Mareike Knäbel
YOU?
Author Swipe
View article: High-density linkage map construction in an autotetraploid blueberry population and detection of quantitative trait loci for anthocyanin content
High-density linkage map construction in an autotetraploid blueberry population and detection of quantitative trait loci for anthocyanin content Open
Highbush blueberry ( Vaccinium corymbosum , 2n = 4x = 48) is the most cultivated type of blueberry, both in New Zealand and overseas. Its perceived nutritional value is conferred by phytonutrients, particularly anthocyanins. Identifying th…
View article: Construction of a high-density genetic map for hexaploid kiwifruit (<i>Actinidia chinensis</i> var. <i>deliciosa</i>) using genotyping by sequencing
Construction of a high-density genetic map for hexaploid kiwifruit (<i>Actinidia chinensis</i> var. <i>deliciosa</i>) using genotyping by sequencing Open
Commercially grown kiwifruit (genus Actinidia) are generally of two sub-species which have a base haploid genome of 29 chromosomes. The yellow-fleshed Actinidia chinensis var. chinensis, is either diploid (2n = 2x = 58) or tetraploid (2n =…
View article: Sensory-Directed Genetic and Biochemical Characterization of Volatile Terpene Production in Kiwifruit
Sensory-Directed Genetic and Biochemical Characterization of Volatile Terpene Production in Kiwifruit Open
Terpene volatiles are found in many important fruit crops, but their relationship to flavor is poorly understood. Here, we demonstrate using sensory descriptive and discriminant analysis that 1,8-cineole contributes a key floral/eucalyptus…
View article: Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
The Axiom Pear 70 K Genotyping Array, with its high efficiency in a widely diverse panel of Pyrus species and cultivars, represents a valuable resource for a multitude of molecular studies in pear. The characterization of the USDA-NCGR col…
View article: Additional file 1: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 1: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
Polymorphism discovery panel. The 55 Pyrus accessions re-sequenced for variant discovery. For each sample the table shows the accession’s Plant Introduction (PI) number, the inventory lot identifier, the assigned taxon and common plant nam…
View article: Additional file 3: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 3: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
Screening panel. The 288 Pyrus accessions screened with the Axiom™ 700 K Pear Genotyping Array. For each sample, the Table shows the accession’s Plant Introduction (PI) number, the inventory lot identifier, the assigned taxon and common pl…
View article: Additional file 4: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 4: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
List of trios used for Mendelian check. A total of 22 trios (two parents, P01 and P02, and one offspring, Off) were included in the screening panel and were used for the Mendelian test on the PolyHighResolution SNPs of the Axiom™ 700 K Pea…
View article: Additional file 14: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 14: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
Number of samples for each species in the screening panel and in the USDA-NCGR collection. The number of samples for each Pyrus species are reported for the screening panel and for the entire USDA National Clonal Germplasm Collection of Co…
View article: Additional file 11: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 11: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
Comparison of SNP array and GBS data error rate. The total number of Axiom™ 70 K Pear Genotyping Array and GBS-based SNP markers segregating in a backcross manner in the P493 population are reported. The total numbers of data points and er…
View article: Additional file 2: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 2: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
Explanation of the SnpEff categories for all annotated variants. The number of variants for each type of predicted impact on the gene and the explanation of the effects are shown, as reported in the SnpEff manual ( http://snpeff.sourceforg…
View article: Additional file 8: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 8: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
Genotyping panel. The 1416 Pyrus accessions genotyped with the Axiom™ 70 K Pear Genotyping Array. For each sample the table shows the accession’s Plant Introduction (PI) number, the inventory lot identifier, the assigned taxon and common p…
View article: Additional file 6: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 6: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
Concordance Check results for the samples of the screening panel. Pairwise concordance values 97% are reported, for a total of 19 groups of duplicated samples (three ‘Bartlett’ pairwise concordances count as one group). Putative sampling e…
View article: Additional file 10: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization
Additional file 10: of Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization Open
Statistics about the parental genetic maps of the F1 population P16.009. The number of markers, the length in cM, the average distance between markers (in cM) and the length of the largest gap (in cM) are reported for each Linkage Group (L…
View article: Additional file 12: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 12: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Markers used in this study. List of names of extracted FASTA sequences for SNP markers used to construct the genome (TXT 841Â kb)
View article: Additional file 7: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 7: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Details of sequenced cDNAâ s generated. Fasta formatted sequences of 812 bidirectionally sequenced expressed sequence tag clones from A. chinensis var. chinensis used in evaluating manually annotated gene models of Red5. (FASTA 1204Â kb)
View article: Additional file 1: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 1: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Map back rates to the Red5 genome sequence.Summary of the numbers of input reads reads that align to the RED5 genome construction (XLSX 10Â kb)
View article: Additional file 5: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 5: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
‘Hongyang’ Gene models that align to Red5 genome.List of Actinidia chinensis ‘Hongyang’ genes that align to the Red5 whole genome sequence. Additional file 5A: models from original ‘Hongyang’ annotation [14]. Additional file 5B: models fro…
View article: Additional file 6: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 6: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Revised â Hongyangâ genes omitted from the manually edited gene set. Average RNA-Seq read coverage of the 1069 KIR V2 models perfectly aligned to the Red5 genome without a protein match in the Red5 gene set. (XLSX 114Â kb)
View article: Additional file 2: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 2: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
BAC alignment to chromosome 25.Table summarising alignments of contigs from 22 BAC clones to chromosome 25 of the Red5 assembly (XLSX 15Â kb)
View article: Additional file 13: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 13: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Comparison of Actinidia ESTâ s to manually annotated gene models.Summary of the raw results for the best BLAT gene set match protein of the sequenced cDNAs and manually annotated predicted peptides. (XLSX 102Â kb)
View article: Additional file 9: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 9: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Selected gene models used for phylogeny.Table of EXPANSIN genes and ACS genes identified in this study (XLSX 19Â kb)
View article: Additional file 8: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 8: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Sequenced cDNAâ s used to verify the gene models.Fasta formatted predicted protein sequences of 550 bidirectionally sequenced expressed sequence tag clones from A. chinensis var. chinensis used in evaluating manually annotated gene models …
View article: Additional file 4: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 4: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
BLASTP comparison of manually edited gene models to the revised ‘Hongyang’ gene models. List of best reciprocal BLASTp matches between the revised Actinidia chinensis ‘Hongyang’ genes [18]and the Red5 gene set (XLSX 436 kb)
View article: Integrated high-density consensus genetic map of<i>Pyrus</i>and anchoring of the ‘Bartlett’ v1.0 (<i>Pyrus communis</i>) genome
Integrated high-density consensus genetic map of<i>Pyrus</i>and anchoring of the ‘Bartlett’ v1.0 (<i>Pyrus communis</i>) genome Open
Genetic maps are essential tools for pear genetics and genomics research. In this study, we first constructed an integrated simple sequence repeat (SSR) and single nucleotide polymorphism (SNP)-based consensus genetic map for pear based on…
View article: Additional file 2: Figure S1. of Genetic control of pear rootstock-induced dwarfing and precocity is linked to a chromosomal region syntenic to the apple Dw1 loci
Additional file 2: Figure S1. of Genetic control of pear rootstock-induced dwarfing and precocity is linked to a chromosomal region syntenic to the apple Dw1 loci Open
Alignment of linkage groups from ‘Louise Bonne de Jersey’ (LBJ) and ‘Old Home’ (OH) pears with the maps of ‘Moonglow’ (Moon) and PEAR1 (Montanari et al., 2013). The markers are named using the NCBI dbSNP accessions and their positions are …