keyword
MENU ▼
Read by QxMD icon Read
search

Tetraploid potatoes

keyword
https://www.readbyqxmd.com/read/29875792/pedigree-based-deciphering-of-genome-wide-conserved-patterns-in-an-elite-potato-parental-line
#1
Xiaochuan Li, Jianfei Xu, Shaoguang Duan, Chunsong Bian, Jun Hu, Huolin Shen, Guangcun Li, Liping Jin
Elite parental lines are more likely to breed fine varieties, but knowledge about elite parents and their genetic backgrounds is limited. In this paper, we investigated the pedigree relationships of potato varieties bred worldwide and in China. Several elite parents were identified, and these parents were more frequently used as parents in breeding programs across different time periods and countries. We next used 2b-RAD, a reduced-representation sequencing method, to genotype the elite parent Mira and 24 of its offspring...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29868858/tripoly-haplotype-estimation-for-polyploids-using-sequencing-data-of-related-individuals
#2
Ehsan Motazedi, Dick de Ridder, Richard Finkers, Samantha Baldwin, Susan Thomson, Katrina Monaghan, Chris Maliepaard
Motivation: Knowledge of haplotypes, i.e. phased and ordered marker alleles on a chromosome, is essential to answer many questions in genetics and genomics. By generating short pieces of DNA sequence, high-throughput modern sequencing technologies make estimation of haplotypes possible for single individuals. In polyploids, however, haplotype estimation methods usually require deep coverage to achieve sufficient accuracy. This often renders sequencing-based approaches too costly to be applied to large populations needed in studies of Quantitative Trait Loci (QTL)...
June 1, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29868076/maximization-of-markers-linked-in-coupling-for-tetraploid-potatoes-via-monoparental-haploids
#3
Annette M Bartkiewicz, Friederike Chilla, Diro Terefe-Ayana, Jens Lübeck, Josef Strahwald, Eckhard Tacke, Hans-Reinhard Hofferbert, Marcus Linde, Thomas Debener
Haploid potato populations derived from a single tetraploid donor constitute an efficient strategy to analyze markers segregating from a single donor genotype. Analysis of marker segregation in populations derived from crosses between polysomic tetraploids is complicated by a maximum of eight segregating alleles, multiple dosages of the markers and problems related to linkage analysis of marker segregation in repulsion. Here, we present data on two monoparental haploid populations generated by prickle pollination of two tetraploid cultivars with Solanum phureja and genotyped with the 12...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29794167/genomic-selection-for-late-blight-and-common-scab-resistance-in-tetraploid-potato-solanum-tuberosum
#4
Felix Enciso-Rodriguez, David Douches, Marco Lopez-Cruz, Joseph Coombs, Gustavo de Los Campos
Potato ( Solanum tuberosum ) is a staple food crop and is considered one of the main sources of carbohydrates worldwide. Late blight ( Phytophthora infestans ) and common scab ( Streptomyces scabies ) are two of the primary production constraints faced by potato farming. Previous studies have identified a few resistance genes for both late blight and common scab; however, these genes explain only a limited fraction of the heritability of these diseases. Genomic selection has been demonstrated to be an effective methodology for breeding value prediction in many major crops (e...
May 24, 2018: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/29792822/genetic-identity-in-genebanks-application-of-the-solcap-12k-snp-array-in-fingerprinting-and-diversity-analysis-in-the-global-in-trust-potato-collection
#5
David Ellis, Oswaldo Chavez, Joseph J Coombs, Julian V Soto, Rene Gomez, David S Douches, Ana Panta, Rocio Silvestre, Noelle Lynette Anglin
Breeders rely on genetic integrity of material from genebanks, however, mislabeling and errors in original data can occur. Paired samples of original material and their in vitro counterparts from 250 diverse potato landrace accessions from the International Potato Center (CIP), were fingerprinted using the Infinium 12K V2 Potato Array to confirm genetic identity and evaluate genetic diversity. Diploid, triploid, and tetraploid accessions were included representing seven cultivated potato taxa (Hawkes, 1990)...
May 24, 2018: Genome Génome / Conseil National de Recherches Canada
https://www.readbyqxmd.com/read/29735370/generation-of-%C3%AE-solanine-free-hairy-roots-of-potato-by-crispr-cas9-mediated-genome-editing-of-the-st16dox-gene
#6
Masaru Nakayasu, Ryota Akiyama, Hyoung Jae Lee, Keishi Osakabe, Yuriko Osakabe, Bunta Watanabe, Yukihiro Sugimoto, Naoyuki Umemoto, Kazuki Saito, Toshiya Muranaka, Masaharu Mizutani
Potato (Solanum tuberosum) is a major food crop, while the most tissues of potato accumulates steroidal glycoalkaloids (SGAs) α-solanine and α-chaconine. Since SGAs confer a bitter taste on human and show the toxicity against various organisms, reducing the SGA content in the tubers is requisite for potato breeding. However, generation of SGA-free potato has not been achieved yet, although silencing of several SGA biosynthetic genes led a decrease in SGAs. Here, we show that the knockout of St16DOX encoding a steroid 16α-hydroxylase in SGA biosynthesis causes the complete abolition of the SGA accumulation in potato hairy roots...
April 24, 2018: Plant Physiology and Biochemistry: PPB
https://www.readbyqxmd.com/read/29722786/polymapr-linkage-analysis-and-genetic-map-construction-from-f1-populations-of-outcrossing-polyploids
#7
Peter M Bourke, Geert van Geest, Roeland E Voorrips, Johannes Jansen, Twan Kranenburg, Arwa Shahin, Richard G F Visser, Paul Arens, Marinus J M Smulders, Chris Maliepaard
Motivation: Polyploid species carry more than two copies of each chromosome, a condition found in many of the world's most important crops. Genetic mapping in polyploids is more complex than in diploid species, resulting in a lack of available software tools. These are needed if we are to realise all the opportunities offered by modern genotyping platforms for genetic research and breeding in polyploid crops. Results: polymapR is an R package for genetic linkage analysis and integrated genetic map construction from bi-parental populations of outcrossing autopolyploids...
May 2, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29688035/exploring-the-potential-and-limitations-of-genotyping-by-sequencing-for-snp-discovery-and-genotyping-in-tetraploid-potato
#8
Maxime Bastien, Chiheb Boudhrioua, Gabrielle Fortin, François Belzile
Genotyping-by-sequencing (GBS) potentially offers a cost-effective alternative for SNP discovery and genotyping. Here, we report the exploration of GBS in tetraploid potato. Both ApeKI and PstI/MspI enzymes were used for library preparation on eight diverse potato genotypes. ApeKI yielded more markers than PstI/MspI but provided a lower read coverage per marker, resulting in more missing data and limiting effective genotyping to the tetraploid mode. We then assessed the accuracy of these SNPs by comparison with SolCAP data (5824 data points in diploid mode and 3243 data points in tetraploid mode) and found the match rates between genotype calls was 90...
April 24, 2018: Genome Génome / Conseil National de Recherches Canada
https://www.readbyqxmd.com/read/29563919/prospects-and-potential-uses-of-genomic-prediction-of-key-performance-traits-in-tetraploid-potato
#9
Benjamin Stich, Delphine Van Inghelandt
Genomic prediction is a routine tool in breeding programs of most major animal and plant species. However, its usefulness for potato breeding has not yet been evaluated in detail. The objectives of this study were to (i) examine the prospects of genomic prediction of key performance traits in a diversity panel of tetraploid potato modeling additive, dominance, and epistatic effects, (ii) investigate the effects of size and make up of training set, number of test environments and molecular markers on prediction accuracy, and (iii) assess the effect of including markers from candidate genes on the prediction accuracy...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29547652/discriminant-analysis-of-principal-components-and-pedigree-assessment-of-genetic-diversity-and-population-structure-in-a-tetraploid-potato-panel-using-snps
#10
Sofía I Deperi, Martín E Tagliotti, M Cecilia Bedogni, Norma C Manrique-Carpintero, Joseph Coombs, Ruofang Zhang, David Douches, Marcelo A Huarte
The reported narrow genetic base of cultivated potato (Solanum tuberosum) can be expanded by the introgression of many related species with large genetic diversity. The analysis of the genetic structure of a potato population is important to broaden the genetic base of breeding programs by the identification of different genetic pools. A panel composed by 231 diverse genotypes was characterized using single nucleotide polymorphism (SNP) markers of the Illumina Infinium Potato SNP Array V2 to identify population structure and assess genetic diversity using discriminant analysis of principal components (DAPC) and pedigree analysis...
2018: PloS One
https://www.readbyqxmd.com/read/29520461/a-reversible-light-and-genotype-dependent-acquired-thermotolerance-response-protects-the-potato-plant-from-damage-due-to-excessive-temperature
#11
Almudena Trapero-Mozos, Laurence J M Ducreux, Craita E Bita, Wayne Morris, Cosima Wiese, Jenny A Morris, Christy Paterson, Peter E Hedley, Robert D Hancock, Mark Taylor
A powerful acquired thermotolerance response in potato was demonstrated and characterised in detail, showing the time course required for tolerance, the reversibility of the process and requirement for light. Potato is particularly vulnerable to increased temperature, considered to be the most important uncontrollable factor affecting growth and yield of this globally significant crop. Here, we describe an acquired thermotolerance response in potato, whereby treatment at a mildly elevated temperature primes the plant for more severe heat stress...
June 2018: Planta
https://www.readbyqxmd.com/read/29490684/transcriptome-of-russet-norkotah-and-its-clonal-selection-txns278
#12
Julien Levy, Cecilia Tamborindeguy, Giridhar Athrey, Douglas C Scheuring, Jeffrey W Koym, J Creighton Miller
OBJECTIVES: Potato has a large genetic diversity. This diversity is in part due to somaclonal variability that appears within potato selections for which tubers are used as seeds. However, the potato tetraploid genome, as well as the use of tubers for crop propagation, does not allow for easy genetic studies. The objective is to gain knowledge at the genomic level from standard Russet Norkotah and a subclonal Russet Norkotah selection TXNS278. DATA DESCRIPTION: In this report, we used RNA-seq, which allows genome-wide gene expression analysis to sequence the transcriptomes of the subclonal Russet Norkotah selection TXNS278 with standard Russet Norkotah grown in commercial fields...
March 1, 2018: BMC Research Notes
https://www.readbyqxmd.com/read/29338687/use-of-easy-measurable-phenotypic-traits-as-a-complementary-approach-to-evaluate-the-population-structure-and-diversity-in-a-high-heterozygous-panel-of-tetraploid-clones-and-cultivars
#13
Martin E Tagliotti, Sofia I Deperi, Maria C Bedogni, Ruofang Zhang, Norma C Manrique Carpintero, Joseph Coombs, David Douches, Marcelo A Huarte
BACKGROUND: Diversity in crops is fundamental for plant breeding efforts. An accurate assessment of genetic diversity, using molecular markers, such as single nucleotide polymorphism (SNP), must be able to reveal the structure of the population under study. A characterization of population structure using easy measurable phenotypic traits could be a preliminary and low-cost approach to elucidate the genetic structure of a population. A potato population of 183 genotypes was evaluated using 4859 high-quality SNPs and 19 phenotypic traits commonly recorded in potato breeding programs...
January 16, 2018: BMC Genetics
https://www.readbyqxmd.com/read/29314007/chlorophyll-fluorescence-imaging-reveals-genetic-variation-and-loci-for-a-photosynthetic-trait-in-diploid-potato
#14
Aina E Prinzenberg, Marcela Víquez-Zamora, Jeremy Harbinson, Pim Lindhout, Sjaak van Heusden
Physiology and genetics are tightly interrelated. Understanding the genetic basis of a physiological trait such as the quantum yield of the photosystem II, or photosynthetic responses to environmental changes will benefit the understanding of these processes. By means of chlorophyll fluorescence (CF) imaging, the quantum yield of photosystem II can be determined rapidly, precisely and non-invasively. In this article, the genetic control and variation in the steady-state quantum yield of PSII (ΦPSII ) is analyzed for diploid potato plants...
January 4, 2018: Physiologia Plantarum
https://www.readbyqxmd.com/read/29307117/genetic-mapping-of-quantitative-trait-loci-for-tuber-cadmium-and-zinc-concentration-in-potato-reveals-associations-with-maturity-and-both-overlapping-and-independent-components-of-genetic-control
#15
Molla F Mengist, Sheila Alves, Denis Griffin, Joanne Creedon, Mike J McLaughlin, Peter W Jones, Dan Milbourne
Cd is a toxic metal, whilst Zn is an essential for plant and human health. Both can accumulate in potato tubers. We examine the genetic control of this process. The aim of this study was to map quantitative trait loci (QTLs) influencing tuber concentrations of cadmium (Cd) and zinc (Zn). We developed a segregating population comprising 188 F1 progeny derived from crossing two tetraploid cultivars exhibiting divergent tuber-Cd-accumulation phenotypes. These progeny were genotyped using the SolCap 8303 SNP array, and evaluated for Cd, Zn, and maturity-related traits...
April 2018: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28898255/molecular-and-biochemical-characterization-of-a-potato-collection-with-contrasting-tuber-carotenoid-content
#16
Maria Sulli, Giuseppe Mandolino, Monica Sturaro, Chiara Onofri, Gianfranco Diretto, Bruno Parisi, Giovanni Giuliano
After wheat and rice, potato is the third most important staple food worldwide. A collection of ten tetraploid (Solanum tuberosum) and diploid (S. phureja and S. chacoense) genotypes with contrasting carotenoid content was subjected to molecular characterization with respect to candidate carotenoid loci and metabolic profiling using LC-HRMS. Irrespective of ploidy and taxonomy, tubers of these genotypes fell into three groups: yellow-fleshed, characterized by high levels of epoxy-xanthophylls and xanthophyll esters and by the presence of at least one copy of a dominant allele of the β-Carotene Hydroxylase 2 (CHY2) gene; white-fleshed, characterized by low carotenoid levels and by the presence of recessive chy2 alleles; and orange-fleshed, characterized by high levels of zeaxanthin but low levels of xanthophyll esters, and homozygosity for a Zeaxanthin Epoxidase (ZEP) recessive allele...
2017: PloS One
https://www.readbyqxmd.com/read/28869794/extensive-genome-heterogeneity-leads-to-preferential-allele-expression-and-copy-number-dependent-expression-in-cultivated-potato
#17
Gina M Pham, Linsey Newton, Krystle Wiegert-Rininger, Brieanne Vaillancourt, David S Douches, C Robin Buell
Relative to homozygous diploids, the presence of multiple homologs or homeologs in polyploids affords greater tolerance to mutations that can impact genome evolution. In this study, we describe sequence and structural variation in the genomes of six accessions of cultivated potato (Solanum tuberosum L.), a vegetatively propagated autotetraploid and their impact on the transcriptome. Sequence diversity was high with a mean single nucleotide polymorphisms (SNP) rate of approximately 1 per 50 bases suggestive of high levels of allelic diversity...
September 4, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28830357/physical-mapping-of-qtl-for-tuber-yield-starch-content-and-starch-yield-in-tetraploid-potato-solanum-tuberosum-l-by-means-of-genome-wide-genotyping-by-sequencing-and-the-8-3-k-solcap-snp-array
#18
Elske Maria Schönhals, Jia Ding, Enrique Ritter, Maria João Paulo, Nicolás Cara, Ekhard Tacke, Hans-Reinhard Hofferbert, Jens Lübeck, Josef Strahwald, Christiane Gebhardt
BACKGROUND: Tuber yield and starch content of the cultivated potato are complex traits of decisive importance for breeding improved varieties. Natural variation of tuber yield and starch content depends on the environment and on multiple, mostly unknown genetic factors. Dissection and molecular identification of the genes and their natural allelic variants controlling these complex traits will lead to the development of diagnostic DNA-based markers, by which precision and efficiency of selection can be increased (precision breeding)...
August 22, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28712501/gene-editing-in-polyploid-crops-wheat-camelina-canola-potato-cotton-peanut-sugar-cane-and-citrus
#19
REVIEW
Donald P Weeks
Polyploid crops make up a significant portion of the major food and fiber crops of the world and include wheat, potato, cotton, apple, peanut, citrus, and brassica oilseeds such as rape, canola, and Camelina. The presence of three sets of chromosomes in triploids, four sets in tetraploids, and six sets in hexaploids present significant challenges to conventional plant breeding and, potentially, to efficient use of rapidly emerging gene and genome-editing systems such as zinc finger nucleases, single-stranded oligonucleotides, TALE effector nucleases, and clustered regularly interspaced short palindromic repeats (CRISPR/Cas9)...
2017: Progress in Molecular Biology and Translational Science
https://www.readbyqxmd.com/read/28707250/genomic-prediction-of-starch-content-and-chipping-quality-in-tetraploid-potato-using-genotyping-by-sequencing
#20
Elsa Sverrisdóttir, Stephen Byrne, Ea Høegh Riis Sundmark, Heidi Øllegaard Johnsen, Hanne Grethe Kirk, Torben Asp, Luc Janss, Kåre L Nielsen
Genomic prediction models for starch content and chipping quality show promising results, suggesting that genomic selection is a feasible breeding strategy in tetraploid potato. Genomic selection uses genome-wide molecular markers to predict performance of individuals and allows selections in the absence of direct phenotyping. It is regarded as a useful tool to accelerate genetic gain in breeding programs, and is becoming increasingly viable for crops as genotyping costs continue to fall. In this study, we have generated genomic prediction models for starch content and chipping quality in tetraploid potato to facilitate varietal development...
October 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
keyword
keyword
42554
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"