Morphological and molecular diversity of the wild carrot Daucus pusillus: implications for classification and ex situ conservation

Botany ◽  
2014 ◽  
Vol 92 (5) ◽  
pp. 348-359 ◽  
Author(s):  
Maria S. Ibañez ◽  
Elsa L. Camadro ◽  
Carlos A. Sala ◽  
Ricardo W. Masuelli
Keyword(s):  
Multivariate Analysis ◽  
North American ◽  
Molecular Diversity ◽  
Taxonomic Status ◽  
Morphological Diversity ◽  
Its Region ◽  
Inter Simple Sequence Repeat ◽  
Ex Situ ◽  
Daucus Carota L ◽  
5.8S Rdna

Daucus pusillus Michx. and Daucus montevidensis Link ex Spreng. are wild carrots from the Americas with unresolved taxonomic status. An investigation was carried out with accessions of D. pusillus and (or) D. montevidensis from Argentina for (i) morphological and molecular (amplified fragments length polymorphism (AFLP) and inter simple sequence repeat (ISSR)) characterization, (ii) analysis of congruence of morphological and molecular variation, and (iii) comparison of diversity for the internal transcribed spacer (ITS) region with that reported for a North American accession of D. pusillus. Twelve accessions of D. pusillus and (or) D. montevidensis — representing their geographical distribution in Argentina — and one accession each of wild Daucus carota L. and Daucus montanus Humb. & Bonpl. ex Schult. — as outgroups — were included. In the multivariate analysis of morphological diversity, two accessions were clearly differentiated; this result is not sustained by multivariate analysis of molecular diversity. Based on multivariate and molecular variance (AMOVA) analyses, D. pusillus and (or) D. montevidensis accessions were separated at the molecular level into two groups, associated with geographical origin. Because this result is not supported by morphology, the segregation into two taxa seems unjustified. In all accessions, ITS and 5.8S rDNA regions had identical sequences, which differ in one nucleotide from the corresponding sequence of the North American accession. According to the combined results, D. pusillus would be a single taxon distributed from North to South America, and D. montevidensis a nomenclatural synonym. Autogamy of D. pusillus and its highly structured genetic diversity (Fst = 0.86) allows the application of a geographically targeted approach for germplasm exploration, conservation and eventual use in pre-breeding.

scholarly journals Unravelling interspecific relationships among highland lizards: first phylogenetic hypothesis using total evidence of the Liolaemus montanus group (Iguania: Liolaemidae)

2019 ◽  
Vol 189 (1) ◽  
pp. 349-377 ◽  
Author(s):  
Cristian Simón Abdala ◽  
Andrés Sebastián Quinteros ◽  
Romina Valeria Semhan ◽  
Ana Lucia Bulacios Arroyo ◽  
James Schulte ◽  
...  
Keyword(s):  
Molecular Diversity ◽  
Taxonomic Status ◽  
Morphological Diversity ◽  
Morphological Characters ◽  
Total Evidence ◽  
South American ◽  
Phylogenetic Hypothesis ◽  
Mitochondrial Markers ◽  
The Andes ◽  
Molecular Characters

Abstract The South American lizard genus Liolaemus comprises > 260 species, of which > 60 are recognized as members of the Liolaemus montanus group, distributed throughout the Andes in central Peru, Bolivia, Chile and central Argentina. Despite its great morphological diversity and complex taxonomic history, a robust phylogenetic estimate is still lacking for this group. Here, we study the morphological and molecular diversity of the L. montanus group and present the most complete quantitative phylogenetic hypothesis for the group to date. Our phylogeny includes 103 terminal taxa, of which 91 are members of the L. montanus group (58 are assigned to available species and 33 are of uncertain taxonomic status). Our matrix includes 306 morphological and ecological characters and 3057 molecular characters. Morphological characters include 48 continuous and 258 discrete characters, of which 70% (216) are new to the literature. The molecular characters represent five mitochondrial markers. We performed three analyses: a morphology-only matrix, a molecular-only matrix and a matrix including both morphological and molecular characters (total evidence hypothesis). Our total evidence hypothesis recovered the L. montanus group as monophyletic and included ≥ 12 major clades, revealing an unexpectedly complex phylogeny.

Dealing with farmers’ Ethnolinguistic differences when collecting crop diversity on-farm

2016 ◽  
Vol 15 (5) ◽  
pp. 400-408
Author(s):  
Joseph Ireri Kamau ◽  
Vanesse Labeyrie ◽  
Grace Njeri Njoroge ◽  
Anthony Kibira Wanjoya ◽  
Peterson Weru Wambugu ◽  
...  
Keyword(s):  
Multivariate Analysis ◽  
Plant Genetic Resources ◽  
A Priori ◽  
Sustainable Use ◽  
Morphological Characteristics ◽  
Morphological Differentiation ◽  
Morphological Diversity ◽  
Crop Diversity ◽  
Intraspecific Diversity ◽  
Ex Situ

AbstractIdentification and characterization of the farmers’ named crop varieties cultivated around the world is a major issue for conservation and sustainable use of plant genetic resources. Intraspecific diversity is strongly determined by farmers’ socio-cultural environment, but this has little been documented. In this paper, we tested, on a contact zone among three ethnolinguistic groups located on the Mount Kenya region, whether farmers’ socio-cultural differences have an impact on the morphological characteristics of the farmers’ named sorghum varieties. Eighteen qualitative morphological traits of the panicles were measured. We first compared the morphological diversity of the named varieties among ethnolinguistic groups using multivariate analysis of homogeneity of groups’ dispersion and tested their differentiation using permutational multivariate analysis of variance. Discriminant analysis of principal components was then used to categorize the morphological diversity withouta priori, and this classification was compared with farmers’ local taxonomy (vernacular names) in the three ethnolinguistic groups. Our results show that some morphotypes are peculiar to some ethnolinguistic groups and that a morphotype can bear different variety names while the same variety name can be used to identify different morphotypes. Morphological differentiation that was explained by ethnolinguistic groups was higher for local landraces than for improved varieties. Our findings imply that socio-cultural diversity of farmers and the criteria they use to identify and maintain landraces need to be considered in studying and sampling crop diversity forin situas well as forex situconservation.

scholarly journals Molecular Diversity Analysis of Cultivated Carrot (Daucus carota L.) and Wild Daucus Populations Reveals a Genetically Nonstructured Composition

2002 ◽  
Vol 127 (3) ◽  
pp. 383-391 ◽  
Author(s):  
James M. Bradeen ◽  
Inga C. Bach ◽  
Mathilde Briard ◽  
Valérie le Clerc ◽  
Dariusz Grzebelus ◽  
...  
Keyword(s):  
North American ◽  
Daucus Carota ◽  
Geographic Origin ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
European Origin ◽  
Daucus Carota L ◽  
Horticultural Traits ◽  
Wild Accessions ◽  
Root Types

A sample of 124 Daucus carota L. accessions, including cultivated carrot [D. carota ssp. sativus (Hoffm.) Arcangeli] and related wild subspecies, using a variety of molecular markers was examined. Represented within the samples were wild accessions from 18 countries, 14 of 16 major root types of European origin, and examples of major North American and Asian cultivated carrot types. Amplified fragment length polymorphism (AFLP) and inter-simple sequence repeat (ISSR) markers revealed extensive variation within D. carota. Although cultivated carrot and wild D. carota subspecies can cross freely, cultivated and wild carrots clustered separately, supporting the possibility that human selection for desirable horticultural traits has artificially reduced gene flow between cultivated and wild forms. Our analyses support the likelihood that North American D. carota populations arose due to introduction of weedy materials rather than escape of cultivated forms. With the exception of wild vs. cultivated types, no genetic alliances were evident in dendrogram topology. Furthermore, between and even within nonmapped marker classes, dendrogram topology predictions were not consistent. Generally poor correlations among root types, geographic origin, mitochondrial, plastid, and specific nuclear diversity and AFLP/ISSR data were also observed. We concluded that genetic diversity in carrot is extensive and relatively nonstructured in nature.

Evaluation of management in North American zoos to enhance breeding success of the fishing cat ( Prionailurus viverrinus ) ex situ population

Zoo Biology ◽  
2018 ◽  
Vol 38 (2) ◽  
pp. 189-199
Author(s):  
Jilian M. Fazio ◽  
Elizabeth W. Freeman ◽  
Erika Bauer ◽  
Larry Rockwood ◽  
Edward C. M. Parsons
Keyword(s):  
North American ◽  
Breeding Success ◽  
Ex Situ

scholarly journals Agro-morphological and molecular diversity in different maturity groups of Indian cauliflower (Brassica oleracea var. botrytis L.)

PLoS ONE ◽  
2021 ◽  
Vol 16 (12) ◽  
pp. e0260246
Author(s):  
K. N. Rakshita ◽  
Shrawan Singh ◽  
Veerendra Kumar Verma ◽  
Brij Bihari Sharma ◽  
Navinder Saini ◽  
...  
Keyword(s):  
Molecular Diversity ◽  
Polymorphic Information Content ◽  
Block Design ◽  
Morphological Diversity ◽  
Field Evaluation ◽  
Mean Value ◽  
Genotype Distribution ◽  
Composite Pattern ◽  
Ssr Analysis ◽  
Maturity Groups

The present study analysed the molecular and agro-morphological diversity in a set of 92 diverse cauliflower genotypes and two each of cabbage and broccoli. Field evaluation of the genotypes was done in randomized block design (RBD) at two locations (i.e. IARI, New Delhi and ICAR-RC-NEH Region, Barapani) during Rabi2019-20. Genotypes showed variation for all the eight observed traits at both locations and, the differences in early and snowball groups were distinct. Pusa Meghna, DC-33-8, Pusa Kartiki and CC-14 were earliest for curd initiation. Genotypes showed higher values for curd traits at Delhi. Molecular diversity was detected with 90 polymorphic simple sequence repeats (SSR). Number of alleles ranged from 1 to 9 with mean value of 2.16 and the highest polymorphic information content (PIC) value was observed for primer BoGMS0742 (0.68) with a mean value of 0.18. Cluster analysis using agro-morphological traits substantiated classification of the genotypes for maturity groups. However, SSR analysis revealed four clusters and with a composite pattern of genotype distribution. STRUCTURE analysis also supported the admixture and four subpopulations. The studyindicates for introgression of genetic fragments across the maturity groups, thereby, potential for use in further genetic improvement and heterosis breeding.

scholarly journals Genome-wide sequence-based genotyping supports a nonhybrid origin of Castanea alabamensis

2019 ◽  
Author(s):  
M. Taylor Perkins ◽  
Tetyana Zhebentyayeva ◽  
Paul H. Sisco ◽  
J. Hill Craddock
Keyword(s):  
North American ◽  
Distinct Group ◽  
Morphological Diversity ◽  
Hybrid Origin ◽  
Putative Hybrid ◽  
Eastern United States ◽  
The North ◽  
Snp Data ◽  
Genome Wide ◽  
Conservation Concern

AbstractThe genus Castanea in North America contains multiple tree and shrub taxa of conservation concern. The two species within the group, American chestnut (Castanea dentata) and chinquapin (C. pumila sensu lato), display remarkable morphological diversity across their distributions in the eastern United States and southern Ontario. Previous investigators have hypothesized that hybridization between C. dentata and C. pumila has played an important role in generating morphological variation in wild populations. A putative hybrid taxon, Castanea alabamensis, was identified in northern Alabama in the early 20th century; however, the question of its hybridity has been unresolved. We tested the hypothesized hybrid origin of C. alabamensis using genome-wide sequence-based genotyping of C. alabamensis, all currently recognized North American Castanea taxa, and two Asian Castanea species at >100,000 single-nucleotide polymorphism (SNP) loci. With these data, we generated a high-resolution phylogeny, tested for admixture among taxa, and analyzed population genetic structure of the study taxa. Bayesian clustering and principal components analysis provided no evidence of admixture between C. dentata and C. pumila in C. alabamensis genomes. Phylogenetic analysis of genome-wide SNP data indicated that C. alabamensis forms a distinct group within C. pumila sensu lato. Our results are consistent with the model of a nonhybrid origin for C. alabamensis. Our finding of C. alabamensis as a genetically and morphologically distinct group within the North American chinquapin complex provides further impetus for the study and conservation of the North American Castanea species.

scholarly journals Why Variation in Flower Color May Help Reproductive Success in the Endangered Australian Orchid Caladenia fulva

2021 ◽  
Vol 12 ◽  
Author(s):  
Georgia Basist ◽  
Adrian G. Dyer ◽  
Jair E. Garcia ◽  
Ruth E. Raleigh ◽  
Ann C. Lawrie
Keyword(s):  
Seed Viability ◽  
Its Region ◽  
Flower Color ◽  
Ex Situ ◽  
Seed Collection ◽  
Artificial Pollination ◽  
Flower Color Polymorphism ◽  
Open Woodland ◽  
Color Variants

Caladenia fulva G.W. Carr (Tawny Spider-orchid) is a terrestrial Australian endangered orchid confined to contiguous reserves in open woodland in Victoria, Australia. Natural recruitment is poor and no confirmed pollinator has been observed in the last 30 years. Polymorphic variation in flower color complicates plans for artificial pollination, seed collection and ex situ propagation for augmentation or re-introduction. DNA sequencing showed that there was no distinction among color variants in the nuclear ribosomal internal transcribed spacer (ITS) region and the chloroplast trnT-trnF and matK regions. Also, authentic specimens of both C. fulva and Caladenia reticulata from the reserves clustered along with these variants, suggesting free interbreeding. Artificial cross-pollination in situ and assessment of seed viability further suggested that no fertility barriers existed among color variants. Natural fruit set was 15% of the population and was proportional to numbers of the different flower colors but varied with orchid patch within the population. Color modeling on spectral data suggested that a hymenopteran pollinator could discriminate visually among color variants. The similarity in fruiting success, however, suggests that flower color polymorphism may avoid pollinator habituation to specific non-rewarding flower colors. The retention of large brightly colored flowers suggests that C. fulva has maintained attractiveness to foraging insects rather than evolving to match a scarce unreliable hymenopteran sexual pollinator. These results suggest that C. fulva should be recognized as encompassing plants with these multiple flower colors, and artificial pollination should use all variants to conserve the biodiversity of the extant population.

THE TAXONOMIC STATUS OF BOMBUS FRANKLINI (HYMENOPTERA: APIDAE)

1980 ◽  
Vol 112 (5) ◽  
pp. 475-479 ◽  
Author(s):  
R. C. Plowright ◽  
W. P. Stephen
Keyword(s):  
Multivariate Analysis ◽  
Male Genitalia ◽  
Taxonomic Status ◽  
Wing Venation ◽  
Clear Separation

AbstractA re-investigation of the taxonomic status of Bombus franklini (Frison) is described. Comb architecture was found to be characteristic of other taxa within its subgenus (Bombus s.s.) but multivariate analysis of wing venation data taken from queens gave a clear separation of franklini from other species within the subgenus. The male genitalia of franklini are markedly distinct from those of B. occidentalis Green. The authors advocate retention of specific status for franklini.

Aspergillus affinis sp. nov., a novel ochratoxin A-producing Aspergillus species (section Circumdati) isolated from decomposing leaves

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 1007-1015 ◽  
Author(s):  
Domenico Davolos ◽  
Anna Maria Persiani ◽  
Biancamaria Pietrangeli ◽  
Alessandra Ricelli ◽  
Oriana Maggi
Keyword(s):  
Ochratoxin A ◽  
Dna Sequences ◽  
Sequence Data ◽  
Taxonomic Status ◽  
Internal Transcribed Spacers ◽  
Chain Gene ◽  
Protein Coding ◽  
5.8S Rdna ◽  
Rdna Gene ◽  
Molecular Phylogenetic

Two ochratoxin A (OTA)-producing Aspergillus isolates, recently collected from submerged riparian decomposing leaves in Italy, were found to have a similar morphology to Aspergillus cretensis (subgenus Circumdati, section Circumdati). However, marked differences emerged between these two novel isolates and A. cretensis as the former displayed different colony features and had larger vesicles, metulae, phialides and conidia, as well as a distinct sclerotial form and size. In order to determine the taxonomic status and to infer the evolutionary relationships of these two morphologically identical isolates, a molecular phylogenetic analysis was performed on all the officially recognized lineages in the section Circumdati. The DNA sequences and the deduced amino acid residues from the nuclear loci were analysed. Both rRNA and protein coding genes were assessed, which are widely used to differentiate taxa belonging to genus Aspergillus at various evolutionary levels. The 5.8S rDNA gene and internal transcribed spacers (ITS), the D1/D2 domains of the 28S rDNA gene, a region of the tubulin beta chain gene (benA) and part of the calmodulin gene (cmd) were amplified by PCR and then sequenced. The analysis of the rRNA regions and of the benA and cmd sequence data indicated that the two isogenic isolates belonged to a genetically distinct OTA-producing species of the genus Aspergillus. The isolates are proposed as representing a novel species, Aspergillus affinis sp. nov., with the type strain ATCC MYA-4773T ( = CBS 129190 = 417). Phylogenetically, A. affinis sp. nov. appeared to be very closely related to A. cretensis, from which it could be distinguished by means of a morphological trait analysis.

Molecular phylogeny of the Fusarium solani species complex (FSSC) isolated from soils in Iran

Botany ◽  
2014 ◽  
Vol 92 (11) ◽  
pp. 815-820 ◽  
Author(s):  
Khosrow Chehri
Keyword(s):  
Dna Sequences ◽  
Fusarium Solani ◽  
Species Complex ◽  
Agricultural Soils ◽  
Sequence Data ◽  
Morphological Characteristics ◽  
Taxonomic Status ◽  
Its Region ◽  
Phylogenetic Study ◽  
Fusarium Solani Species Complex

Members of Fusarium solani species complex (FSSC) are frequently isolated from soils, food, feeds, trees, and to some extent from humans and other animals. The taxonomic status of these fungi is being revised but no attempt has been made to identify those isolated in Iran, a mountainous country with a high biodiversity. The objective of the present research was to study the phylogenetic diversity of FSSC strains recovered from soils in Iran by analyzing morphological characteristics and DNA sequences. A total of 65 strains belonging to the FSSC were recovered from agricultural soils in western Iran. Based on differences in their morphological characters, 25 strains were selected for phylogenetic analysis employing translation elongation factor-1α (tef1) and internal transcribed spacer (ITS) region sequences. Comparisons of DNA sequence data revealed that all isolates belonged to Fusarium falciforme, Fusarium keratoplasticum, Fusarium petroliphilum, the unnamed species FSSC 5, and unknown species of Fusarium, which represents a new lineage within members of Clade 3. Based on morphological features and phylogenetic study, F. keratoplasticum and F. petroliphilum were reported for the first time in Iran.

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