Chromosome-scale genome assembly of the hunt bumble bee, Bombus huntii Greene, 1860, a species of agricultural interest.

IF 2.1 3区 生物学 Q3 GENETICS & HEREDITY
Jonathan Berenguer Uhuad Koch, Sheina B Sim, Brian Scheffler, Jeffrey D Lozier, Scott M Geib
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Abstract

The Hunt bumble bee, Bombus huntii, is a widely distributed pollinator in western North America. The species produces large colony sizes in captive rearing conditions, experiences low parasite and pathogen loads, and has been demonstrated to be an effective pollinator of tomatoes grown in controlled environment agriculture systems. These desirable traits have galvanized producer efforts to develop commercial Bombus huntii colonies for growers to deliver pollination services to crops. To better understand Bombus huntii biology and support population genetic studies and breeding decisions, we sequenced and assembled the Bombus huntii genome from a single haploid male. High-fidelity sequencing of the entire genome using PacBio, along with HiC sequencing, led to a comprehensive contig assembly of high continuity. This assembly was further organized into a chromosomal arrangement, successfully identifying 18 chromosomes spread across the 317.4 Mb assembly with a BUSCO score indicating 97.6% completeness. Synteny analysis demonstrates shared chromosome number (n = 18) with Bombus terrestris, a species belonging to a different subgenus, matching the expectation that presence of 18 haploid chromosomes is an ancestral trait at least between the subgenera Pyrobombus and Bombus sensu stricto. In conclusion, the assembly outcome, alongside the minimal tissue sampled destructively, showcases efficient techniques for producing a comprehensive, highly contiguous genome.

亨特大黄蜂(Bombus huntii Greene,1860 年)的染色体级基因组组装,亨特大黄蜂是一个具有农业意义的物种。
亨特熊蜂(Bombus huntii)是一种广泛分布于北美西部的授粉动物。该物种在人工饲养条件下能产生较大的蜂群规模,寄生虫和病原体负荷低,并已被证明是在受控环境农业系统中种植西红柿的有效授粉者。这些理想的特性促使生产者努力为种植者开发商业化的 B. huntii 群体,为作物提供授粉服务。为了更好地了解 B. huntii 的生物学特性,支持种群遗传研究和育种决策,我们对来自单倍体雄性的 B. huntii 基因组进行了测序和组装。利用 PacBio 对整个基因组进行了高保真测序,同时还进行了 HiC 测序,从而获得了一个连续性很高的综合序列。该序列被进一步组织成染色体排列,成功鉴定出分布在 317.4 Mb 序列中的 18 条染色体,BUSCO 评分显示其完整性达到 97.6%。合成分析表明,B.terrestris 与属于不同亚属的 B.共享染色体数(n = 18),符合至少在 Pyrobombus 亚属和严格意义上的 Bombus 亚属之间存在 18 条单倍体染色体这一祖先性状的预期。总之,装配结果与破坏性取样的最小组织一起,展示了产生全面、高度连续基因组的高效技术。
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来源期刊
G3: Genes|Genomes|Genetics
G3: Genes|Genomes|Genetics GENETICS & HEREDITY-
CiteScore
5.10
自引率
3.80%
发文量
305
审稿时长
3-8 weeks
期刊介绍: G3: Genes, Genomes, Genetics provides a forum for the publication of high‐quality foundational research, particularly research that generates useful genetic and genomic information such as genome maps, single gene studies, genome‐wide association and QTL studies, as well as genome reports, mutant screens, and advances in methods and technology. The Editorial Board of G3 believes that rapid dissemination of these data is the necessary foundation for analysis that leads to mechanistic insights. G3, published by the Genetics Society of America, meets the critical and growing need of the genetics community for rapid review and publication of important results in all areas of genetics. G3 offers the opportunity to publish the puzzling finding or to present unpublished results that may not have been submitted for review and publication due to a perceived lack of a potential high-impact finding. G3 has earned the DOAJ Seal, which is a mark of certification for open access journals, awarded by DOAJ to journals that achieve a high level of openness, adhere to Best Practice and high publishing standards.
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