Genotyping-by-sequencing
SNP discovery and genetic mapping using genotyping by sequencing of whole genome genomic DNA from a pea RIL population
... generation sequencing (NGS) technologies, various accessions within species even with complex genomes could be sequenced ...of sequencing large genomes with high levels of repeated sequences first led to ...
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Genotyping by sequencing can reveal the complex mosaic genomes in gene pools resulting from reticulate evolution: a case study in diploid and polyploid citrus
... (next-generation sequencing) tech- nologies has considerably changed ways of analysing plant evolution, moving from phylogenetics to ...as genotyping by sequencing (GBS) ( Elshire et ...
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Analysis of genotyping-by-sequencing (Gbs) data
... with respect to the above parameters to establish the optimal experimental design to ensure appropriate read depth is reached. 2. Removal of duplicate reads: advantages and limitations Duplicate reads arising from PCR ...
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Combining genotyping by sequencing and genomic prediction within bi-parental crosses to speed up selection of grapevine cultivars
... RIxGW bud 122 1552 0.70 [0.43,0.88] 0.47 ± 0.15 0.75 [0.66,0.82] CSxRGM transpC 132 2016 0.41 [0.02,0.99] -0.09 ± 0.19 0.12 [0.00,0.40] It is helpful to interpret the differences in prediction accuracy (ρ) along with the ...
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Genotyping by sequencing reveals the interspecific C. maxima / C. reticulata admixture along the genomes of modern citrus varieties of mandarins, tangors, tangelos, orangelos and grapefruits
... The objective of the present work was to develop an efficient GBS approach in citrus, to analyze in depth the phylogenomic structures of modern varieties of the horticultural groups derived from the C. reticulata and C. ...
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Genotyping by Sequencing Highlights a Polygenic Resistance to Ralstonia pseudosolanacearum in Eggplant (Solanum melongena L.)
... limited by numerous diseases, including the devastating bacterial wilt (BW) caused by the Ralstonia solanacearum species complex ...influenced by environmental ...
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Genotyping by sequencing using specific allelic capture to build a high-density genetic map of durum wheat
... in sequencing capabilities and dramatic cost reductions have facilitated genome-wide discovery of SNPs, even for polyploid species such as wheat [ 22 ...RNAseq sequencing can help generate large SNP ...
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Genotyping-by-sequencing and SNP-arrays are complementary for detecting quantitative trait loci by tagging different haplotypes in association studies
... high-throughput genotyping technologies [ 33 – 35 ...identified by both ...called by their GBS pipeline and showed that the accuracy of imputation for missing genotypes was hardly affected by ...
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High throughput SNP discovery and genotyping in hexaploid wheat
... effective genotyping technologies, Single Nucleotide Polymorphisms (SNPs) have been adopted as the markers of choice in ...generation sequencing systems opened the way to whole genome resequencing of ...
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Advances in genotyping microsatellite markers through sequencing and consequences of scoring methods for Ceratonia siliqua (Leguminosae)
... characterized by several sources of sequence variation, scor- ing SSRs by amplicon size led to incorrect allele identification for ...found by Vartia et al. (2016), who genotyped microsatellites ...
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RH mapping by sequencing: chromosome-scale assembly of the duck genome
... provided by the emergence of Next Generation Sequencing ...assemblies by taking advantage of the high density SNP chips that provide a large number of markers that can be efficiently genotyped on the ...
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Reconstruction of plasmids by shotgun sequencing from environmental DNA: which bioinformatic workflow?
... cyclocontig by Antipov et ...provided by a conventional de novo assembler to detect cyclic sequences (but 440 requires a specific format as input) and can be associated with any tools in a ...given ...
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Mass spectrometry sequencing of long digital polymers facilitated by programmed inter-byte fragmentation
... to MS/MS of DNA, which mostly generate w-type ions as well as numerous useless secondary fragments (Supplementary Fig. 2 ). To simplify this situation, cleavable NO-C bonds were incorpo- rated in between each byte in the ...
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Characterization of an extensive rainbow trout miRNA transcriptome by next generation sequencing
... differentiation or apoptosis. In humans, miR-15 is in- volved in apoptosis by targeting BCL2 [34] and miR-29 in- hibits cell proliferation and induces cell cycle arrest [35]. Previous studies already reported the ...
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Methylation hotspots evidenced by deep sequencing in patients with facioscapulohumeral dystrophy and mosaicism
... followed by deep sequencing (figure ...deep sequencing, data are analyzed using a specific workflow (figure e-1A, ...the sequencing coverage (figure e-1B, ...CpG by CpG and calculated the ...
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Computational and statistical approaches to analyzing variants identified by exome sequencing
... and, by their very nature, indirect genetic marker studies have ...New sequencing-based studies have emerged and are poised to change genetic mapping fundamentally by enabling the direct ...
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FORK-seq: replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing
... suppressed by competitor DNA or when nucleosomes are preassembled on the ...nanopore sequencing-based, single-molecule replication mapping method termed D-NAscent that suggests that up to 20% of all ...
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Peptide sequencing challenge
... / La version de cette publication peut être l’une des suivantes : la version prépublication de l’auteur, la version acceptée du manuscrit ou la version de l’éditeur. For the publisher’[r] ...
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Computational and statistical approaches to analyzing variants identified by exome sequencing
... Figure 2. An illustration of rare variant association tests. Cases and controls from a hypothetical complex disease exome sequencing project are depicted. The horizontal bars indicate aligned exome sequences for ...
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Swine genome sequencing consortium (SGSC): a strategic roadmap for sequencing the pig genome.
... capabilities by related disciplines; and (c) identification of needs and opportunities to ensure full technology transfer and commercializa- tion (Hamernik et ...
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