scholarly journals Does Primula intricata Gren. et Godr. Merit Species Rank? A Taxonomic Revision Based on nrDNA, cpDNA and AFLP Data

2011 ◽  
Vol 39 (1) ◽  
pp. 24
Author(s):  
Dana ŞUTEU ◽  
Mihai PUSCAS ◽  
Ioan BĂCILĂ ◽  
Ana COSTE ◽  
Liviu FILIPAS ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Taxonomic Status ◽  
Taxonomic Revision ◽  
Distinct Species ◽  
Nuclear Ribosomal Dna ◽  
Valid Species ◽  
Aflp Data ◽  
Genetic Studies ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms

Primula intricata Gren. et Godr. has an unclear taxonomic status: it was originally described as a distinct species but subsequently was considered a subspecies (Primula elatior subsp. intricata) or even a variety (P. elatior var. intricata ) of Primula elatior (L.) Hill. No prior genetic studies were performed on this group of Primulaceae, therefore we considered useful to investigate taxonomies boundaries within the P. elatior-intricata group. We explored genetic differences between Primula intricata and Primula elatior group by applying three different types of molecular markers: nuclear ribosomal DNA (ITS1), chloroplast DNA (spacer trnH-psbA and intron trnL) and Amplified Fragment Length Polymorphisms (AFLP). We found a solid differentiation between P. intricata and P. elatior group, differentiation that was confirmed by all the employed molecular markers. This finding enabled us to propose a valid species rank for Primula intricata, as a separate taxon from the P. elatior group.

Evaluating the Taxonomic Status of the Globally Rare Carex roanensis and Allied Species Using Morphology and Amplified Fragment Length Polymorphisms

2008 ◽  
Vol 33 (3) ◽  
pp. 525-535 ◽  
Author(s):  
Tyler W. Smith ◽  
Marcia J. Waterway
Keyword(s):  
Fragment Length ◽  
Taxonomic Status ◽  
Principal Coordinate Analysis ◽  
Species Level ◽  
Morphological Data ◽  
Aflp Data ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
The Common ◽  
Geographic Regions

We used a combination of amplified fragment length polymorphisms (AFLP) and morphological data from 272 individuals from 59 populations to investigate the species-level taxonomy of Carex roanensis and allied species. There were two taxonomic problems in this group: identifying the appropriate taxonomic status for Carex roanensis, and clarifying the distinctions (if any) between C. virescens and C. swanii. Principal coordinate analysis of the morphological data suggested four entities corresponding to C. aestivalis, C. roanensis, C. swanii, and C. virescens, but clear discrimination was not possible. In contrast, the AFLP data showed marked discontinuities among these four species, placing even morphological intermediates into one of four groups. Analysis of molecular variance revealed significant population differentiation within each species, but only C. virescens had any detectable differentiation between geographic regions. This study confirms the species-level distinction between the common and widespread taxa C. swanii and C. virescens, as well as that of the globally rare Appalachian endemic C. roanensis.

scholarly journals Analyses of molecular markers and leaf morphology of two rare birches, Betula obscura and B. pendula var. carelica

2020 ◽  
Vol 63 (2) ◽  
pp. 121-137
Author(s):  
Katarzyna Anna Jadwiszczak ◽  
Lidia Vetchinnikova ◽  
Agnieszka Bona ◽  
Łukasz Tyburski ◽  
Tatiana Kuznetsova ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Dna Sequences ◽  
Phylogenetic Trees ◽  
Leaf Morphology ◽  
Phylogenetic Signal ◽  
Distinct Species ◽  
Nuclear Ribosomal Dna ◽  
Gene Sequences ◽  
Length Polymorphisms ◽  
Adh Gene

Trees and shrubs belonging to the Betula L. genus seem to represent one of the most confused interspecific relationships, and hybridization is considered to be one of the main factors responsible for the substantial genetic and morphological variation of birches. In the present investigation, the internal transcribed spacer ITS1 and ITS2 regions of nuclear ribosomal DNA, nuclear alcohol dehydrogenase (ADH) gene sequences and amplified fragment length polymorphisms (AFLPs) as well as the Atkinson discriminant function (ADF) of leaf morphology were used to verify hypotheses concerning the origin of the dark barked Betula obscura and B. pendula var. carelica with the patterned wood. Both plants were considered by different authors to be distinct species, intraspecific forms of common B. pendula or B. pubescens, or hybrid taxa between B. pendula and B. pubescens. In the phylogenetic trees, the ITS and ADH gene sequences of both B. obscura and B. pendula var. carelica clustered with those of B. pendula, whereas B. pubescens trees were somewhat distinct. In turn, the AFLPs revealed genetic similarity of B. pendula var. carelica to both frequent species, whereas B. obscura was clearly distinct from other birches. Values of the ADF indices of the rare birches were typical for B. pendula. In the light of the results obtained, we imply that B. obscura and B. pendula var. carelica represent an intraspecific variation of B. pendula, they are neither intraspecific taxa of B. pubescens nor hybrid species between the common birches. Different grouping of B. obscura in the AFLPs and DNA sequences analyses is likely a result of an unreliable phylogenetic signal of the former molecular markers.

scholarly journals A revision of the genus Psammogorgia Verrill, 1868 (Cnidaria, Anthozoa, Octocorallia) in the tropical eastern Pacific Ocean

ZooKeys ◽  
2020 ◽  
Vol 961 ◽  
pp. 1-30
Author(s):  
Odalisca Breedy ◽  
Hector M. Guzman
Keyword(s):  
Taxonomic Status ◽  
Taxonomic Revision ◽  
Eastern Pacific ◽  
New Combination ◽  
Valid Species ◽  
Shallow Waters ◽  
Eastern Pacific Ocean ◽  
Tropical Eastern Pacific ◽  
Character Tables ◽  
Two New Species

The species of the genus Psammogorgia Verrill, 1868 from the shallow waters of the tropical eastern Pacific were mainly described from 1846 to 1870. Very few contributions were published subsequently. Recently, the genus was revisited with the addition of two new species. However, a comprehensive generic study is still missing for the eastern Pacific. Psammogorgia is characterised by having axes cores without mineralisation, mainly coarse irregular spindles and thorny, leafy or tuberculate clubs coenenchymal sclerites and the anthocodial armature with distinct collaret and points arrangements. Herein a taxonomic revision of the genus is presented based on type material which was morphologically analysed and illustrated using optical and scanning electron microscopy. Comparative character tables are provided for comparison among species in the genus, along with a taxonomic key. Moreover, the taxonomic status of each species was analysed. The genus Psammogorgia comprises six valid species and two varieties, and three lectotypes and a new combination are proposed to establish the taxonomic status of these species.

PHYLOGENY AND SPECIES RELATIONSHIPS IN JASIONE (CAMPANULACEAE) WITH EMPHASIS ON THE ‘MONTANA-COMPLEX’

2005 ◽  
Vol 62 (1-2) ◽  
pp. 29-51 ◽  
Author(s):  
S. PÉREZ-ESPONA ◽  
F. SALES ◽  
I. HEDGE ◽  
M. MÖLLER
Keyword(s):  
Its Region ◽  
Molecular Data ◽  
Nuclear Ribosomal Dna ◽  
Shetland Islands ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Recent Origin ◽  
Higher Rank ◽  
Sample Set ◽  
Larger Sample

The evolutionary relationships of several, mainly Iberian, Jasione taxa (Campanulaceae) were investigated using molecular data. A parsimony analysis of the internal transcribed spacer (ITS) region of nuclear ribosomal DNA was partially successful in elucidating some interspecific alliances. One of the main clades included three morphologically rather disparate species from S Spain and Morocco which might indicate that these areas were refugia during the last glaciations. The fact that most of the other taxa fell in a large polytomy suggests a recent origin of these species. Amplified fragment length polymorphisms (AFLPs) were analysed for a larger sample set of two taxa from within the ITS polytomy to assess the partition of genetic variation between and within populations. All the British accessions named J. montana var. montana were found to be close to those so-named from Spain. However, individual accessions of J. montana var. montana from Argyll (Scotland), Devon (SW England) and the Shetland Islands proved to be genetically different from each other. This might suggest a low level of genetic diversification from a common progenitor due to a rapid northward migration. It is proposed that J. montana var. bracteosa and J. maritima var. sabularia merit recognition at higher rank. The possibility that J. montana vars gracilis and latifolia are mere repetitive segregants of J. montana var. montana is considered.

AFLP-based molecular characterization of Brassica rapa and diversity in Canadian spring turnip rape cultivars

2008 ◽  
Vol 6 (1) ◽  
pp. 11-21 ◽  
Author(s):  
S. I. Warwick ◽  
T. James ◽  
K. C. Falk
Keyword(s):  
Genetic Diversity ◽  
Brassica Rapa ◽  
Genetic Relationships ◽  
Aflp Data ◽  
Distance Information ◽  
Breeding Lines ◽  
Cultivar Development ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Aa Genome

Information on genetic diversity and genetic relationships among taxa of Brassica rapa (n = 10, AA genome) is currently limited. Grown for oil, vegetable and fodder use in Europe and Asia, previous studies have indicated western and eastern groups corresponding to independent centres of origin. This study evaluated patterns and levels of genetic diversity in 93 accessions [includes 25 Agriculture and Agri-Food Canada (AAFC) breeding lines (BL)] of B. rapa based on 307 amplified fragment length polymorphisms (AFLP), testing subspecific separateness and the affiliation of four previously unassigned AA genome species (B. perviridis, B. purpuraria, B. ruvo and B. septiceps). AFLP data revealed three main clusters (I, II, III) corresponding to European (I), Indian (III), and a mixed Asian/European/Indian (II) purported origins of the taxa, with several subclusters observed in I and II. Mean AFLP polymorphism levels for Asian, European, Indian and AAFC-BL accessions were 79, 74, 66 and 62%, respectively. Few of the subspecies formed unique clusters and some, particularly subspecies chinensis and pekinensis, were assigned to several clusters. AFLP-based genetic distance information can be used by breeders to select diverse genotypes for cultivar development and fingerprinting of genotypes/cultivars. For example, a single AFLP primer pair was sufficient to uniquely identify all breeding lines in the AAFC B. rapa breeding programme.

Morphological and molecular diversity in the freshwater crab Potamon ruttneri-P. gedrosianum species complex (Decapoda, Brachyura) indicate the need for taxonomic revision

Crustaceana ◽  
2016 ◽  
Vol 89 (2) ◽  
pp. 129-139 ◽  
Author(s):  
Alireza Keikhosravi ◽  
Reza Naderloo ◽  
Christoph D. Schubart
Keyword(s):  
New Record ◽  
Molecular Diversity ◽  
Taxonomic Status ◽  
Taxonomic Revision ◽  
Molecular Data ◽  
Valid Species ◽  
Indus River ◽  
Mitochondrial 16S Rdna ◽  
Morphological And Molecular Data ◽  
Incomplete Sampling

Many species and subspecies of Potamon have been described from the easternmost distribution of the genus in the western tributaries of the Indus River. Most of them were synonymised subsequently under the two names of currently valid species known from the region: Potamon gedrosianum Alcock, 1909 and Potamon ruttneri Pretzmann, 1962. Genetic and morphological information, based on mitochondrial 16S rDNA and the first male gonopod (G1), were gathered in the course of the present study. The corresponding results suggest the occurrence of four groups and question the taxonomic status of both species. We also revise the distribution range of both species, in particular that of P. gedrosianum, with a new record from Iran. Overall, the study reveals the need for a major revision using further morphological and molecular data. Because of the complexity of this necessary revision and the incomplete sampling, we here refrain from proposing any taxonomic conclusions.

scholarly journals A Genetic Map of Gibberella zeae (Fusarium graminearum)

Genetics ◽  
2002 ◽  
Vol 160 (4) ◽  
pp. 1451-1460
Author(s):  
J E Jurgenson ◽  
R L Bowden ◽  
K A Zeller ◽  
J F Leslie ◽  
N J Alexander ◽  
...  
Keyword(s):  
Linkage Map ◽  
Fusarium Graminearum ◽  
Gibberella Zeae ◽  
Linkage Groups ◽  
Genetic Studies ◽  
Genomic Libraries ◽  
Trichodiene Synthase ◽  
Nit Mutants ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms

Abstract We constructed a genetic linkage map of Gibberella zeae (Fusarium graminearum) by crossing complementary nitrate-nonutilizing (nit) mutants of G. zeae strains R-5470 (from Japan) and Z-3639 (from Kansas). We selected 99 nitrate-utilizing (recombinant) progeny and analyzed them for amplified fragment length polymorphisms (AFLPs). We used 34 pairs of two-base selective AFLP primers and identified 1048 polymorphic markers that mapped to 468 unique loci on nine linkage groups. The total map length is ~1300 cM with an average interval of 2.8 map units between loci. Three of the nine linkage groups contain regions in which there are high levels of segregation distortion. Selection for the nitrate-utilizing recombinant progeny can explain two of the three skewed regions. Two linkage groups have recombination patterns that are consistent with the presence of intercalary inversions. Loci governing trichothecene toxin amount and type (deoxynivalenol or nivalenol) map on linkage groups IV and I, respectively. The locus governing the type of trichothecene produced (nivalenol or deoxynivalenol) cosegregated with the TRI5 gene (which encodes trichodiene synthase) and probably maps in the trichothecene gene cluster. This linkage map will be useful in population genetic studies, in map-based cloning, for QTL (quantitative trait loci) analysis, for ordering genomic libraries, and for genomic comparisons of related species.

scholarly journals Identification of the taxonomic status of Scinax nebulosus and Scinax constrictus (Scinaxinae, Anura) based on molecular markers

2020 ◽  
Author(s):  
T. M. B. Freitas ◽  
J. B. L. Sales ◽  
I. Sampaio ◽  
N. M. Piorski ◽  
L. N. Weber
Keyword(s):  
Molecular Markers ◽  
Morphological Traits ◽  
Morphological Analysis ◽  
Taxonomic Status ◽  
Distinct Species ◽  
Brazilian Cerrado ◽  
Anuran Species ◽  
Cerrado Savanna ◽  
Statistical Support ◽  
Analytical Approaches

Abstract The validation of many anuran species is based on a strictly descriptive, morphological analysis of a small number of specimens with a limited geographic distribution. The Scinax Wagler, 1830 genus is a controversial group with many doubtful taxa and taxonomic uncertainties, due a high number of cryptic species. One example is the pair of species Scinax constrictus and Scinax nebulosus, which share a similar morphology. Scinax constrictus is restricted to the Brazilian Cerrado savanna, while S. nebulosus is widely distributed throughout northern South America. Despite the validation of many anuran species, discriminations based only on morphological traits is quite difficult due to the high conservative morphology of some groups. In this context, the present study uses mitochondrial and nuclear genes to provide a more consistent diagnosis and test the validity of S. constrictus as a distinct species from S. nebulosus, as well as evaluate the position of these taxa within the Scinax genus. The topologies obtained herein uphold the monophyletic status of Scinax based on all molecular markers assessed in this study, in all analytical approaches, with high levels of statistical support.

scholarly journals Taxonomic revision and zoogeographical patterns of the species of Gnopharmia Staudinger, 1892 (Geometridae, Ennominae)

Zootaxa ◽  
2012 ◽  
Vol 3360 (1) ◽  
pp. 1 ◽  
Author(s):  
HOSSEIN RAJAEI SH. ◽  
DIETER STÜNING ◽  
ROBERT TRUSCH
Keyword(s):  
New Records ◽  
Taxonomic Revision ◽  
Morphological Characters ◽  
Female Genitalia ◽  
Valid Species ◽  
Type Specimens ◽  
Genetic Studies ◽  
Entire Area ◽  
Distribution Maps ◽  
Morphological Studies

The genus Gnopharmia Staudinger, 1892 is revised, based on more than 2000 specimens from the entire area ofdistribution and study of type material of all described taxa, as far asmap available. Seven species and three subspeciesare confirmed as valid for the genus. All important morphological characters have been studied and compared, includingmale and female genitalia. In addition, preliminary results of DNA-Barcoding were used to reassess our taxonomicdecisions, based on morphological studies. Type specimens and their labels are illustrated and additional specimens,demonstrating the variability of certain species, are also figured. Male genitalia of all valid species are figured and SEMphotos of the aedeagus are illustrated. Further important structures, the so-called ‘octavals’ on the male pre-genitalabdomen, are also figured. Female genitalia revealed a high similarity between species, combined with a considerablevariability, and were unsuitable for characterisation of species. Female genitalia of three species are figured to exemplifythis situation. As a result of the morphological and genetic studies, 12 out of the 21 described species and subspecies aresynonymised or transferred to the closely related genus Neognopharmia Wehrli, 1953. In addition, G. colchidariacocandaria (Erschoff, 1874) is revived as a valid species, G. sinesefida Wehrli, 1941 is downgraded to a subspecies of G.colchidaria Lederer, 1870. Five new records for the fauna of the following countries are presented: G. colchidariaobjectaria: new for Pakistan; G. irakensis: new for Turkey and Pakistan; G. kasrunensis: new for Oman and G. sarobiana: new for Pakistan. Distribution maps and an identification key are given for all species.

scholarly journals DNA analyses and their applications in plant breeding

2012 ◽  
Vol 38 (No. 1) ◽  
pp. 29-40 ◽  
Author(s):  
J. Ovesná ◽  
K. Poláková ◽  
L. Leišová
Keyword(s):  
Molecular Markers ◽  
Fragment Length ◽  
Genome Mapping ◽  
Genome Structure ◽  
Detailed Knowledge ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Expressed Sequence

In recent years, molecular markers have been developed based on the more detailed knowledge of genome structure. Considerable emphasis has been laid on the use of molecular markers in practical breeding and genotype identification. This review attempts to give an account of different molecular markers currently available for genome mapping and for tagging different traits – restriction fragment length polymorphisms (RFLPs), random amplified polymorphic DNAs (RAPDs), amplified fragment length polymorphisms (AFLPs) and microsatellites. Other markers, expressed sequence tags (ESTs) and single nucleotide polymorphisms (SNPs) are also mentioned. The importance of structural, functional genomic and comparative mapping is also discussed.

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