Sample metadata for feline leukemia virus dataset

Feline leukemia virus (FeLV) is a gammaretrovirus with horizontally transmitted and endogenous forms. Domestic cats are the primary reservoir species, but FeLV outbreaks in endangered Florida panthers and Iberian lynx have resulted in mortalities. To assess prevalence and interspecific/intraspecific transmission, we conducted an extensive survey and phylogenetic analysis of FeLV infection in free-ranging pumas (n=641), bobcats (n=212) and shelter domestic cats (n=304). Samples were collected from coincident habitats across the United States between 1985-2018. FeLV infection was detected in 3.12% puma, 6.25% domestic cat, and 0.47% bobcat samples analyzed. Puma prevalence varied by location, with Florida having the highest rate of infection. FeLV env sequences revealed variation among isolates, and we identified two distinct clades. Both progressive and regressive infections were identified in cats and pumas. Based upon time and location of sampling and phylogenetic analysis, we inferred 3 spillover events between domestic cats and puma; 3 puma-to-puma transmissions were inferred in Florida. An additional 14 infections in pumas likely represented spillover events following contact with reservoir host domestic cat populations. Our data provides evidence that FeLV transmission from domestic cats to pumas occurs widely across the US, and puma-to-puma transmission may occur in genetically and geographically constrained populations.猫白血病病毒（Feline leukemia virus, FeLV）是一类γ逆转录病毒，兼具水平传播型与内源性两种形式。家猫是其主要储存宿主，但此前在濒危的佛罗里达美洲狮与伊比利亚猞猁中暴发的猫白血病病毒疫情已造成个体死亡。 为评估该病毒的流行率以及种间/种内传播特征，我们针对自由放养的美洲狮（n=641）、短尾猫（n=212）以及收容所家猫（n=304）开展了大规模的猫白血病病毒感染调查与系统发育分析。样本采集于1985年至2018年间，覆盖美国境内多处重叠栖息地。 经检测，在所分析的样本中，美洲狮感染率为3.12%，家猫为6.25%，短尾猫为0.47%。美洲狮的感染率存在地域差异，其中佛罗里达州的感染率最高。 猫白血病病毒包膜（env）序列显示不同分离株存在遗传变异，我们共鉴定出两个独立的进化支。在家猫和美洲狮中均检测到进行性感染与退行性感染两种感染类型。 基于采样时间、采样地点及系统发育分析结果，我们推断存在3起家猫向美洲狮的跨物种溢出传播事件；在佛罗里达州还推断出3起美洲狮个体间的传播事件。另有14例美洲狮感染病例，大概率是因接触作为储存宿主的家猫种群而发生的跨物种溢出感染。 本研究数据证实，家猫向美洲狮的猫白血病病毒传播在美国境内广泛存在，而美洲狮个体间的传播可能发生在受遗传与地理条件限制的种群中。