PO.BCS01.03 · 生物信息与计算
MicroRNA表达可在诊断前采集的血清样本中检测金毛寻回犬的犬多中心性淋巴瘤
MicroRNA expression can detect canine multicentric lymphoma in golden retrievers in serum samples taken pre-diagnosis
作者与单位 Authors & Affiliations
摘要 Abstract
中文摘要
犬淋巴瘤(cL)是犬类最常见的癌症之一,估计占所有犬类恶性肿瘤的24%。多中心性cL(m-cL)占所有cL病例的85%,并与人类非霍奇金淋巴瘤(hNHL)有许多共同特征。由于这些相似性以及较短的总体寿命、共享的生活环境和纯种犬中更为同质的遗传特性,m-cL是hNHL一个有价值的自发性动物模型。m-cL的预后差异很大,主要取决于免疫表型(T细胞或B细胞来源)和分期,在CHOP化疗后中位生存期为6-12个月。遗憾的是,犬类往往直到疾病晚期才被诊断,且化疗后复发非常常见。用于早期诊断的生物标志物有助于在疾病处于较早阶段时识别患者,从而带来更好的治疗应答和更长的生存期。用于早期检测的潜在生物标志物包括microRNAs(miRNAs),这是一类控制基因表达的小型非编码RNA片段,易于从血液中分离。这些分子在多种类型的癌症中失调,且其序列在犬类和人类之间几乎或完全相同。这使它们成为具有跨物种应用价值的良好非侵入性生物标志物。鉴于越来越多的文献显示miRNAs在诊断时存在差异表达,我们试图研究这些miRNAs中是否有任何一种能够在临床症状出现和诊断之前采集的样本中检测出m-cL患者。通过实时定量PCR,在来自金毛寻回犬终生研究(Golden Retriever Lifetime Study)中招募的46只m-cL犬和40只对照犬的血清样本中测量了miRNA表达。每只犬至少有3份样本,在其整个生命过程中大约每隔1年采集一次。对于m-cL犬,样本采集时间从诊断前3周到5年不等,其中一些犬在诊断时采集了第4份样本。我们训练了5折交叉验证的逻辑回归模型,在两种不同的训练数据划分上将样本分类为m-cL或对照。第一种仅使用每只m-cL犬在诊断前3周至1年之间采集的样本,因为我们预期这一范围最能预测早期疾病。第二种模型包括从每只m-cL犬中随机选择的2份样本,从而形成一个混合时间的群体。我们这样做是为了检验当训练群体在采样时间方面同质性或多或少时,miRNA选择和性能的差异。由于m-cL有多种亚型,我们还仅使用B细胞(n=15)或T细胞(n=26)免疫表型的患者重复了我们的分析。我们在各训练集上实现了65-88%的准确率,所有模型均包含相似的miRNAs。经过进一步测试,miRNAs为兽医和人类患者的早期诊断提供了潜力。
查看英文原文 English abstract
Canine lymphoma (cL) is one of the most common cancers in dogs, accounting for an estimated 24% of all canine malignancies. Multicentric cL (m-cL) represents 85% of all cL cases and shares many characteristics with human non-Hodgkin's lymphoma (hNHL). Due to these similarities as well as shorter overall lifespans, shared environments, and more homogenous genetics found in purebred dogs, m-cL is a valuable spontaneous animal model for hNHL. Prognosis for m-cL is quite variable, primarily depending on immunophenotype (T or B cell origin) and stage, and has median survival times ranging from 6-12 months after CHOP chemotherapy. Unfortunately, dogs aren't often diagnosed until they have late-stage disease, and relapse following chemotherapy is very common. A biomarker for early diagnosis could help identify patients when their disease is at an earlier stage, leading to better treatment responses and longer survival times. Potential biomarkers for early detection include microRNAs (miRNAs), which are small, non-coding pieces of RNA that control gene expression and are readily isolated from blood. These molecules are dysregulated in several types of cancer, and their sequences are nearly or entirely identical between dogs and humans. This makes them good non-invasive biomarkers with cross-species applications. Given the growing body of literature showing differential expression of miRNAs at the time of diagnosis, we sought to investigate whether any of these miRNAs could detect m-cL patients in samples taken prior to the onset of clinical symptoms and diagnosis. MiRNA expression was measured by real-time quantitative PCR in serum samples from 46 m-cL dogs and 40 control dogs enrolled in the Golden Retriever Lifetime Study. Each dog had a minimum of 3 samples, taken at roughly 1-year intervals for their whole lives. For the m-cL dogs, the samples were taken anywhere from 3 weeks to 5 years prior to diagnosis, with some having a 4 th sample taken at the time of diagnosis. We trained 5-fold cross-validated logistic regression models to classify samples as either m-cL or controls on 2 different training data splits. The first used only the samples from each m-cL dog taken between 3 weeks and 1-year pre-diagnosis, as we anticipated this range to be the most predictive of early disease. The second model included a random selection of 2 samples from each m-cL dog, resulting in a mixed-time population. We did this to examine the differences in miRNA selection and performance when the training populations were more or less homogenous, with respect to sampling time. As m-cL has a variety of subtypes, we also repeated our analyses using only the B-cell (n=15) or T-cell (n=26) immunophenotyped patients. We achieved accuracies between 65-88% across the training sets with similar miRNAs included in all models. With further testing, miRNAs offer potential for early diagnosis in both veterinary and human patients.
利益披露 Disclosure
H. Treleaven, None..
L. Ludwig, None..
A. M. Viloria-Petit, None..
R. D. Wood, None..
R. Ali, None..
G. Wood, None.