Data from: The pathogenicity and transmission of live bird market H2N2 avian influenza viruses in chickens, Pekin ducks, and guinea fowl

Data are the individual group values for oral and cloacal virus shedding and antibody titers for reach treatment group from: Mo et al., The pathogenicity and transmission of live bird market H2N2 avian influenza viruses in chickens, Pekin ducks, and guinea fowl. Vet Mic 260:109180, 2021. https://doi.org/10.1016/j.vetmic.2021.109180
Methods: Six H2N2 low pathogenic avian influenza viruses from US LBMs were selected based on recency and to represent the different genotypes present in the live birds markets during the time period (i.e., the presence or absence of a NA stalk deletion): A/duck/PA/14-030488-5/2014 (Dk/PA/14), A/chicken/NY/16-032621-2/2016 (Ck/NY/16), A/chicken/CT/17-008911-4/2017 (Ck/CT/17), A/chicken/NY/18-002471-4/2018 (CK/NY/02471/18), A/chicken/NY/18-042097-3/2018 (Ck/NY/042097/18) and A/chicken/NY/19-012787-1/2019 (Ck/NY/19). Isolates were evaluated in White Leghorn chickens (Gallus gallus), guinea fowl (Numida meleagris) and Pekin ducks (Anas platyrhynchos). Chickens and guinea fowl were challenged at 4 weeks of age and Pekin ducks were challenged at 2 weeks of age with 6log10 of virus by the intra-choanal route. “Contact” birds, which were hatch-mates of the inoculated birds, were co-housed with the inoculated birds 24hrs post inoculation to evaluate transmission. Viral loads in OP and CL swabs collected at 2, 4, 7, 10, and 14 days post inoculation were determined by quantitative real-time reverse-transcriptase polymerase chain reaction (qRT-PCR). RNA was extracted from swabs using the MagMAX96 Viral RNA Isolation Kit (Thermo Fisher Scientific, Waltham, MA) and the KingFisher Flex Magnetic Particle Processing System (Thermo Fisher Scientific), with an additional wash step to remove inhibitors (Das et al., 2009). The qRT‐PCR for AIV detection was conducted based on the standard USDA M gene AIV qRT‐PCR procedure (Spackman et al., 2002) using an Applied Biosystems® 7500 Fast Real‐Time PCR system (Thermo Fisher Scientific). Cycle threshold (Ct) values were determined by the 7500 Fast Software v2.3. For relative quantification, Ct values were converted to titer equivalents based on the standard curve method (Larionov et al., 2005). Values were established from ten-fold dilutions of the same titrated stock of the virus used to challenge the birds. The limit of detection was determined to be 0.8Log10 per reaction. Serological testing for antibodies to the virus utilized the hemagglutination inhibition (HI) assays using homologous antigens were performed to quantify antibody responses with serum collected from chickens, guinea fowl and Pekin ducks at 14 dpi based on the standard protocol (OIE, 2019). HI titers were reported as reciprocal log2 titers, and titers greater than 3 log2 (1:8) were considered positive. Resources in this dataset:Resource Title: H2N2 influenza pathobiology data for avian species. File Name: H2N2 data for Archive.xlsxResource Description: Data by day post exposure for birds exposed to low pathogenic H2N2 avian influenza virus.

本数据集收录了来自Mo等人发表的研究《活禽市场H2N2禽流感病毒在鸡、北京鸭和鸵鸟中的致病性和传播》中，针对不同治疗组的个体分组数据，包括口咽部和泄殖腔病毒排放量以及抗体滴度。研究选取了美国活禽市场中的六株H2N2低致病性禽流感病毒，基于其时效性及代表性（即存在或不存在NA茎突变），分别命名为A/duck/PA/14-030488-5/2014 (Dk/PA/14)、A/chicken/NY/16-032621-2/2016 (Ck/NY/16)、A/chicken/CT/17-008911-4/2017 (Ck/CT/17)、A/chicken/NY/18-002471-4/2018 (CK/NY/02471/18)、A/chicken/NY/18-042097-3/2018 (Ck/NY/042097/18)以及A/chicken/NY/19-012787-1/2019 (Ck/NY/19)。这些病毒分离株在白来亨鸡（Gallus gallus）、鸵鸟（Numida meleagris）和北京鸭（Anas platyrhynchos）中进行了评估。鸡和鸵鸟在4周龄时接受病毒挑战，北京鸭则在2周龄时接受挑战。通过鼻腔内注射途径给予6log10的病毒量。‘接触’鸟类，即与接种鸟类同窝孵化的小鸟，在接种后24小时与接种鸟类共笼饲养，以评估病毒传播。在接种后2、4、7、10和14天收集的OP和CL拭子样本中，通过定量实时逆转录聚合酶链反应（qRT-PCR）测定了病毒载量。使用MagMAX96病毒RNA分离试剂盒（Thermo Fisher Scientific，Waltham，MA）和KingFisher Flex磁性微粒处理系统（Thermo Fisher Scientific）提取拭子中的RNA，并增加洗涤步骤以去除抑制剂（Das等，2009年）。基于美国农业部标准M基因禽流感qRT-PCR程序（Spackman等，2002年），使用Applied Biosystems® 7500快速实时PCR系统（Thermo Fisher Scientific）进行AIV检测的qRT-PCR。通过7500快速软件v2.3确定循环阈值（Ct）值。为了相对量化，将Ct值转换为基于标准曲线法的滴度等效值（Larionov等，2005年）。滴度值由用于挑战鸟类的相同滴度病毒的同倍稀释液建立。检测限确定为每反应0.8Log10。通过使用同源抗原进行血凝素抑制（HI）试验，对从鸡、鸵鸟和北京鸭收集的血清进行病毒抗体血清学测试，以量化抗体反应，测试时间基于14天后的标准方案（OIE，2019年）。HI滴度报告为倒数对数2滴度，滴度大于3 log2（1:8）被视为阳性。本数据集中的资源包括：资源标题：《禽类H2N2流感病理生物学数据》，文件名：《H2N2数据存档.xlsx》，资源描述：暴露于低致病性H2N2禽流感病毒的鸟类在暴露后每日的病毒排放量和抗体滴度数据。