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Ultra-high-throughput DArTseq-based silicoDArT and SNP markers for genomic studies in macadamia

. Methodology: Andrzej Kilian. Software: Andrzej Kilian. Supervision: Bruce Topp. 16 / 20 Writing ? original draft: Mobashwer Alam. Writing ? review & editing: Mobashwer Alam, Jodi Neal, Katie O'Connor ... , Andrzej Kilian, Bruce Topp. 17 / 20 18 / 20 19 / 20 1. Hardner CM , Peace C , Lowe AJ , Neal J , Pisanu P , Powell M , et al. Genetic Resources and Domestication of Macadamia. Horticultural Reviews . 2009

Effective BAC clone anchoring with genotyping-by-sequencing and Diversity Arrays Technology in a large genome cereal rye

Gawro?ski KatarzynaTofil Pawe? Milczarski Stefan Stoja?owski Beata My?k?w Ma?gorzata Targo?ska-Karasek Agnieszka Gr?dzielewska Mi?osz Smolik Andrzej Kilian Hanna Bolibok-Br?goszewska Identification of

A mosaic monoploid reference sequence for the highly complex genome of sugarcane

Aitken 7 8 Jerry Jenkins 6 Guillaume Martin Carine Charron 3 4 Catherine Hervouet 3 4 Laurent Costet Nabila Yahiaoui 3 4 Adam Healey 6 David Sims 6 Yesesri Cherukuri 6 Avinash Sreedasyam 6 Andrzej Kilian

Identification of Single Nucleotide Polymorphisms Associated with Brown Rust Resistance, α-Amylase Activity and Pre-harvest Sprouting in Rye (Secale cereale L.)

Rye is a crop with relatively high resistance to biotic and abiotic stresses. However, the resistance to brown rust (Puccinia recondita f. sp. secalis) and pre-harvest sprouting are still not satisfactory. High α-amylase activity is also among the main disadvantages of this species. Therefore, effective tools, e.g. molecular markers, allowing precise and environmentally...

QTL Conferring Fusarium Crown Rot Resistance in the Elite Bread Wheat Variety EGA Wylie

Fusarium crown rot (FCR) is one of the most damaging cereal diseases in semi-arid regions worldwide. The genetics of FCR resistance in the bread wheat (Triticum eastivum L.) variety EGA Wylie, the most resistant commercial variety available, was studied by QTL mapping. Three populations of recombinant inbred lines were developed with this elite variety as the resistant parent...

Diversity Arrays Technology (DArT) Marker Platforms for Diversity Analysis and Linkage Mapping in a Complex Crop, the Octoploid Cultivated Strawberry (Fragaria × ananassa)

Cultivated strawberry (Fragaria × ananassa) is a genetically complex allo-octoploid crop with 28 pairs of chromosomes (2n = 8x = 56) for which a genome sequence is not yet available. The diploid Fragaria vesca is considered the donor species of one of the octoploid sub-genomes and its available genome sequence can be used as a reference for genomic studies. A wide number of...

Genome-wide characterization of genetic diversity and population structure in Secale

Background Numerous rye accessions are stored in ex situ genebanks worldwide. Little is known about the extent of genetic diversity contained in any of them and its relation to contemporary varieties, since to date rye genetic diversity studies had a very limited scope, analyzing few loci and/ or few accessions. Development of high throughput genotyping methods for rye opened the...

Improvement of the banana “Musa acuminata” reference sequence using NGS data and semi-automated bioinformatics methods

Background Recent advances in genomics indicate functional significance of a majority of genome sequences and their long range interactions. As a detailed examination of genome organization and function requires very high quality genome sequence, the objective of this study was to improve reference genome assembly of banana (Musa acuminata). Results We have developed a modular...

Development of DArT Marker Platforms and Genetic Diversity Assessment of the U.S. Collection of the New Oilseed Crop Lesquerella and Related Species

Kilian 0 David A. Dierig 0 Matthew E. Hudson, University of Illinois, United States of America 0 1 USDA-ARS National Center for Genetic Resources Preservation, Fort Collins, Colorado, United States of

Genetic mapping of resistance to Diuraphis noxia (Kurdjumov) biotype 2 in wheat (Triticum aestivum L.) accession CI2401

The RWA, Diuraphis noxia (Kurdjumov), is a devastating insect pest of wheat (Triticum aestivum L.) and barley (Hordeum vulgare) in the United States and in many parts of the world. The use of D. noxia-resistant cultivars is an economically useful approach for protecting cereals from this aphid. However, there are few genes conferring resistance to the most predominant US biotype...

A DArT marker-based linkage map for wild potato Solanum bulbocastanum facilitates structural comparisons between Solanum A and B genomes

Mann 0 Alessandra Traini Maria Luisa Chiusano Andrzej Kilian Riccardo Aversano Domenico Carputo James M Bradeen 0 1 0 Department of Plant Pathology, University of Minnesota , 495 Borlaug Hall/1991 Upper

Comparative mapping in the Poaceae family reveals translocations in the complex polyploid genome of sugarcane

comparison against the genomes of S. bicolour, Z. mays and O. sativa. Competing interests Andrzej Kilian is Director of Diversity Arrays Technology who provide DArT array commercial genotyping services for a

Radiation hybrid maps of the D-genome of Aegilops tauschii and their application in sequence assembly of large and complex plant genomes

sequences were BLASTN compared against the mapped sequence scaffolds. The available sequences of 530 DArT markers mapped in the present study were provided by Andrzej Kilian of Diversity Arrays Technology

High-throughput genotyping of wheat-barley amphiploids utilising diversity array technology (DArT)

Background Hordeum chilense, a native South American diploid wild barley, is one of the species of the genus Hordeum with a high potential for cereal breeding purposes, given its high crossability with other members of the Triticeae tribe. Hexaploid tritordeum (×Tritordeum Ascherson et Graebner, 2n=6×=42, AABBHchHch) is the fertile amphiploid obtained after chromosome doubling of...

A high density GBS map of bread wheat and its application for dissecting complex disease resistance traits

Background Genotyping-by-sequencing (GBS) is a high-throughput genotyping approach that is starting to be used in several crop species, including bread wheat. Anchoring GBS tags on chromosomes is an important step towards utilizing them for wheat genetic improvement. Here we use genetic linkage mapping to construct a consensus map containing 28644 GBS markers. Results Three RIL...

A comprehensive genetic map of sugarcane that provides enhanced map coverage and integrates high-throughput Diversity Array Technology (DArT) markers

Background Sugarcane genetic mapping has lagged behind other crops due to its complex autopolyploid genome structure. Modern sugarcane cultivars have from 110-120 chromosomes and are in general interspecific hybrids between two species with different basic chromosome numbers: Saccharum officinarum (2n = 80) with a basic chromosome number of 10 and S. spontaneum (2n = 40-128) with...

Detection of the quantitative trait loci for α-amylase activity on a high-density genetic map of rye and comparison of their localization to loci controlling preharvest sprouting and earliness

The objectives of the research were to determine the position of quantitative trait loci (QTL) for α-amylase activity on the genetic map of a rye recombinant inbred line population—S120 × S76—and to compare them to known QTL for preharvest sprouting and heading earliness. Fourteen QTL for α-amylase activity on all seven chromosomes were identified. The detected QTL were...

Aluminum tolerance association mapping in triticale

Background Crop production practices and industrialization processes result in increasing acidification of arable soils. At lower pH levels (below 5.0), aluminum (Al) remains in a cationic form that is toxic to plants, reducing growth and yield. The effect of aluminum on agronomic performance is particularly important in cereals like wheat, which has promoted the development of...