Detection and validation of novel QTL for shoot and root traits in barley (Hordeum vulgare L.)

Arifuzzaman, Md.; Sayed, Mohammed; Muzammil, Shumaila; Pillen, Klaus; Schumann, Henrik; Naz, Ali Ahmad; Léon, Jens

doi:10.1007/s11032-014-0122-3

Cited by 46 publications

(75 citation statements)

References 34 publications

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“…However, excessive tillering resulted in the initiation of more nodal roots suggested the dependence of shoot and root development. Similar results were reported earlier by Arifuzzaman et al (2014) and Naz et al (2014) where a putative QTL region was found for Rdw and related shoot traits on chromosome 1H in barley. To find the putative candidate gene underlying this variation, we identified 10 putative genes of different categories in the targeted QTL interval using barley genome sequence (Mayer et al, 2012).…”

Section: Discussionsupporting

confidence: 92%

“…This QTL region seems to underlie major circadian clock gene Ppd-H1 that controls plant development and early heading in barley under long day conditions. Early and delayed heading are usually correlated with lesser and more Sdw, respectively (Wang et al, 2010; Arifuzzaman et al, 2014). A dominant early heading allele Ppd-H1 has been reported in wild barley accession ISR42-8 and its effect has been confirmed in introgression lines S42IL-107 harboring ISR42-8 Ppd-H1 allele in Scarlett (spring type) background (Schmalenbach et al, 2009; Arifuzzaman et al, 2014).…”

Section: Discussionmentioning

confidence: 99%

“…Early and delayed heading are usually correlated with lesser and more Sdw, respectively (Wang et al, 2010; Arifuzzaman et al, 2014). A dominant early heading allele Ppd-H1 has been reported in wild barley accession ISR42-8 and its effect has been confirmed in introgression lines S42IL-107 harboring ISR42-8 Ppd-H1 allele in Scarlett (spring type) background (Schmalenbach et al, 2009; Arifuzzaman et al, 2014). However, here we identified two unique haplotypes HOR2692 (Iranian wild accession) and NGB4673 (Landrace from Afghanistan) having heterozygous alleles at QTL QSdw.2H.b.…”

Section: Discussionmentioning

confidence: 99%

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Genome-Wide Association Mapping in the Global Diversity Set Reveals New QTL Controlling Root System and Related Shoot Variation in Barley

et al. 2016

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The fibrous root system is a visible sign of ecological adaptation among barley natural populations. In the present study, we utilized rich barley diversity to dissect the genetic basis of root system variation and its link with shoot attributes under well-water and drought conditions. Genome-wide association mapping of phenotype data using a dense genetic map (5892 SNP markers) revealed 17 putative QTL for root and shoot traits. Among these, at 14 loci the preeminence of exotic QTL alleles resulted in trait improvements. The most promising QTL were quantified using haplotype analysis at local and global genome levels. The strongest QTL was found on chromosome 1H which accounted for root dry weight and tiller number simultaneously. Candidate gene analysis across the targeted region detected a crucial amino acid substitution mutation in the conserved domain of a WRKY29 transcription factor among genotypes bearing major and minor QTL alleles. Similarly, the drought inducible QTL QRdw.5H (5H, 95.0 cM) seems to underlie 37 amino acid deletion and substitution mutations in the conserved domain of two related genes CBF10B and CBF10A, respectively. The identification and further characterization of these candidate genes will be essential to decipher genetics behind developmental and natural adaptation mechanisms of barley.

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Section: Discussionsupporting

confidence: 92%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Genome-Wide Association Mapping in the Global Diversity Set Reveals New QTL Controlling Root System and Related Shoot Variation in Barley

et al. 2016

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“…The Hsp effect under drought was also confirmed by Arifuzzaman et al. (). However, the Hsp effects under drought were contrary to the effects under P stress, increasing root length in the former experiments but decreasing root length in the latter.…”

Section: Discussionsupporting

confidence: 61%

“…() and Arifuzzaman et al. (). This high degree of correspondence is striking since different growth stages (14‐day‐old seedlings, six‐week‐old young plantlets and adult plants), different cultivation systems (hydroponics and greenhouse cultivation) and different stresses (nitrogen and drought) were applied.…”

Section: Discussionmentioning

confidence: 99%

Genetic regulation of growth and nutrient content under phosphorus deficiency in the wild barley introgression library S42IL

et al. 2017

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Phosphorus (P) is an important macronutrient required for plant growth and yield formation. Since decades, breeders aim to optimize P efficiency in crops. We studied a set of 47 wild barley (Hordeum vulgare ssp. spontaneum, Hsp) introgression lines (ILs) in hydroponic culture to identify quantitative trait loci (QTLs) improving growth and nutrient content under P deficiency. Applying a mixed model analysis, a total of 91 independent QTLs were located among 39 ILs, of which 64 QTLs displayed trait‐improving Hsp effects. For example, an unknown Hsp allele on barley chromosome 4H increased shoot dry weight under P deficiency in three overlapping ILs by 25.9%. Likewise, an Hsp allele on barley chromosome 6H increased root dry weight under P deficiency in two overlapping ILs by 27.6%. In total, 31 QTLs confirmed Hsp effects already identified in previous field and glasshouse experiments with the same ILs. We conclude that wild barley contains numerous trait‐improving QTL alleles, which are active under P deficiency. In future, the underlying genes can be subjected to cloning and, simultaneously, used in elite barley breeding.

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Relationships between roots, the stay‐green phenotype, and agronomic performance in barley and wheat grown in semi‐arid conditions

Williams

Sherman

Lamb

et al. 2022

The Plant Phenome Journal

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Stay-green is a phenotype that crop breeders could use to improve drought adaptation.It increases the duration of grain fill in several species including barley (Hordeum vulgare L.) and wheat (Triticum aestivum L.), maintaining yield in semi-arid conditions. Evidence from controlled environment experiments suggests a connection between stay-green and root systems. These belowground structures are understudied and thus represent opportunity for crop improvement if relationships to agronomics can be understood. Minirhizotrons facilitate study of these relationships by allowing repeated nondestructive root measurements in field conditions. However, this is time-consuming, and proxies would be useful for increasing throughput capacity of root research. Here we present results from field trials with minirhizotrons in a semiarid environment, as well as greenhouse seedling assays conducted on stay-green and non-stay-green barley and wheat lines. In barley, stay-green and greater yield were primarily associated with greater deep root length and delayed root senescence, whereas in wheat, yield was most strongly correlated with total root length, and root system differences for stay-green were not as apparent. We speculate that the physiology of stay-green is different between these two species, and that barley may use a more efficient root system to withstand drought whereas wheat relies on a larger one. Several seedling traits related consistently to field root traits, but correlation directions were often opposite between barley and wheat. The connections between traits presented here could be useful for breeders seeking to improve crop adaptation to drought, but more genotypes and environments will need to be tested.

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Detection and validation of novel QTL for shoot and root traits in barley (Hordeum vulgare L.)

Cited by 46 publications

References 34 publications

Genome-Wide Association Mapping in the Global Diversity Set Reveals New QTL Controlling Root System and Related Shoot Variation in Barley

Genome-Wide Association Mapping in the Global Diversity Set Reveals New QTL Controlling Root System and Related Shoot Variation in Barley

Genetic regulation of growth and nutrient content under phosphorus deficiency in the wild barley introgression library S42IL

Relationships between roots, the stay‐green phenotype, and agronomic performance in barley and wheat grown in semi‐arid conditions

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