Transcriptome assembly and analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) developing grains, with emphasis on quality properties.
Transcriptome assembly and analysis of Tibetan Hulless Barley (Hordeum vulgare L. var. nudum) developing grains, with emphasis on quality properties.
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西藏大麦（Hordeum vulgare L. var. nudum）发育谷物的转录组组装和分析，重点关注品质特性
DOI：
10.1371/journal.pone.0098144
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发表时间：
2014
期刊：
影响因子：
3.7
通讯作者：
Yu M
中科院分区：
文献类型：
--
作者：
Chen X;Long H;Gao P;Deng G;Pan Z;Liang J;Tang Y;Tashi N;Yu M
背景无壳大麦因其独特的营养价值和潜在的保健价值而受到越来越多的关注。然而，大麦籽粒发育和营养贮藏的分子生物学还不是很清楚。此外，青皮大麦的遗传潜力还没有完全被挖掘出来用于育种。方法/主要发现在本研究中，我们研究了大麦籽粒发育过程中的转录组特征。利用Illumina配对末端RNA测序技术，我们从两个无壳大麦地方品种中产生了两个发育中的籽粒转录本数据集。从这两个品种中分别产生了1310万和1290万个长度为90bp的成对末端阅读片段，并分别组装成48,863和45,788个单基因。从两个转录本产生了46,485个All-Uniges，平均长度为542bp，其中36,278个用基因描述、保守的蛋白质结构域或基因本体论术语进行了注释。此外，还分析了与贮藏储备化合物(淀粉、蛋白质和β-葡聚糖)生物合成相关的基因的序列和表达水平，并根据栽培大麦Morex的转录组数据推断了它们的时空模式。结论/意义我们建立了一个序列和功能注释一体化的数据库，并研究了藏青大麦发育过程中籽粒的表达谱。编码淀粉合成和(1-3；1-4)-β-D-葡聚糖合成的贮藏蛋白和酶的基因的特征提供了与谷物营养和健康特性相关的基因表达变化的概述。此外，这些基因的特征为青麦品质改良提供了基因库。
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.
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影响因子：
4.4
作者：
Gutierrez-Gonzalez JJ;Tu ZJ;Garvin DF
通讯作者：
Garvin DF
影响因子：
6.1
作者：
Asare, Eric K.;Jaiswal, Sarita;Chibbar, Ravindra N.
通讯作者：
Chibbar, Ravindra N.
影响因子：
7.4
作者：
Fujita, N;Yoshida, M;Nakamura, Y
通讯作者：
Nakamura, Y
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y
影响因子：
7.4
作者：
Cao, HP;Imparl-Radosevich, J;Myers, AM
通讯作者：
Myers, AM