Organ specific transcriptome analysis of upland cotton (Gossypium hirsutum) in response to low phosphorus stress during early stage of growth

IF 1.9 4区 农林科学 Q3 ENVIRONMENTAL SCIENCES
K. Lei, Jialong Cheng, Yi An, X. Li, Guoyong An
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引用次数: 1

Abstract

ABSTRACT In order to systematically identify the critical genes involved in the response to low inorganic phosphorus (Pi) in cotton, we performed RNA sequencing (RNA-seq) analyses of root, stem, and leaf from Gossypium hirsutum seedlings grown under both Pi replete and Pi deplete conditions. In total, 1679, 1611, and 841 differentially expressed genes (DEGs) were observed in the roots, stems, and leaves, respectively. Several Pi-starvation-induced genes homologous to Arabidopsis were identified, such as SPX, PHO1/2, and PHF1, as well as several members of the PHT1 family, which showed different expression levels in specific organs. Subsequently, 25 randomly selected DEGs were validated by quantitative real-time PCR, the result of which was consistent with the RNA sequencing data, indicating the reliability of RNA-seq data. By analyzing the differentially expressed transcription factors, we found that the MYB family was one of the three most abundant transcription factor families in all three tissues. Moreover, some phytohormone-related DEGs were also found in G. hirsutum seedlings in this study. In particular, some auxin-responsive genes, such as IAA24, IAA11/14/16, and IAA4/14/16/29 were differentially expressed in the roots, stems and leaves of G. hirsutum seedlings respectively. Finally, homologous genes for some important phosphatases such as PPCK1 and VTC4 were also found to be differentially expressed. On analyzing the protein interaction network of 121 shared DEGs, five interaction networks – two of which contained 10 and 6 DEGs, respectively – were identified. These findings provided a theoretical basis for studying the gene function of different cotton tissues in response to low Pi stress.
陆地棉生长早期低磷胁迫下器官特异性转录组分析
摘要:为了系统地鉴定棉花对低无机磷(Pi)响应的关键基因,我们对在补磷和缺磷条件下生长的棉花(Gossypium hirsutum)幼苗的根、茎和叶进行了RNA测序(RNA-seq)分析。在根、茎和叶中分别检测到1679、1611和841个差异表达基因(deg)。鉴定出几个与拟南芥同源的pi -饥饿诱导基因,如SPX、PHO1/2和PHF1,以及PHT1家族的几个成员,在特定器官中表现出不同的表达水平。随后,随机选取25个deg进行实时荧光定量PCR验证,结果与RNA测序数据一致,说明RNA-seq数据的可靠性。通过分析差异表达的转录因子,我们发现MYB家族是三种组织中最丰富的三个转录因子家族之一。此外,本研究还发现了一些与植物激素相关的deg。其中,生长素响应基因IAA24、IAA11/14/16、IAA4/14/16/29分别在毛竹幼苗的根、茎、叶中有差异表达。最后,一些重要的磷酸酶如PPCK1和VTC4的同源基因也被发现存在差异表达。通过对121个共享DEGs的蛋白质相互作用网络的分析,鉴定出5个相互作用网络,其中2个分别含有10个和6个DEGs。这些发现为研究棉花不同组织对低磷胁迫的基因功能提供了理论依据。
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来源期刊
Soil Science and Plant Nutrition
Soil Science and Plant Nutrition 农林科学-农艺学
CiteScore
4.80
自引率
15.00%
发文量
56
审稿时长
18-36 weeks
期刊介绍: Soil Science and Plant Nutrition is the official English journal of the Japanese Society of Soil Science and Plant Nutrition (JSSSPN), and publishes original research and reviews in soil physics, chemistry and mineralogy; soil biology; plant nutrition; soil genesis, classification and survey; soil fertility; fertilizers and soil amendments; environment; socio cultural soil science. The Journal publishes full length papers, short papers, and reviews.
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