Data from: Similar hybrid composition among different age and sex classes in the Myrtle–Audubon's warbler hybrid zone

AbstractHybrid zones provide a key natural context within which to study the barriers between incipient species. In some avian hybrid zones, there is indirect evidence of selection against hybrid offspring, yet the source of that selection is often unclear. We examined the frequency distribution of hybrids between Myrtle Warblers (Setophaga coronata coronata) and Audubon's Warblers (S. c. auduboni), using data to quantify—for the first time at a genomic scale—the composition of hybrids in this hybrid zone. We sampled birds during the breeding season and during fall migration and compared the frequencies of hybrids of different sex and age classes. Specifically, we tested for evidence of early-generation hybrids being significantly under- or over-represented in any of these classes, as would be expected if hybrids have lower or higher fitness than non-hybrids. We found that the genomic composition of birds in the hybrid zone spans the full ancestry spectrum. Across all our sampling periods, we found an excess of birds that had more Audubon's ancestry, with a stronger bias toward Audubon's ancestry in fall migrants than in breeding birds, consistent with asymmetric introgression. Notably, we did not find any differences in hybrid frequencies between juvenile and adult age classes or between males and females. Therefore, our results do not support large differences in viability between male and female hybrids or between different age classes of hybrids., Usage notesPlate_1_2-index_1_ATCACG_R1.fastqPlate_1_2-index_2_CGATGT_R1.fastqPlate_1_2-index_3_TTAGGC_R1.fastqPlate_1_2-index_4_TGACCA_R1.fastqPlate_1_2-index_5_ACAGTG_R1.fastqPlate_1_2-index_6_GCCAAT_R1.fastqPlate_1_2-index_7_CAGATC_R1.fastqPlate_1_2-index_8_ACTTGA_R1.fastqPlate_1_2-index_9_GATCAG_R1.fastqPlate_1_2-index_10_TAGCTT_R1.fastqPlate_3_4-index_1_ATCACG_R1.fastqPlate_3_4-index_2_CGATGT_R1.fastqPlate_3_4-index_3_TTAGGC_R1.fastqPlate_3_4-index_4_TGACCA_R1.fastqPlate_3_4-index_5_ACAGTG_R1.fastqPlate_3_4-index_6_GCCAAT_R1.fastqPlate_3_4-index_7_CAGATC_R1.fastqPlate_3_4-index_8_ACTTGA_R1.fastqPlate_3_4-index_9_GATCAG_R1.fastqPlate_3_4-index_10_TAGCTT_R1.fastqSample-barcode Plate InfoSample information and associated barcodes/indexes for demultiplexing RAW ddRAD data. Illumina data generated from single end chemistry on the HighSeq2500 platform. Additional sample information can be found in the Appendix of the journal publisher's website.sample_barcode_plate_info.xlsx

摘要：杂交带 (hybrid zones) 为研究正在形成的物种 (incipient species) 间的生殖隔离屏障提供了关键的自然研究场景。在部分鸟类杂交带中，存在对杂交后代进行选择淘汰的间接证据，但该选择的来源往往尚不明确。本研究针对黄腰林莺（*Setophaga coronata coronata*，Myrtle Warblers）与奥杜邦林莺（*S. c. auduboni*，Audubon's Warblers）之间的杂交个体频率分布展开分析，首次在基因组规模 (genomic scale) 上量化了该杂交带内杂交个体的组成。研究人员在繁殖季与秋季迁徙期对鸟类进行了采样，并对比了不同性别、年龄组的杂交个体频率。具体而言，我们检验了早期世代杂交个体在各分组中是否存在显著占比不足或过量的情况——若杂交个体相较于非杂交个体的适合度 (fitness) 存在高低差异，则会出现此类现象。研究发现，该杂交带内鸟类的基因组组成覆盖了完整的祖先谱系谱。在所有采样时段中，带有更多奥杜邦林莺祖先成分的个体占比偏高，且秋季迁徙个体中奥杜邦林莺祖先成分的偏倚程度较繁殖季个体更强，这与不对称基因渐渗 (asymmetric introgression) 的模式相符。值得注意的是，我们未发现幼体与成体杂交个体的频率存在差异，也未发现雌雄杂交个体的频率存在差异。因此，本研究结果不支持雌雄杂交个体之间或不同年龄组杂交个体之间存活力 (viability) 存在显著差异的结论。

使用说明：
Plate_1_2-index_1_ATCACG_R1.fastq
Plate_1_2-index_2_CGATGT_R1.fastq
Plate_1_2-index_3_TTAGGC_R1.fastq
Plate_1_2-index_4_TGACCA_R1.fastq
Plate_1_2-index_5_ACAGTG_R1.fastq
Plate_1_2-index_6_GCCAAT_R1.fastq
Plate_1_2-index_7_CAGATC_R1.fastq
Plate_1_2-index_8_ACTTGA_R1.fastq
Plate_1_2-index_9_GATCAG_R1.fastq
Plate_1_2-index_10_TAGCTT_R1.fastq
Plate_3_4-index_1_ATCACG_R1.fastq
Plate_3_4-index_2_CGATGT_R1.fastq
Plate_3_4-index_3_TTAGGC_R1.fastq
Plate_3_4-index_4_TGACCA_R1.fastq
Plate_3_4-index_5_ACAGTG_R1.fastq
Plate_3_4-index_6_GCCAAT_R1.fastq
Plate_3_4-index_7_CAGATC_R1.fastq
Plate_3_4-index_8_ACTTGA_R1.fastq
Plate_3_4-index_9_GATCAG_R1.fastq
Plate_3_4-index_10_TAGCTT_R1.fastq

样本条形码板信息
本数据集包含用于解复用原始ddRAD (double digest restriction-site associated DNA，双酶切限制性位点相关DNA) 数据的样本信息与配套条形码/索引。测序数据为采用单端测序化学法在HiSeq2500平台上生成的Illumina测序数据。更多样本信息可查阅期刊出版商官网的附录部分。
sample_barcode_plate_info.xlsx