Sheehan Delaney H, Asam Kesava, Knight Nicolaus D, Patel Juhi J, Stewart James A, Molina Patrick A, Yi Nengjun, Viet Chi T, Aouizerat Brad, Silver Natalie, Panuganti Bharat, Thomas Carissa M
Department of Otolaryngology-Head and Neck Surgery, University of Alabama at Birmingham, Birmingham, Alabama, USA.
Department of Oral and Maxillofacial Surgery, New York University College of Dentistry, New York, New York, USA.
Otolaryngol Head Neck Surg. 2025 Aug;173(2):420-432. doi: 10.1002/ohn.1262. Epub 2025 Apr 14.
To determine if microbiome differences exist in head and neck squamous cell carcinoma (HNSCC) based on high-risk pathologic features, smoking, and outcomes using The Cancer Microbiome Atlas (TCMA).
Database study.
Database review.
TCMA is a publicly available database containing curated, decontaminated microbial profiles for tumors from 1772 patients. The data were limited to microbiome profiles, survival, and clinicopathologic features for HNSCC patients. Phyloseq objects were created, low-read samples were removed, and differential abundance analysis (DAA) using Analysis of Compositions of Microbiomes with Bias Correction 2 (ANCOM-BC2) was performed. Statistical analysis was done in R (v4.3.1).
One hundred fifty-six patients with HNSCC were included from TCMA with a mean age of 59 (std 13, min 19, and max 90), 72% male (n = 113), and 91% white (n = 140). Primary sites encompassed oral cavity (n = 106, 68%), oropharynx (n = 26, 17%), and larynx/hypopharynx (n = 24, 15%). For all HNSCC in TCMA, rates of lymphovascular invasion were 17% (n = 26), perineural invasion, 34% (n = 53), and microscopic or gross extranodal extension (ENE), 19% (n = 30). DAA revealed significant changes in bacterial genera based on high-risk pathologic features, smoking status, vital status, and disease-specific survival (DSS). Genera observed with ANCOM-BC2 include Scardovia, Alloscardovia, Lactobacillus, and Corynebacterium genera for vital status and DSS.
Changes in the relative abundance of select intratumoral bacterial genera are associated with adverse pathologic features, DSS, and vital status in HNSCC. Shifts in the microbiome need further investigation to determine if they can provide any mechanistic insight or predictive role.
利用癌症微生物组图谱（TCMA）确定头颈部鳞状细胞癌（HNSCC）中基于高危病理特征、吸烟情况和预后的微生物组差异是否存在。
数据库研究。
数据库回顾。
TCMA是一个公开可用的数据库，包含1772例患者肿瘤的经过整理、净化的微生物图谱。数据限于HNSCC患者的微生物组图谱、生存情况和临床病理特征。创建了Phyloseq对象，去除了低读数样本，并使用带偏差校正的微生物群落组成分析2（ANCOM-BC2）进行差异丰度分析（DAA）。在R（v4.3.1）中进行统计分析。
从TCMA纳入了156例HNSCC患者，平均年龄59岁（标准差13，最小19岁，最大90岁），72%为男性（n = 113），91%为白人（n = 140）。原发部位包括口腔（n = 106, 68%）、口咽（n = 26, 17%）和喉/下咽（n = 24, 15%）。对于TCMA中的所有HNSCC，淋巴管侵犯率为17%（n = 26），神经周侵犯率为34%（n = 53），镜下或大体淋巴结外扩展（ENE）率为19%（n = 30）。DAA显示，基于高危病理特征、吸烟状态、生存状态和疾病特异性生存（DSS），细菌属存在显著变化。通过ANCOM-BC2观察到的属包括与生存状态和DSS相关的斯卡多维亚菌属、异斯卡多维亚菌属、乳杆菌属和棒状杆菌属。
特定瘤内细菌属的相对丰度变化与HNSCC的不良病理特征、DSS和生存状态相关。微生物组的变化需要进一步研究，以确定它们是否能提供任何机制性见解或预测作用。
