Dataset Information

Transcriptome assembly and analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) developing grains, with emphasis on quality properties.

ABSTRACT:

Background

Hulless barley is attracting increasing attention due to its unique nutritional value and potential health benefits. However, the molecular biology of the barley grain development and nutrient storage are not well understood. Furthermore, the genetic potential of hulless barley has not been fully tapped for breeding.

Methodology/principal findings

In the present study, we investigated the transcriptome features during hulless barley grain development. Using Illumina paired-end RNA-Sequencing, we generated two data sets of the developing grain transcriptomes from two hulless barley landraces. A total of 13.1 and 12.9 million paired-end reads with lengths of 90 bp were generated from the two varieties and were assembled to 48,863 and 45,788 unigenes, respectively. A combined dataset of 46,485 All-Unigenes were generated from two transcriptomes with an average length of 542 bp, and 36,278 among were annotated with gene descriptions, conserved protein domains or gene ontology terms. Furthermore, sequences and expression levels of genes related to the biosynthesis of storage reserve compounds (starch, protein, and ?-glucan) were analyzed, and their temporal and spatial patterns were deduced from the transcriptome data of cultivated barley Morex.

Conclusions/significance

We established a sequences and functional annotation integrated database and examined the expression profiles of the developing grains of Tibetan hulless barley. The characterization of genes encoding storage proteins and enzymes of starch synthesis and (1-3;1-4)-?-D-glucan synthesis provided an overview of changes in gene expression associated with grain nutrition and health properties. Furthermore, the characterization of these genes provides a gene reservoir, which helps in quality improvement of hulless barley.

SUBMITTER: Chen X

PROVIDER: S-EPMC4037191 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature

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Publications

Transcriptome assembly and analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) developing grains, with emphasis on quality properties.

Chen Xin X Long Hai H Gao Ping P Deng Guangbing G Pan Zhifen Z Liang Junjun J Tang Yawei Y Tashi Nyima N Yu Maoqun M

PloS one 20140528 5

<h4>Background</h4>Hulless barley is attracting increasing attention due to its unique nutritional value and potential health benefits. However, the molecular biology of the barley grain development and nutrient storage are not well understood. Furthermore, the genetic potential of hulless barley has not been fully tapped for breeding.<h4>Methodology/principal findings</h4>In the present study, we investigated the transcriptome features during hulless barley grain development. Using Illumina pai ...[more]

PMID: 24871534

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Project description:In this experiment, F1s produced from a 7 × 7 half-diallel cross along with their parents were evaluated to develop high yielding and saline-tolerant barley lines. The investigation focused on the general combining ability (GCA) of parents, specific combining ability (SCA) of offspring, genetic action, and heterosis of eight quantitative variables. Genetic analysis and potence ratio suggested that different degrees of dominance controlling the inheritance of the studied traits. Significant GCA and SCA variances suggested the presence of both additive and non-additive gene actions controlling the traits. However, a GCA:SCA ratio lower than 1 indicated the preponderance of the non-additive gene action involved in the expression of the traits. The parents P5 and P6 possess the genetic potential favorable for early and short stature in their F1s. Conversely, P2 and P4 were more likely to produce short F1s with high yield potential. Based on the mean performance, SCA, and heterobeltiosis, crosses P2 × P3, P2 × P7, P3 × P4, P4 × P5, P5 × P6, and P6 × P7 were selected as promising F1s for earliness, short stature, and high yield potential. These crosses are recommended for further breeding to obtain early-maturing and high-yielding segregants. To identify saline-tolerant F1s, screening was conducted in saline media prepared in half-strength Hoagland solution. The salinity stress involved exposing F1s to 100 mM NaCl for first 10 days, and followed by an increase to 150 mM until maturity. Among the F1s, five crosses (P1 × P2, P2 × P3, P3 × P5, P4 × P6, and P4 × P7) exhibited promising signs of saline tolerance based on a comprehensive evaluation of healthy seed set, K+/Na+ ratio, root volume, generation of reactive oxygen species (O2•- and H2O2), and activities of key antioxidant enzymes like superoxide dismutase (SOD), catalase (CAT), peroxidase (POD), ascorbate peroxidase (APX), and glutathione reductase (GR). These crosses will undergo further evaluation in the next filial generation to confirm heritable saline tolerance.

Dataset Information

Transcriptome assembly and analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) developing grains, with emphasis on quality properties.

Background

Methodology/principal findings

Conclusions/significance

Publications

Transcriptome assembly and analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) developing grains, with emphasis on quality properties.

Similar Datasets

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