High-quality chromosome-level genome assembly and full-length transcriptome analysis of the pharaoh ant Monomorium pharaonis
| العنوان: | High-quality chromosome-level genome assembly and full-length transcriptome analysis of the pharaoh ant Monomorium pharaonis |
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| المؤلفون: | Rasmus Stenbak Larsen, Qionghua Gao, Guo Ding, Long Zhou, Guojie Zhang, Zijun Xiong, Ruoping Zhao, Jie Zhao, Hao Ran, Chengyuan Liu |
| المصدر: | GigaScience Gao, Q, Xiong, Z, Larsen, R S, Zhou, L, Zhao, J, Ding, G, Zhao, R, Liu, C, Ran, H & Zhang, G 2020, ' High-quality chromosome-level genome assembly and full-length transcriptome analysis of the pharaoh ant Monomorium pharaonis ', GigaScience, vol. 9, no. 12, giaa143 . https://doi.org/10.1093/gigascience/giaa143 |
| بيانات النشر: | Oxford University Press, 2020. |
| سنة النشر: | 2020 |
| مصطلحات موضوعية: | AcademicSubjects/SCI02254, Monomorium pharaonis, Sequence assembly, Health Informatics, Social insects, Genome, Chromosomes, Transcriptome, 03 medical and health sciences, alternative splicing, 0302 clinical medicine, Animals, Long-read sequencing, Gene, 030304 developmental biology, 0303 health sciences, social insects, biology, long non-coding RNA, Ants, Research, Gene Expression Profiling, Alternative splicing, Molecular Sequence Annotation, Gene Annotation, biology.organism_classification, Computer Science Applications, Evolutionary biology, Pharaoh ant, Long non-coding RNA, long-read sequencing, AcademicSubjects/SCI00960, Monomorium, 030217 neurology & neurosurgery |
| الوصف: | Background Ants with complex societies have fascinated scientists for centuries. Comparative genomic and transcriptomic analyses across ant species and castes have revealed important insights into the molecular mechanisms underlying ant caste differentiation. However, most current ant genomes and transcriptomes are highly fragmented and incomplete, which hinders our understanding of the molecular basis for complex ant societies. Findings By hybridizing Illumina, Pacific Biosciences, and Hi-C sequencing technologies, we de novo assembled a chromosome-level genome for Monomorium pharaonis, with a scaffold N50 of 27.2 Mb. Our new assembly provides better resolution for the discovery of genome rearrangement events at the chromosome level. Analysis of full-length isoform sequencing (ISO-seq) suggested that ∼15 Gb of ISO-seq data were sufficient to cover most expressed genes, but the number of transcript isoforms steadily increased with sequencing data coverage. Our high-depth ISO-seq data greatly improved the quality of gene annotation and enabled the accurate detection of alternative splicing isoforms in different castes of M. pharaonis. Comparative transcriptome analysis across castes based on the ISO-seq data revealed an unprecedented number of transcript isoforms, including many caste-specific isoforms. We also identified a number of conserved long non-coding RNAs that evolved specifically in ant lineages and several that were conserved across insect lineages. Conclusions We produced a high-quality chromosome-level genome for M. pharaonis, which significantly improved previous short-read assemblies. Together with full-length transcriptomes for all castes, we generated a highly accurate annotation for this ant species. These long-read sequencing results provide a useful resource for future functional studies on the genetic mechanisms underlying the evolution of social behaviors and organization in ants. |
| وصف الملف: | application/pdf |
| اللغة: | English |
| تدمد: | 2047-217X |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::12d6bc84eccb76770db6589379e22627 http://europepmc.org/articles/PMC7736795 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....12d6bc84eccb76770db6589379e22627 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 2047217X |
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