Reference genes selection

  • 文章类型: Journal Article
    鸡毛滴虫,一种全球分布的原生动物寄生虫,显著影响鸽子养殖业。鸡感染主要导致鸽子上呼吸道和作物粘膜上的黄色溃疡性结节,阻碍正常呼吸和进食,最终导致死亡。实时定量PCR(qPCR)是分子生物学中基因表达分析的关键技术。用于标准化的参考基因选择对于确保该技术的准确性至关重要。然而,目前还没有系统筛选或验证鸡木霉内参基因的报道。这项研究使用qPCR定量了具有不同基因型和培养条件的鸡木霉分离物中十个候选参考基因的转录水平。使用geNorm,NormFinder,和BestKeeper算法,我们评估了这些参考基因的稳定性,并使用RankAggreg分析对它们进行排名。最稳定的内参基因是微管蛋白β链(TUBB),而广泛使用的参考基因TUBG和GAPDH表现出较差的稳定性。此外,我们使用T.gallinaeTgaAtg8基因评估了这些候选参考基因的稳定性。在使用TUBB作为参考基因时,TgaAtg8在具有不同基因型的鸡木霉分离株中的表达谱在各种培养条件下保持相对一致。相反,使用ACTB作为参考基因扭曲了数据。这些发现为鸡鸡的功能基因研究和基因表达分析提供了有价值的参考基因选择指导。
    Trichomonas gallinae, a globally distributed protozoan parasite, significantly affects the pigeon-breeding industry. T. gallinae infection mainly causes yellow ulcerative nodules on the upper respiratory tract and crop mucosa of pigeons, impeding normal breathing and feeding and ultimately causing death. Real-time quantitative PCR (qPCR) is a crucial technique for gene-expression analysis in molecular biology. Reference-gene selection for normalization is critical for ensuring this technique\'s accuracy. However, no systematic screening or validation of T. gallinae reference genes has been reported. This study quantified the transcript levels of ten candidate reference genes in T. gallinae isolates with different genotypes and culture conditions using qPCR. Using the geNorm, NormFinder, and BestKeeper algorithms, we assessed these reference genes\' stabilities and ranked them using RankAggreg analysis. The most stable reference gene was tubulin beta chain (TUBB), while the widely used reference genes TUBG and GAPDH demonstrated poor stability. Additionally, we evaluated these candidate reference genes\' stabilities using the T. gallinae TgaAtg8 gene. On using TUBB as a reference gene, TgaAtg8\'s expression profiles in T. gallinae isolates with different genotypes remained relatively consistent under various culture conditions. Conversely, using ACTB as a reference gene distorted the data. These findings provide valuable reference-gene-selection guidance for functional gene research and gene-expression analysis in T. gallinae.
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  • 文章类型: Journal Article
    背景:牡丹具有显著的观赏性,药用和油的价值。脱水和盐度等渗透胁迫限制了牡丹栽培面积的扩大。关于渗透胁迫和激素刺激下牡丹参考基因选择的信息仍然有限。本研究旨在确定在渗透胁迫和激素处理下适合牡丹的稳定内参基因。为分子生物学研究提供理论依据。
    结果:在渗透胁迫和激素处理下,通过RT-qPCR评估了牡丹的12个候选内参基因。DeltaCt方法,geNorm,和NormFinder用于综合表达稳定性排序比较。结果表明,微管蛋白-α是干旱和ABA处理的首选内参基因,微管蛋白β在干旱和OPDA诱导下被鉴定为最合适的内参基因,18s-rRNA被认为是盐度和JA处理最稳定的基因,eIF-5A被列为JA和MeJA治疗中最稳定的基因。实验还表明,在ABA和BR激素处理下,EF1-α相对不稳定。
    结论:这些优选的内参基因可用于涉及牡丹渗透或激素应激的qPCR研究。预计该结果将有利于未来牡丹功能基因组学研究和分子育种研究。
    BACKGROUND: Tree peony possess significant ornamental, medicinal and oil values. Osmotic stresses including dehydratiuon and salinity limit the expansion of cultivation area of tree peony. Information on reference genes selection under osmotic stress and hormone stimulation of tree peony still limited. This study aimed to determine the stable reference genes suitable for tree peony under osmotic stresses and hormone treatments, and provide a theoretical basis for the molecular biology research.
    RESULTS: Twelve candidate reference genes were evaluated in Paeonia ostii \'Fengdan\' under osmotic stress and hormone treatments by RT-qPCR. Delta Ct method, geNorm, and NormFinder were used for the comprehensive expression stability ranking comparison. The results revealed that tubulin-α was the preferred internal reference genes for drought and ABA treatment, tubulin-β was identified as the most suitable reference gene under drought and OPDA induction, 18s-rRNA was regarded as the most stable gene for salinity and JA treatment, eIF-5 A was listed as the most stable gene for JA and MeJA treatments. The experiments also displayed that EF1-α were comparatively unstable under ABA and BR hormone treatments.
    CONCLUSIONS: These preferred reference genes could be useful in qPCR studies involving osmotic or hormonal stresses in Paeonia ostii \'Fengdan\'. It is anticipated that the results will benefit tree peony functional genomics studies and molecular breeding research in the future.
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  • 文章类型: Journal Article
    BACKGROUND: Huntington\'s disease is a neurodegenerative disorder characterized by transcriptional alterations both in central and peripheral tissues. Therefore, the identification of a transcriptional signature in an accessible tissue can meaningfully complement current efforts in clinical biomarker development. Gene expression normalization represents an essential step in transcriptional signatures identification, and since many reference genes show altered expressions in several pathologies, the definition of stable genes in the desired tissue is required to allow correct result interpretations.
    OBJECTIVE: The present work aimed at identifying a set of suitable reference genes for expression normalization in blood of HD patients and R6/2 mice.
    METHODS: By crossing literature investigation and analysis of microarrays performed on blood of HD patients and healthy subjects, a set of genes was selected and tested by RT-qPCR. Employment of statistical algorithms allowed the identification of the most stable genes in human samples that were than confirmed in R6/2.
    RESULTS: PPIB, PGK1, ACTB and YWHAZ represent the best possible genes combination, useful to normalize blood transcriptional analysis. To link clinical and preclinical studies, the identified genes were investigated also in blood of R6/2 and wild type mice, confirming that Ppib, Actb and Ywhaz were appropriate for expression normalization. Selected references were subsequently applied to evaluate expression of genes known to be involved in Huntington\'s pathological progression.
    CONCLUSIONS: This work highlights the importance for correct data normalization to avoid misinterpretation of results, while providing a suitable method to support quantitative gene expression analysis in preclinical and clinical investigations.
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