the Odontoschisma crown group and an origin of O. sect. Iwatsukia in the Late Cretaceous to Oligocene.

scholarly journals Phylogeny of infraorder Sejina (Acari: Mesostigmata)

Zootaxa ◽  
2004 ◽  
Vol 629 (1) ◽  
pp. 1 ◽  
Author(s):  
MARIAM LEKVEISHVILI ◽  
HANS KLOMPEN
Keyword(s):  
Dna Sequence ◽  
Phylogenetic Relationships ◽  
Sequence Data ◽  
Sister Group ◽  
Morphological Characters ◽  
Morphological Data ◽  
Data Sets ◽  
Dna Sequence Data

Phylogenetic relationships among the families in the infraorder Sejina and the position of Sejina relative to other infraorders of Mesostigmata are re-examined based on molecular and morphological data. Data sets included DNA sequence data for complete 18S, EF-1 , partial CO1genes, and 69 morphological characters. The two families of Heterozerconina consistently group within Sejina, and we propose to synonymize Heterozerconina with Sejina (Sejina s.l). Microgyniina is not the closest relative of Sejina. Rather, Sejina s.l. most often groups with Gamasina. Uropodellidae and Ichthyostomatogasteridae are sister groups and this lineage forms the sister group to Discozerconidae plus Heterozerconidae. Overall, we recognize 5 families within Sejina: Uropodellidae, Ichthyostomatogasteridae, Sejidae, Discozerconidae, and Heterozerconidae.

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