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1.
Heredity (Edinb) ; 127(3): 253-265, 2021 09.
Article in English | MEDLINE | ID: mdl-34331028

ABSTRACT

Tuber dormancy and sprouting are commercially important potato traits as long-term tuber storage is necessary to ensure year-round availability. Premature dormancy release and sprout growth in tubers during storage can result in a significant deterioration in product quality. In addition, the main chemical sprout suppressant chlorpropham has been withdrawn in Europe, necessitating alternative approaches for controlling sprouting. Breeding potato cultivars with longer dormancy and slower sprout growth is a desirable goal, although this must be tempered by the needs of the seed potato industry, where dormancy break and sprout vigour are required for rapid emergence. We have performed a detailed genetic analysis of tuber sprout growth using a diploid potato population derived from two highly heterozygous parents. A dual approach employing conventional QTL analysis allied to a combined bulk-segregant analysis (BSA) using a novel potato whole-exome capture (WEC) platform was evaluated. Tubers were assessed for sprout growth in storage at six time-points over two consecutive growing seasons. Genetic analysis revealed the presence of main QTL on five chromosomes, several of which were consistent across two growing seasons. In addition, phenotypic bulks displaying extreme sprout growth phenotypes were subjected to WEC sequencing for performing BSA. The combined BSA and WEC approach corroborated QTL locations and served to narrow the associated genomic regions, while also identifying new QTL for further investigation. Overall, our findings reveal a very complex genetic architecture for tuber sprouting and sprout growth, which has implications both for potato and other root, bulb and tuber crops where long-term storage is essential.


Subject(s)
Solanum tuberosum , Diploidy , Exome , Plant Breeding , Plant Tubers/genetics , Solanum tuberosum/genetics
2.
BMC Public Health ; 20(1): 993, 2020 Jun 24.
Article in English | MEDLINE | ID: mdl-32580720

ABSTRACT

BACKGROUND: Universal child health services (UCHS) provide an important pragmatic platform for the delivery of universal and targeted interventions to support families and optimize child health outcomes. We aimed to identify brief, evidence-based interventions for common health and developmental problems that could be potentially implemented in UCHS. METHODS: A restricted evidence assessment (REA) of electronic databases and grey literature was undertaken covering January 2006 to August 2019. Studies were eligible if (i) outcomes related to one or more of four areas: child social and emotional wellbeing (SEWB), infant sleep, home learning environment or parent mental health, (ii) a comparison group was used, (iii) universal or targeted intervention were delivered in non-tertiary settings, (iv) interventions did not last more than 4 sessions, and (v) children were aged between 2 weeks postpartum and 5 years at baseline. RESULTS: Seventeen studies met the eligibility criteria. Of these, three interventions could possibly be implemented at scale within UCHS platforms: (1) a universal child behavioural intervention which did not affect its primary outcome of infant sleep but improved parental mental health, (2) a universal screening programme which improved maternal mental health, and (3) a targeted child behavioural intervention which improved parent-reported infant sleep problems and parental mental health. Key lessons learnt include: (1) Interventions should impart the maximal amount of information within an initial session with future sessions reinforcing key messages, (2) Interventions should see the family as a holistic unit by considering the needs of parents with an emphasis on identification, triage and referral, and (3) Brief interventions may be more acceptable for stigmatized topics, but still entail considerable barriers that deter the most vulnerable. CONCLUSIONS: Delivery and evaluation of brief evidence-based interventions from a UCHS could lead to improved maternal and child health outcomes through a more responsive and equitable service. We recommend three interventions that meet our criteria of "best bet" interventions.


Subject(s)
Child Health Services/organization & administration , Child Health Services/statistics & numerical data , Evidence-Based Medicine/organization & administration , Evidence-Based Medicine/statistics & numerical data , Universal Health Insurance/organization & administration , Universal Health Insurance/statistics & numerical data , Adolescent , Child , Child, Preschool , Female , Humans , Infant , Infant, Newborn , Male , Prohibitins
3.
Theor Appl Genet ; 133(3): 967-980, 2020 Mar.
Article in English | MEDLINE | ID: mdl-31950199

ABSTRACT

KEY MESSAGE: Novel major gene resistance against Potato virus Y in diploid populations of Solanum tuberosum Groups Phureja and Tuberosum was biologically and genetically characterised. Named Ry(o)phu, it mapped to chromosome 9. A new source of genetic resistance derived from Solanum tuberosum Group Phureja against Potato virus Y (PVY) was identified and genetically characterised in three diploid biparental potato populations. Segregation data for two populations (05H1 and 08H1) suggested the presence of a single dominant gene for resistance to PVY which, following DaRT analysis of the 08H1 cross, was mapped to chromosome 9. More detailed genetic analysis of resistance utilised a well-characterised SNP-linkage map for the 06H1 population, together with newly generated marker data. In these plants, which have both S. tuberosum Group Phureja and S. tuberosum Group Tuberosum in their pedigree, the resistance was shown to map to chromosome 9 at a locus not previously associated with PVY resistance, although there is evidence for at least one other genetic factor controlling PVY infection. The resistance factor location on chromosome 9 (named as Ry(o)phu) suggests a potential role of NB-LRR genes in this resistance. Phenotypic analysis using a GUS-tagged virus revealed that a small amount of PVY replication occurred in occasional groups of epidermal cells in inoculated leaves of resistant plants, without inducing any visible hypersensitive response. However, the virus did not enter the vascular system and systemic spread was completely prevented.


Subject(s)
Disease Resistance/genetics , Host-Pathogen Interactions/genetics , Plant Diseases/genetics , Potyvirus/pathogenicity , Solanum tuberosum/genetics , Chromosome Mapping , Chromosomes, Plant , Genes, Plant , Genetic Markers , High-Throughput Nucleotide Sequencing , Plant Diseases/virology , Plant Leaves/genetics , Plant Leaves/metabolism , Plant Leaves/virology , Ploidies , Polymorphism, Single Nucleotide , Potyvirus/genetics , Potyvirus/metabolism , Quantitative Trait Loci , Solanum tuberosum/metabolism , Solanum tuberosum/virology
4.
J Exp Bot ; 70(3): 835-843, 2019 02 05.
Article in English | MEDLINE | ID: mdl-30395257

ABSTRACT

Potato tuber bud dormancy break followed by premature sprouting is a major commercial problem which results in quality losses and decreased tuber marketability. An approach to controlling premature tuber sprouting is to develop potato cultivars with a longer dormancy period and/or reduced rate of sprout growth. Our recent studies using a potato diploid population have identified several quantitative trait loci (QTLs) that are associated with tuber sprout growth. In the current study, we aim to characterize a candidate gene associated with one of the largest effect QTLs for rapid tuber sprout growth on potato chromosome 3. Underlying this QTL is a gene encoding a TERMINAL FLOWER 1/CENTRORADIALIS homologue (PGSC0003DMG400014322). Here, we use a transgenic approach to manipulate the expression level of the CEN family member in a potato tetraploid genotype (cv. Désirée). We demonstrate a clear effect of manipulation of StCEN expression, with decreased expression levels associated with an increased rate of sprout growth, and overexpressing lines showing a lower rate of sprout growth than controls. Associated with different levels of StCEN expression were different levels of abscisic acid and cytokinins, implying a role in controlling the levels of plant growth regulators in the apical meristem.


Subject(s)
Genes, Plant , Plant Proteins/genetics , Plant Tubers/growth & development , Solanum tuberosum/genetics , Multigene Family , Plant Proteins/metabolism , Plant Tubers/genetics , Quantitative Trait Loci , Solanum tuberosum/growth & development
5.
G3 (Bethesda) ; 8(10): 3185-3202, 2018 10 03.
Article in English | MEDLINE | ID: mdl-30082329

ABSTRACT

Genome-wide association studies (GWAS) have become a powerful tool for analyzing complex traits in crop plants. The current study evaluates the efficacy of various GWAS models and methods for elucidating population structure in potato. The presence of significant population structure can lead to detection of spurious marker-trait associations, as well as mask true ones. While appropriate statistical models are needed to detect true marker-trait associations, in most published potato GWAS, a 'one model fits all traits' approach has been adopted. We have examined various GWAS models on a large association panel comprising diverse tetraploid potato cultivars and breeding lines, genotyped with single nucleotide polymorphism (SNP) markers. Phenotypic data were generated for 20 quantitative traits assessed in different environments. Best Linear Unbiased Estimates (BLUEs) for these traits were obtained for use in assessing GWAS models. Goodness of fit of GWAS models, derived using different combinations of kinship and population structure for all traits, was evaluated using Quantile-Quantile (Q-Q) plots and genomic control inflation factors (λGC). Kinship was found to play a major role in correcting population confounding effects and results advocate a 'trait-specific' fit of different GWAS models. A survey of genome-wide linkage disequilibrium (LD), one of the critical factors affecting GWAS, is also presented and our findings are compared to other recent studies in potato. The genetic material used here, and the outputs of this study represent a novel resource for genetic analysis in potato.


Subject(s)
Chromosome Mapping , Evolution, Molecular , Genome, Plant , Genome-Wide Association Study , Genomics , Linkage Disequilibrium , Solanum tuberosum/genetics , Tetraploidy , Alleles , Gene Frequency , Genetic Variation , Genetics, Population , Genomics/methods , Genotype , Models, Genetic , Phenotype , Phylogeny , Polymorphism, Single Nucleotide , Quantitative Trait Loci , Quantitative Trait, Heritable
6.
Theor Appl Genet ; 131(6): 1287-1297, 2018 Jun.
Article in English | MEDLINE | ID: mdl-29560514

ABSTRACT

KEY MESSAGE: A broad-spectrum late blight disease-resistance gene from Solanum verrucosum has been mapped to potato chromosome 9. The gene is distinct from previously identified-resistance genes. We have identified and characterised a broad-spectrum resistance to Phytophthora infestans from the wild Mexican species Solanum verrucosum. Diagnostic resistance gene enrichment (dRenSeq) revealed that the resistance is not conferred by previously identified nucleotide-binding, leucine-rich repeat genes. Utilising the sequenced potato genome as a reference, two complementary enrichment strategies that target resistance genes (RenSeq) and single/low-copy number genes (Generic-mapping enrichment Sequencing; GenSeq), respectively, were deployed for the rapid, SNP-based mapping of the resistance through bulked-segregant analysis. Both approaches independently positioned the resistance, referred to as Rpi-ver1, to the distal end of potato chromosome 9. Stringent post-enrichment read filtering identified a total of 64 informative SNPs that corresponded to the expected ratio for significant polymorphisms in the parents as well as the bulks. Of these, 61 SNPs are located on potato chromosome 9 and reside within 27 individual genes, which in the sequenced potato clone DM locate to positions 45.9 to 60.9 Mb. RenSeq- and GenSeq-derived SNPs within the target region were converted into allele-specific PCR-based KASP markers and further defined the position of the resistance to a 4.3 Mb interval at the bottom end of chromosome 9 between positions 52.62-56.98 Mb.


Subject(s)
Disease Resistance/genetics , Genes, Plant , Plant Diseases/genetics , Solanum/genetics , Chromosome Mapping , DNA, Plant/genetics , Diploidy , Genetic Markers , Phytophthora infestans , Plant Diseases/microbiology , Polymorphism, Single Nucleotide , Sequence Analysis, DNA , Solanum/microbiology
7.
Plant Biotechnol J ; 16(1): 197-207, 2018 01.
Article in English | MEDLINE | ID: mdl-28509353

ABSTRACT

For many commercial potato cultivars, tuber yield is optimal at average daytime temperatures in the range of 14-22 °C. Further rises in ambient temperature can reduce or completely inhibit potato tuber production, with damaging consequences for both producer and consumer. The aim of this study was to use a genetic screen based on a model tuberization assay to identify quantitative trait loci (QTL) associated with enhanced tuber yield. A candidate gene encoding HSc70 was identified within one of the three QTL intervals associated with elevated yield in a Phureja-Tuberosum hybrid diploid potato population (06H1). A particular HSc70 allelic variant was linked to elevated yield in the 06H1 progeny. Expression of this allelic variant was much higher than other alleles, particularly on exposure to moderately elevated temperature. Transient expression of this allele in Nicotiana benthamiana resulted in significantly enhanced tolerance to elevated temperature. An TA repeat element was present in the promoter of this allele, but not in other HSc70 alleles identified in the population. Expression of the HSc70 allelic variant under its native promoter in the potato cultivar Desiree resulted in enhanced HSc70 expression at elevated temperature. This was reflected in greater tolerance to heat stress as determined by improved yield under moderately elevated temperature in a model nodal cutting tuberization system and in plants grown from stem cuttings. Our results identify HSc70 expression level as a significant factor influencing yield stability under moderately elevated temperature and identify specific allelic variants of HSc70 for the induction of thermotolerance via conventional introgression or molecular breeding approaches.


Subject(s)
Heat-Shock Response/physiology , Plant Proteins/metabolism , Solanum tuberosum/metabolism , Alleles , Gene Expression Regulation, Plant/genetics , Gene Expression Regulation, Plant/physiology , HSC70 Heat-Shock Proteins/genetics , HSC70 Heat-Shock Proteins/metabolism , Heat-Shock Response/genetics , Plant Proteins/genetics , Quantitative Trait Loci/genetics , Solanum tuberosum/genetics , Temperature
8.
Macromol Biosci ; 17(5)2017 05.
Article in English | MEDLINE | ID: mdl-27918641

ABSTRACT

This blinded controlled prospective randomized study investigates the biocompatibility of polypyrrole (PPy) polymer that will be used for intracranial triggered release of anti-epileptic drugs (AEDs). Three by three millimeters PPy are implanted subdurally in six adult female genetic absence epilepsy rats from Strasbourg. Each rat has a polymer implanted on one side of the cortex and a sham craniotomy performed on the other side. After a period of seven weeks, rats are euthanized and parallel series of coronal sections are cut throughout the implant site. Four series of 15 sections are histological (hematoxylin and eosin) and immunohistochemically (neuron-specific nuclear protein, glial fibrillary acidic protein, and anti-CD68 antibody) stained and evaluated by three investigators. The results show that implanted PPy mats do not induce obvious inflammation, trauma, gliosis, and neuronal toxicity. Therefore the authors conclude the PPy used offer good histocompatibility with central nervous system cells and that PPy sheets can be used as intracranial, AED delivery implant.


Subject(s)
Anticonvulsants/administration & dosage , Biocompatible Materials , Drug Implants , Dura Mater , Polymers/administration & dosage , Pyrroles/administration & dosage , Animals , Anticonvulsants/pharmacology , Craniotomy , Drug Evaluation, Preclinical , Female , Macrophages/drug effects , Neuroglia/drug effects , Neurons/drug effects , Polymers/pharmacology , Pyrroles/pharmacology , Rats
9.
BMC Plant Biol ; 15: 255, 2015 Oct 24.
Article in English | MEDLINE | ID: mdl-26496718

ABSTRACT

BACKGROUND: In plant genomes, NB-LRR based resistance (R) genes tend to occur in clusters of variable size in a relatively small number of genomic regions. R-gene sequences mostly differentiate by accumulating point mutations and gene conversion events. Potato and tomato chromosome 4 harbours a syntenic R-gene locus (known as the R2 locus in potato) that has mainly been examined in central American/Mexican wild potato species on the basis of its contribution to resistance to late blight, caused by the oomycete pathogen Phytophthora infestans. Evidence to date indicates the occurrence of a fast evolutionary mode characterized by gene conversion events at the locus in these genotypes. RESULTS: A physical map of the R2 locus was developed for three Solanum tuberosum genotypes and used to identify the tomato syntenic sequence. Functional annotation of the locus revealed the presence of numerous resistance gene homologs (RGHs) belonging to the R2 gene family (R2GHs) organized into a total of 4 discrete physical clusters, three of which were conserved across S. tuberosum and tomato. Phylogenetic analysis showed clear orthology/paralogy relationships between S. tuberosum R2GHs but not in R2GHs cloned from Solanum wild species. This study confirmed that, in contrast to the wild species R2GHs, which have evolved through extensive sequence exchanges between paralogs, gene conversion was not a major force for differentiation in S. tuberosum R2GHs, and orthology/paralogy relationships have been maintained via a slow accumulation of point mutations in these genotypes. CONCLUSIONS: S. tuberosum and Solanum lycopersicum R2GHs evolved mostly through duplication and deletion events, followed by gradual accumulation of mutations. Conversely, widespread gene conversion is the major evolutionary force that has shaped the locus in Mexican wild potato species. We conclude that different selective forces shaped the evolution of the R2 locus in these lineages and that co-evolution with a pathogen steered selection on different evolutionary paths.


Subject(s)
Chromosomes, Plant/genetics , Disease Resistance/genetics , Evolution, Molecular , Genetic Loci , Phylogeny , Plant Diseases/genetics , Solanum lycopersicum/genetics , Solanum tuberosum/genetics , Conserved Sequence , Genotype , Molecular Sequence Data , Multigene Family , Sequence Analysis, DNA
10.
Restor Neurol Neurosci ; 33(6): 823-34, 2015.
Article in English | MEDLINE | ID: mdl-26484695

ABSTRACT

PURPOSE: Epilepsy is a prevalent neurological disorder with a high frequency of drug resistance. While significant advancements have been made in drug delivery systems to overcome anti-epileptic drug resistance, efficacies of materials in biological systems have been poorly studied. The purpose of the study was to evaluate the anti-epileptic effects of injectable poly(epsilon-caprolactone) (PCL) microspheres for controlled release of an anticonvulsant, phenytoin (PHT), in an animal model of epilepsy. METHODS: PHT-PCL and Blank-PCL microspheres formulated using an oil-in-water (O/W) emulsion solvent evaporation method were evaluated for particle size, encapsulation efficiency, surface morphology and in-vitro drug release profile. Microspheres with the most suitable morphology and release characteristics weresubsequently injected into the hippocampus of a rat tetanus toxin model of temporal lobe epilepsy. Electrocorticography (ECoG)from the cerebral cortex were recorded for all animals. The number of seizure events, severity of seizures, and seizure duration were then compared between the two treatment groups. RESULTS: We have shown that small injections of drug-loaded microspheres are biologically tolerated and released PHT can control seizures for the expected period of time that is in accord with in-vitro release data. CONCLUSION: The study demonstrated the feasibility of polymer-based delivery systems incontrolling focal seizures.


Subject(s)
Anticonvulsants/administration & dosage , Drug Resistant Epilepsy/drug therapy , Epilepsy, Temporal Lobe/drug therapy , Phenytoin/administration & dosage , Animals , Anticonvulsants/pharmacokinetics , Cerebral Cortex/drug effects , Cerebral Cortex/physiopathology , Delayed-Action Preparations/chemical synthesis , Delayed-Action Preparations/chemistry , Disease Models, Animal , Drug Evaluation, Preclinical , Drug Resistant Epilepsy/physiopathology , Electrocorticography , Epilepsy, Temporal Lobe/physiopathology , Feasibility Studies , Hippocampus/drug effects , Hippocampus/physiopathology , Male , Microspheres , Particle Size , Phenytoin/pharmacokinetics , Polyesters/chemical synthesis , Polyesters/chemistry , Rats, Sprague-Dawley , Seizures/drug therapy , Seizures/physiopathology , Surface Properties , Tetanus Toxin , Treatment Outcome
11.
Theor Appl Genet ; 127(10): 2159-71, 2014 Oct.
Article in English | MEDLINE | ID: mdl-25159608

ABSTRACT

KEY MESSAGE: Generation of a dense SNP-based linkage map of a diploid potato population and identification of major QTLs for tuber shape and eye depth on chromosomes 2 and 10. This paper reports the construction of a genetic map of a highly heterozygous full-sib diploid potato population (06H1) based on the use of a set of 8,303 single nucleotide polymorphism (SNP) markers. The map contains 1,355 distinct loci and 2,157 SNPs, 802 of which co-segregate with other markers. We find high levels of collinearity between the 12 chromosomal maps with a recently improved version of the potato genome assembly, with the expected genetic clustering in centromeric regions. The linkage maps are used in combination with highly detailed phenotypic assessments conducted over two growing seasons to perform quantitative trait loci analysis of two important potato traits, tuber shape and eye depth. The major loci segregating for tuber shape in 06H1 map to loci on chromosomes 2 and 10, with smaller effects mapping to three other chromosomes. A major locus for tuber eye depth co-locates with the tuber shape locus on chromosome 10. To assess when tuber shape is established in the developing tuber, we have performed staged observations of tuber formation. Our observations suggest that tuber shape is determined very early in tuber development.


Subject(s)
Plant Tubers/anatomy & histology , Polymorphism, Single Nucleotide , Quantitative Trait Loci , Solanum tuberosum/genetics , Chromosome Mapping , Chromosomes, Plant , Diploidy , Genetic Linkage , Genome, Plant , Genotype , Plant Tubers/genetics
12.
G3 (Bethesda) ; 3(11): 2031-47, 2013 Nov 06.
Article in English | MEDLINE | ID: mdl-24062527

ABSTRACT

The genome of potato, a major global food crop, was recently sequenced. The work presented here details the integration of the potato reference genome (DM) with a new sequence-tagged site marker-based linkage map and other physical and genetic maps of potato and the closely related species tomato. Primary anchoring of the DM genome assembly was accomplished by the use of a diploid segregating population, which was genotyped with several types of molecular genetic markers to construct a new ~936 cM linkage map comprising 2469 marker loci. In silico anchoring approaches used genetic and physical maps from the diploid potato genotype RH89-039-16 (RH) and tomato. This combined approach has allowed 951 superscaffolds to be ordered into pseudomolecules corresponding to the 12 potato chromosomes. These pseudomolecules represent 674 Mb (~93%) of the 723 Mb genome assembly and 37,482 (~96%) of the 39,031 predicted genes. The superscaffold order and orientation within the pseudomolecules are closely collinear with independently constructed high density linkage maps. Comparisons between marker distribution and physical location reveal regions of greater and lesser recombination, as well as regions exhibiting significant segregation distortion. The work presented here has led to a greatly improved ordering of the potato reference genome superscaffolds into chromosomal "pseudomolecules".


Subject(s)
Chromosome Mapping/standards , Chromosomes, Plant/genetics , Solanum tuberosum/genetics , Biomarkers/metabolism , Chromosomes, Plant/metabolism , Genome, Plant , Internet , User-Computer Interface
13.
PLoS One ; 8(5): e63939, 2013.
Article in English | MEDLINE | ID: mdl-23704960

ABSTRACT

New sequencing and genotyping technologies have enabled researchers to generate high density SNP genotype data for mapping populations. In polyploid species, SNP data usually contain a new type of information, the allele dosage, which is not used by current methodologies for linkage analysis and QTL mapping. Here we extend existing methodology to use dosage data on SNPs in an autotetraploid mapping population. The SNP dosages are inferred from allele intensity ratios using normal mixture models. The steps of the linkage analysis (testing for distorted segregation, clustering SNPs, calculation of recombination fractions and LOD scores, ordering of SNPs and inference of parental phase) are extended to use the dosage information. For QTL analysis, the probability of each possible offspring genotype is inferred at a grid of locations along the chromosome from the ordered parental genotypes and phases and the offspring dosages. A normal mixture model is then used to relate trait values to the offspring genotypes and to identify the most likely locations for QTLs. These methods are applied to analyse a tetraploid potato mapping population of parents and 190 offspring, genotyped using an Infinium 8300 Potato SNP Array. Linkage maps for each of the 12 chromosomes are constructed. The allele intensity ratios are mapped as quantitative traits to check that their position and phase agrees with that of the corresponding SNP. This analysis confirms most SNP positions, and eliminates some problem SNPs to give high-density maps for each chromosome, with between 74 and 152 SNPs mapped and between 100 and 300 further SNPs allocated to approximate bins. Low numbers of double reduction products were detected. Overall 3839 of the 5378 polymorphic SNPs can be assigned putative genetic locations. This methodology can be applied to construct high-density linkage maps in any autotetraploid species, and could also be extended to higher autopolyploids.


Subject(s)
Chromosome Mapping , Genetic Linkage , Polymorphism, Single Nucleotide/genetics , Quantitative Trait Loci/genetics , Solanum tuberosum/genetics , Tetraploidy , Alleles , Chromosomes, Plant/genetics , Cluster Analysis , Computer Simulation , Gene Frequency/genetics , Genetic Markers , Genotype , Lod Score , Recombination, Genetic/genetics
14.
Theor Appl Genet ; 120(3): 679-89, 2010 Feb.
Article in English | MEDLINE | ID: mdl-19882336

ABSTRACT

Quantitative resistance to Globodera pallida pathotype Pa2/3, originally derived from Solanum tuberosum ssp. andigena Commonwealth Potato Collection (CPC) accession 2802, is present in several potato cultivars and advanced breeding lines. One genetic component of this resistance, a large effect quantitative trait locus (QTL) on linkage group IV (which we have renamed GpaIV(adg)(s)) has previously been mapped in the tetraploid breeding line 12601ab1. In this study, we show that GpaIV(adg)(s) is also present in a breeding line called C1992/31 via genetic mapping in an F(1) population produced by crossing C1992/31 with the G. pallida susceptible cultivar Record. C1992/31 is relatively divergent from 12601ab1, confirming that GpaIV(adg)(s) is an ideal target for marker-assisted selection in currently available germplasm. To generate markers exhibiting diagnostic potential for GpaIV(adg)(s), three bacterial artificial chromosome clones were isolated from the QTL region, sequenced, and used to develop 15 primer sets generating single-copy amplicons, which were examined for polymorphisms exhibiting linkage to GpaIV(adg)(s) in C1992/31. Eight such polymorphisms were found. Subsequently, one insertion/deletion polymorphism, three single nucleotide polymorphisms and a specific allele of the microsatellite marker STM3016 were shown to exhibit diagnostic potential for the QTL in a panel of 37 potato genotypes, 12 with and 25 without accession CPC2082 in their pedigrees. STM3016 and one of the SNP polymorphisms, C237(119), were assayed in 178 potato genotypes, arising from crosses between C1992/31 and 16 G. pallida susceptible genotypes, undergoing selection in a commercial breeding programme. The results suggest that the diagnostic markers would most effectively be employed in MAS-based approaches to pyramid different resistance loci to develop cultivars exhibiting strong, durable resistance to G. pallida pathotype Pa2/3.


Subject(s)
Breeding/methods , Immunity, Innate/genetics , Plant Diseases/genetics , Plant Diseases/immunology , Solanum tuberosum/genetics , Solanum tuberosum/parasitology , Tylenchoidea/physiology , Animals , Chromosome Mapping , Chromosome Segregation , Chromosomes, Plant/genetics , Genetic Markers , Microsatellite Repeats/genetics , Plant Diseases/parasitology , Polymorphism, Genetic , Polymorphism, Single Nucleotide/genetics , Quantitative Trait Loci/genetics , Reproducibility of Results , Solanum tuberosum/immunology
15.
Theor Appl Genet ; 113(5): 943-51, 2006 Sep.
Article in English | MEDLINE | ID: mdl-16845519

ABSTRACT

Linkage analysis, Kruskal-Wallis analysis, interval mapping and graphical genotyping were performed on a potato diploid backcross family comprising 120 clones segregating for resistance to late blight. A hybrid between the Solanum tuberosum dihaploid clone PDH247 and the long-day-adapted S. phureja clone DB226(70) had been crossed to DB226(70) to produce the backcross family. Eighteen AFLP primer combinations provided 186 and 123 informative maternal and paternal markers respectively, with 63 markers in common to both parents. Eleven microsatellite (SSR) markers proved useful for identifying chromosomes. Linkage maps of both backcross parents were constructed. The results of a Kruskal-Wallis analysis, interval mapping and graphical genotyping were all consistent with a QTL or QTLs for blight resistance between two AFLP markers 30 cM apart on chromosome 4, which was identified by a microsatellite marker. The simplest explanation of the results is a single QTL with an allele from the dihaploid parent conferring resistance to race 1, 4 of P. infestans in the foliage in the glasshouse and to race 1, 2, 3, 4, 6, 7 in the foliage in the field and in tubers from glasshouse raised plants. The QTL was of large effect, and explained 78 and 51% of the variation in phenotypic scores for foliage blight in the glasshouse and field respectively, as well as 27% of the variation in tuber blight. Graphical genotyping and the differences in blight scores between the parental clones showed that all of the foliage blight resistance is accounted for by chromosome 4, whereas undetected QTLs for tuber resistance probably exist on other chromosomes. Graphical genotyping also explained the lack of precision in mapping the QTL(s) in terms of lack of appropriate recombinant chromosomes.


Subject(s)
Chromosomes, Plant/genetics , Phytophthora/genetics , Plant Diseases/genetics , Plant Leaves/genetics , Ploidies , Quantitative Trait Loci/genetics , Solanum tuberosum/genetics , Chromosome Mapping , Genetic Linkage , Genetic Markers , Genotype , Plant Diseases/microbiology , Plant Leaves/metabolism , Population , Solanum tuberosum/metabolism , Solanum tuberosum/microbiology
16.
Theor Appl Genet ; 112(4): 744-51, 2006 Feb.
Article in English | MEDLINE | ID: mdl-16395567

ABSTRACT

The R10 and R11 late blight differentials of Black (tetraploid clones 3681ad1 and 5008ab6) were crossed with the susceptible potato (Solanum tuberosum) cultivar Maris Piper and the progeny were assessed for blight resistance in a whole plant glasshouse test using race 1,2,3,4,6,7 of Phytophthora infestans. The disease scores for the R10 population displayed a continuous distribution whereas the progeny in the R11 population could be categorised as resistant or susceptible. A bulk segregant analysis using amplified fragment length polymorphism assays was done on the ten most resistant and ten most susceptible progeny in each population and two closely linked markers were found to be associated with resistance. R11 mapped to 8.5 cM from marker PAG/MAAG_172.3 and R10 mapped as a quantitative trait locus in which marker PAC/MATC_264.1 explained 56.9% of the variation in disease scores. The results were consistent with R10 and R11 being allelic versions of genes at the R3 locus on chromosome 11. The implications are discussed for mapping R-genes which fail to give complete immunity to a pathogen.


Subject(s)
Chromosome Mapping , Chromosomes, Plant/genetics , Genes, Plant , Immunity, Innate/genetics , Phytophthora/pathogenicity , Solanum tuberosum/genetics , Solanum tuberosum/microbiology , Alleles , Crosses, Genetic , DNA, Plant/genetics , Genetic Markers , Phenotype , Plant Diseases/genetics , Plant Diseases/microbiology , Quantitative Trait Loci
17.
Proc Natl Acad Sci U S A ; 102(41): 14694-9, 2005 Oct 11.
Article in English | MEDLINE | ID: mdl-16203994

ABSTRACT

The cultivated potato, Solanum tuberosum, ultimately traces its origin to Andean and Chilean landraces developed by pre-Colombian cultivators. These Andean landraces exhibit tremendous morphological and genetic diversity, and are distributed throughout the Andes, from western Venezuela to northern Argentina, and in southern Chile. The wild species progenitors of these landraces have long been in dispute, but all hypotheses center on a group of approximately 20 morphologically very similar tuber-bearing (Solanum section Petota) wild taxa referred to as the S. brevicaule complex, distributed from central Peru to northern Argentina. We present phylogenetic analyses based on the representative cladistic diversity of 362 individual wild (261) and landrace (98) members of potato (all tuber-bearing) and three outgroup non-tuber-bearing members of Solanum section Etuberosum, genotyped with 438 robust amplified fragment length polymorphisms. Our analyses are consistent with a hypothesis of a "northern" (Peru) and "southern" (Bolivia and Argentina) cladistic split for members of the S. brevicaule complex, and with the need for considerable reduction of species in the complex. In contrast to all prior hypotheses, our data support a monophyletic origin of the landrace cultivars from the northern component of this complex in Peru, rather than from multiple independent origins from various northern and southern members.


Subject(s)
Crops, Agricultural/genetics , Evolution, Molecular , Phylogeny , Solanum tuberosum/genetics , Genotype , Nucleic Acid Amplification Techniques , Polymorphism, Restriction Fragment Length , Random Amplified Polymorphic DNA Technique , South America , Species Specificity
18.
Genetics ; 168(2): 983-95, 2004 Oct.
Article in English | MEDLINE | ID: mdl-15514069

ABSTRACT

Interval mapping of quantitative trait loci (QTL) for resistance to late blight, height, and maturity was performed on a tetraploid full-sib family of potato comprising 227 clones from a cross between a susceptible parent, 12601ab1, and a resistant cultivar, Stirling, which were of similar height and main crop maturity. Thirty-eight AFLP primer combinations provided 585 informative markers, and 23 SSRs proved useful for identifying linkage groups (LGs). A simplex QTL allele was found on LGV of Stirling close to marker STM3179, which was associated with early maturity, short plants, and susceptibility to blight and explained 54.7, 26.5, 26.3, and 17.5% of the variation for maturity, height, tuber blight, and foliage blight. When the residuals from the regressions of foliage and tuber blight on maturity were analyzed, there was no significant effect of a QTL on LGV, but a duplex QTL allele for resistance was found on LGIV of Stirling, which explained 30.7 and 13.6% of the variation for foliage and tuber blight on an additive model. Partial dominance for resistance explained even more of the variation, up to 37.2% for foliage blight. A major gene for blight resistance in Stirling was also mapped to LGXI.


Subject(s)
Chromosomes, Plant/genetics , Phytophthora/genetics , Plant Diseases , Ploidies , Quantitative Trait Loci/genetics , Solanum tuberosum/genetics , Chromosome Mapping , Drug Resistance , Genetic Linkage , Genetic Markers , Genotype , Plant Diseases/genetics , Plant Diseases/microbiology , Population
19.
J Strength Cond Res ; 16(2): 165-72, 2002 May.
Article in English | MEDLINE | ID: mdl-11991766

ABSTRACT

Electrical muscle stimulation devices (EMS) have been advertised to increase muscle strength, to decrease body weight and body fat, and to improve muscle firmness and tone in healthy individuals. This study sought to test those claims. Twenty-seven college-aged volunteers were assigned to either an EMS (n = 16) or control group (n = 11). The EMS group underwent stimulation 3 times per week following the manufacturer's recommendations, whereas the control group underwent concurrent sham stimulation sessions. Bilaterally, the muscles stimulated included the biceps femoris, quadriceps, biceps, triceps, and abdominals (rectus abdominus and obliques). An identical pre- and posttesting battery included measurements of body weight, body fat (via skinfolds), girths, isometric and isokinetic strength (biceps, triceps, quadriceps, hamstrings), and appearance (via photographs from the front, side, and back). EMS had no significant effect on the any of the measured parameters. Thus, claims relative to the effectiveness of EMS for the apparently healthy individual are not supported by the findings of this study.


Subject(s)
Body Composition/physiology , Body Constitution/physiology , Electric Stimulation Therapy/methods , Muscle, Skeletal/physiology , Adolescent , Adult , Female , Humans , Male , Product Surveillance, Postmarketing , Treatment Outcome , Weight Loss/physiology
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