Species delimitation in the Drosophila aldrichi subcluster (Diptera: Drosophilidae) using DNA sequences

Zootaxa ◽  
2008 ◽  
Vol 1725 (1) ◽  
pp. 37 ◽  
Author(s):  
DEODORO C. S. G. OLIVEIRA ◽  
MELISSA LEONIDAS ◽  
WILLIAM J. ETGES ◽  
PATRICK M. O’GRADY ◽  
ROB DESALLE
Keyword(s):  
Dna Sequences ◽  
Sequence Data ◽  
Distinct Species ◽  
Species Boundaries ◽  
Southern Mexico ◽  
Dna Sequence Data ◽  
Western Mexico ◽  
Basal Group ◽  
Cryptic Taxa ◽  
Current Species

DNA sequence data has been successfully used to verify current species-level taxonomic hypotheses based on morphology and other characters. Setting species boundaries in the Drosophila repleta group has been challenging because this group contains several cryptic taxa and morphologically polymorphic populations. Mitochondrial (cox1 and nad2) and nuclear (sina and Marf) genes were employed to assess species limits for two traditionally recognized, closely related, and taxonomically problematical species, D. aldrichi and D. wheeleri. Both tree-based and character-based methods were used to show that D. wheeleri is indeed a distinct species; however, our data shows that D. aldrichi is a paraphyletic assemblage of two lineages as previously suggested based on patterns of reproductive isolation. One lineage is sister to D. wheeleri and includes populations originating from southern and western Mexico (western-aldrichi). The second, basal group also contains flies from southern Mexico, along with populations from the northern and eastern regions within the species boundaries traditionally described as D. aldrichi (eastern-aldrichi). The populations of D. aldrichi that were introduced into Australia were found to be included in the eastern-aldrichi group. Our results, particularly those based on the rapidly evolving mtDNA sequences, confirm the presence of at least two cryptic species previously referred as “D. aldrichi”.

Cymbidium jiangchengense (Orchidaceae; Epidendroideae; Cymbidiinae), a new species from China: evidence from morphology and DNA sequences

Phytotaxa ◽  
2019 ◽  
Vol 408 (1) ◽  
pp. 77-84
Author(s):  
YING-LI PENG ◽  
ZHUANG ZHOU ◽  
SI-REN LAN ◽  
ZHONG-JIAN LIU
Keyword(s):  
Dna Sequences ◽  
Yunnan Province ◽  
Sequence Data ◽  
Detailed Comparison ◽  
Distinct Species ◽  
Molecular Study ◽  
Orchid Species ◽  
Dna Sequence Data ◽  
Pink Flower ◽  
A New Species

A new orchid species, Cymbidium jiangchengense, from Yunnan Province, China, is described and illustrated. Its distinctiveness is evaluated with morphology and molecular analyses. A detailed comparison between the newly discovered orchid and other members of Cymbidium was performed. The new plant was characterized by stem-like pseudobulbs, narrowly oblong leaves, coriaceous leaves with an acute apex, a 2-flowered inflorescence, a purplish pink flower, narrowly elliptic sepals, petals, a obovate-lanceolate lip with a cordate midlobe, a yellow central callus, and a disc with a trough shape longitudinal lamella from the base extending to the base of the midlobe and a lamellae apex inflated to form two calluses that are not confluent apically. These features distinguish this new orchid from all other known species of Cymbidium. A molecular study based on nuclear ribosomal ITS and plastid matK and rbcL DNA sequence data indicates that C. jiangchengense is a distinct species that sister to C. wadae and a member of section Eburnea, subgenus Cyperorchis.

A newly recognised species that has been confused with the global polyphagous pest scale insect, Coccus hesperidum Linnaeus (Hemiptera: Coccomorpha: Coccidae)

Zootaxa ◽  
2017 ◽  
Vol 4320 (3) ◽  
pp. 571 ◽  
Author(s):  
YEN-PO LIN ◽  
HIROTAKA TANAKA ◽  
LYN G. COOK
Keyword(s):  
Adult Female ◽  
Dna Sequences ◽  
Sequence Data ◽  
Distinct Species ◽  
Scale Insect ◽  
Scale Insects ◽  
History Museum ◽  
Dna Sequence Data ◽  
Cryptic Species Complex ◽  
Coccus Hesperidum

Coccus hesperidum L. (Hemiptera: Coccomorpha: Coccidae), the type species of the soft scale genus Coccus L., the family Coccidae and the whole of the scale insects (Coccoidea), is a cosmopolitan plant pest. Using DNA sequence data and morphological comparisons, we determine that there is a distinct species that is morphologically very similar to C. hesperidum. Here, we describe the species as Coccus praetermissus Lin & Tanaka sp. n., based on adult female specimens from Australia, Malaysia and Thailand. The adult female of C. praetermissus sp. n. differs from C. hesperidum in having dorsal setae with bluntly rounded tips, whereas they are sharply pointed in C. hesperidum. A detailed description of the newly recognised species is provided, incorporating adult female morphology and DNA sequences from mitochondrial and nuclear loci. Our examination of slides from The Natural History Museum, London, and several Australian institutions indicates that C. praetermissus sp. n. has been confused sometimes with C. hesperidum s. s. These findings have potential relevance to plant biosecurity and quarantine because C. hesperidum is cosmopolitan whereas C. praetermissus sp. n., which is also polyphagous and the two species can share many host plants, currently appears to be more geographically restricted. Additionally, there is deep genetic divergence within C. praetermissus sp. n. that might indicate that it is a cryptic species complex, but wider geographic sampling is required to test this possibility. 

scholarly journals Molecular systematics of New Zealand Cyanoramphus parakeets: conservation of Orange-fronted and Forbes' Parakeets

2000 ◽  
Vol 10 (3) ◽  
pp. 211-239 ◽  
Author(s):  
W. M. Boon ◽  
J. C. Kearvell ◽  
C. H. Daugherty ◽  
G. K. Chambers
Keyword(s):  
Dna Sequences ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Distinct Species ◽  
Biological Species ◽  
Biological Species Concept ◽  
Allozyme Data ◽  
Dna Sequence Data ◽  
Data Support ◽  
High Conservation

The controversy that presently surrounds the taxonomy of the Orange-fronted Cyanoramphus malherbi and Forbes' C. forbesi Parakeets has important implications for the conservation of both birds. Both taxa are critically endangered, but consensus regarding their specific status has not yet been achieved. We present mitochondrial DNA sequences for the cytochrome b gene and the control region from 17 Cyanoramphus parakeets representing nine populations and six taxa together with field observations of courtship and breeding behaviour in a sympatric population of Orange-fronted and Yellow-crowned Parakeets C. auriceps. Field data support species status of the Orange-fronted Parakeet under the Biological Species Concept. Phylogenetic analyses of our DNA sequence data support earlier hypotheses based on allozyme data that both Orange-fronted and Forbes' Parakeets represent distinct species under four species concepts and indicate that high conservation priority is warranted for both taxa.

Morphological and molecular evidence places Maronina into synonymy with Protoparmelia (Ascomycota: Lecanorales)

2011 ◽  
Vol 43 (6) ◽  
pp. 561-567 ◽  
Author(s):  
K. PAPONG ◽  
G. KANTVILAS ◽  
H. T. LUMBSCH
Keyword(s):  
Dna Sequence ◽  
Sequence Data ◽  
Distinct Species ◽  
Genetic Distances ◽  
Molecular Evidence ◽  
New Combinations ◽  
Secondary Chemistry ◽  
Phenotypic Characters ◽  
Dna Sequence Data ◽  
Phylogenetic Placement

AbstractThe phylogenetic placement of the genus Maronina was studied, based chiefly on phenotypic characters such as thallus colour and anatomy, secondary chemistry, the anatomy of the excipulum and the ascus-type. DNA sequence data of mitochondrial and nuclear ribosomal loci from some of the species support the hypothesis that Maronina is nested within Protoparmelia. Hence, Maronina is reduced to synonymy with Protoparmelia. Comparison of genetic distances suggests that the two varieties within M. orientalis should be regarded as distinct species. Consequently, the new combinations Protoparmelia australiensis (Hafellner & R. W. Rogers) Kantvilas et al., P. corallifera (Kantvilas & Papong) Kantvilas et al., P. hesperia (Kantvilas & Elix) Kantvilas et al., P. multifera (Nyl.) Kantvilas et al., and P. orientalis (Kantvilas & Papong) Kantvilas et al. are proposed.

scholarly journals Characterization of an unusually conserved AluI highly reiterated DNA sequence family from the honeybee, Apis mellifera.

Genetics ◽  
1993 ◽  
Vol 134 (4) ◽  
pp. 1195-1204
Author(s):  
S Tarès ◽  
J M Cornuet ◽  
P Abad
Keyword(s):  
Apis Mellifera ◽  
Dna Sequence ◽  
Dna Sequences ◽  
Sequence Data ◽  
Sequence Divergence ◽  
Repeated Sequence ◽  
Consensus Sequences ◽  
Dna Sequence Data ◽  
Repeat Class ◽  
Honeybee Subspecies

Abstract An AluI family of highly reiterated nontranscribed sequences has been found in the genome of the honeybee Apis mellifera. This repeated sequence is shown to be present at approximately 23,000 copies per haploid genome constituting about 2% of the total genomic DNA. The nucleotide sequence of 10 monomers was determined. The consensus sequences is 176 nucleotides long and has an A + T content of 58%. There are clusters of both direct and inverted repeats. Internal subrepeating units ranging from 11 to 17 nucleotides are observed, suggesting that it could have evolved from a shorter sequence. DNA sequence data reveal that this repeat class is unusually homogeneous compared to the other class of invertebrate highly reiterated DNA sequences. The average pairwise sequence divergence between the repeats is 2.5%. In spite of this unusual homogeneity, divergence has been found in the repeated sequence hybridization ladder between four different honeybee subspecies. Therefore, the AluI highly reiterated sequences provide a new probe for fingerprinting in A. m. mellifera.

A review of the fern genus Pellaea (Pteridaceae) in Australasia

2020 ◽  
Author(s):  
Patrick J. Brownsey ◽  
Daniel J. Ohlsen ◽  
Lara D. Shepherd ◽  
Whitney L. M. Bouma ◽  
Erin L. May ◽  
...  
Keyword(s):  
New Zealand ◽  
Chloroplast Dna ◽  
Dna Sequences ◽  
Sequence Data ◽  
Indigenous Species ◽  
Ploidy Levels ◽  
Dna Sequence Data ◽  
Australian Species ◽  
The Status ◽  
Chloroplast Dna Sequences

Five indigenous species of Pellaea in Australasia belong to section Platyloma. Their taxonomic history is outlined, morphological, cytological and genetic evidence for their recognition reviewed, and new morphological and chloroplast DNA-sequence data provided. Australian plants of P. falcata (R.Br.) Fée are diploid and have longer, narrower pinnae than do New Zealand plants previously referred to P. falcata, which are tetraploid. Evidence indicates that P. falcata does not occur in New Zealand, and that collections so-named are P. rotundifolia (G.Forst.) Hook. Chloroplast DNA sequences are uninformative in distinguishing Australian P. falcata from New Zealand P. rotundifolia, but show that Australian P. nana is distinct from both. Sequence data also show that Australian and New Zealand populations of P. calidirupium Brownsey & Lovis are closely related, and that Australian P. paradoxa (R.Br.) Hook. is distinct from other Australian species. Although P. falcata is diploid and P. rotundifolia tetraploid, P. calidirupium, P. nana (Hook.) Bostock and P. paradoxa each contain multiple ploidy levels. Diploid populations of Pellaea species are confined to Australia, and only tetraploids are known in New Zealand. Evolution of the group probably involved hybridisation, autoploidy, alloploidy, and possibly apomixis. Further investigation is required to resolve the status of populations from Mount Maroon, Queensland and the Kermadec Islands.

scholarly journals Liparis wenshanensis, a new orchid species from China: Evidence from morphological and molecular analyses

Phytotaxa ◽  
2015 ◽  
Vol 204 (4) ◽  
pp. 253 ◽  
Author(s):  
YONG-YU SU ◽  
YI-LANG HUANG ◽  
LI-JUN CHEN ◽  
PEI-WEN ZHANG ◽  
Zhong-Jian Liu ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Dna Sequence ◽  
Sequence Data ◽  
Detailed Comparison ◽  
Distinct Species ◽  
Systematic Position ◽  
Orchid Species ◽  
Molecular Analyses ◽  
Dna Sequence Data

A new orchid species, Liparis wenshanensis, discovered in Yunnan, China is described and illustrated in this study based on morphological and molecular analyses. A detailed comparison between the newly discovered orchid and other members of the genus, Liparis, was conducted. The new plant is characterized by the combination of the following features: a long rachis with 45 to 55 flowers; white sepals, petals and column; a greenish lip with a purplish center; strongly recurved and revolute dorsal sepals and petals; strongly recurved, oblong lateral sepals; a cordate lip that is strongly deflexed below the middle, with a two-lobed apex and a two-lobed callus at the base; an arcuate column with a lamella extending along the center almost to the stigma, and with a pair of broad wings toward the apex. These features distinguish the new orchid from all other known species of Liparis. We proceeded to a phylogenetic analysis to ascertain the systematic position of this enigmatic species. Molecular analyses based on nuclear ribosomal ITS and plastid matK DNA sequence data supports the recognition of L. wenshanensis as a distinct species.

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.

Association of larvae and adults of Mexican species of Macrelmis (Coleoptera: Elmidae): a preliminary analysis using DNA sequences

Zootaxa ◽  
2012 ◽  
Vol 3361 (1) ◽  
pp. 56-62 ◽  
Author(s):  
JOSEFINA CURIEL ◽  
JUAN J. MORRONE
Keyword(s):  
Dna Sequence ◽  
Dna Sequences ◽  
Preliminary Analysis ◽  
Sequence Data ◽  
Strong Association ◽  
Life Stages ◽  
Adult Morphology ◽  
Dna Sequence Data ◽  
Mexican Species ◽  
Major Impediment

Insect life stages are known imperfectly in many cases, and classifications are usually based on adult morphology. This isunfortunate as information on other life stages may be useful for biomonitoring. The major impediment to using elmid(Coleoptera) larvae for freshwater biomonitoring is the lack of larval descriptions and illustrations. Reliable molecular proto-cols may be used to associate larvae and adults. After adults of seven species of Mexican Macrelmis were identified morpho-logically, seven larval specimens were associated to them based on two gene fragments: Cox1 and Cob. The phylogeneticanalysis allowed identifying the larval specimens as Macrelmis leonilae, M. scutellaris, M. species 7, M. species 10, and M.species 11. Two species based on adults associated uncertainly with one larva, and one larva did not match with any adult. Adult/larval association in elmids using DNA sequence data seems to be promising in terms of speed and reliability.

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