Genomic dissection of plant development and its impact on thousand grain weight in barley through nested association mapping

Maurer, Andreas; Draba, Vera; Pillen, Klaus

doi:10.1093/jxb/erw070

Cited by 83 publications

(148 citation statements)

References 71 publications

(106 reference statements)

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“…Furthermore, unweighted neighbor joining (NJ) dendrogram was constructed by DARwin V.5.0.158 software (Perrier & Jacquemoud-Collet, 2006), based ) based on two-year data of five quantitative traits were 0.73 for plant height, 0.88 for time of ear emergence, and 0.95 for ear length, ear density and 1000-seed weight. These results are, in general, congruent or even above heritability estimates reported for the same traits in other studies in barley (Pasam et al, 2012;Maurer et al, 2016).…”

Section: Inference Of Population Structure and Familybased Relatednesssupporting

confidence: 91%

Association mapping for morphological traits relevant to registration of barley varieties

Jamali

Mohammadi

Sadeghzadeh

2018

Span. j. agric. res.

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Elucidating marker-trait associations would have fruitful implications in distinctness, uniformity, and stability (DUS) tests of new varieties required for both variety registration and granting plant breeders' rights. As the number of new varieties with narrow genetic bases increases, the necessity for deployment of molecular markers to complement morphological DUS traits gets particular attention. We used simple sequence repeats (SSRs) and sequence related amplification polymorphisms (SRAPs) markers in association mapping of morphological traits in a collection of 143 barley landraces and advanced breeding lines. This panel represented a diverse and uniform sample in terms of both quantitative and categorical traits whilst it was structurally partitioned by number of ear rows (six-and two-rowed) and seasonal growth habit (winter and spring types) characteristics. SSRs were more powerful compared with SRAPs in separating six-and two-rowed genotypes based on both model-based Bayesian and neighbor joining clustering methods. A number of associated SSR and SRAP markers were found for 15 out of 36 DUS traits after considering Bonferroni correction through linear models (GLM and MLM) and chi-square-based tests (SA and AAT). This is also the first report of association of awn roughness and grain color with molecular markers in barley. Moreover, SSR marker BMAC0113 appeared associated with time of ear emergence (TEE), confirming previous findings. These markers could be beneficial to complement and speed up DUS testing of new varieties, as well as for improving management of barley reference collections.Additional keywords: LD mapping; Hordeum vulgare L.; DUS traits; SSRs & SRAPs markers. Abbreviations used: AAT (allelic association test); AFLP (amplified fragment length polymorphism); AR (awn roughness); DUS (distinctness, uniformity, stability); ED (ear density); GLM (general linear model); GSLN (spiculation of inner lateral nerves of lemma); KCAL (color of grain aleurone layer); MLM (mixed linear model); NER (number of ear rows); SA (stratified analysis); SGH (seasonal growth habit); SRAP (sequence-related amplified polymorphism); SSR (simple sequence repeats); TEE (time of ear emergence).

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Section: Inference Of Population Structure and Familybased Relatednesssupporting

confidence: 91%

Association mapping for morphological traits relevant to registration of barley varieties

Jamali

Mohammadi

Sadeghzadeh

2018

Span. j. agric. res.

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“…Maurer, Draba, and Pillen () found several markers ( SNP11_10044 , SNP11_10754 , SNP11_20650 , SNP11_10867 , SNP11_31420 ) associated to sdw1 . These markers were mapped in a 0.5‐cM interval by Mascher et al.…”

Section: Discussionmentioning

confidence: 99%

The completely additive effects of two barley phenology‐related genes (eps2S and sdw1) are explained by specific effects at different periods within the crop growth cycle

et al. 2017

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We used the ‘Baronesse’/‘Full Pint’ doubled haploid population to analyse the genetic factors controlling flowering date under South American conditions. Both parents have similar heading dates, but the population shows transgressive segregation. Two genes, eps2S on chromosome 2H and sdw1 on chromosome 3H, explained most of the phenotypic variation for anthesis date, with the later allele carried by ‘Baronesse’ and ‘Full Pint’ , respectively. Both effects were completely additive with no interaction. We studied three plant developmental periods: seedling emergence to tillering (Z10–Z20), tillering (Z20–Z30) and end of tillering to anthesis (Z30–Z49) under field conditions at three contrasting planting dates. Z10–Z20 was also measured under semi‐controlled conditions. eps2S controlled Z30–Z49 periods, while sdw1 controlled Z20–Z30. Each of the two genes for the end‐point phenotype—anthesis date—was a determinant of flowering at a different developmental stage. No gene x planting date interactions were detected.

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“…Results of all GWAS runs were used to calculate the detection rate of each marker, which is defined as the percentage of runs in which the analyzed marker displays a significant association (P ≤ 0.001) with the trait of interest (W€ urschum & Kraft, 2014). Markers showing a detection rate ≥ 20% or 50% and P ≤ 0.001 were defined as reliable or very reliable and assumed to be putative QTLs (Maurer et al, 2016). Allelic effects and phenotypic variance explained by markers (R²) were also estimated in TASSEL 4.1 (Bradbury et al, 2007).…”

Section: Genome-wide Association Studymentioning

confidence: 99%

Genetics of mycorrhizal symbiosis in winter wheat (Triticum aestivum)

et al. 2017

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Bread wheat (Triticum aestivum) is a major staple food and therefore of prime importance for feeding the Earth's growing population. Mycorrhiza is known to improve plant growth, but although extensive knowledge concerning the interaction between mycorrhizal fungi and plants is available, genotypic differences concerning the ability of wheat to form mycorrhizal symbiosis and quantitative trait loci (QTLs) involved in mycorrhization are largely unknown. Therefore, a diverse set of 94 bread wheat genotypes was evaluated with regard to root colonization by arbuscular mycorrhizal fungi. In order to identify genomic regions involved in mycorrhization, these genotypes were analyzed using the wheat 90k iSelect chip, resulting in 17 823 polymorphic mapped markers, which were used in a genome-wide association study. Significant genotypic differences (P < 0.0001) were detected in the ability to form symbiosis and 30 significant markers associated with root colonization, representing six QTL regions, were detected on chromosomes 3A, 4A and 7A, and candidate genes located in these QTL regions were proposed. The results reported here provide key insights into the genetics of root colonization by mycorrhizal fungi in wheat.

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Genomic dissection of plant development and its impact on thousand grain weight in barley through nested association mapping

Abstract: HighlightThe genetic control of plant development was investigated in a multi-parental wild barley NAM population. We found that major flowering genes control plant development and highlight trait-improving exotic alleles.

Cited by 83 publications

References 71 publications

Association mapping for morphological traits relevant to registration of barley varieties

Association mapping for morphological traits relevant to registration of barley varieties

The completely additive effects of two barley phenology‐related genes (eps2S and sdw1) are explained by specific effects at different periods within the crop growth cycle

Genetics of mycorrhizal symbiosis in winter wheat (Triticum aestivum)

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