Identification and analysis of microRNAs in Botryococcus braunii using high-throughput sequencing

IF 1.3 4区生物学 Q3 MARINE & FRESHWATER BIOLOGY

Aquatic Biology Pub Date : 2017-02-21 DOI:10.3354/AB00672

Xiangyuan Deng, Xiao-li Hu, Da Li, Ling Wang, Jie Cheng, Kun Gao

引用次数: 5

Abstract

MicroRNAs (miRNAs) play important regulatory roles in the growth and development of organisms. The colonial green microalga Botryococcus braunii is an oil-rich algae and little is known about its miRNAs and their target genes. Here we constructed and sequenced a small RNA library for B. braunii using the HiSeq 2000 deep sequencing method. In total, we identified 42 known miRNA families and 14 novel miRNAs from B. braunii via sequence alignment and secondary structure prediction. Quantitative real-time PCR analysis indicated that the majority of miRNAs were effective and credible. Gene ontology analysis showed that most of the targets of miRNAs were classified as being involved in metabolic and cellular processes, gene expression regulation and stress/defense functions. Our findings provide the first large-scale identification and characterization of B. braunii miRNAs and their potential target genes. This study could lead to further identification of B. braunii miRNAs and enhance our understanding of their regulatory mechanisms in diverse biological and metabolic processes.

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利用高通量测序技术鉴定和分析脑杆菌球菌microrna

MicroRNAs (miRNAs)在生物体的生长发育中起着重要的调控作用。群居的绿色微藻布朗杆菌属(Botryococcus braunii)是一种富油藻类，对其mirna及其靶基因知之甚少。本研究利用HiSeq 2000深度测序方法构建了一个小RNA文库，并对其进行了测序。通过序列比对和二级结构预测，共鉴定出42个已知的miRNA家族和14个新的miRNA家族。实时荧光定量PCR分析表明，大多数mirna是有效的、可信的。基因本体论分析表明，mirna的靶点大多被归类为参与代谢和细胞过程、基因表达调控和应激/防御功能。我们的研究结果首次大规模鉴定和表征了布劳尼贝氏杆菌mirna及其潜在靶基因。该研究有助于进一步鉴定布劳尼贝氏杆菌的mirna，并加深我们对其在多种生物和代谢过程中的调控机制的理解。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Aquatic Biology 生物-海洋与淡水生物学

CiteScore

2.70

自引率

0.00%

发文量

审稿时长

3 months

期刊介绍： AB publishes rigorously refereed and carefully selected Feature Articles, Research Articles, Reviews and Notes, as well as Comments/Reply Comments (for details see MEPS 228:1), Theme Sections, Opinion Pieces (previously called ''As I See It'') (for details consult the Guidelines for Authors) concerned with the biology, physiology, biochemistry and genetics (including the ’omics‘) of all aquatic organisms under laboratory and field conditions, and at all levels of organisation and investigation. Areas covered include: -Biological aspects of biota: Evolution and speciation; life histories; biodiversity, biogeography and phylogeography; population genetics; biological connectedness between marine and freshwater biota; paleobiology of aquatic environments; invasive species. -Biochemical and physiological aspects of aquatic life; synthesis and conversion of organic matter (mechanisms of auto- and heterotrophy, digestion, respiration, nutrition); thermo-, ion, osmo- and volume-regulation; stress and stress resistance; metabolism and energy budgets; non-genetic and genetic adaptation. -Species interactions: Environment–organism and organism–organism interrelationships; predation: defenses (physical and chemical); symbioses. -Molecular biology of aquatic life. -Behavior: Orientation in space and time; migrations; feeding and reproductive behavior; agonistic behavior. -Toxicology and water-quality effects on organisms; anthropogenic impacts on aquatic biota (e.g. pollution, fisheries); stream regulation and restoration. -Theoretical biology: mathematical modelling of biological processes and species interactions. -Methodology and equipment employed in aquatic biological research; underwater exploration and experimentation. -Exploitation of aquatic biota: Fisheries; cultivation of aquatic organisms: use, management, protection and conservation of living aquatic resources. -Reproduction and development in marine, brackish and freshwater organisms