纳氏白冠雀（Zonotrichia leucophrys nuttalli）和棕颈雀鹀（Zonotrichia capensis）的基因组组装

Genome assemblies of Nuttall's White-crowned sparrow (Zonotrichia leucophrys nuttalli) and Rufous-collared sparrow (Zonotrichia capensis).

作者信息

Wu Zhou, Miedzinska Katarzyna, Krause Jesse S, Gonzalez-Gomez Paulina L, Pérez Jonathan H, Wingfield John C, Meddle Simone L, Smith Jacqueline

机构信息

The Roslin Institute and Royal (Dick) School of Veterinary Studies R(D)SVS, The University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK.

Department of Biology, University of Nevada Reno, Reno, NV, 89557, USA.

出版信息

Sci Data. 2025 Apr 3;12(1):567. doi: 10.1038/s41597-025-04889-x.

DOI:10.1038/s41597-025-04889-x

PMID:40180969

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11968903/

Abstract

The Zonotrichia sparrows, belonging to the Passerellidae family, are widely studied for their vocalizations and genetic diversity. Here, we present two high-quality genome assemblies for Zonotrichia species; the northern hemisphere Nuttall's white-crowned sparrow (Zonotrichia leucophrys nuttalli, NWCS) and the southern hemisphere rufous-collared sparrow (Zonotrichia capensis chilensis, RUFS). These assemblies were assembled using PacBio long-reads and Omni-C chromatin conformation technology, integrated with RNA-sequencing data to provide genome annotations. The NWCS assembly comprises 1.12 Gb anchored to 30 chromosomes, while the RUFS assembly includes 1.11 Gb on 27 chromosomes. Both assemblies exhibit high completeness and contiguity, with 96.6% and 96.9% complete BUSCOs (Benchmarking Universal Single-Copy Orthologs) for NWCS and RUFS, respectively. These genome assemblies provide valuable resources for future research on genetic divergence, vocal learning, evolution and responses to climate change within the Zonotrichia genus.

摘要

属于雀鹀科的白冠雀属麻雀因其鸣声和遗传多样性而受到广泛研究。在此，我们展示了两种白冠雀属物种的高质量基因组组装；北半球的纳氏白冠雀（Zonotrichia leucophrys nuttalli，NWCS）和南半球的棕颈雀鹀（Zonotrichia capensis chilensis，RUFS）。这些组装是使用PacBio长读长和全基因组染色质构象技术进行的，并整合了RNA测序数据以提供基因组注释。NWCS组装包含1.12Gb，锚定在30条染色体上，而RUFS组装在27条染色体上包含1.11Gb。两个组装都具有很高的完整性和连续性，NWCS和RUFS的完整BUSCO（基准通用单拷贝直系同源基因）分别为96.6%和96.9%。这些基因组组装为未来关于白冠雀属内遗传分化、鸣声学习、进化以及对气候变化的反应的研究提供了宝贵资源。