Differentially expressed genes during malting and correlation with malting quality phenotypes in barley (Hordeum vulgare L.)

Lapitan, Nora L. V.; Hess, Ann; Cooper, B.; Botha, Anna‐Maria; Badillo, Deborah; Iyer, Hari; Menert, Jolanta; Close, Timothy J.; Wright, Les; Hanning, G. E.; Tahir, Muhammad; Lawrence, Christopher B.

doi:10.1007/s00122-008-0951-8

Cited by 45 publications

(29 citation statements)

References 36 publications

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“…Differences in expression levels of histones have been found during seed germination in barley (Potokina et al 2002) and their presence in this study could be due to differences in the cell division cycle activity between both genotypes. Many genes recently identified by Lapitan et al (2009) as correlated to malting quality phenotypes coded for proteins involved in defense and stress response, among which jasmonate-induced proteins were the most abundant ones. Other previous studies on germinating seeds also identified these proteins (Watson and Henry, 2005;White et al 2006).…”

Section: Malting Quality Footprintsmentioning

confidence: 99%

“…Large-scale gene expression technologies such as cDNA-and oligonucleotide-based arrays, and serial analysis of gene expression (SAGE) have proved to be useful to conduct transcript profiling during germination and malting (Lapitan et al 2009;Potokina et al 2002Potokina et al , 2004Watson and Henry 2005;White et al 2006), and to identify candidate genes for malting quality (Lapitan et al 2009;Potokina et al 2004Potokina et al , 2006.…”

Section: Introductionmentioning

confidence: 99%

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Structural and functional characterization of a winter malting barley

et al. 2009

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The development of winter malting barley (Hordeum vulgare L.) varieties is emerging as a worldwide priority due to the numerous advantages of these varieties over spring types. However, the complexity of both malting quality and winter hardiness phenotypes makes simultaneous improvement a challenge. To obtain an understanding of the relationship between loci controlling winter hardiness and malt quality and to assess the potential for breeding winter malting barley varieties, we structurally and functionally characterized the six-row accession "88Ab536", a cold-tolerant line with superior malting quality characteristics that derives from the cross of NE76129/Morex//Morex. We used 4,596 SNPs to construct the haplotype structure of 88Ab536 on which malting quality and winter hardiness loci reported in the literature were aligned. The genomic regions determining malting quality and winter hardiness traits have been defined in this founder germplasm, which will assist breeders in targeting regions for marker-assisted selection.The Barley1 GeneChip array was used to functionally characterize 88Ab536 during malting. Its gene expression profile was similar to that of the archetypical malting variety Morex, which is consistent with their similar malting quality characteristics. The characterization of 88Ab536 has increased our understanding of the genetic relationships of malting quality and winter hardiness, and will provide a genetic foundation for further development of more cold-tolerant varieties that have malt quality characteristics that meet or exceed current benchmarks.

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Section: Malting Quality Footprintsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Structural and functional characterization of a winter malting barley

et al. 2009

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“…Barley (Hordeum vulgare L.) is one of the most important cereal crops in the world, ranking fourth after wheat, maize, and rice in terms of production (Lapitan et al 2009). It is an important food grain and malting crop in the Ethiopian highlands, with malting barley a major source of income for smallholder farmers (Yirga et al 1998).…”

Section: Introductionmentioning

confidence: 99%

Cropping sequence and nitrogen fertilizer effects on the productivity and quality of malting barley and soil fertility in the Ethiopian highlands

Agegnehu

Lakew

Nelson

2014

Archives of Agronomy and Soil Science

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The productivity and quality of malting barley were evaluated using factorial combinations of four preceding crops (faba bean, field pea, rapeseed, and barley) as main plots and four nitrogen fertilizer rates (0, 18, 36, and 54 kg N ha −1 ) as sub-plots with three replications at two sites on Nitisols of the Ethiopian highlands in 2010 and 2011 cropping seasons. Preceding crops other than barley and N fertilizer significantly improved yield and quality of malting barley. The highest grain yield, kernel plumpness, protein content, and sieve test were obtained for malting barley grown after faba bean, followed by rapeseed and field pea. Nitrogen fertilizer significantly increased yield, protein content, and sieve test of malting barley. All protein contents were within the acceptable range for malting quality. Inclusion of legumes in the rotation also improved soil fertility through increases in soil carbon and nitrogen content. We conclude that to maximize yield and quality of malting barley, it is critical to consider the preceding crop and soil nitrogen status. Use of appropriate break crops may substitute or reduce the amount of mineral N fertilizer required for the production of malting barley at least for one season without affecting its quality.

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“…In addition, there was a positive correlation between DNA sequence polymorphisms and gene expression differences. Although this is probably the most exhaustive study of gene expression diversity, other groups have also mentioned differences in gene expression in five maize inbred lines [16] and four barley varieties [17]. The percentage of the transcriptome showing variation in gene expression was much smaller in these two cases, approximately 1.6-6% in maize and 0.1-1.5% in barley.…”

Section: Introductionmentioning

confidence: 99%

Transcriptome analysis of a barley breeding program examines gene expression diversity and reveals target genes for malting quality improvement

et al. 2010

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BackgroundAdvanced cycle breeding utilizes crosses among elite lines and is a successful method to develop new inbreds. However, it results in a reduction in genetic diversity within the breeding population. The development of malting barley varieties requires the adherence to a narrow malting quality profile and thus the use of advanced cycle breeding strategies. Although attention has been focused on diversity in gene expression and its association with genetic diversity, there are no studies performed in a single breeding program examining the implications that consecutive cycles of breeding have on gene expression variation and identifying the variability still available for future improvement.ResultsFifteen lines representing the historically important six-rowed malting barley breeding program of the University of Minnesota were genotyped with 1,524 SNPs, phenotypically examined for six malting quality traits, and analyzed for transcript accumulation during germination using the Barley1 GeneChip array. Significant correlation was detected between genetic and transcript-level variation. We observed a reduction in both genetic and gene expression diversity through the breeding process, although the expression of many genes have not been fixed. A high number of quality-related genes whose expression was fixed during the breeding process was identified, indicating that much of the diversity reduction was associated with the improvement of the complex phenotype "malting quality", the main goal of the University of Minnesota breeding program. We also identified 49 differentially expressed genes between the most recent lines of the program that were correlated with one or more of the six primary malting quality traits. These genes constitute potential targets for the improvement of malting quality within the breeding program.ConclusionsThe present study shows the repercussion of advanced cycle breeding on gene expression diversity within an important barley breeding program. A reduction in gene expression diversity was detected, although there is diversity still present after forty years of breeding that can exploited for future crop improvement. In addition, the identification of candidate genes for enhancing malting quality may be used to optimize the selection of targets for further improvements in this economically important phenotype.

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Differentially expressed genes during malting and correlation with malting quality phenotypes in barley (Hordeum vulgare L.)

Cited by 45 publications

References 36 publications

Structural and functional characterization of a winter malting barley

Structural and functional characterization of a winter malting barley

Cropping sequence and nitrogen fertilizer effects on the productivity and quality of malting barley and soil fertility in the Ethiopian highlands

Transcriptome analysis of a barley breeding program examines gene expression diversity and reveals target genes for malting quality improvement

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