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Transcriptome Assembly and Analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) Developing Grains, with Emphasis on Quality Properties
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 b...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2014
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4037191/ https://www.ncbi.nlm.nih.gov/pubmed/24871534 http://dx.doi.org/10.1371/journal.pone.0098144 |
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author | Chen, Xin Long, Hai Gao, Ping Deng, Guangbing Pan, Zhifen Liang, Junjun Tang, Yawei Tashi, Nyima Yu, Maoqun |
author_facet | Chen, Xin Long, Hai Gao, Ping Deng, Guangbing Pan, Zhifen Liang, Junjun Tang, Yawei Tashi, Nyima Yu, Maoqun |
author_sort | Chen, Xin |
collection | PubMed |
description | 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 β-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)-β-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. |
format | Online Article Text |
id | pubmed-4037191 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-40371912014-06-02 Transcriptome Assembly and Analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) Developing Grains, with Emphasis on Quality Properties Chen, Xin Long, Hai Gao, Ping Deng, Guangbing Pan, Zhifen Liang, Junjun Tang, Yawei Tashi, Nyima Yu, Maoqun PLoS One Research Article 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 β-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)-β-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. Public Library of Science 2014-05-28 /pmc/articles/PMC4037191/ /pubmed/24871534 http://dx.doi.org/10.1371/journal.pone.0098144 Text en © 2014 Chen et al http://creativecommons.org/licenses/by/4.0/ 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 properly credited. |
spellingShingle | Research Article Chen, Xin Long, Hai Gao, Ping Deng, Guangbing Pan, Zhifen Liang, Junjun Tang, Yawei Tashi, Nyima Yu, Maoqun Transcriptome Assembly and Analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) Developing Grains, with Emphasis on Quality Properties |
title | Transcriptome Assembly and Analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) Developing Grains, with Emphasis on Quality Properties |
title_full | Transcriptome Assembly and Analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) Developing Grains, with Emphasis on Quality Properties |
title_fullStr | Transcriptome Assembly and Analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) Developing Grains, with Emphasis on Quality Properties |
title_full_unstemmed | Transcriptome Assembly and Analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) Developing Grains, with Emphasis on Quality Properties |
title_short | Transcriptome Assembly and Analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) Developing Grains, with Emphasis on Quality Properties |
title_sort | transcriptome assembly and analysis of tibetan hulless barley (hordeum vulgare l. var. nudum) developing grains, with emphasis on quality properties |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4037191/ https://www.ncbi.nlm.nih.gov/pubmed/24871534 http://dx.doi.org/10.1371/journal.pone.0098144 |
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