A putative species complex in the
            S
            ea of
            J
            apan revealed by
            DNA
            sequence data: a study on
            
              L
              ottia
            
            cf. 
            kogamogai
            (
            G
            astropoda:
            P
            atellogastropoda)

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.

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

Molecular Ecology ◽

10.1111/j.1365-294x.2011.05211.x ◽

2011 ◽

Vol 20 (18) ◽

pp. 3856-3878 ◽

Cited By ~ 19

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

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Ecology and seasonality of Pseudo-nitzschia species (Bacillariophyceae) in the northwestern Adriatic Sea over a 30-years period (1988–2020)

Mediterranean Marine Science ◽

10.12681/mms.26021 ◽

2021 ◽

Vol 22 (3) ◽

pp. 505

Author(s):

SONIA GIULIETTI ◽

TIZIANA ROMAGNOLI ◽

ALESSANDRA CAMPANELLI ◽

CECILIA TOTTI ◽

STEFANO ACCORONI

Keyword(s):

Dna Sequence ◽

Dna Sequences ◽

Species Complex ◽

Adriatic Sea ◽

Sequence Data ◽

Coastal Station ◽

Dna Sequence Data ◽

The Mean ◽

First Time ◽

North Western

The ecology and seasonality of Pseudo-nitzschia species and their contribution to phytoplankton community were analysed for the first time at the coastal station of the LTER-Senigallia-Susak transect (north-western Adriatic Sea) from 1988 to 2020. Species composition was addressed using DNA sequence data obtained from 106 monoclonal strains isolated from January 2018 to January 2020. The mean annual cycle of total phytoplankton in the study period (Feb 1988–Jan 2020) showed maximum abundances in winter followed by other peaks in spring and autumn. Diatoms were the main contributors in terms of abundance during the winter and the spring blooms. The autumn peak was due to phytoflagellates and diatoms. In summer phytoflagellates dominated the community, followed by diatoms and dinoflagellates, which in this season reached their annual maximum. Pseudo-nitzschia spp. represented on average 0.4–17.6% of diatom community, but during their blooms they could reach up to up to 90% of the total diatom abundances with 106 cells l-1. By LM, six different taxa were recognized: Pseudo-nitzschia cf. delicatissima and P. cf. pseudodelicatissima were the most abundant, followed by P. cf. fraudulenta, P. pungens, P. multistriata and P. cf. galaxiae. P. cf. fraudulenta and P. pungens were indicator taxa of winter. P. cf. delicatissima and P. cf. pseudodelicatissima were spring and summer taxa, respectively. P. galaxiae showed maximum abundances in autumn. DNA sequences revealed the presence of two species belonging to the ’P. seriata group’ (i.e. P. fraudulenta and P. pungens) and four species belonging to the ‘P. delicatissima group’ (P. calliantha and P. mannii within the P. pseudodelicatissima species complex, and P. delicatissima and P. cf. arenysensis within the P. delicatissima species complex). The presence of several cryptic and pseudo-cryptic species highlights the need to combine LM observations with DNA sequence data when the ecology of Pseudo-nitzschia is investigated.

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

ZooKeys ◽

10.3897/zookeys.838.32022 ◽

2019 ◽

Vol 838 ◽

pp. 133-154 ◽

Cited By ~ 1

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.

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Radiation and divergence in the Rhagoletis Pomonella species complex: inferences from DNA sequence data

Journal of Evolutionary Biology ◽

10.1111/j.1420-9101.2008.01507.x ◽

2008 ◽

Vol 21 (3) ◽

pp. 900-913 ◽

Cited By ~ 46

Author(s):

X. XIE ◽

A. P. MICHEL ◽

D. SCHWARZ ◽

J. RULL ◽

S. VELEZ ◽

...

Keyword(s):

Dna Sequence ◽

Species Complex ◽

Sequence Data ◽

Rhagoletis Pomonella ◽

Dna Sequence Data

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Phylogeny and Biogeography of the Amazona Ochrocephala (Aves: Psittacidae) Complex

The Auk ◽

10.1093/auk/121.2.318 ◽

2004 ◽

Vol 121 (2) ◽

pp. 318-332

Author(s):

Jessica R. Eberhard ◽

Elredge Bermingham

Keyword(s):

Phylogenetic Analysis ◽

Mitochondrial Dna ◽

Genetic Variation ◽

South America ◽

Dna Sequence ◽

Species Complex ◽

Sequence Data ◽

Land Bridge ◽

Dna Sequence Data ◽

Middle America

Abstract We present a phylogenetic analysis of relationships among members of the Amazona ochrocephala species complex of parrots, a broadly distributed group in Middle and South America that has been a “taxonomic headache.” Mitochondrial DNA sequence data are used to infer phylogenetic relationships among most of the named subspecies in the complex. Sequence-based phylogenies show that Middle American subspecies included in the analysis are reciprocally monophyletic, but subspecies described for South America do not reflect patterns of genetic variation. Samples from the lower Amazon cluster with samples collected in western Amazonia—not with samples from Colombia and Venezuela, as was predicted by subspecies classification. All subspecies of the complex are more closely related to one another than to other Amazona species, and division of the complex into three species (A. ochrocephala, A. auropalliata, and A. oratrix) is not supported by our data. Divergence-date estimates suggest that these parrots arrived in Middle America after the Panama land-bridge formed, and then expanded and diversified rapidly. As in Middle America, diversification of the group in South America occurred during the Pleistocene, possibly driven by changes in distribution of forest habitat.

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