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Aims: Neoadjuvant endocrine therapy (NAET) is used in the management of oestrogen receptor (ER)‐positive breast cancer. The optimal method for histological assessment of response and the effect of NAET on the tumour morphology, grade and molecular profile remain unclear. The aim of this study is to investigate the NAET effect on tumour type, grade and molecular profile by analysing a well‐characterised cohort of breast cancer samples in a single large UK tertiary referral centre, and to provide guidance on the pathological assessment of those lesions to inform adjuvant management and prognosis. Methods and results: A single large‐institution cohort of 132 patients who received NAET over a 13‐year period was identified. Comprehensive clinical, histopathological and follow‐up data were collected. A detailed histological review of a subset with residual post‐treatment carcinoma was undertaken. Two carcinomas (both of the lobular type) achieved complete pathological response. Central scarring was seen in 49.3% of tumours post‐treatment. Significant changes in tumour type (41.6%), tumour grade (downgrading in one‐third of tumours), and progesterone receptor (PR) expression (22.3%), with a switch to PR‐negative status in 17.6% of cases, were observed. The last of these was associated with an absence of tumour‐infiltrating lymphocytes (P = 0.005). Ten per cent of cases showed a change in HER2 expression (P = 0.002). The median patient survival was 60 months, and downgrading of tumours was associated with better overall survival (P = 0.05). Conclusions: We propose a histological method for assessment of residual carcinoma following NAET, and recommend repeat ER/PR/HER2 testing to inform management and prognosis. [ABSTRACT FROM AUTHOR]

High‐throughput (next‐generation) DNA sequencing has removed barriers to data quantity and quality, and it has produced phylogenies with high statistical support. Such data are useful to address phylogenetic congruence among individual genes. Concatenated analyses of unlinked genes often produce well‐resolved phylogenetic trees with bootstrap support on major nodes at or approaching 100%, but they have been criticized for providing incorrect phylogenies for various reasons to include a history of hybridization, introgression, and incomplete lineage sorting. The present study compares next‐generation sequencing results of the same accessions of Daucus with different genomic regions, of which three have been reported before: (i) the entire plastid genome, (ii) 47 mitochondrial genes, and (iii) 94 conserved nuclear orthologs. Here, we report a fourth dataset, (iv) 564 895 nuclear SNPs. There are areas of discordance in all four results using the same accessions analyzed with maximum parsimony, maximum likelihood, and with the nuclear data species trees through a coalescent analysis. The nuclear results show significant areas of discordance that were unexpected, because these studies used the same DNA samples, the nuclear studies were generated from large and high‐quality datasets with the SNPs distributed on all nine linkage groups of Daucus carota, and the results were supported by high bootstrap values. These results raise questions concerning the best data and analytical methods to reconstruct and understand the "truth" of a phylogeny. [ABSTRACT FROM AUTHOR]

Crop wild relatives, the wild progenitors and closely related cousins of cultivated plant species, are sources of valuable genetic resources for crop improvement. Persisting gaps in knowledge of taxonomy, distributions, and characterization for traits of interest constrain their expanded use in plant breeding and likewise negatively affect ex situ (in genebanks) and in situ (in natural habitats) conservation planning. We compile the state of knowledge on the taxonomy and distributions of the wild relatives of carrot (genus Daucus L.) natively occurring within Tunisia—a hotspot of diversity of the genus, containing 13 taxa (27% of species worldwide). We use ecogeographic information to characterize their potential adaptations to abiotic stresses of interest in crop breeding and assess their ex situ and in situ conservation status. We find substantial ecogeographic variation both across taxa and between populations within taxa, with regard to adaptation to high temperatures, low precipitation, and other traits of potential interest. We categorize three of the taxa high priority for further conservation both ex situ and in situ, five medium priority, and five low priority, with none currently considered sufficiently conserved. Geographic hotspots for species diversity, especially in the northern coastal areas, represent particularly high value regions for efficient further collecting for ex situ conservation and for in situ protection in Tunisia. [ABSTRACT FROM AUTHOR]

PREMISE OF THE STUDY: The species boundaries of wild and cultivated potatoes are controversial, with most of the taxonomic problems in the cultivated potato clade. We here provide the first in-depth phylogenetic study of the cultivated potato clade to explore possible causes of these problems. METHODS: We examined 131 diploid accessions, using 12 nuclear orthologs, producing an aligned data set of 14,072 DNA characters, 2171 of which are parsimony-informative. We analyzed the data to produce phylogenies and perform concordance analysis and goodness-of- fit tests. KEY RESULTS: There is good phylogenetic structure in clades traditionally referred to as clade 1+2 (North and Central American diploid potatoes exclusive of Solanum verrucosum), clade 3, and a newly discovered basal clade, but drastically reduced phylogenetic structure in clade 4, the cultivated potato clade. The results highlight a clade of species in South America not shown before, 'neocardenasii', sister to clade 1+2, that possesses key morphological traits typical of diploids in Mexico and Central America. Goodness-of- fit tests suggest potential hybridization between some species of the cultivated potato clade. However, we do not have enough phylogenetic signal with the data at hand to explicitly estimate such hybridization events with species networks methods. CONCLUSIONS: We document the close relationships of many of the species in the cultivated potato clade, provide insight into the cause of their taxonomic problems, and support the recent reduction of species in this clade. The discovery of the neocardenasii clade forces a reevaluation of a hypothesis that section Petota originated in Mexico and Central America. [ABSTRACT FROM AUTHOR]

Plant scientists make inferences and predictions from phylogenetic trees to solve scientific problems. Crop losses due to disease damage is an important problem that many plant breeders would like to solve, so the ability to predict traits like disease resistance from phylogenetic trees derived from diverse germplasm would be a significant approach to facilitate cultivar improvement. Alternaria leaf blight (ALB) is among the most devastating diseases of carrots (Daucus spp., Apiaceae) worldwide. Thus, new approaches to identify resistant germplasm to this disease are needed. In a study of 106 accessions of wild and cultivated Daucus and related genera, we determined plant height is the best explanatory variable to predict ALB resistance using a phylogenetic linear regression model. Using the estimated area under the disease progress curve, the most resistant species to ALB were the non-carrot relative Ammi visnaga (L.) Lam. and the wild carrot relative D. crinitus Desf. A permutation tail probability test was conducted considering phylogenetic signal to evaluate the strength of association between the Daucus phylogeny and ALB resistance. We found that species belonging to clade A, which includes carrots and other Daucus possessing 2n = 18, 20, or 22 chromosomes, are slightly more resistant to ALB than members of other clades of the Daucus phylogeny. [ABSTRACT FROM AUTHOR]

PREMISE OF THE STUDY: We explored the phylogenetic utility of entire plastid DNA sequences in Daucus and compared the results with prior phylogenetic results using plastid and nuclear DNA sequences. METHODS: We used Illumina sequencing to obtain full plastid sequences of 37 accessions of 20 D aucus taxa and outgroups, analyzed the data with phylogenetic methods, and examined evidence for mitochondrial DNA transfer to the plastid (Dc MP). KEY RESULTS: Our phylogenetic trees of the entire data set were highly resolved, with 100% bootstrap support for most of the external and many of the internal clades, except for the clade of D. carota and its most closely related species D. syrticus . Subsets of the data, including regions traditionally used as phylogenetically informative regions, provide various degrees of soft congruence with the entire data set. There are areas of hard incongruence, however, with phylogenies using nuclear data. We extended knowledge of a mitochondrial to plastid DNA insertion sequence previously named Dc MP and identified the first instance in flowering plants of a sequence of potential nuclear genome origin inserted into the plastid genome. There is a relationship of inverted repeat junction classes and repeat DNA to phylogeny, but no such relationship with nonsynonymous mutations. CONCLUSIONS: Our data have allowed us to (1) produce a well-resolved plastid phylogeny of Daucus, (2) evaluate subsets of the entire plastid data for phylogeny, (3) examine evidence for plastid and nuclear DNA phylogenetic incongruence, and (4) examine mitochondrial and nuclear DNA insertion into the plastid. [ABSTRACT FROM AUTHOR]

The third most important food crop worldwide, potato (Solanum tuberosum L.) is a tetraploid outcrossing species propagated from tubers. Breeders have long been challenged by polyploidy, heterozygosity, and asexual reproduction. It has been assumed that tetraploidy is essential for high yield, that the creation of inbred potato is not feasible, and that propagation by seed tubers is ideal. In this paper, we question those assumptions and propose to convert potato into a diploid inbred line-based crop propagated by true seed. Although a conversion of this magnitude is unprecedented, the possible genetic gains from a breeding system based on inbred lines and the seed production benefits from a sexual propagation system are too large to ignore. We call on leaders of public and private organizations to come together to explore the feasibility of this radical and exciting new strategy in potato breeding. [ABSTRACT FROM AUTHOR]

Solanum section Petota has been the subject of intensive taxonomic work since the description of the cultivated potato in 1753. In total, there are 494 epithets for wild taxa and 626 epithets for cultivated taxa. Different taxonomists applied various taxonomic philosophies and species concepts to the section. Hypotheses of the number of species and their interrelationships have differed greatly among authors. A taxonomic treatment of section Petota by Jack Hawkes in 1990 recognized 228 wild species and seven cultivated species, divided into 21 taxonomic series. In 2014 Spooner and collaborators more than halved this number to 107 wild species and four cultivated species, partitioned into four clades; not using series. The purpose of this paper is to provide a retrospective of the methods and philosophies that have resulted in this drastic decrease in the number of species and their infrasectional classification. [ABSTRACT FROM AUTHOR]

With ca. 200 species, the informally named Potato clade represents one of the larger subgroups of the estimated 1500 species of Solanum. Because its members include the potato (S. tuberosum), tomato (S. lycopersicum), and pepino (S. muricatum), it is the most economically important clade in the genus. These crop species and their close relatives have been the focus of intensive research, but relationships among major lineages of the Potato clade remain poorly understood. In this study, we use sequences from the nuclear ITS and waxy (GBSSI), and plastid trnT‐trnF and trnS‐trnG to estimate a phylogeny and further explore relationships within the Potato clade. With increased sampling over past studies, the Potato clade emerges as a strongly supported clade and comprises 12–13 subclades which, for the most part, correspond to traditionally recognized sections. Solanum sect. Regmandra is sister to the rest of the lineages of the Potato clade which are, in turn, organized into two major subclades: (1) sections Anarrhichomenum, Articulatum, Basarthrum, Etuberosum, Juglandifolia, Lycopersicoides, Lycopersicon, and Petota, and (2) sections Herpystichum and Pteroidea. As in all other studies including these groups, sections Etuberosum, Juglandifolia, Lycopersicoides, Lycopersicon, and Petota form a strongly supported clade. Solanum oxycoccoides, a high‐elevation species endemic to north‐central Peru, was tentatively assigned to several groups within Solanum based on morphological evidence, but instead the species represents an independent lineage within the Potato clade, sister to the first major subclade. A key to the sections of the Potato clade is provided. [ABSTRACT FROM AUTHOR]

* Premise of study: Molecular phylogenetics of genome-scale data sets (phylogenomics) often produces phylogenetic trees with unprecedented resolution. A companion phylogenomics analysis of Daucus using 94 conserved nuclear orthologs supported many of the traditional species but showed unexpected results that require morphological analyses to help interpret them in a practical taxonomic context. * Methods: We evaluated character state distributions, stepwise discriminant analyses, canonical variate analyses, and hierarchical cluster analyses from 40 morphological characters from 81 accessions of 14 taxa of Daucus and eight species in related genera in an experimental plot. * Key results: Most characters showed tremendous variation with character state overlap across many taxa. Multivariate analyses separated the outgroup taxa easily from the Daucus ingroup. Concordant with molecular analyses, most species form phenetic groups, except the same taxa that are problematical in the molecular results: (1) the subspecies of D. carota, (2) D. sahariensis and D. syrticus, and (3) D. broteri and D. guttatus. * Conclusions: Phenetic analyses, in combination with molecular data, support many Daucus species, but mostly by overlapping ranges of size and meristic variation. The subspecies of D. carota are poorly separated morphologically, are paraphyletic, and all could be recognized at the subspecies rank under D. carota. Daucus sahariensis and D. syrticus are so similar morphologically that they could be placed in synonymy. Combined molecular and morphological data support three species in accessions previously identified as D. broteri and D. guttatus. Molecular and morphological results support the new combination Daucus carota subsp. capillifolius. [ABSTRACT FROM AUTHOR]

• Premise of the study: We explored the utility of multiple nuclear orthologs for the taxonomic resolution of wild and cultivated carrot, Daucus species. • Methods: We studied the phylogeny of 92 accessions of 13 species and two subspecies of Daucus and 15 accessions of related genera (107 accessions total) with DNA sequences of 94 nuclear orthologs. Reiterative analyses examined data of both alleles using ambiguity codes or a single allele with the highest coverage, trimmed vs. untrimmed homopolymers; pure exonic vs. pure intronic data; the use of all 94 markers vs. a reduced subset of markers; and analysis of a concatenated data set vs. a coalescent (species tree) approach. • Key results: Our maximum parsimony and maximum likelihood trees were highly resolved, with 100% bootstrap support for most of the external and many of the internal clades. They resolved multiple accessions of many different species as monophyletic with strong support, but failed to support other species. The single allele analysis gave slightly better topological resolution; trimming homopolymers failed to increase taxonomic resolution; the exonic data had a smaller proportion of parsimony-informative characters. Similar results demonstrating the same dominant topology can be obtained with many fewer markers. A Bayesian concordance analysis provided an overall similar phylogeny, but the coalescent analysis provided drastic changes in topology to all the above. • Conclusions: Our research highlights some difficult species groups in Daucus and misidentifications in germplasm collections. It highlights a useful subset of markers and approaches for future studies of dominant topologies in Daucus. [ABSTRACT FROM AUTHOR]

Potato cyst nematodes ( PCN) collected in six localities in the Leningrad region of North West Russia were identified as Globodera rostochiensis pathotype Ro1 and were used for subsequent resistance tests. Seventy-nine accessions of cultivated and closely related wild potato species from the VIR collection in Russia were screened on resistance to G. rostochiensis pathotype Ro1 and on the presence of molecular markers for H1 and Gro1-4 resistance genes. No associations were detected between the resistance level of diploid and tetraploid Andean and tetraploid Chilean potato landraces (indigenous cultivars) and their related wild species and their geographical distribution or presence of PCR-based markers that are associated with the H1 and Gro1-4 genes. At the same time, all susceptible genotypes lacked such markers. New sources of resistance were found and could be used in breeding. [ABSTRACT FROM AUTHOR]

The genus Daucus includes about 20 recognized species. The most widespread and economically important species, Daucus carota L., occurs on almost every continent. The cultivated carrot, subsp. sativus (Hoffm.) Schübl. and G. Martens, has been selected from wild populations that are extremely diverse, especially in the western Mediterranean. The predominant outcrossing and the lack of sexual isolating mechanisms among recognized infraspecific taxa complicate the taxonomy and identification of the wild populations, resulting in widely different interpretations of the number of infraspecific taxa. We measured 36 morphological characters from multiple individuals within each of 155 accessions of D. carota and from the morphologically similar species D. capillifolius (both species 2n = 18) alongside other species for comparison (D. aureus Desf., 2n = 22; D. broteri Ten., 2n = 20; D. involucratus Sm., 2n = 20; and D. littoralis Sm., 2n = 20) in an experimental field plot. Within D. carota, multivariate analyses were able to identify only two subspecies, but even these showed great overlap of individual characters. Because of the ease of crossability of wild D. carota to the domestic landraces and cultivars and because of the taxonomic challenges, the purpose of our study is to explore morphological support for subspecies within D. carota, including the phenetically similar D. capillifolius, which is part of the same clade as D. carota, with the long-term goal of resolving taxonomic disagreements and developing a practical system to classify variation within this economically important species. [ABSTRACT FROM AUTHOR]

Premise of the study: Analyses of genetic structure and phylogenetic relationships illuminate the origin and domestication of modern crops. Despite being an important worldwide vegetable, the genetic structure and domestication of carrot (Daucus carom) is poorly understood. We provide the first such study using a large data set of molecular markers and accessions that are widely dispersed around the world. Methods: Sequencing data from the carrot transcriptome were used to develop 4000 single nucleotide polymorphisms (SNPs). Eighty-four genotypes, including a geographically well-distributed subset of wild and cultivated carrots, were genotyped using the KASPar assay. Key results: Analysis of allelic diversity of SNP data revealed no reduction of genetic diversity in cultivated vs. wild accessions. Structure and phylogenetic analysis indicated a clear separation between wild and cultivated accessions as well as between eastern and western cultivated carrot. Among the wild carrots, those from Central Asia were genetically most similar to cultivated accessions. Furthermore, we found that wild carrots from North America were most closely related to European wild accessions. Conclusions: Comparing the genetic diversity of wild and cultivated accessions suggested the absence of a genetic bottleneck during carrot domestication. In conjunction with historical documents, our results suggest an origin of domesticated carrot in Central Asia. Wild carrots from North America were likely introduced as weeds with European colonization. These results provide answers to long-debated questions of carrot evolution and domestication and inform germplasm curators and breeders on genetic substructure of carrot genetic resources. [ABSTRACT FROM AUTHOR]

With 7 figures and 1 table Abstract The causal agent of potato wart ( Synchytrium endobioticum) is an obligate parasitic chytrid fungus. It is included as a quarantine pathogen in 55 countries, with losses in susceptible cultivars reaching 50-100%. The aim of our study was to characterize the resistance to S. endobioticum pathotype 1 in cultivated potatoes from a well-characterized subset of the Vavilov Institute of Plant Industry collection and to determine whether this resistance is associated with cultivated potato species taxonomy, with ploidy, with geographic distance or with a molecular marker Nl25-1400 proposed for molecular screening for resistance to pathotype 1 of S. endobioticum. Within the diversity of 52 landrace genotypes, our work shows a lack of such predictive associations with wart resistance. High intraspecific variation of wart diseases resistance allows the selection of extremely resistant and susceptible genotypes available for future genetic and breeding studies. [ABSTRACT FROM AUTHOR]

The last several years have seen revolutionary advances in DNA sequencing technologies with the advent of next-generation sequencing (NGS) techniques. NGS methods now allow millions of bases to be sequenced in one round, at a fraction of the cost relative to traditional Sanger sequencing. As costs and capabilities of these technologies continue to improve, we are only beginning to see the possibilities of NGS platforms, which are developing in parallel with online availability of a wide range of biological data sets and scientific publications and allowing us to address a variety of questions not possible before. As techniques and data sets continue to improve and grow, we are rapidly moving to the point where every organism, not just select "model organisms", is open to the power of NGS. This volume presents a brief synopsis of NGS technologies and the development of exemplary applications of such methods in the fields of molecular marker development, hybridization and introgression, transcriptome investigations, phylogenetic and ecological studies, polyploid genetics, and applications like large gene bank collections. [ABSTRACT FROM AUTHOR]

* Premise of the study: An efficient alternative strategy to conventional cloning was needed to generate high-quality DNA sequences from a variety of nuclear orthologs for phylogenetic studies. This method would facilitate studies and minimize technical problems typically encountered in cloning methodologies. * Methods: We tested a variety of single-strand conformation polymorphism (SSCP) protocols including purified and unpurified symmetric and asymmetric PCR, loading buffers, and electrophoresis conditions (buffers, matrix, running time, temperature). Results obtained from direct SSCP band sequencing were compared to those obtained from cloning. * Key results: Our optimized protocol uses asymmetric PCR, with the majority of the samples run in polyacrylamide gel electrophoresis (PAGE). It consistently separated PCR products from 450 to 1200 bp. * Conclusions: Asymmetric PCR single-strand conformation polymorphism is an efficient alternative technique for isolating allelic variants of highly heterozygous individuals, with its greatest applications in sequencing allopolyploids. It eliminates two common problems encountered in cloning: PCR recombination and heteroduplex fixation. In addition, our protocol greatly lowers costs and time associated with procedures. [ABSTRACT FROM AUTHOR]

• Premise of the study: The taxonomy of cultivated potatoes has been highly controversial, with estimates of species numbers ranging from 3 to 17. Ploidy level has been one of the most important taxonomic characters to recognize cultivated potato species, containing diploid (2n = 2x = 24), triploid (2n = 3x = 36), tetraploid (2n = 4x = 48), and pentaploid (2n = 5x = 60) cultivars. We tested the environmental associations of different ploidy levels in cultivated potato species that traditionally have been recognized as Linnaean taxa to see whether, in combination with prior morphological, molecular, and crossing data, some of the ploidy variants can be recognized as distinct taxa. • Methods: We summarize 2780 chromosome counts of landrace cultivated potatoes, provide georeferences 2048 of them, and analyze these data for 20 environmental variables at 10-min resolution using the randomForest algorithm to explore associations with taxa and ploidy variants. • Key results: Except for the S. tuberosum Chilotanum Group and extreme northern and southern range extensions of the Andigenum Group, it is impossible to find distinct habitats for the ploidy variants of the S. tuberosum Andigenum Group. • Conclusions: Our distributional and ecological data, in combination with prior results from morphology, microsatellites, and crossing data, provide yet additional data to support a major reclassification of cultivated potato species. A rational, stable, and universally accepted taxonomy of this major crop plant will greatly aid all users of wild and cultivated potatoes from breeders to gene bank managers to ecologists and evolutionary biologists. [ABSTRACT FROM AUTHOR]

Taxonomic complexity in wild potatoes (Solanum L. sect. Petota Dumort.) has led to widely conflicting treatments. Solanum ser. Piurana Hawkes is one of 21 series recognized in S. sect. Petota in the latest comprehensive taxonornic treatment by Hawkes in 1990. They are distributed from southern Colombia south through Ecuador to central Peru. The taxonomic limits of the series and validity of its constituent species were not resolved with previous studies. In the present study, a set of five conserved orthologous DNA markers (cos 11) with 5342 bp of aligned length were used to infer the phylogeny of putative members of Solanum ser. Piurana and outgroups. The results agreed with a three-dade topology shown by previous studies within S. sect. Petota. So/anum ser. Piurana is expanded to include some species formerly included in S. sers. Conicibaccata, Cuneoalata, Ingaefolia, Olmosiana, Simplicissima, Tuberosa and Yungasensa. This expanded group is supported morphologically by the presence of moniliform tubers and coriaceous leaves in most species. [ABSTRACT FROM AUTHOR]

A major justification for taxonomic and biogeographic research is its assumed ability to predict the presence of traits in a group for which the trait has been observed in only a representative subset of the group. Such predictors are regularly used by breeders interested in choosing potential sources of disease and pest resistant germplasm for cultivar improvement, by genebank managers to organize the collection, and by germplasm collectors planning to gather maximum diversity. The present study tests taxonomic and biogeographic associations with 10,738 disease and pest evaluations, derived from the literature and genebank records, of 32 pest and diseases in five classes of organisms (bacteria, fungi, insects, nematodes, and virus). The data show that ratings for only Colorado potato beetle [Leptinotarsa decemlineata (Say)] and one pathogen (Potato M Carlavirus) are reliably predicted both by host taxonomy and climatic variables. While it is logical to initially take both taxonomy and geographic origin into account while screening genebank materials for pest and disease resistances, such associations will hold for only for a small subset of resistance traits. Based on these results, a more effective strategy than taxonomic and biogeographic prediction is probably careful screening of core collections. [ABSTRACT FROM AUTHOR]

DNA barcoding ("barcoding") has been proposed as a rapid and practical molecular method to identify species via diagnostic variation in short orthologous DNA sequences from one or a few universal genomic regions. It seeks to address in a rapid and simple way the "taxonomic impediment" of a greater need for taxonomic identifications than can be supplied by taxonomists. Using a complicated plant group, Solanum sect. Petota (wild potatoes), I tested barcoding with the most variable and frequently suggested plant barcoding regions: the internal nontranscribed spacer of nuclear ribosomal DNA (ITS) and the plastid markers trnH-psbA intergenic spacer and matK. These DNA regions fail to provide species-specific markers in sect. Petota because the ITS has too much intraspecific variation and the plastid markers lack sufficient polymorphism. The complications seen in wild potatoes are common in many plant groups, but they have not been assessed with barcoding. Barcoding is a retroactive procedure that relies on well-defined species to function, is based solely on a limited number of DNA sequences that are often inappropriate at the species level, has been poorly tested with geographically well-dispersed replicate samples from difficult taxonomic groups, and discounts substantial practical and theoretical problems in defining species. [ABSTRACT FROM AUTHOR]

Objective Phaeochromocytomas and paragangliomas are familial in up to 25% of cases and can result from succinate dehydrogenase (SDH) gene mutations. The aim of this study was to describe the clinical manifestations of subjects with SDH-B gene mutations. Design Retrospective case-series. Patients Thirty-two subjects with SDH-B gene mutations followed up between 1975 and 2007. Mean follow-up of 5·8 years (SD 7·4, range 0–31). Patients seen at St Bartholomew's Hospital, London and other UK centres. Measurements Features of clinical presentation, genetic mutations, tumour location, catecholamine secretion, clinical course and management. Results Sixteen of 32 subjects (50%) were affected by disease. Two previously undescribed mutations in the SDH-B gene were noted. A family history of disease was apparent in only 18% of index subjects. Mean age at diagnosis was 34 years (SD 15·4, range 10–62). 50% of affected subjects had disease by the age of 26 years. 69% (11 of 16) were hypertensive and 80% (12 of 15) had elevated secretions of catecholamines/metabolites. 24% (6 of 25) of tumours were located in the adrenal and 76% (19 of 25) were extra-adrenal. 19% (3 of 16) had multifocal disease. Metastatic paragangliomas developed in 31% (5 of 16). One subject developed a metastatic type II papillary renal cell carcinoma. The cohort malignancy rate was 19% (6 of 32). Macrovascular disease was noted in two subjects without hypertension. Conclusion SDH-B mutation carriers develop disease early and predominantly in extra-adrenal locations. Disease penetrance is incomplete. Metastatic disease is prominent but levels are less than previously reported. Clinical manifestations may include papillary renal cell carcinoma and macrovascular disease. [ABSTRACT FROM AUTHOR]

Chromosome pairing relationships within cultivated potato (Solonum tuberosum) and its wild tuber-bearing relatives (Solanum sect. Petota) hove been interpreted by genome formulas, developed in the early 1900s, through techniques of classic meiotic analysis of interspecific hybrids. Here we reexamine potato genome hypotheses with the first phylogenetic analysis of all major genomes of sect. Petota using cloned DNA sequences of the single-copy nuclear gene GBSSI (waxy). Our results provide the first molecular confirmation of allopolyploidy in wild potato. They both support prior hypotheses and identify novel genome origins never before proposed. The data will be useful to help design crossing strategies to incorporate wild species germplasm into cultivated potato. [ABSTRACT FROM AUTHOR]

Landrace potato cultivars are native to two areas in South America: the high Andes from eastern Venezuela to northern Argentina and the lowlands of south-central Chile. Potato first appeared outside of South America in Europe in 1567 and rapidly diffused worldwide. Two competing hypotheses suggested the origin of the "European" potato from the Andes or from lowland Chile, but the Andean origin has been widely accepted over the last 60 years. All modern potato cultivars predominantly have Chilean germplasm, explained as originating from breeding with Chilean landraces subsequent to the late blight epidemics beginning in 1845 in the UK. The Andean origin has been questioned recently through examination of landraces in India and the Canary Islands, but this evidence is inferential. Through a plastid DNA deletion marker from historical herbarium specimens, we report that the Andean potato predominated in the 1700s, but the Chilean potato was introduced into Europe as early as 1811 and became predominant long before the late blight epidemics in the UK. Our results provide the first direct evidence of these events and change the history of introduction of the European potato. They shed new light on the value of past breeding efforts to recreate the European potato from Andean forms and highlight the value of herbarium specimens in investigating origins of crop plants. [ABSTRACT FROM AUTHOR]

Solanum berthaultii and S. tarijense are two wild potato (sect. Petota) species distributed from Bolivia to northern Argentina. All authors have accepted them as good species since their publication in 1944, but they have been hypothesized to hybridize extensively with each other and with other species, despite their classification into different series and superseries by some authors. This study is a molecular counterpart (AFLPs, plastid DNA restriction site data, survey of a plastid DNA deletion) to a prior morphological study of these two species. AFLP data show weak support for separate species status for some accessions, but with many exceptions. In agreement with the morphological results we place S. tarijense into synonymy of S. berihaultii, and use herbarium specimen data for a taxonomic treatment to include a description, synonymy, and mapping of all accessions. We show similar taxonomic problems in sect. Petota and suggest that there will be a continuing trend of reduction of names in wild potatoes. [ABSTRACT FROM AUTHOR]

Aim To assess evidence for geographical and environmental range expansion through polyploidy in wild potatoes ( Solanum sect. Petota). There are diploids, triploids, tetraploids, pentaploids and hexaploids in this group. Location Wild potatoes occur from the south-western USA (Utah and Colorado), throughout the tropical highlands of Mexico, Central America and the Andes, to Argentina, Chile and Uruguay. Methods We compiled 5447 reports of ploidy determination, covering 185 of the 187 species, of which 702 determinations are presented here for the first time. We assessed the frequency of cytotypes within species, and analysed the geographical and climatic distribution of ploidy levels. Results Thirty-six per cent of the species are entirely or partly polyploid. Multiple cytotypes exist in 21 species, mostly as diploid and triploid, but many more may await discovery. We report the first chromosome count (2 n= 24) for Solanum hintonii. Diploids occupy a larger area than polyploids, but diploid and tetraploid species have similar range sizes, and the two species with by far the largest range sizes are tetraploids. The fraction of the plants that are polyploids is much higher from Mexico to Ecuador than farther south. Compared with diploids, triploids tend to occur in warmer and drier areas, whereas higher-level polyploids tend to occur in relatively cold areas. Diploids are absent from Costa Rica to southern Colombia, the wettest part of the group's range. Main conclusions These results suggest that polyploidy played an important role in this group's environmental differentiation and range expansion. [ABSTRACT FROM AUTHOR]

The modern cultivated potato (Solanum tuberosum L.) was first recorded in Europe in the Canary Islands in 1567, but its origin has long been in dispute. Two competing hypotheses have proposed an ‘Andean’ area (somewhere from the Andean uplands from Venezuela to northern Argentina) or a lowland south-central ‘Chilean’ area, but the Andean origin hypothesis is today generally accepted. The identity of extant Canary Island potato landraces as exclusively of upland Andean origin is one part of a multicomponent argument that the European potato originated from there, rather than from Chile. We reassess these two competing hypotheses with nuclear microsatellite and chloroplast DNA analyses of 19 Canary Island landraces, 14 Andean landraces, 11 Chilean landraces, and two wild potato species as outgroups, and with chloroplast DNA data of 150 landraces from South America. Our molecular results document a wide variation of Andean- and Chilean-type cultivars on the Canary islands and possible hybrids of the two. Our new data, integrated with historical, molecular, agronomic, and crossing data, support a hypothesis that there were multiple introductions of Andean and Chilean germplasm to the Canary Islands and that the early European potato was selected from Chilean introductions long before the late blight epiphytotics of the 1840s. [ABSTRACT FROM AUTHOR]

A major justification for taxonomic research is its assumed ability to predict the presence of traits in a group for which the trait has been observed in a representative subset of the group. Taxonomy is regularly used by breeders interested in choosing potential sources of disease-resistant germplasm for cultivar improvement. We designed this study as an empirical test of prediction by associating resistance to white mold [caused by the fungal pathogen Sclerotinia sclerotiorum (Lib.) de Bary] to diverse potato (Solanum spp.) taxonomies and biogeography, using 144 accessions of 34 wild relatives of potato in Solanum sections Petota and Etuberosum. Tremendous variation for resistance to white mold occurs both within and among species. No consistent association was observed between white mold resistance and taxonomic series (based on a phenetic concept), clades (based on a cladistic concept), ploidy, breeding system, geographic distance, or climate parameters. Species and individual accessions with high proportions of white-mold-resistant plants have been identified in this study, but both often exhibit extensive variation and designation of either as resistant or susceptible must take this variation into account. Therefore, taxonomic relationships and ecogeographic data cannot be reliably used to predict where additional sources of white mold resistance genes will be found. [ABSTRACT FROM AUTHOR]

This study tests the genetic difference between landrace populations of Solanum tuberosum L. subsp, tuberosum and subsp, andigenum (Juz. & Bukasov) Hawkes using nuclear DNA microsatellites. Microsatellitc loci were amplified in subsp, andigenum (35 accessions), subsp, tuberosum (35 accessions), and other cultivated and wild species (22 accessions). A total of 208 alleles were scored from 18 microsatellite loci spread throughout all 12 chromosomes of potato. Using an infinite allele model and a least squares method of analysis, microsatellite loci separated subsp, tuberosum from subsp, andigenum, and cultivated and wild species. These results support the genetic difference of these two populations and their recognition at some classification level. [ABSTRACT FROM AUTHOR]

Presents a study that examined morphological support for the classification of landrace populations of cultivated potatoes. Information on the cultivated potato species used in the study; Methodology used; Results and discussion.

Presents a study which explored the use of geographic information systems to describe the geographic distribution of wild potatoes. Materials and methods; Results; Discussion.

Deals with a study that examined the phylogenetic relationships of nine wild tomato species and closely related outgroups using DNA sequences of the structural gene granule-bound starch synthase. Information on wild tomatoes in South America; Methodology; Results and discussion.

Presents information on a study which assessed the species boundaries of wild potatoes by phenetic analyses of morphological data. Morphological criteria and species boundaries; Character state variation; Species distinction within series Longipedicellata.

The article discusses the authors' breeding research in potato which revealed unexpected result that led them to question the value of morphological diversity as a proxy for overall genetic diversity. Topics discussed include the evaluation of the F2 population for several morphological features such as tuber size, shape and eye depth and the dilemma from the study presented for managers of germplasm collections.

Discusses the use of a chloroplast deoxyribonucleic acid (cpDNA) restriction enzyme, to test the hypotheses of wild potatoes in South America. Observations from tests carried out; What results strongly suggests; Hybridization in potatoes.

Presents information pertaining to the potato species of Solanum tuberosum. Classification of the members of the S.brevicaule complex; Detailed information on these species.