@article{2-s2.0-85049182046,

title = {Prioritization of candidate genes in qtl regions for physiological and biochemical traits underlying drought response in barley (Hordeum vulgare L.)},

author = { K. Gudyś and J. Guzy-Wróbelska and A. Janiak and M.A. Dziurka and A. Ostrowska and K. Hura and B. Jurczyk and K. Żmuda and D. Grzybkowska and J. Śróbka and W. Urban and J. Biesaga-Kościelniak and M. Filek and J. Kościelniak and K. Mikołajczak and P. Ogrodowicz and K. Krystkowiak and A. Kuczyńska and P. Krajewski and I. Szarejko},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85049182046&doi=10.3389%2ffpls.2018.00769&partnerID=40&md5=ee4f20bff713e6791812c6e0fb2a84e8},

doi = {10.3389/fpls.2018.00769},

issn = {1664462X},

year  = {2018},

date = {2018-01-01},

journal = {Frontiers in Plant Science},

volume = {9},

publisher = {Frontiers Media S.A.},

abstract = {Drought is one of the most adverse abiotic factors limiting growth and productivity of them were genes encoding antioxidants, carboxylic acid biosynthesis enzymes, heat shock proteins, small auxin up-regulated RNAs, nitric oxide synthase, ATP sulfurylases, and proteins involved in regulation of flowering time. This global approach may be proposed for identification of new CGs that underlies QTLs responsible for complex traits. crops. Among them is barley, ranked fourth cereal worldwide in terms of harvested acreage and production. Plants have evolved various mechanisms to cope with water deficit at different biological levels, but there is an enormous challenge to decipher genes responsible for particular complex phenotypic traits, in order to develop drought tolerant crops. This work presents a comprehensive approach for elucidation of molecular mechanisms of drought tolerance in barley at the seedling stage of development. The study includes mapping of QTLs for physiological and biochemical traits associated with drought tolerance on a high-density function map, projection of QTL confidence intervals on barley physical map, and the retrievement of positional candidate genes (CGs), followed by their prioritization based on Gene Ontology (GO) enrichment analysis. A total of 64 QTLs for 25 physiological and biochemical traits that describe plant water status, photosynthetic efficiency, osmoprotectant and hormone content, as well as antioxidant activity, were positioned on a consensus map, constructed using RIL populations developed from the crosses between European and Syrian genotypes. The map contained a total of 875 SNP, SSR and CGs, spanning 941.86 cM with resolution of 1.1 cM. For the first time, QTLs for ethylene, glucose, sucrose, maltose, raffinose, a-tocopherol, g-tocotrienol content, and catalase activity, have been mapped in barley. Based on overlapping confidence intervals of QTLs, 11 hotspots were identified that enclosedmore than 60%ofmapped QTLs. Genetic and physicalmap integration allowed the identification of 1,101 positional CGs within the confidence intervals of drought response-specific QTLs. Prioritization resulted in the designation of 143 CGs, among them were genes encoding antioxidants, carboxylic acid biosynthesis enzymes, heat shock proteins, small auxin up-regulated RNAs, nitric oxide synthase, ATP sulfurylases, and proteins involved in regulation of flowering time. This global approach may be proposed for identification of new CGs that underlies QTLs responsible for complex traits. © 2018 Gudys, Guzy-Wrobelska, Janiak, Dziurka, Ostrowska, Hura, Jurczyk, Żmuda, Grzybkowska, Śróbka, Urban, Biesaga-Koscielniak, Filek, Koscielniak, Mikołajczak, Ogrodowicz, Krystkowiak, Kuczyńska, Krajewski and Szarejko.},

note = {22},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85012876895,

title = {Drought-related secondary metabolites of barley (Hordeum vulgare L.) leaves and their metabolomic quantitative trait loci},

author = { A. Piasecka and A. Sawikowska and A. Kuczyńska and P. Ogrodowicz and K. Mikołajczak and K. Krystkowiak and K. Gudyś and J. Guzy-Wróbelska and P. Krajewski and P. Kachlicki},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85012876895&doi=10.1111%2ftpj.13430&partnerID=40&md5=f30b6f1520310f3830502a8507aa3c7b},

doi = {10.1111/tpj.13430},

issn = {09607412},

year  = {2017},

date = {2017-01-01},

journal = {Plant Journal},

volume = {89},

number = {5},

pages = {898-913},

publisher = {Blackwell Publishing Ltd},

abstract = {Determining the role of plant secondary metabolites in stress conditions is problematic due to the diversity of their structures and the complexity of their interdependence with different biological pathways. Correlation of metabolomic data with the genetic background provides essential information about the features of metabolites. LC-MS analysis of leaf metabolites from 100 barley recombinant inbred lines (RILs) revealed that 98 traits among 135 detected phenolic and terpenoid compounds significantly changed their level as a result of drought stress. Metabolites with similar patterns of change were grouped in modules, revealing differences among RILs and parental varieties at early and late stages of drought. The most significant changes in stress were observed for ferulic and sinapic acid derivatives as well as acylated glycosides of flavones. The tendency to accumulate methylated compounds was a major phenomenon in this set of samples. In addition, the polyamine derivatives hordatines as well as terpenoid blumenol C derivatives were observed to be drought related. The correlation of drought-related compounds with molecular marker polymorphisms resulted in the definition of metabolomic quantitative trait loci in the genomic regions of single-nucleotide polymorphism 3101-111 and simple sequence repeat Bmag0692 with multiple linkages to metabolites. The associations pointed to genes related to the defence response and response to cold, heat and oxidative stress, but not to genes related to biosynthesis of the compounds. We postulate that the significant metabolites have a role as antioxidants, regulators of gene expression and modulators of protein function in barley during drought. © 2016 The Authors. The Plant Journal published by John Wiley & Sons Ltd and Society for Experimental Biology.},

note = {48},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84981288071,

title = {QTLs for earliness and yield-forming traits in the Lubuski × CamB barley RIL population under various water regimes},

author = { P. Ogrodowicz and T. Adamski and K. Mikołajczak and A. Kuczyńska and M. Surma and P. Krajewski and A. Sawikowska and A.G. Górny and K. Gudyś and I. Szarejko and J. Guzy-Wróbelska and K. Krystkowiak},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84981288071&doi=10.1007%2fs13353-016-0363-4&partnerID=40&md5=222a3af88cb7ebfde7254ed2aafcdedb},

doi = {10.1007/s13353-016-0363-4},

issn = {12341983},

year  = {2017},

date = {2017-01-01},

journal = {Journal of Applied Genetics},

volume = {58},

number = {1},

pages = {49-65},

publisher = {Springer Verlag},

abstract = {Drought has become more frequent in Central Europe causing large losses in cereal yields, especially of spring crops. The development of new varieties with increased tolerance to drought is a key tool for improvement of agricultural productivity. Material for the study consisted of 100 barley recombinant inbred lines (RILs) (LCam) derived from the cross between Syrian and European parents. The RILs and parental genotypes were examined in greenhouse experiments under well-watered and water-deficit conditions. During vegetation the date of heading, yield and yield-related traits were measured. RIL population was genotyped with microsatellite and single nucleotide polymorphism markers. This population, together with two other populations, was the basis for the consensus map construction, which was used for identification of quantitative trait loci (QTLs) affecting the traits. The studied lines showed a large variability in heading date. It was noted that drought-treatment negatively affected the yield and its components, especially when applied at the flag leaf stage. In total, 60 QTLs were detected on all the barley chromosomes. The largest number of QTLs was found on chromosome 2H. The main QTL associated with heading, located on chromosome 2H (Q.HD.LC-2H), was identified at SNP marker 5880–2547, in the vicinity of Ppd-H1 gene. SNP 5880–2547 was also the closest marker to QTLs associated with plant architecture, spike morphology and grain yield. The present study showed that the earliness allele from the Syrian parent, as introduced into the genome of an European variety could result in an improvement of barley yield performance under drought conditions. © 2016, The Author(s).},

note = {24},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84979255621,

title = {Quantitative trait loci for plant height in Maresi × CamB barley population and their associations with yield-related traits under different water regimes},

author = { K. Mikołajczak and A. Kuczyńska and P. Krajewski and A. Sawikowska and M. Surma and P. Ogrodowicz and T. Adamski and K. Krystkowiak and A.G. Górny and M. Kempa and I. Szarejko and J. Guzy-Wróbelska and K. Gudyś},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84979255621&doi=10.1007%2fs13353-016-0358-1&partnerID=40&md5=038dfabd848c74c6be6814c592cf3e42},

doi = {10.1007/s13353-016-0358-1},

issn = {12341983},

year  = {2017},

date = {2017-01-01},

journal = {Journal of Applied Genetics},

volume = {58},

number = {1},

pages = {23-35},

publisher = {Springer Verlag},

abstract = {High-yielding capacity of the modern barley varieties is mostly dependent on the sources of semi-dwarfness associated with the sdw1/denso locus. The objective of the study was to identify quantitative trait loci (QTLs) associated with the plant height and yield potential of barley recombinant inbred lines (RILs) grown under various soil moisture regimes. The plant material was developed from a hybrid between the Maresi (European cv.) and CamB (Syrian cv.). A total of 103 QTLs affecting analysed traits were detected and 36 of them showed stable effects over environments. In total, ten QTLs were found to be significant only under water shortage conditions. Nine QTLs affecting the length of main stem were detected on 2H-6H chromosomes. In four of the detected QTLs, alleles contributed by Maresi had negative effects on that trait, the most significant being the QLSt-3H.1-1 in the 3H.1 linkage group. The close linkage between QTLs identified around the sdw1/denso locus, with positive alleles contributed by Maresi, indicates that the semi-dwarf cv. Maresi could serve as a donor of favourable traits resulting in grain yield improvement, also under water scarcity. Molecular analyses revealed that the Syrian cv. also contributed alleles which increased the yield potential. Available barley resources of genomic annotations were employed to the biological interpretation of detected QTLs. This approach revealed 26 over-represented Gene Ontology terms. In the projected support intervals of QGWSl-5H.3-2 and QLSt-5H.3 on the chromosome 5H, four genes annotated to ‘response to stress’ were found. It suggests that these QTL-regions may be involved in a response of plant to a wide range of environmental disturbances. © 2016, The Author(s).},

note = {26},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84973460147,

title = {Quantitative trait loci for yield and yield-related traits in spring barley populations derived from crosses between European and Syrian cultivars},

author = { K. Mikołajczak and P. Ogrodowicz and K. Gudyś and K. Krystkowiak and A. Sawikowska and W. Frohmberg and A.G. Górny and A. Kedziora and J. Jankowiak and D. Józefczyk and G. Karg and J. Andrusiak and P. Krajewski and I. Szarejko and M. Surma and T. Adamski and J. Guzy-Wróbelska and A. Kuczyńska},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84973460147&doi=10.1371%2fjournal.pone.0155938&partnerID=40&md5=e12e44fddaf0bc9bb34cf48ac0169ee5},

doi = {10.1371/journal.pone.0155938},

issn = {19326203},

year  = {2016},

date = {2016-01-01},

journal = {PLoS ONE},

volume = {11},

number = {5},

publisher = {Public Library of Science},

abstract = {In response to climatic changes, breeding programmes should be aimed at creating new cultivars with improved resistance to water scarcity. The objective of this study was to examine the yield potential of barley recombinant inbred lines (RILs) derived from three cross-combinations of European and Syrian spring cultivars, and to identify quantitative trait loci (QTLs) for yield-related traits in these populations. RILs were evaluated in field experiments over a period of three years (2011 to 2013) and genotyped with simple sequence repeat (SSR) and single nucleotide polymorphism (SNP) markers; a genetic map for each population was constructed and then one consensus map was developed. Biological interpretation of identified QTLs was achieved by reference to Ensembl Plants barley gene space. Twelve regions in the genomes of studied RILs were distinguished after QTL analysis. Most of the QTLs were identified on the 2H chromosome, which was the hotspot region in all three populations. Syrian parental cultivars contributed alleles decreasing traits' values at majority of QTLs for grain weight, grain number, spike length and time to heading, and numerous alleles increasing stem length. The phenomic and molecular approaches distinguished the lines with an acceptable grain yield potential combining desirable features or alleles from their parents, that is, early heading from the Syrian breeding line (Cam/B1/CI08887//CI05761) and short plant stature from the European semidwarf cultivar (Maresi). © 2016 Mikołajczak et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.},

note = {34},

keywords = {},

pubstate = {published},

tppubtype = {article}

}